Publications

The attributable fraction of respiratory syncytial virus among patients of different ages with influenza-like illness and severe acute respiratory illness in a high HIV prevalence setting, South Africa, 2012-2016. Moyes J, Tempia S, Walaza S, McMorrow ML, Cohen AL, Treurnicht F, Hellferscee O, Wolter N, Von Gottberg A, Dawood H, Variava E, Kahn K, Madhi SA, Cohen C. (2023). Int J Infect Dis DOI: 10.1016/j.ijid.2023.05.009

Trends in invasive bacterial diseases during the first 2 years of the COVID-19 pandemic: analyses of prospective surveillance data from 30 countries and territories in the IRIS Consortium. Shaw D, Abad R, Amin-Chowdhury Z, Bautista A, Bennett D, Broughton K, Cao B, Casanova C, Choi EH, Chu YW, Claus H, Coelho J, Corcoran M, Cottrell S, Cunney R, Cuypers L, Dalby T, Davies H, de Gouveia L, Deghmane AE, Demczuk W, Desmet S, Domenech M, Drew R, du Plessis M, Duarte C, Erlendsdóttir H, Fry NK, Fuursted K, Hale T, Henares D, Henriques-Normark B, Hilty M, Hoffmann S, Humphreys H, Ip M, Jacobsson S, Johnson C, Johnston J, Jolley KA, Kawabata A, Kozakova J, Kristinsson KG, Krizova P, Kuch A, Ladhani S, Lâm TT, León ME, Lindholm L, Litt D, Maiden MCJ, Martin I, Martiny D, Mattheus W, McCarthy ND, Meehan M, Meiring S, Mölling P, Morfeldt E, Morgan J, Mulhall R, Muñoz-Almagro C, Murdoch D, Murphy J, Musilek M, Mzabi A, Novakova L, Oftadeh S, Perez-Argüello A, Pérez-Vázquez M, Perrin M, Perry M, Prevost B, Roberts M, Rokney A, Ron M, Sanabria OM, Scott KJ, Sheppard C, Siira L, Sintchenko V, Skoczynska A, Sloan M, Slotved HC, Smith AJ, Steens A, Taha MK, Toropainen M, Tzanakaki G, Vainio A, van der Linden MPG, van Sorge NM, Varon E, Vohrnova S, von Gottberg A, Yuste J, Zanella R, Zhou F, Brueggemann AB. (2023). Lancet Digit Health DOI: 10.1016/S2589-7500(23)00108-5

Association of close-range contact patterns with SARS-CoV-2: a household transmission study. Kleynhans J, Dall'Amico L, Gauvin L, Tizzoni M, Maloma L, Walaza S, Martinson NA, von Gottberg A, Wolter N, Makhasi M, Cohen C, Cattuto C, Tempia S; SA-S-HTS Group. (2023). Elife DOI: 10.7554/eLife.84753

Impact of subgroup distribution on seasonality of human respiratory syncytial virus: A global systematic analysis. Deng S, Guo L, Cohen C, Meijer A, Moyes J, Pasittungkul S, Poovorawan Y, Teirlinck A, Boven MV, Wanlapakorn N, Wolter N, Paget J, Nair H, Li Y; for Respiratory Virus Global Epidemiology Network and PROMISE investigators. (2023). J Infect Dis DOI: 10.1093/infdis/jiad192

Differential in-hospital mortality and intensive care treatment over time: Informing hospital pathways for modelling COVID-19 in South Africa. Jamieson L, Van Schalkwyk C, Nichols BE, Meyer-Rath G, Silal S, Pulliam J, Blumberg L, Cohen C, Moultrie H, Jassat W. (2023). PLOS Glob Public Health DOI: 10.1371/journal.pgph.0001073

Changing Epidemiology of COVID-19 in Children and Adolescents Over Four Successive Epidemic Waves in South Africa, 2020-2022. Chiwandire N, Jassat W, Groome M, Kufa T, Walaza S, Wolter N, von Gottberg A, Zar HJ, Reubenson G, Tempia S, Ebonwu J, Govender N, Ntshoe G, Shonhiwa AM, Blumberg L, Cohen C. (2023). J Pediatric Infect Dis Soc DOI: 10.1093/jpids/piad002

Trends in Cases, Hospitalizations, and Mortality Related to the Omicron BA.4/BA.5 Subvariants in South Africa. Jassat W, Abdool Karim SS, Ozougwu L, Welch R, Mudara C, Masha M, Rousseau P, Wolmarans M, Selikow A, Govender N, Walaza S, von Gottberg A, Wolter N, Terrence Pisa P, Sanne I, Govender S, Blumberg L, Cohen C, Groome MJ; DATCOV Author Group. (2023). Clin Infect Dis DOI: 10.1093/cid/ciac921

The economic burden of RSV-associated illness in children aged < 5 years, South Africa 2011-2016. Moyes J, Tempia S, Walaza S, McMorrow ML, Treurnicht F, Wolter N, von Gottberg A, Kahn K, Cohen AL, Dawood H, Variava E, Cohen C. (2023). BMC Med DOI: 10.1186/s12916-023-02854-2

The burden of RSV-associated illness in children aged < 5 years, South Africa, 2011 to 2016. Moyes J, Tempia S, Walaza S, McMorrow ML, Treurnicht F, Wolter N, von Gottberg A, Kahn K, Cohen AL, Dawood H, Variava E, Cohen C. (2023). BMC Med DOI: 10.1186/s12916-023-02853-3

A global genomic perspective on the multidrug-resistant Streptococcus pneumoniae 15A-CC63 sub-lineage following pneumococcal conjugate vaccine introduction. Hawkins PA, Chochua S, Lo SW, Belman S, Antonio M, Kwambana-Adams B, von Gottberg A, du Plessis M, Cornick J, Beall B, Breiman RF, Bentley SD, McGee L, The Global Pneumococcal Sequencing Consortium. (2023). Microb Genom DOI: 10.1099/mgen.0.000998

When to update COVID-19 vaccine composition. Grant R, Sacks JA, Abraham P, Chunsuttiwat S, Cohen C, Figueroa JP, Fleming T, Fine P, Goldblatt D, Hasegawa H, MacIntrye CR, Memish ZA, Miller E, Nishioka S, Sall AA, Sow S, Tomori O, Wang Y, Van Kerkhove MD, Wambo MA, Cohen HA, Mesfin S, Otieno JR, Subissi L, Briand S, Wentworth DE, Subbarao K. (2023). Nat Med DOI: 10.1038/s41591-023-02220-y

Estimating the cost-effectiveness of maternal vaccination and monoclonal antibodies for respiratory syncytial virus in Kenya and South Africa. Koltai M, Moyes J, Nyawanda B, Nyiro J, Munywoki PK, Tempia S, Li X, Antillon M, Bilcke J, Flasche S, Beutels P, Nokes DJ, Cohen C, Jit M. (2023). BMC Med DOI: 10.1186/s12916-023-02806-w

SARS-CoV-2 infection of airway organoids reveals conserved use of Tetraspanin-8 by Ancestral, Delta, and Omicron variants. Hysenaj L, Little S, Kulhanek K, Magnen M, Bahl K, Gbenedio OM, Prinz M, Rodriguez L, Andersen C, Rao AA, Shen A, Lone JC, Lupin-Jimenez LC, Bonser LR, Serwas NK, Mick E, Khalid MM, Taha TY, Kumar R, Li JZ, Ding VW, Matsumoto S, Maishan M, Sreekumar B, Simoneau C, Nazarenko I, Tomlinson MG, Khan K, von Gottberg A, Sigal A, Looney MR, Fragiadakis GK, Jablons DM, Langelier CR, Matthay M, Krummel M, Erle DJ, Combes AJ, Sil A, Ott M, Kratz JR, Roose JP. (2023). Stem Cell Reports DOI: 10.1016/j.stemcr.2023.01.011

COVID-19 infection, reinfection, and the transition to endemicity. Cohen C, Pulliam J. (2023). Lancet DOI: 10.1016/S0140-6736(22)02634-4

Genomic epidemiology of SARS-CoV-2 during the first four waves in Mozambique. Ismael N, van Wyk S, Tegally H, Giandhari J, San JE, Moir M, Pillay S, Utpatel C, Singh L, Naidoo Y, Ramphal U, Mabunda N, Abílio N, Arnaldo P, Xavier J, Amoako DG, Everatt J, Ramphal Y, Maharaj A, de Araujo L, Anyaneji UJ, Tshiabuila D, Viegas S, Lessells R, Engelbrecht S, Gudo E, Jani I, Niemann S, Wilkinson E, de Oliveira T. (2023). PLOS Glob Public Health DOI: 10.1371/journal.pgph.0001593

An external quality assessment feasibility study; cross laboratory comparison of haemagglutination inhibition assay and microneutralization assay performance for seasonal influenza serology testing: A FLUCOP study. Waldock J, Weiss CD, Wang W, Levine MZ, Jefferson SN, Ho S, Hoschler K, Londt BZ, Masat E, Carolan L, Sánchez-Ovando S, Fox A, Watanabe S, Akimoto M, Sato A, Kishida N, Buys A, Maake L, Fourie C, Caillet C, Raynaud S, Webby RJ, DeBeauchamp J, Cox RJ, Lartey SL, Trombetta CM, Marchi S, Montomoli E, Sanz-Muñoz I, Eiros JM, Sánchez-Martínez J, Duijsings D, Engelhardt OG. (2023). Front Immunol DOI: 10.3389/fimmu.2023.1129765

Optimal age targeting for pneumococcal vaccination in older adults; a modelling study. Thindwa D, Clifford S, Kleynhans J, von Gottberg A, Walaza S, Meiring S, Swarthout TD, Miller E, McIntyre P, Andrews N, Amin-Chowdhury Z, Fry N, Jambo KC, French N, Almeida SCG, Ladhani SN, Heyderman RS, Cohen C, de Cunto Brandileone MC, Flasche S. (2023). Nat Commun DOI: 10.1038/s41467-023-36624-8

Household Transmission of Severe Acute Respiratory Syndrome Coronavirus 2 From Adult Index Cases With and Without Human Immunodeficiency Virus in South Africa, 2020-2021: A Case-Ascertained, Prospective, Observational Household Transmission Study. Kleynhans J, Walaza S, Martinson NA, Neti M, von Gottberg A, Bhiman JN, Toi D, Amoako DG, Buys A, Ndlangisa K, Wolter N, Genade L, Maloma L, Chewparsad J, Lebina L, de Gouveia L, Kotane R, Tempia S, Cohen C. (2023). Clin Infect Dis DOI: 10.1093/cid/ciac640

Unmasking Pneumococcal Carriage in a High Human Immunodeficiency Virus (HIV) Prevalence Population in two Community Cohorts in South Africa, 2016-2018: The PHIRST Study. Carrim M, Tempia S, Thindwa D, Martinson NA, Kahn K, Flasche S, Hellferscee O, Treurnicht FK, McMorrow ML, Moyes J, Mkhencele T, Mathunjwa A, Kleynhans J, Lebina L, Mothlaoleng K, Wafawanaka F, Gómez-Olivé FX, Cohen C, von Gottberg A, Wolter N; PHIRST group. (2023). Clin Infect Dis DOI: 10.1093/cid/ciac499

Co-testing a single sputum specimen for TB and SARS-CoV-2. Genade LP, Kahamba T, Scott L, Tempia S, Walaza S, David A, Stevens W, Hlongwane K, von Gottberg A, Du Plessis M, Kleynhans J, Cohen C, Martinson NA. (2023). Int J Tuberc Lung Dis DOI: 10.5588/ijtld.22.0404

Outcomes of laboratory-confirmed SARS-CoV-2 infection during resurgence driven by Omicron lineages BA.4 and BA.5 compared with previous waves in the Western Cape Province, South Africa. Davies MA, Morden E, Rousseau P, Arendse J, Bam JL, Boloko L, Cloete K, Cohen C, Chetty N, Dane P, Heekes A, Hsiao NY, Hunter M, Hussey H, Jacobs T, Jassat W, Kariem S, Kassanjee R, Laenen I, Roux SL, Lessells R, Mahomed H, Maughan D, Meintjes G, Mendelson M, Mnguni A, Moodley M, Murie K, Naude J, Ntusi NAB, Paleker M, Parker A, Pienaar D, Preiser W, Prozesky H, Raubenheimer P, Rossouw L, Schrueder N, Smith B, Smith M, Solomon W, Symons G, Taljaard J, Wasserman S, Wilkinson RJ, Wolmarans M, Wolter N, Boulle A. (2023). Int J Infect Dis DOI: 10.1016/j.ijid.2022.11.024

Results from the second WHO external quality assessment for the molecular detection of respiratory syncytial virus, 2019-2020. Williams T, Jackson S, Barr I, Bi S, Bhiman J, Ellis J, von Gottberg A, Lindstrom S, Peret T, Rughooputh S, Viegas M, Hirve S, Zambon M, Zhang W; WHO RSV Surveillance Group; Dia N, Razanazatovo N, Al-Nabet ADMH, Abubakar A, Tivane A, Barakat A, Naguib A, Aziz A, Vicari A, Moen A, Govindakarnavar A, Hall A, Darmaa B, Nathalie B, Herring B, Caetano BC, Whittaker B, Baumeister E, Nakouné E, Guthrie E, Inbanathan F, Nair H, Campbell H, Kadjo HA, Oumzil H, Heraud JM, Mott JA, Namulondo J, Leite J, Nahapetyan K, Al Ariqi L, Gazo MHI, Chadha M, Pisareva M, Venter M, Siqueira MM, Lumandas M, Niang M, Albuaini M, Salman M, Oberste S, Srikantiah P, Tang P, Couto P, Smith P, Coyle PV, Dussart P, Nguyen PN, Okada PA, Wijesinghe PR, Samuel R, Brown R, Pebody R, Fasce R, Jha R, Lindstrom S, Gerber S, Potdar V, Dong X, Deng YM. (2023). Influenza Other Respir Viruses DOI: 10.1111/irv.13073

Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron era in South Africa. Sun K, Tempia S, Kleynhans J, von Gottberg A, McMorrow ML, Wolter N, Bhiman JN, Moyes J, Carrim M, Martinson NA, Kahn K, Lebina L, du Toit JD, Mkhencele T, Viboud C, Cohen C; PHIRST-C group. (2023). Nat Commun DOI: 10.1038/s41467-022-35652-0

Meningitis-associated pneumococcal serotype 8, ST 53, strain is hypervirulent in a rat model and has non-haemolytic pneumolysin which can be attenuated by liposomes. Müller A, Lekhuleni C, Hupp S, du Plessis M, Holivololona L, Babiychuk E, Leib SL, Grandgirard D, Iliev AI, von Gottberg A, Hathaway LJ. (2023). Front Cell Infect Microbiol DOI: 10.3389/fcimb.2022.1106063

Diphtheritic myocarditis: a case report, with toxinmediated complications and multi-organ involvement. Naidoo K, Msimang M, du Plessis M, Naidoo DP. (2023). Cardiovasc J Afr DOI: 10.5830/CVJA-2022-032

Respiratory syncytial virus prevention within reach: the vaccine and monoclonal antibody landscape. Mazur NI, Terstappen J, Baral R, Bardají A, Beutels P, Buchholz UJ, Cohen C, Crowe JE Jr, Cutland CL, Eckert L, Feikin D, Fitzpatrick T, Fong Y, Graham BS, Heikkinen T, Higgins D, Hirve S, Klugman KP, Kragten-Tabatabaie L, Lemey P, Libster R, Löwensteyn Y, Mejias A, Munoz FM, Munywoki PK, Mwananyanda L, Nair H, Nunes MC, Ramilo O, Richmond P, Ruckwardt TJ, Sande C, Srikantiah P, Thacker N, Waldstein KA, Weinberger D, Wildenbeest J, Wiseman D, Zar HJ, Zambon M, Bont L. (2023). Lancet Infect Dis DOI: 10.1016/S1473-3099(22)00291-2

Rapid Evaluation of the Xpert(®) Xpress CoV-2 plus and Xpert(®) Xpress CoV-2/Flu/RSV plus Tests. Noble LD, Scott LE, Munir R, Du Plessis M, Steegen K, Hans L, Marokane P, Da Silva P, Stevens WS. (2022). Diagnostics (Basel) DOI: 10.3390/diagnostics13010034

Risk Factors for Severe Coronavirus Disease 2019 Among Human Immunodeficiency Virus-Infected and -Uninfected Individuals in South Africa, April 2020-March 2022: Data From Sentinel Surveillance. Walaza S, Tempia S, von Gottberg A, Wolter N, Bhiman JN, Buys A, Amoako D, Moosa F, du Plessis M, Moyes J, McMorrow ML, Dawood H, Variava E, Reubenson G, Nel J, Zar HJ, Makhasi M, Meiring S, Quan V, Cohen C. (2022). Open Forum Infect Dis DOI: 10.1093/ofid/ofac578

High prevalence of SARS-CoV-2 antibodies in pregnant women after the second wave of infections in the inner-city of Johannesburg, Gauteng Province, South Africa. Sawry S, Le Roux J, Wolter N, Mbatha P, Bhiman J, Balkus J, von Gottberg A, Cohen C, Chersich M, Kekana M, Ndlovu T, Shipalana A, Mthimunye W, Patel F, Gous H, Walaza S, Tempia S, Rees H, Fairlie L. (2022). Int J Infect Dis DOI: 10.1016/j.ijid.2022.10.036

COVID-19 hospital admissions and mortality among healthcare workers in South Africa, 2020-2021. Tlotleng N, Cohen C, Made F, Kootbodien T, Masha M, Naicker N, Blumberg L, Jassat W. (2022). IJID Reg DOI: 10.1016/j.ijregi.2022.08.014

Effectiveness of Influenza Vaccination of Pregnant Women for Prevention of Maternal and Early Infant Influenza-Associated Hospitalizations in South Africa: A Prospective Test-Negative Study. Nunes MC, Walaza S, Meiring S, Zar HJ, Reubenson G, McMorrow M, Tempia S, Rossi L, Itzikowitz R, Bishop K, Mathunjwa A, Wise A, Treurnicht FK, Hellferscee O, Laubscher M, Serafin N, Cutland CL, Madhi SA, Cohen C. (2022). Open Forum Infect Dis DOI: 10.1093/ofid/ofac552

Author Correction: Omicron BA.4/BA.5 escape neutralizing immunity elicited by BA.1 infection. Khan K, Karim F, Ganga Y, Bernstein M, Jule Z, Reedoy K, Cele S, Lustig G, Amoako D, Wolter N, Samsunder N, Sivro A, San JE, Giandhari J, Tegally H, Pillay S, Naidoo Y, Mazibuko M, Miya Y, Ngcobo N, Manickchund N, Magula N, Karim QA, von Gottberg A, Abdool Karim SS, Hanekom W, Gosnell BI; COMMIT-KZN Team; Lessells RJ, de Oliveira T, Moosa MS, Sigal A. (2022). Nat Commun DOI: 10.1038/s41467-022-33371-0

The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance. Tegally H, San JE, Cotten M, Moir M, Tegomoh B, Mboowa G, Martin DP, Baxter C, Lambisia AW, Diallo A, Amoako DG, Diagne MM, Sisay A, Zekri AN, Gueye AS, Sangare AK, Ouedraogo AS, Sow A, Musa AO, Sesay AK, Abias AG, Elzagheid AI, Lagare A, Kemi AS, Abar AE, Johnson AA, Fowotade A, Oluwapelumi AO, Amuri AA, Juru A, Kandeil A, Mostafa A, Rebai A, Sayed A, Kazeem A, Balde A, Christoffels A, Trotter AJ, Campbell A, Keita AK, Kone A, Bouzid A, Souissi A, Agweyu A, Naguib A, Gutierrez AV, Nkeshimana A, Page AJ, Yadouleton A, Vinze A, Happi AN, Chouikha A, Iranzadeh A, Maharaj A, Batchi-Bouyou AL, Ismail A, Sylverken AA, Goba A, Femi A, Sijuwola AE, Marycelin B, Salako BL, Oderinde BS, Bolajoko B, Diarra B, Herring BL, Tsofa B, Lekana-Douki B, Mvula B, Njanpop-Lafourcade BM, Marondera BT, Khaireh BA, Kouriba B, Adu B, Pool B, McInnis B, Brook C, Williamson C, Nduwimana C, Anscombe C, Pratt CB, Scheepers C, Akoua-Koffi CG, Agoti CN, Mapanguy CM, Loucoubar C, Onwuamah CK, Ihekweazu C, Malaka CN, Peyrefitte C, Grace C, Omoruyi CE, Rafaï CD, Morang'a CM, Erameh C, Lule DB, Bridges DJ, Mukadi-Bamuleka D, Park D, Rasmussen DA, et al. (2022). Science DOI: 10.1126/science.abq5358

Coronavirus Host Genomics Study: South Africa (COVIGen-SA). May AK, Seymour H, Etheredge H, Maher H, Nunes MC, Madhi SA, Sokhela SM, Venter WDF, Martinson N, Nabeemeeah F, Cohen C, Moyes J, Walaza S, Tempia S, Kleynhans J, von Gottberg A, Nel J, Dawood H, Variava E, Tollman S, Kahn K, Herbst K, Wong EB, Tiemessen CT, van Blydenstein A, Murray L, Venter M, Fabian J, Ramsay M. (2022). Glob Health Epidemiol Genom DOI: 10.1155/2022/7405349

Clinical severity of SARS-CoV-2 Omicron BA.4 and BA.5 lineages compared to BA.1 and Delta in South Africa. Wolter N, Jassat W, Walaza S, Welch R, Moultrie H, Groome MJ, Amoako DG, Everatt J, Bhiman JN, Scheepers C, Tebeila N, Chiwandire N, du Plessis M, Govender N, Ismail A, Glass A, Mlisana K, Stevens W, Treurnicht FK, Subramoney K, Makatini Z, Hsiao NY, Parboosing R, Wadula J, Hussey H, Davies MA, Boulle A, von Gottberg A, Cohen C. (2022). Nat Commun DOI: 10.1038/s41467-022-33614-0

Methods for early characterisation of the severity and dynamics of SARS-CoV-2 variants: a population-based time series analysis in South Africa. Reichert E, Schaeffer B, Gantt S, Rumpler E, Govender N, Welch R, Shonhiwa AM, Iwu CD, Lamola TM, Moema-Matiea I, Muganhiri D, Hanage W, Santillana M, Jassat W, Cohen C, Swerdlow D. (2022). Lancet Microbe DOI: 10.1016/S2666-5247(22)00182-3

Emergence of a multidrug-resistant and virulent Streptococcus pneumoniae lineage mediates serotype replacement after PCV13: an international whole-genome sequencing study. Lo SW, Mellor K, Cohen R, Alonso AR, Belman S, Kumar N, Hawkins PA, Gladstone RA, von Gottberg A, Veeraraghavan B, Ravikumar KL, Kandasamy R, Pollard SAJ, Saha SK, Bigogo G, Antonio M, Kwambana-Adams B, Mirza S, Shakoor S, Nisar I, Cornick JE, Lehmann D, Ford RL, Sigauque B, Turner P, Moïsi J, Obaro SK, Dagan R, Diawara I, Skoczynska A, Wang H, Carter PE, Klugman KP, Rodgers G, Breiman RF, McGee L, Bentley SD, Muñoz-Almagro C, Varon E; Global Pneumococcal Sequencing Consortium. (2022). Lancet Microbe DOI: 10.1016/S2666-5247(22)00158-6

Salmonella Yoruba: A rare serotype revealed through genomic sequencing along the farm-to-fork continuum of an intensive poultry farm in KwaZulu-Natal, South Africa. Ramtahal MA, Amoako DG, Ismail A, Bester L, Abia ALK, Essack SY. (2022). Acta Trop DOI: 10.1016/j.actatropica.2022.106620

Post-COVID-19 condition 3 months after hospitalisation with SARS-CoV-2 in South Africa: a prospective cohort study. Dryden M, Mudara C, Vika C, Blumberg L, Mayet N, Cohen C, Tempia S, Parker A, Nel J, Perumal R, Groome MJ, Conradie F, Ndjeka N, Sigfrid L, Merson L, Jassat W. (2022). Lancet Glob Health DOI: 10.1016/S2214-109X(22)00286-8

Case-fatality and sequelae following acute bacterial meningitis in South Africa, 2016 through 2020. Meiring S, Cohen C, de Gouveia L, Plessis MD, Quan V, Kleynhans J, Menezes C, Reubenson G, Dawood H, Nchabeleng M, Said M, Mvelase N, Mahabeer P, Chomba R, Lekalakala R, Nana T, Chibabhai V, Black M, von Gottberg A; for GERMS-SA. (2022). Int J Infect Dis DOI: 10.1016/j.ijid.2022.07.068

Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa. Tegally H, Moir M, Everatt J, Giovanetti M, Scheepers C, Wilkinson E, Subramoney K, Makatini Z, Moyo S, Amoako DG, Baxter C, Althaus CL, Anyaneji UJ, Kekana D, Viana R, Giandhari J, Lessells RJ, Maponga T, Maruapula D, Choga W, Matshaba M, Mbulawa MB, Msomi N; NGS-SA consortium; Naidoo Y, Pillay S, Sanko TJ, San JE, Scott L, Singh L, Magini NA, Smith-Lawrence P, Stevens W, Dor G, Tshiabuila D, Wolter N, Preiser W, Treurnicht FK, Venter M, Chiloane G, McIntyre C, O'Toole A, Ruis C, Peacock TP, Roemer C, Kosakovsky Pond SL, Williamson C, Pybus OG, Bhiman JN, Glass A, Martin DP, Jackson B, Rambaut A, Laguda-Akingba O, Gaseitsiwe S, von Gottberg A, de Oliveira T. (2022). Nat Med DOI: 10.1038/s41591-022-01911-2

Pathogens detected using a syndromic molecular diagnostic platform in patients hospitalized with severe respiratory illness in South Africa in 2017. Moleleki M, du Plessis M, Ndlangisa K, Reddy C, Hellferscee O, Mekgoe O, McMorrow M, Walaza S, Cohen C, Tempia S, von Gottberg A, Wolter N. (2022). Int J Infect Dis DOI: 10.1016/j.ijid.2022.06.011

Costs of seasonal influenza vaccination in South Africa. Fraser H, Tombe-Mdewa W, Kohli-Lynch C, Hofman K, Tempia S, McMorrow M, Lambach P, Ramkrishna W, Cohen C, Hutubessy R, Edoka I. (2022). Influenza Other Respir Viruses DOI: 10.1111/irv.12987

Factors affecting the use of biosecurity measures for the protection of ruminant livestock and farm workers against infectious diseases in central South Africa. Msimang V, Rostal MK, Cordel C, Machalaba C, Tempia S, Bagge W, Burt FJ, Karesh WB, Paweska JT, Thompson PN. (2022). Transbound Emerg Dis DOI: 10.1111/tbed.14525

SARS-CoV-2 transmission, persistence of immunity, and estimates of Omicron's impact in South African population cohorts. Sun K, Tempia S, Kleynhans J, von Gottberg A, McMorrow ML, Wolter N, Bhiman JN, Moyes J, du Plessis M, Carrim M, Buys A, Martinson NA, Kahn K, Tollman S, Lebina L, Wafawanaka F, du Toit JD, Gómez-Olivé FX, Mkhencele T, Viboud C, Cohen C. (2022). Sci Transl Med DOI: 10.1126/scitranslmed.abo7081

Seroprevalence of Severe Acute Respiratory Syndrome Coronavirus 2 After the Second Wave in South Africa in Human Immunodeficiency Virus-Infected and Uninfected Persons: A Cross-Sectional Household Survey. Wolter N, Tempia S, von Gottberg A, Bhiman JN, Walaza S, Kleynhans J, Moyes J, Buys A, McMorrow ML, Aitken S, Magni S, Yun J, Fellows T, Maakamedi T, Weiner R, Cawood C, Martinson N, Lebina L, Jassat W, Brauer M, Cohen C. (2022). Clin Infect Dis DOI: 10.1093/cid/ciac198

Prolonged Shedding of Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) at High Viral Loads Among Hospitalized Immunocompromised Persons Living With Human Immunodeficiency Virus (HIV), South Africa. Meiring S, Tempia S, Bhiman JN, Buys A, Kleynhans J, Makhasi M, McMorrow M, Moyes J, Quan V, Walaza S, du Plessis M, Wolter N, von Gottberg A, Cohen C; COVID-19 shedding study group. (2022). Clin Infect Dis DOI: 10.1093/cid/ciac077

Direct and Indirect Effects of the Coronavirus Disease 2019 Pandemic on Private Healthcare Utilization in South Africa, March 2020-September 2021. Perofsky AC, Tempia S, Bingham J, Maslo C, Toubkin M, Laubscher A, Walaza S, Pulliam JRC, Viboud C, Cohen C. (2022). Clin Infect Dis DOI: 10.1093/cid/ciac055

Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron era in South Africa. Sun K, Tempia S, Kleynhans J, von Gottberg A, McMorrow ML, Wolter N, Bhiman JN, Moyes J, Carrim M, Martinson NA, Kahn K, Lebina L, du Toit JD, Mkhencele T, Viboud C, Cohen C; PHIRST group. (2022). medRxiv DOI: 10.1101/2022.08.19.22278993

Omicron BA.4/BA.5 escape neutralizing immunity elicited by BA.1 infection. Khan K, Karim F, Ganga Y, Bernstein M, Jule Z, Reedoy K, Cele S, Lustig G, Amoako D, Wolter N, Samsunder N, Sivro A, San JE, Giandhari J, Tegally H, Pillay S, Naidoo Y, Mazibuko M, Miya Y, Ngcobo N, Manickchund N, Magula N, Karim QA, von Gottberg A, Abdool Karim SS, Hanekom W, Gosnell BI; COMMIT-KZN Team; Lessells RJ, de Oliveira T, Moosa MS, Sigal A. (2022). Nat Commun DOI: 10.1038/s41467-022-32396-9

Estimating the time-varying reproduction number for COVID-19 in South Africa during the first four waves using multiple measures of incidence for public and private sectors across four waves. Bingham J, Tempia S, Moultrie H, Viboud C, Jassat W, Cohen C, Pulliam JRC. (2022). medRxiv DOI: 10.1101/2022.07.22.22277932

Culture-confirmed neonatal bloodstream infections and meningitis in South Africa, 2014-19: a cross-sectional study. Mashau RC, Meiring ST, Dramowski A, Magobo RE, Quan VC, Perovic O, von Gottberg A, Cohen C, Velaphi S, van Schalkwyk E, Govender NP; Baby GERMS-SA. (2022). Lancet Glob Health DOI: 10.1016/S2214-109X(22)00246-7

Clinical severity of omicron lineage BA.2 infection compared with BA.1 infection in South Africa. Wolter N, Jassat W; DATCOV-Gen author group; von Gottberg A, Cohen C. (2022). Lancet DOI: 10.1016/S0140-6736(22)00981-3

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Clinical severity of COVID-19 in patients admitted to hospital during the omicron wave in South Africa: a retrospective observational study. Jassat W, Abdool Karim SS, Mudara C, Welch R, Ozougwu L, Groome MJ, Govender N, von Gottberg A, Wolter N, Wolmarans M, Rousseau P; DATCOV author group; Blumberg L, Cohen C. (2022). Lancet Glob Health DOI: 10.1016/S2214-109X(22)00114-0

Omicron infection enhances Delta antibody immunity in vaccinated persons. Khan K, Karim F, Cele S, Reedoy K, San JE, Lustig G, Tegally H, Rosenberg Y, Bernstein M, Jule Z, Ganga Y, Ngcobo N, Mazibuko M, Mthabela N, Mhlane Z, Mbatha N, Miya Y, Giandhari J, Ramphal Y, Naidoo T, Sivro A, Samsunder N, Kharsany ABM, Amoako D, Bhiman JN, Manickchund N, Abdool Karim Q, Magula N, Abdool Karim SS, Gray G, Hanekom W, von Gottberg A; COMMIT-KZN Team; Milo R, Gosnell BI, Lessells RJ, Moore PL, de Oliveira T, Moosa MS, Sigal A. (2022). Nature DOI: 10.1038/s41586-022-04830-x

A Public Health Insight into Salmonella in Poultry in Africa: A Review of the Past Decade: 2010-2020. Ramtahal MA, Amoako DG, Akebe ALK, Somboro AM, Bester LA, Essack SY. (2022). Microb Drug Resist DOI: 10.1089/mdr.2021.0384

An early warning system for emerging SARS-CoV-2 variants. Subissi L, von Gottberg A, Thukral L, Worp N, Oude Munnink BB, Rathore S, Abu-Raddad LJ, Aguilera X, Alm E, Archer BN, Attar Cohen H, Barakat A, Barclay WS, Bhiman JN, Caly L, Chand M, Chen M, Cullinane A, de Oliveira T, Drosten C, Druce J, Effler P, El Masry I, Faye A, Gaseitsiwe S, Ghedin E, Grant R, Haagmans BL, Herring BL, Iyer SS, Kassamali Z, Kakkar M, Kondor RJ, Leite JA, Leo YS, Leung GM, Marklewitz M, Moyo S, Mendez-Rico J, Melhem NM, Munster V, Nahapetyan K, Oh DY, Pavlin BI, Peacock TP, Peiris M, Peng Z, Poon LLM, Rambaut A, Sacks J, Shen Y, Siqueira MM, Tessema SK, Volz EM, Thiel V, van der Werf S, Briand S, Perkins MD, Van Kerkhove MD, Koopmans MPG, Agrawal A. (2022). Nat Med DOI: 10.1038/s41591-022-01836-w

Outcomes of laboratory-confirmed SARS-CoV-2 infection in the Omicron-driven fourth wave compared with previous waves in the Western Cape Province, South Africa. Davies MA, Kassanjee R, Rousseau P, Morden E, Johnson L, Solomon W, Hsiao NY, Hussey H, Meintjes G, Paleker M, Jacobs T, Raubenheimer P, Heekes A, Dane P, Bam JL, Smith M, Preiser W, Pienaar D, Mendelson M, Naude J, Schrueder N, Mnguni A, Le Roux S, Murie K, Prozesky H, Mahomed H, Rossouw L, Wasserman S, Maughan D, Boloko L, Smith B, Taljaard J, Symons G, Ntusi NAB, Parker A, Wolter N, Jassat W, Cohen C, Lessells R, Wilkinson RJ, Arendse J, Kariem S, Moodley M, Wolmarans M, Cloete K, Boulle A; Western Cape and South African National Departments of Health in collaboration with the National Institute for Communicable Diseases in South Africa Affiliations. (2022). Trop Med Int Health DOI: 10.1111/tmi.13752

The intersecting pandemics of tuberculosis and COVID-19: population-level and patient-level impact, clinical presentation, and corrective interventions. Dheda K, Perumal T, Moultrie H, Perumal R, Esmail A, Scott AJ, Udwadia Z, Chang KC, Peter J, Pooran A, von Delft A, von Delft D, Martinson N, Loveday M, Charalambous S, Kachingwe E, Jassat W, Cohen C, Tempia S, Fennelly K, Pai M. (2022). Lancet Respir Med DOI: 10.1016/S2213-2600(22)00092-3

SARS-CoV-2 incidence, transmission, and reinfection in a rural and an urban setting: results of the PHIRST-C cohort study, South Africa, 2020-21. Cohen C, Kleynhans J, von Gottberg A, McMorrow ML, Wolter N, Bhiman JN, Moyes J, du Plessis M, Carrim M, Buys A, Martinson NA, Kahn K, Tollman S, Lebina L, Wafawanaka F, du Toit JD, Gómez-Olivé FX, Dawood FS, Mkhencele T, Sun K, Viboud C, Tempia S; PHIRST-C Group. (2022). Lancet Infect Dis DOI: 10.1016/S1473-3099(22)00069-X

Excess Invasive Meningococcal Disease Associated With Seasonal Influenza, South Africa, 2003-2018. Meiring S, Tempia S, Dominic EM, de Gouveia L, McAnerney J, von Gottberg A, Cohen C. (2022). Clin Infect Dis DOI: 10.1093/cid/ciab702

Global, regional, and national disease burden estimates of acute lower respiratory infections due to respiratory syncytial virus in children younger than 5 years in 2019: a systematic analysis. Li Y, Wang X, Blau DM, Caballero MT, Feikin DR, Gill CJ, Madhi SA, Omer SB, Simões EAF, Campbell H, Pariente AB, Bardach D, Bassat Q, Casalegno JS, Chakhunashvili G, Crawford N, Danilenko D, Do LAH, Echavarria M, Gentile A, Gordon A, Heikkinen T, Huang QS, Jullien S, Krishnan A, Lopez EL, Markic J, Mira-Iglesias A, Moore HC, Moyes J, Mwananyanda L, Nokes DJ, Noordeen F, Obodai E, Palani N, Romero C, Salimi V, Satav A, Seo E, Shchomak Z, Singleton R, Stolyarov K, Stoszek SK, von Gottberg A, Wurzel D, Yoshida LM, Yung CF, Zar HJ; Respiratory Virus Global Epidemiology Network; Nair H; RESCEU investigators. (2022). Lancet DOI: 10.1016/S0140-6736(22)00478-0

SARS-CoV-2 cases reported from long-term residential facilities (care homes) in South Africa: a retrospective cohort study. Arendse T, Cowper B, Cohen C, Masha M, Tempia S, Legodu C, Singh S, Ratau T, Geffen L, Heymans A, Coetzer D, Blumberg L, Jassat W. (2022). BMC Public Health DOI: 10.1186/s12889-022-13403-6

COVID-19 vaccine hesitancy in rural South Africa: Deepening understanding to increase uptake and access. Kahn K, Pettifor A, Mataboge P, Kelly NK, Mashinini DP, Nair H, Campbell H, Cohen C, Gómez-Olivé FX, Tollman S. (2022). J Glob Health DOI: 10.7189/jogh.12.05013

Increased risk of SARS-CoV-2 reinfection associated with emergence of Omicron in South Africa. Pulliam JRC, van Schalkwyk C, Govender N, von Gottberg A, Cohen C, Groome MJ, Dushoff J, Mlisana K, Moultrie H. (2022). Science DOI: 10.1126/science.abn4947

SARS-CoV-2 Seroprevalence after Third Wave of Infections, South Africa. Kleynhans J, Tempia S, Wolter N, von Gottberg A, Bhiman JN, Buys A, Moyes J, McMorrow ML, Kahn K, Gómez-Olivé FX, Tollman S, Martinson NA, Wafawanaka F, Lebina L, du Toit JD, Jassat W, Neti M, Brauer M, Cohen C; PHIRST-C Group. (2022). Emerg Infect Dis DOI: 10.3201/eid2805.220278

Assessing the clinical severity of the Omicron variant in the Western Cape Province, South Africa, using the diagnostic PCR proxy marker of RdRp target delay to distinguish between Omicron and Delta infections - a survival analysis. Hussey H, Davies MA, Heekes A, Williamson C, Valley-Omar Z, Hardie D, Korsman S, Doolabh D, Preiser W, Maponga T, Iranzadeh A, Wasserman S, Boloko L, Symons G, Raubenheimer P, Parker A, Schrueder N, Solomon W, Rousseau P, Wolter N, Jassat W, Cohen C, Lessells R, Wilkinson RJ, Boulle A, Hsiao NY. (2022). Int J Infect Dis DOI: 10.1016/j.ijid.2022.02.051

The national burden of influenza-like illness and severe respiratory illness overall and associated with nine respiratory viruses in South Africa, 2013-2015. Tempia S, Moyes J, Cohen AL, Walaza S, McMorrow ML, Treurnicht FK, Hellferscee O, Wolter N, von Gottberg A, Dawood H, Variava E, Cohen C. (2022). Influenza Other Respir Viruses DOI: 10.1111/irv.12949

Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function. Martin DP, Lytras S, Lucaci AG, Maier W, Grüning B, Shank SD, Weaver S, MacLean OA, Orton RJ, Lemey P, Boni MF, Tegally H, Harkins GW, Scheepers C, Bhiman JN, Everatt J, Amoako DG, San JE, Giandhari J, Sigal A; NGS-SA; Williamson C, Hsiao NY, von Gottberg A, De Klerk A, Shafer RW, Robertson DL, Wilkinson RJ, Sewell BT, Lessells R, Nekrutenko A, Greaney AJ, Starr TN, Bloom JD, Murrell B, Wilkinson E, Gupta RK, de Oliveira T, Kosakovsky Pond SL. (2022). Mol Biol Evol DOI: 10.1093/molbev/msac061

Emergence and phenotypic characterization of the global SARS-CoV-2 C.1.2 lineage. Scheepers C, Everatt J, Amoako DG, Tegally H, Wibmer CK, Mnguni A, Ismail A, Mahlangu B, Lambson BE, Martin DP, Wilkinson E, San JE, Giandhari J, Manamela N, Ntuli N, Kgagudi P, Cele S, Richardson SI, Pillay S, Mohale T, Ramphal U, Naidoo Y, Khumalo ZT, Kwatra G, Gray G, Bekker LG, Madhi SA, Baillie V, Van Voorhis WC, Treurnicht FK, Venter M, Mlisana K, Wolter N, Sigal A, Williamson C, Hsiao NY, Msomi N, Maponga T, Preiser W, Makatini Z, Lessells R, Moore PL, de Oliveira T, von Gottberg A, Bhiman JN. (2022). Nat Commun DOI: 10.1038/s41467-022-29579-9

A Streptococcus pneumoniae lineage usually associated with pneumococcal conjugate vaccine (PCV) serotypes is the most common cause of serotype 35B invasive disease in South Africa, following routine use of PCV. Ndlangisa KM, du Plessis M, Lo S, de Gouveia L, Chaguza C, Antonio M, Kwambana-Adams B, Cornick J, Everett DB, Dagan R, Hawkins PA, Beall B, Corso A, Grassi Almeida SC, Ochoa TJ, Obaro S, Shakoor S, Donkor ES, Gladstone RA, Ho PL, Paragi M, Doiphode S, Srifuengfung S, Ford R, Moïsi J, Saha SK, Bigogo G, Sigauque B, Eser ÖK, Elmdaghri N, Titov L, Turner P, Kumar KLR, Kandasamy R, Egorova E, Ip M, Breiman RF, Klugman KP, McGee L, Bentley SD, von Gottberg A, The Global Pneumococcal Sequencing Consortium. (2022). Microb Genom DOI: 10.1099/mgen.0.000746

Effective surveillance of variants. Kucharski AJ, Cohen C. (2022). Science DOI: 10.1126/science.abo4257

Effectiveness of the Ad26.COV2.S vaccine in health-care workers in South Africa (the Sisonke study): results from a single-arm, open-label, phase 3B, implementation study. Bekker LG, Garrett N, Goga A, Fairall L, Reddy T, Yende-Zuma N, Kassanjee R, Collie S, Sanne I, Boulle A, Seocharan I, Engelbrecht I, Davies MA, Champion J, Chen T, Bennett S, Mametja S, Semenya M, Moultrie H, de Oliveira T, Lessells RJ, Cohen C, Jassat W, Groome M, Von Gottberg A, Le Roux E, Khuto K, Barouch D, Mahomed H, Wolmarans M, Rousseau P, Bradshaw D, Mulder M, Opie J, Louw V, Jacobson B, Rowji P, Peter JG, Takalani A, Odhiambo J, Mayat F, Takuva S, Corey L, Gray GE; Sisonke Protocol Team; Sisonke Study Team. (2022). Lancet DOI: 10.1016/S0140-6736(22)00007-1

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa. Viana R, Moyo S, Amoako DG, Tegally H, Scheepers C, Althaus CL, Anyaneji UJ, Bester PA, Boni MF, Chand M, Choga WT, Colquhoun R, Davids M, Deforche K, Doolabh D, du Plessis L, Engelbrecht S, Everatt J, Giandhari J, Giovanetti M, Hardie D, Hill V, Hsiao NY, Iranzadeh A, Ismail A, Joseph C, Joseph R, Koopile L, Kosakovsky Pond SL, Kraemer MUG, Kuate-Lere L, Laguda-Akingba O, Lesetedi-Mafoko O, Lessells RJ, Lockman S, Lucaci AG, Maharaj A, Mahlangu B, Maponga T, Mahlakwane K, Makatini Z, Marais G, Maruapula D, Masupu K, Matshaba M, Mayaphi S, Mbhele N, Mbulawa MB, Mendes A, Mlisana K, Mnguni A, Mohale T, Moir M, Moruisi K, Mosepele M, Motsatsi G, Motswaledi MS, Mphoyakgosi T, Msomi N, Mwangi PN, Naidoo Y, Ntuli N, Nyaga M, Olubayo L, Pillay S, Radibe B, Ramphal Y, Ramphal U, San JE, Scott L, Shapiro R, Singh L, Smith-Lawrence P, Stevens W, Strydom A, Subramoney K, Tebeila N, Tshiabuila D, Tsui J, van Wyk S, Weaver S, Wibmer CK, Wilkinson E, Wolter N, Zarebski AE, Zuze B, Goedhals D, Preiser W, Treurnicht F, Venter M, Williamson C, Pybus OG, Bhiman J, Glass A, Martin DP, Rambaut A, Gaseitsiwe S, von Gottberg A, de Oliveira T. (2022). Nature DOI: 10.1038/s41586-022-04411-y

Human respiratory syncytial virus diversity and epidemiology among patients hospitalized with severe respiratory illness in South Africa, 2012-2015. Valley-Omar Z, Tempia S, Hellferscee O, Walaza S, Variava E, Dawood H, Kahn K, McMorrow M, Pretorius M, Mtshali S, Mamorobela E, Wolter N, Venter M, von Gottberg A, Cohen C, Treurnicht FK. (2022). Influenza Other Respir Viruses DOI: 10.1111/irv.12905

Molecular Surveillance and Dissemination of Klebsiella pneumoniae on Frequently Encountered Surfaces in South African Public Hospitals. Malinga NZZ, Shobo CO, Molechan C, Amoako DG, Zishiri OT, Bester LA. (2022). Microb Drug Resist DOI: 10.1089/mdr.2020.0546

Convalescent plasma in the treatment of moderate to severe COVID-19 pneumonia: a randomized controlled trial (PROTECT-Patient Trial). van den Berg K, Glatt TN, Vermeulen M, Little F, Swanevelder R, Barrett C, Court R, Bremer M, Nyoni C, Swarts A, Mmenu C, Crede T, Kritzinger G, Naude J, Szymanski P, Cowley J, Moyo-Gwete T, Moore PL, Black J, Singh J, Bhiman JN, Baijnath P, Mody P, Malherbe J, Potgieter S, van Vuuren C, Maasdorp S, Wilkinson RJ, Louw VJ, Wasserman S. (2022). Sci Rep DOI: 10.1038/s41598-022-06221-8

International links between Streptococcus pneumoniae vaccine serotype 4 sequence type (ST) 801 in Northern European shipyard outbreaks of invasive pneumococcal disease. Gladstone RA, Siira L, Brynildsrud OB, Vestrheim DF, Turner P, Clarke SC, Srifuengfung S, Ford R, Lehmann D, Egorova E, Voropaeva E, Haraldsson G, Kristinsson KG, McGee L, Breiman RF, Bentley SD, Sheppard CL, Fry NK, Corander J, Toropainen M, Steens A; Global Pneumococcal Sequencing Consortium. (2022). Vaccine DOI: 10.1016/j.vaccine.2021.10.046

Study protocol for a population-based observational surveillance study of culture-confirmed neonatal bloodstream infections and meningitis in South Africa: Baby GERMS-SA. Meiring S, Mashau R, Magobo R, Perovic O, Quan V, Cohen C, de Gouveia L, von Gottberg A, Mackay C, Mailula MT, Phayane R, Dramowski A, Govender NP. (2022). BMJ Open DOI: 10.1136/bmjopen-2021-049070

Deaths from RSV in young infants-the hidden community burden. Cohen C, Zar HJ. (2022). Lancet Glob Health DOI: 10.1016/S2214-109X(21)00558-1

Omicron extensively but incompletely escapes Pfizer BNT162b2 neutralization. Cele S, Jackson L, Khoury DS, Khan K, Moyo-Gwete T, Tegally H, San JE, Cromer D, Scheepers C, Amoako DG, Karim F, Bernstein M, Lustig G, Archary D, Smith M, Ganga Y, Jule Z, Reedoy K, Hwa SH, Giandhari J, Blackburn JM, Gosnell BI, Abdool Karim SS, Hanekom W; NGS-SA; COMMIT-KZN Team; von Gottberg A, Bhiman JN, Lessells RJ, Moosa MS, Davenport MP, de Oliveira T, Moore PL, Sigal A. (2022). Nature DOI: 10.1038/s41586-021-04387-1

Early assessment of the clinical severity of the SARS-CoV-2 omicron variant in South Africa: a data linkage study. Wolter N, Jassat W, Walaza S, Welch R, Moultrie H, Groome M, Amoako DG, Everatt J, Bhiman JN, Scheepers C, Tebeila N, Chiwandire N, du Plessis M, Govender N, Ismail A, Glass A, Mlisana K, Stevens W, Treurnicht FK, Makatini Z, Hsiao NY, Parboosing R, Wadula J, Hussey H, Davies MA, Boulle A, von Gottberg A, Cohen C. (2022). Lancet DOI: 10.1016/S0140-6736(22)00017-4

Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function. Martin DP, Lytras S, Lucaci AG, Maier W, Grüning B, Shank SD, Weaver S, MacLean OA, Orton RJ, Lemey P, Boni MF, Tegally H, Harkins G, Scheepers C, Bhiman JN, Everatt J, Amoako DG, San JE, Giandhari J, Sigal A; NGS-SA; Williamson C, Hsiao NY, von Gottberg A, De Klerk A, Shafer RW, Robertson DL, Wilkinson RJ, Sewell BT, Lessells R, Nekrutenko A, Greaney AJ, Starr TN, Bloom JD, Murrell B, Wilkinson E, Gupta RK, de Oliveira T, Kosakovsky Pond SL. (2022). bioRxiv DOI: 10.1101/2022.01.14.476382

Molecular Epidemiology of Salmonella enterica in Poultry in South Africa Using the Farm-to-Fork Approach. Ramtahal MA, Somboro AM, Amoako DG, Abia ALK, Perrett K, Bester LA, Essack SY. (2022). Int J Microbiol DOI: 10.1155/2022/5121273

Outcomes of laboratory-confirmed SARS-CoV-2 infection in the Omicron-driven fourth wave compared with previous waves in the Western Cape Province, South Africa. Davies MA, Kassanjee R, Rosseau P, Morden E, Johnson L, Solomon W, Hsiao NY, Hussey H, Meintjes G, Paleker M, Jacobs T, Raubenheimer P, Heekes A, Dane P, Bam JL, Smith M, Preiser W, Pienaar D, Mendelson M, Naude J, Schrueder N, Mnguni A, Roux SL, Murie K, Prozesky H, Mahomed H, Rossouw L, Wasserman S, Maughan D, Boloko L, Smith B, Taljaard J, Symons G, Ntusi N, Parker A, Wolter N, Jassat W, Cohen C, Lessells R, Wilkinson RJ, Arendse J, Kariem S, Moodley M, Vallabhjee K, Wolmarans M, Cloete K, Boulle A. (2022). medRxiv DOI: 10.1101/2022.01.12.22269148

Guidance for SARS-CoV-2 RNA-Based Molecular Assay Analytical Performance Evaluations. Noble L, Scott L, Munir R, Steegen K, du Plessis M, Hans L, Stevens W. (2022). Methods Mol Biol DOI: 10.1007/978-1-0716-2395-4_8

Streptococcus pneumoniae Serotypes Associated with Death, South Africa, 2012-2018. Müller A, Kleynhans J, de Gouveia L, Meiring S, Cohen C, Hathaway LJ, von Gottberg A; for GERMS-SA. (2022). Emerg Infect Dis DOI: 10.3201/eid2801.210956

Epidemiology of SARS-CoV-2 infection and SARS-CoV-2 positive hospital admissions among children in South Africa. Kufa T, Jassat W, Cohen C, Tempia S, Masha M, Wolter N, Walaza S, von Gottburg A, Govender NP, Hunt G, Shonhiwa AM, Ebonwu J, Ntshoe G, Maruma W, Bapela P, Ndhlovu N, Mathema H, Modise M, Shuping L, Manana PN, Moore D, Dangor Z, Verwey C, Madhi SA, Saloojee H, Zar HJ, Blumberg L. (2022). Influenza Other Respir Viruses DOI: 10.1111/irv.12916

Estimating the contribution of HIV-infected adults to household pneumococcal transmission in South Africa, 2016-2018: A hidden Markov modelling study. Thindwa D, Wolter N, Pinsent A, Carrim M, Ojal J, Tempia S, Moyes J, McMorrow M, Kleynhans J, Gottberg AV, French N; PHIRST group; Cohen C, Flasche S. (2021). PLoS Comput Biol DOI: 10.1371/journal.pcbi.1009680

SARS-CoV-2 Omicron has extensive but incomplete escape of Pfizer BNT162b2 elicited neutralization and requires ACE2 for infection. Cele S, Jackson L, Khoury DS, Khan K, Moyo-Gwete T, Tegally H, San JE, Cromer D, Scheepers C, Amoako D, Karim F, Bernstein M, Lustig G, Archary D, Smith M, Ganga Y, Jule Z, Reedoy K, Hwa SH, Giandhari J, Blackburn JM, Gosnell BI, Abdool Karim SS, Hanekom W; NGS-SA; COMMIT-KZN Team; von Gottberg A, Bhiman J, Lessells RJ, Moosa MS, Davenport MP, de Oliveira T, Moore PL, Sigal A. (2021). medRxiv DOI: 10.1101/2021.12.08.21267417

SARS-CoV-2 incidence, transmission and reinfection in a rural and an urban setting: results of the PHIRST-C cohort study, South Africa, 2020-2021. Cohen C, Kleynhans J, von Gottberg A, McMorrow ML, Wolter N, Bhiman JN, Moyes J, du Plessis M, Carrim M, Buys A, Martinson NA, Kahn K, Tollman S, Lebina L, Wafawanaka F, du Toit J, Xavier Gómez-Olivé F, Dawood FS, Mkhencele T, Sun K, Viboud C; PHIRST group; Tempia S. (2021). medRxiv DOI: 10.1101/2021.07.20.21260855

Occurrence, Antibiotic Resistance, Virulence Factors, and Genetic Diversity of Bacillus spp. from Public Hospital Environments in South Africa. Mbhele ZN, Shobo CO, Amoako DG, Zishiri OT, Bester LA. (2021). Microb Drug Resist DOI: 10.1089/mdr.2020.0543

SARS-CoV-2 Seroprevalence in a Rural and Urban Household Cohort during First and Second Waves of Infections, South Africa, July 2020-March 2021. Kleynhans J, Tempia S, Wolter N, von Gottberg A, Bhiman JN, Buys A, Moyes J, McMorrow ML, Kahn K, Gómez-Olivé FX, Tollman S, Martinson NA, Wafawanaka F, Lebina L, du Toit J, Jassat W, Neti M, Brauer M, Cohen C; PHIRST-C Group. (2021). Emerg Infect Dis DOI: 10.3201/eid2712.211465

Cohort profile: A Prospective Household cohort study of Influenza, Respiratory syncytial virus and other respiratory pathogens community burden and Transmission dynamics in South Africa, 2016-2018. Cohen C, McMorrow ML, Martinson NA, Kahn K, Treurnicht FK, Moyes J, Mkhencele T, Hellferscee O, Lebina L, Moroe M, Motlhaoleng K, Gómez-Olivé FX, Wagner R, Tollman S, Wafawanaka F, Ngobeni S, Kleynhans J, Mathunjwa A, Buys A, Maake L, Wolter N, Carrim M, Piketh S, Language B, Mathee A, von Gottberg A, Tempia S; PHIRST group. (2021). Influenza Other Respir Viruses DOI: 10.1111/irv.12881

Defining the seasonality of respiratory syncytial virus around the world: National and subnational surveillance data from 12 countries. Staadegaard L, Caini S, Wangchuk S, Thapa B, de Almeida WAF, de Carvalho FC, Fasce RA, Bustos P, Kyncl J, Novakova L, Caicedo AB, de Mora Coloma DJ, Meijer A, Hooiveld M, Huang QS, Wood T, Guiomar R, Rodrigues AP, Lee VJM, Ang LW, Cohen C, Moyes J, Larrauri A, Delgado-Sanz C, Demont C, Bangert M, Dückers M, van Summeren J, Paget J. (2021). Influenza Other Respir Viruses DOI: 10.1111/irv.12885

A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa. Wilkinson E, Giovanetti M, Tegally H, San JE, Lessells R, Cuadros D, Martin DP, Rasmussen DA, Zekri AN, Sangare AK, Ouedraogo AS, Sesay AK, Priscilla A, Kemi AS, Olubusuyi AM, Oluwapelumi AOO, Hammami A, Amuri AA, Sayed A, Ouma AEO, Elargoubi A, Ajayi NA, Victoria AF, Kazeem A, George A, Trotter AJ, Yahaya AA, Keita AK, Diallo A, Kone A, Souissi A, Chtourou A, Gutierrez AV, Page AJ, Vinze A, Iranzadeh A, Lambisia A, Ismail A, Rosemary A, Sylverken A, Femi A, Ibrahimi A, Marycelin B, Oderinde BS, Bolajoko B, Dhaala B, Herring BL, Njanpop-Lafourcade BM, Kleinhans B, McInnis B, Tegomoh B, Brook C, Pratt CB, Scheepers C, Akoua-Koffi CG, Agoti CN, Peyrefitte C, Daubenberger C, Morang'a CM, Nokes DJ, Amoako DG, Bugembe DL, Park D, Baker D, Doolabh D, Ssemwanga D, Tshiabuila D, Bassirou D, Amuzu DSY, Goedhals D, Omuoyo DO, Maruapula D, Foster-Nyarko E, Lusamaki EK, Simulundu E, Ong'era EM, Ngabana EN, Shumba E, El Fahime E, Lokilo E, Mukantwari E, Philomena E, Belarbi E, Simon-Loriere E, Anoh EA, Leendertz F, Ajili F, Enoch FO, Wasfi F, Abdelmoula F, Mosha FS, Takawira FT, Derrar F, Bouzid F, Onikepe F, Adeola F, Muyembe FM, Tanser F, Dratibi FA, Mbunsu GK, et al. (2021). Science DOI: 10.1126/science.abj4336

Cytokine response in cerebrospinal fluid of meningitis patients and outcome associated with pneumococcal serotype. Müller A, Schramm DB, Kleynhans J, de Gouveia L, Meiring S, Ramette A, von Gottberg A, Hathaway LJ. (2021). Sci Rep DOI: 10.1038/s41598-021-99190-3

Detection of Victoria lineage influenza B viruses with K162 and N163 deletions in the hemagglutinin gene, South Africa, 2018. Hellferscee O, Treurnicht F, Gaelejwe L, Moerdyk A, Reubenson G, McMorrow M, Tempia S, McAnerney J, Walaza S, Wolter N, von Gottberg A, Cohen C. (2021). Health Sci Rep DOI: 10.1002/hsr2.367

An evaluation of an influenza vaccination campaign targeting pregnant women in 27 clinics in two provinces of South Africa, 2015 - 2018. Bishop K, McMorrow M, Meiring S, Walaza S, Rossi L, Mhlanga S, Tempia S, Mathunjwa A, Kleynhans J, Appiah GD, McAnerney JM, Zar HJ, Cohen C. (2021). BMC Health Serv Res DOI: 10.1186/s12913-021-06962-8

The Role of Molecular Testing in Pediatric Meningitis Surveillance in Southern and East African Countries, 2008-2017. du Plessis M, de Gouveia L, Freitas C, Abera NA, Lula BS, Raboba JL, Nhantumbo AA, Jantjies E, Uwimana J, Phungwayo N, Maphalala G, Masona G, Muyombe J, Mugisha D, Nalumansi E, Odongkara M, Lukwesa-Musyani C, Nakazwe R, Dondo V, Macharaga J, Weldegebriel GG, Mwenda JM, Serhan F, Cohen AL, Lessa FC, von Gottberg A. (2021). J Infect Dis DOI: 10.1093/infdis/jiab092

The Global Landscape of Pediatric Bacterial Meningitis Data Reported to the World Health Organization-Coordinated Invasive Bacterial Vaccine-Preventable Disease Surveillance Network, 2014-2019. Nakamura T, Cohen AL, Schwartz S, Mwenda JM, Weldegebriel G, Biey JNM, Katsande R, Ghoniem A, Fahmy K, Rahman HA, Videbaek D, Daniels D, Singh S, Wasley A, Rey-Benito G, de Oliveira L, Ortiz C, Tondo E, Liyanage JBL, Sharifuzzaman M, Grabovac V, Batmunkh N, Logronio J, Heffelfinger J, Fox K, De Gouveia L, von Gottberg A, Du Plessis M, Kwambana-Adams B, Antonio M, El Gohary S, Azmy A, Gamal A, Voropaeva E, Egorova E, Urban Y, Duarte C, Veeraraghavan B, Saha S, Howden B, Sait M, Jung S, Bae S, Litt D, Seaton S, Slack M, Antoni S, Ouattara M, Van Beneden C, Serhan F. (2021). J Infect Dis DOI: 10.1093/infdis/jiab217

The Burden of Invasive Bacterial Disease and the Impact of 10-Valent Pneumococcal Conjugate Vaccine in Children <5 years hospitalized for Meningitis in Lusaka, Zambia, 2010-2019. Yamba K, Mpabalwani E, Nakazwe R, Mulendele E, Weldegebriel G, Mwenda JM, Katsande R, de Gouveia L, Chizema-Kawesha E, Chanda R, Matapo B, Mwansa JCL, Lukwesa-Musyani C. (2021). J Infect Dis DOI: 10.1093/infdis/jiab193

The importation and establishment of community transmission of SARS-CoV-2 during the first eight weeks of the South African COVID-19 epidemic. McCarthy KM, Tempia S, Kufa T, Kleynhans J, Wolter N, Jassat W, Ebonwu J, von Gottberg A, Erasmus L, Muchengeti M, Walaza S, Ntshoe G, Shonhiwa AM, Manana PN, Pillay Y, Moonasar D, Muthivhi T, Mngemane S, Mlisana K, Chetty K, Blumberg LH, Cohen C, Govender NP; South African COVID-19 Surveillance Team. (2021). EClinicalMedicine DOI: 10.1016/j.eclinm.2021.101072

Risk factors for COVID-19-related in-hospital mortality in a high HIV and tuberculosis prevalence setting in South Africa: a cohort study. Jassat W, Cohen C, Tempia S, Masha M, Goldstein S, Kufa T, Murangandi P, Savulescu D, Walaza S, Bam JL, Davies MA, Prozesky HW, Naude J, Mnguni AT, Lawrence CA, Mathema HT, Zamparini J, Black J, Mehta R, Parker A, Chikobvu P, Dawood H, Muvhango N, Strydom R, Adelekan T, Mdlovu B, Moodley N, Namavhandu EL, Rheeder P, Venturas J, Magula N, Blumberg L; DATCOV author group. (2021). Lancet HIV DOI: 10.1016/S2352-3018(21)00151-X

Difference in mortality among individuals admitted to hospital with COVID-19 during the first and second waves in South Africa: a cohort study. Jassat W, Mudara C, Ozougwu L, Tempia S, Blumberg L, Davies MA, Pillay Y, Carter T, Morewane R, Wolmarans M, von Gottberg A, Bhiman JN, Walaza S, Cohen C; DATCOV author group. (2021). Lancet Glob Health DOI: 10.1016/S2214-109X(21)00289-8

Mortality in children aged <5 years with severe acute respiratory illness in a high HIV-prevalence urban and rural areas of South Africa, 2009-2013. Ayeni OA, Walaza S, Tempia S, Groome M, Kahn K, Madhi SA, Cohen AL, Moyes J, Venter M, Pretorius M, Treurnicht F, Hellferscee O, von Gottberg A, Wolter N, Cohen C. (2021). PLoS One DOI: 10.1371/journal.pone.0255941

Epidemiology of Pertussis in Individuals of All Ages Hospitalized With Respiratory Illness in South Africa, January 2013-December 2018. Wolter N, Cohen C, Tempia S, Walaza S, Moosa F, du Plessis M, McMorrow ML, Treurnicht FK, Hellferscee O, Dawood H, Variava E, von Gottberg A. (2021). Clin Infect Dis DOI: 10.1093/cid/ciab089

Global burden of acute lower respiratory infection associated with human parainfluenza virus in children younger than 5 years for 2018: a systematic review and meta-analysis. Wang X, Li Y, Deloria-Knoll M, Madhi SA, Cohen C, Arguelles VL, Basnet S, Bassat Q, Brooks WA, Echavarria M, Fasce RA, Gentile A, Goswami D, Homaira N, Howie SRC, Kotloff KL, Khuri-Bulos N, Krishnan A, Lucero MG, Lupisan S, Mathisen M, McLean KA, Mira-Iglesias A, Moraleda C, Okamoto M, Oshitani H, O'Brien KL, Owor BE, Rasmussen ZA, Rath BA, Salimi V, Sawatwong P, Scott JAG, Simões EAF, Sotomayor V, Thea DM, Treurnicht FK, Yoshida LM, Zar HJ, Campbell H, Nair H; Respiratory Virus Global Epidemiology Network. (2021). Lancet Glob Health DOI: 10.1016/S2214-109X(21)00218-7

Analysis of Wastewater Reveals the Spread of Diverse Extended-Spectrum ß-Lactamase-Producing E. coli Strains in uMgungundlovu District, South Africa. Gumede SN, Abia ALK, Amoako DG, Essack SY. (2021). Antibiotics (Basel) DOI: 10.3390/antibiotics10070860

The role of interspecies recombination in the evolution of antibiotic-resistant pneumococci. D'Aeth JC, van der Linden MP, McGee L, de Lencastre H, Turner P, Song JH, Lo SW, Gladstone RA, Sá-Leão R, Ko KS, Hanage WP, Breiman RF, Beall B, Bentley SD, Croucher NJ; GPS Consortium. (2021). Elife DOI: 10.7554/eLife.67113

The Global Epidemiology of RSV in Community and Hospitalized Care: Findings From 15 Countries. Staadegaard L, Caini S, Wangchuk S, Thapa B, de Almeida WAF, de Carvalho FC, Njouom R, Fasce RA, Bustos P, Kyncl J, Novakova L, Caicedo AB, de Mora Coloma DJ, Meijer A, Hooiveld M, Huang S, Wood T, Guiomar R, Rodrigues AP, Danilenko D, Stolyarov K, Lee VJM, Ang LW, Cohen C, Moyes J, Larrauri A, Delgado-Sanz C, Le MQ, Hoang PVM, Demont C, Bangert M, van Summeren J, Dückers M, Paget J. (2021). Open Forum Infect Dis DOI: 10.1093/ofid/ofab159

Decline of influenza and respiratory syncytial virus detection in facility-based surveillance during the COVID-19 pandemic, South Africa, January to October 2020. Tempia S, Walaza S, Bhiman JN, McMorrow ML, Moyes J, Mkhencele T, Meiring S, Quan V, Bishop K, McAnerney JM, von Gottberg A, Wolter N, Du Plessis M, Treurnicht FK, Hellferscee O, Dawood H, Naby F, Variava E, Siwele C, Baute N, Nel J, Reubenson G, Zar HJ, Cohen C. (2021). Euro Surveill DOI: 10.2807/1560-7917.ES.2021.26.29.2001600

Impact and effectiveness of 13-valent pneumococcal conjugate vaccine on population incidence of vaccine and non-vaccine serotype invasive pneumococcal disease in Blantyre, Malawi, 2006-18: prospective observational time-series and case-control studies. Bar-Zeev N, Swarthout TD, Everett DB, Alaerts M, Msefula J, Brown C, Bilima S, Mallewa J, King C, von Gottberg A, Verani JR, Whitney CG, Mwansambo C, Gordon SB, Cunliffe NA, French N, Heyderman RS; VacSurv Consortium. (2021). Lancet Glob Health DOI: 10.1016/S2214-109X(21)00165-0

SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse. Konings F, Perkins MD, Kuhn JH, Pallen MJ, Alm EJ, Archer BN, Barakat A, Bedford T, Bhiman JN, Caly L, Carter LL, Cullinane A, de Oliveira T, Druce J, El Masry I, Evans R, Gao GF, Gorbalenya AE, Hamblion E, Herring BL, Hodcroft E, Holmes EC, Kakkar M, Khare S, Koopmans MPG, Korber B, Leite J, MacCannell D, Marklewitz M, Maurer-Stroh S, Rico JAM, Munster VJ, Neher R, Munnink BO, Pavlin BI, Peiris M, Poon L, Pybus O, Rambaut A, Resende P, Subissi L, Thiel V, Tong S, van der Werf S, von Gottberg A, Ziebuhr J, Van Kerkhove MD. (2021). Nat Microbiol DOI: 10.1038/s41564-021-00932-w

A Retrospective observational cohort study of the effect of antenatal influenza vaccination on birth outcomes in Cape Town, South Africa, 2015-2016. McMorrow ML, Rossi L, Meiring S, Bishop K, Itzikowitz R, Isaacs W, Stellenboom F, Walaza S, Hellferscee O, Treurnicht FK, Zar HJ, Tempia S, Cohen C. (2021). Influenza Other Respir Viruses DOI: 10.1111/irv.12836

Influenza surveillance capacity improvements in Africa during 2011-2017. Igboh LS, McMorrow M, Tempia S, Emukule GO, Talla Nzussouo N, McCarron M, Williams T, Weatherspoon V, Moen A, Fawzi D, Njouom R, Nakoune E, Dauoda C, Kavunga-Membo H, Okeyo M, Heraud JM, Mambule IK, Sow SO, Tivane A, Lagare A, Adebayo A, Dia N, Mmbaga V, Maman I, Lutwama J, Simusika P, Walaza S, Mangtani P, Nguipdop-Djomo P, Cohen C, Azziz-Baumgartner E; ANISE Network Working Group. (2021). Influenza Other Respir Viruses DOI: 10.1111/irv.12818

Human Immunodeficiency Virus Infection Is Associated With Increased Meningococcal Carriage Acquisition Among First-year Students in 2 South African Universities. Meiring S, Cohen C, de Gouveia L, du Plessis M, Ganesh K, Kleynhans J, Quan V, Tempia S, von Gottberg A. (2021). Clin Infect Dis DOI: 10.1093/cid/ciaa521

A cross-sectional study measuring contact patterns using diaries in an urban and a rural community in South Africa, 2018. Kleynhans J, Tempia S, McMorrow ML, von Gottberg A, Martinson NA, Kahn K, Moyes J, Mkhencele T, Lebina L, Gómez-Olivé FX, Wafawanaka F, Mathunjwa A, Cohen C; PHIRST group. (2021). BMC Public Health DOI: 10.1186/s12889-021-11136-6

Changes in the incidence of invasive disease due to Streptococcus pneumoniae, Haemophilus influenzae, and Neisseria meningitidis during the COVID-19 pandemic in 26 countries and territories in the Invasive Respiratory Infection Surveillance Initiative: a prospective analysis of surveillance data. Brueggemann AB, Jansen van Rensburg MJ, Shaw D, McCarthy ND, Jolley KA, Maiden MCJ, van der Linden MPG, Amin-Chowdhury Z, Bennett DE, Borrow R, Brandileone MC, Broughton K, Campbell R, Cao B, Casanova C, Choi EH, Chu YW, Clark SA, Claus H, Coelho J, Corcoran M, Cottrell S, Cunney RJ, Dalby T, Davies H, de Gouveia L, Deghmane AE, Demczuk W, Desmet S, Drew RJ, du Plessis M, Erlendsdottir H, Fry NK, Fuursted K, Gray SJ, Henriques-Normark B, Hale T, Hilty M, Hoffmann S, Humphreys H, Ip M, Jacobsson S, Johnston J, Kozakova J, Kristinsson KG, Krizova P, Kuch A, Ladhani SN, Lâm TT, Lebedova V, Lindholm L, Litt DJ, Martin I, Martiny D, Mattheus W, McElligott M, Meehan M, Meiring S, Mölling P, Morfeldt E, Morgan J, Mulhall RM, Muñoz-Almagro C, Murdoch DR, Murphy J, Musilek M, Mzabi A, Perez-Argüello A, Perrin M, Perry M, Redin A, Roberts R, Roberts M, Rokney A, Ron M, Scott KJ, Sheppard CL, Siira L, Skoczynska A, Sloan M, Slotved HC, Smith AJ, Song JY, Taha MK, Toropainen M, Tsang D, Vainio A, van Sorge NM, Varon E, Vlach J, Vogel U, Vohrnova S, von Gottberg A, Zanella RC, Zhou F. (2021). Lancet Digit Health DOI: 10.1016/S2589-7500(21)00077-7

Asymptomatic transmission and high community burden of seasonal influenza in an urban and a rural community in South Africa, 2017-18 (PHIRST): a population cohort study. Cohen C, Kleynhans J, Moyes J, McMorrow ML, Treurnicht FK, Hellferscee O, Mathunjwa A, von Gottberg A, Wolter N, Martinson NA, Kahn K, Lebina L, Mothlaoleng K, Wafawanaka F, Gómez-Olivé FX, Mkhencele T, Mathee A, Piketh S, Language B, Tempia S; PHIRST group. (2021). Lancet Glob Health DOI: 10.1016/S2214-109X(21)00141-8

From the Farms to the Dining Table: The Distribution and Molecular Characteristics of Antibiotic-Resistant Enterococcus spp. in Intensive Pig Farming in South Africa. Badul S, Abia ALK, Amoako DG, Perrett K, Bester LA, Essack SY. (2021). Microorganisms DOI: 10.3390/microorganisms9050882

Global Landscape Review of Serotype-Specific Invasive Pneumococcal Disease Surveillance among Countries Using PCV10/13: The Pneumococcal Serotype Replacement and Distribution Estimation (PSERENADE) Project. Deloria Knoll M, Bennett JC, Garcia Quesada M, Kagucia EW, Peterson ME, Feikin DR, Cohen AL, Hetrich MK, Yang Y, Sinkevitch JN, Ampofo K, Aukes L, Bacci S, Bigogo G, Brandileone MC, Bruce MG, Camilli R, Castilla J, Chan G, Chanto Chacón G, Ciruela P, Cook H, Corcoran M, Dagan R, Danis K, de Miguel S, De Wals P, Desmet S, Galloway Y, Georgakopoulou T, Hammitt LL, Hilty M, Ho PL, Jayasinghe S, Kellner JD, Kleynhans J, Knol MJ, Kozakova J, Kristinsson KG, Ladhani SN, Lara CS, León ME, Lepp T, Mackenzie GA, Mad'arová L, McGeer A, Mungun T, Mwenda JM, Nuorti JP, Nzoyikorera N, Oishi K, De Oliveira LH, Paragi M, Pilishvili T, Puentes R, Rafai E, Saha SK, Savrasova L, Savulescu C, Scott JA, Scott KJ, Serhan F, Setchanova LP, Sinkovec Zorko N, Skoczynska A, Swarthout TD, Valentiner-Branth P, van der Linden M, Vestrheim DF, von Gottberg A, Yildirim I, Hayford K; The Pserenade Team. (2021). Microorganisms DOI: 10.3390/microorganisms9040742

Serotype Distribution of Remaining Pneumococcal Meningitis in the Mature PCV10/13 Period: Findings from the PSERENADE Project. Garcia Quesada M, Yang Y, Bennett JC, Hayford K, Zeger SL, Feikin DR, Peterson ME, Cohen AL, Almeida SCG, Ampofo K, Ang M, Bar-Zeev N, Bruce MG, Camilli R, Chanto Chacón G, Ciruela P, Cohen C, Corcoran M, Dagan R, De Wals P, Desmet S, Diawara I, Gierke R, Guevara M, Hammitt LL, Hilty M, Ho PL, Jayasinghe S, Kleynhans J, Kristinsson KG, Ladhani SN, McGeer A, Mwenda JM, Nuorti JP, Oishi K, Ricketson LJ, Sanz JC, Savrasova L, Setchanova LP, Smith A, Valentiner-Branth P, Valenzuela MT, van der Linden M, van Sorge NM, Varon E, Winje BA, Yildirim I, Zintgraff J, Knoll MD; The Pserenade Team. (2021). Microorganisms DOI: 10.3390/microorganisms9040738

Detection of a SARS-CoV-2 variant of concern in South Africa. Tegally H, Wilkinson E, Giovanetti M, Iranzadeh A, Fonseca V, Giandhari J, Doolabh D, Pillay S, San EJ, Msomi N, Mlisana K, von Gottberg A, Walaza S, Allam M, Ismail A, Mohale T, Glass AJ, Engelbrecht S, Van Zyl G, Preiser W, Petruccione F, Sigal A, Hardie D, Marais G, Hsiao NY, Korsman S, Davies MA, Tyers L, Mudau I, York D, Maslo C, Goedhals D, Abrahams S, Laguda-Akingba O, Alisoltani-Dehkordi A, Godzik A, Wibmer CK, Sewell BT, Lourenço J, Alcantara LCJ, Kosakovsky Pond SL, Weaver S, Martin D, Lessells RJ, Bhiman JN, Williamson C, de Oliveira T. (2021). Nature DOI: 10.1038/s41586-021-03402-9

SARS-CoV-2 501Y.V2 escapes neutralization by South African COVID-19 donor plasma. Wibmer CK, Ayres F, Hermanus T, Madzivhandila M, Kgagudi P, Oosthuysen B, Lambson BE, de Oliveira T, Vermeulen M, van der Berg K, Rossouw T, Boswell M, Ueckermann V, Meiring S, von Gottberg A, Cohen C, Morris L, Bhiman JN, Moore PL. (2021). Nat Med DOI: 10.1038/s41591-021-01285-x

Changes in Invasive Pneumococcal Disease Caused by Streptococcus pneumoniae Serotype 1 Following Introduction of PCV10 and PCV13: Findings from the PSERENADE Project. Bennett JC, Hetrich MK, Garcia Quesada M, Sinkevitch JN, Deloria Knoll M, Feikin DR, Zeger SL, Kagucia EW, Cohen AL, Ampofo K, Brandileone MC, Bruden D, Camilli R, Castilla J, Chan G, Cook H, Cornick JE, Dagan R, Dalby T, Danis K, de Miguel S, De Wals P, Desmet S, Georgakopoulou T, Gilkison C, Grgic-Vitek M, Hammitt LL, Hilty M, Ho PL, Jayasinghe S, Kellner JD, Kleynhans J, Knol MJ, Kozakova J, Kristinsson KG, Ladhani SN, MacDonald L, Mackenzie GA, Mad'arová L, McGeer A, Mereckiene J, Morfeldt E, Mungun T, Muñoz-Almagro C, Nuorti JP, Paragi M, Pilishvili T, Puentes R, Saha SK, Sahu Khan A, Savrasova L, Scott JA, Skoczynska A, Suga S, van der Linden M, Verani JR, von Gottberg A, Winje BA, Yildirim I, Zerouali K, Hayford K; The Pserenade Team. (2021). Microorganisms DOI: 10.3390/microorganisms9040696

Staphylococcus aureus in Intensive Pig Production in South Africa: Antibiotic Resistance, Virulence Determinants, and Clonality. Sineke N, Asante J, Amoako DG, Abia ALK, Perrett K, Bester LA, Essack SY. (2021). Pathogens DOI: 10.3390/pathogens10030317

Molecular diagnostic assays for the detection of common bacterial meningitis pathogens: A narrative review. Diallo K, Feteh VF, Ibe L, Antonio M, Caugant DA, du Plessis M, Deghmane AE, Feavers IM, Fernandez K, Fox LM, Rodrigues CMC, Ronveaux O, Taha MK, Wang X, Brueggemann AB, Maiden MCJ, Harrison OB. (2021). EBioMedicine DOI: 10.1016/j.ebiom.2021.103274

Global burden of influenza-associated lower respiratory tract infections and hospitalizations among adults: A systematic review and meta-analysis. Lafond KE, Porter RM, Whaley MJ, Suizan Z, Ran Z, Aleem MA, Thapa B, Sar B, Proschle VS, Peng Z, Feng L, Coulibaly D, Nkwembe E, Olmedo A, Ampofo W, Saha S, Chadha M, Mangiri A, Setiawaty V, Ali SS, Chaves SS, Otorbaeva D, Keosavanh O, Saleh M, Ho A, Alexander B, Oumzil H, Baral KP, Huang QS, Adebayo AA, Al-Abaidani I, von Horoch M, Cohen C, Tempia S, Mmbaga V, Chittaganpitch M, Casal M, Dang DA, Couto P, Nair H, Bresee JS, Olsen SJ, Azziz-Baumgartner E, Nuorti JP, Widdowson MA; Global Respiratory Hospitalizations–Influenza Proportion Positive (GRIPP) Working Group. (2021). PLoS Med DOI: 10.1371/journal.pmed.1003550

Sixteen novel lineages of SARS-CoV-2 in South Africa. Tegally H, Wilkinson E, Lessells RJ, Giandhari J, Pillay S, Msomi N, Mlisana K, Bhiman JN, von Gottberg A, Walaza S, Fonseca V, Allam M, Ismail A, Glass AJ, Engelbrecht S, Van Zyl G, Preiser W, Williamson C, Petruccione F, Sigal A, Gazy I, Hardie D, Hsiao NY, Martin D, York D, Goedhals D, San EJ, Giovanetti M, Lourenço J, Alcantara LCJ, de Oliveira T. (2021). Nat Med DOI: 10.1038/s41591-021-01255-3

SARS-CoV-2 501Y.V2 escapes neutralization by South African COVID-19 donor plasma. Wibmer CK, Ayres F, Hermanus T, Madzivhandila M, Kgagudi P, Oosthuysen B, Lambson BE, de Oliveira T, Vermeulen M, van der Berg K, Rossouw T, Boswell M, Ueckermann V, Meiring S, von Gottberg A, Cohen C, Morris L, Bhiman JN, Moore PL. (2021). bioRxiv DOI: 10.1101/2021.01.18.427166

Housing Quality in a Rural and an Urban Settlement in South Africa. Mathee A, Moyes J, Mkhencele T, Kleynhans J, Language B, Piketh S, Moroe E, Wafawanaka F, Martinson N, McMorrow M, Tempia S, Kahn K, Cohen C. (2021). Int J Environ Res Public Health DOI: 10.3390/ijerph18052240

Multidrug-Resistant Coagulase-Negative Staphylococci Isolated from Bloodstream in the uMgungundlovu District of KwaZulu-Natal Province in South Africa: Emerging Pathogens. Asante J, Hetsa BA, Amoako DG, Abia ALK, Bester LA, Essack SY. (2021). Antibiotics (Basel) DOI: 10.3390/antibiotics10020198

Estimated impact of the pneumococcal conjugate vaccine on pneumonia mortality in South Africa, 1999 through 2016: An ecological modelling study. Kleynhans J, Tempia S, Shioda K, von Gottberg A, Weinberger DM, Cohen C. (2021). PLoS Med DOI: 10.1371/journal.pmed.1003537

From Farm-to-Fork: E. Coli from an Intensive Pig Production System in South Africa Shows High Resistance to Critically Important Antibiotics for Human and Animal Use. Abdalla SE, Abia ALK, Amoako DG, Perrett K, Bester LA, Essack SY. (2021). Antibiotics (Basel) DOI: 10.3390/antibiotics10020178

Influenza Viruses: Harnessing the Crucial Role of the M2 Ion-Channel and Neuraminidase toward Inhibitor Design. Mtambo SE, Amoako DG, Somboro AM, Agoni C, Lawal MM, Gumede NS, Khan RB, Kumalo HM. (2021). Molecules DOI: 10.3390/molecules26040880

A cost-effectiveness analysis of South Africa's seasonal influenza vaccination programme. Edoka I, Kohli-Lynch C, Fraser H, Hofman K, Tempia S, McMorrow M, Ramkrishna W, Lambach P, Hutubessy R, Cohen C. (2021). Vaccine DOI: 10.1016/j.vaccine.2020.11.028

Global burden of acute lower respiratory infection associated with human metapneumovirus in children under 5 years in 2018: a systematic review and modelling study. Wang X, Li Y, Deloria-Knoll M, Madhi SA, Cohen C, Ali A, Basnet S, Bassat Q, Brooks WA, Chittaganpitch M, Echavarria M, Fasce RA, Goswami D, Hirve S, Homaira N, Howie SRC, Kotloff KL, Khuri-Bulos N, Krishnan A, Lucero MG, Lupisan S, Mira-Iglesias A, Moore DP, Moraleda C, Nunes M, Oshitani H, Owor BE, Polack FP, O'Brien KL, Rasmussen ZA, Rath BA, Salimi V, Scott JAG, Simões EAF, Strand TA, Thea DM, Treurnicht FK, Vaccari LC, Yoshida LM, Zar HJ, Campbell H, Nair H; Respiratory Virus Global Epidemiology Network. (2021). Lancet Glob Health DOI: 10.1016/S2214-109X(20)30393-4

Decreased influenza activity during the COVID-19 pandemic-United States, Australia, Chile, and South Africa, 2020. Olsen SJ, Azziz-Baumgartner E, Budd AP, Brammer L, Sullivan S, Pineda RF, Cohen C, Fry AM. (2020). Am J Transplant DOI: 10.1111/ajt.16381

Results from the WHO external quality assessment for the respiratory syncytial virus pilot, 2016-17. Jackson S, Peret TCT, Ziegler TT, Thornburg NJ, Besselaar T, Broor S, Barr I, Baumeister E, Chadha M, Chittaganpitch M, Darmaa B, Ellis J, Fasce R, Herring B, Herve K, Hirve S, Li Y, Pisareva M, Moen A, Naguib A, Palekar R, Potdar V, Siqueira M, Treurnicht F, Tivane A, Venter M, Wairagkar N, Zambon M, Zhang W. (2020). Influenza Other Respir Viruses DOI: 10.1111/irv.12771

Influenza economic burden among potential target risk groups for immunization in South Africa, 2013-2015. Tempia S, Moyes J, Cohen AL, Walaza S, McMorrow ML, Edoka I, Fraser H, Treurnicht FK, Hellferscee O, Wolter N, von Gottberg A, McAnerney JM, Dawood H, Variava E, Cohen C. (2020). Vaccine DOI: 10.1016/j.vaccine.2020.09.033

Diagnosis and management of community-acquired pneumonia in children: South African Thoracic Society guidelines. Zar HJ, Moore DP, Andronikou S, Argent AC, Avenant T, Cohen C, Green RJ, Itzikowitz G, Jeena P, Masekela R, Nicol MP, Pillay A, Reubenson G, Madhi SA. (2020). Afr J Thorac Crit Care Med DOI: 10.7196/AJTCCM.2020.v26i3.104

Bacterial genome-wide association study of hyper-virulent pneumococcal serotype 1 identifies genetic variation associated with neurotropism. Chaguza C, Yang M, Cornick JE, du Plessis M, Gladstone RA, Kwambana-Adams BA, Lo SW, Ebruke C, Tonkin-Hill G, Peno C, Senghore M, Obaro SK, Ousmane S, Pluschke G, Collard JM, Sigaùque B, French N, Klugman KP, Heyderman RS, McGee L, Antonio M, Breiman RF, von Gottberg A, Everett DB, Kadioglu A, Bentley SD. (2020). Commun Biol DOI: 10.1038/s42003-020-01290-9

The everchanging epidemiology of meningococcal disease worldwide and the potential for prevention through vaccination. Parikh SR, Campbell H, Bettinger JA, Harrison LH, Marshall HS, Martinon-Torres F, Safadi MA, Shao Z, Zhu B, von Gottberg A, Borrow R, Ramsay ME, Ladhani SN. (2020). J Infect DOI: 10.1016/j.jinf.2020.05.079

Aetiology of bacterial meningitis in infants aged <90 days: Prospective surveillance in Luanda, Angola. Pelkonen T, Urtti S, Dos Anjos E, Cardoso O, de Gouveia L, Roine I, Peltola H, von Gottberg A, Kyaw MH. (2020). Int J Infect Dis DOI: 10.1016/j.ijid.2020.06.016

Use of seasonal influenza and pneumococcal polysaccharide vaccines in older adults to reduce COVID-19 mortality. Thindwa D, Garcia Quesada M, Liu Y, Bennett J, Cohen C, Knoll MD, von Gottberg A, Hayford K, Flasche S. (2020). Vaccine DOI: 10.1016/j.vaccine.2020.06.047

Genome Sequencing of a Severe Acute Respiratory Syndrome Coronavirus 2 Isolate Obtained from a South African Patient with Coronavirus Disease 2019. Allam M, Ismail A, Khumalo ZTH, Kwenda S, van Heusden P, Cloete R, Wibmer CK, Mtshali PS, Mnyameni F, Mohale T, Subramoney K, Walaza S, Ngubane W, Govender N, Motaze NV, Bhiman JN; SA-COVID-19 response team. (2020). Microbiol Resour Announc DOI: 10.1128/MRA.00572-20

Influenza disease burden among potential target risk groups for immunization in South Africa, 2013-2015. Tempia S, Walaza S, Moyes J, McMorrow ML, Cohen AL, Edoka I, Fraser H, Treurnicht FK, Hellferscee O, Wolter N, von Gottberg A, McAnerney JM, Dawood H, Variava E, Cohen C. (2020). Vaccine DOI: 10.1016/j.vaccine.2020.04.045

Mycobacterium tuberculosis bloodstream infection prevalence, diagnosis, and mortality risk in seriously ill adults with HIV: a systematic review and meta-analysis of individual patient data. Barr DA, Lewis JM, Feasey N, Schutz C, Kerkhoff AD, Jacob ST, Andrews B, Kelly P, Lakhi S, Muchemwa L, Bacha HA, Hadad DJ, Bedell R, van Lettow M, Zachariah R, Crump JA, Alland D, Corbett EL, Gopinath K, Singh S, Griesel R, Maartens G, Mendelson M, Ward AM, Parry CM, Talbot EA, Munseri P, Dorman SE, Martinson N, Shah M, Cain K, Heilig CM, Varma JK, von Gottberg A, Sacks L, Wilson D, Squire SB, Lalloo DG, Davies G, Meintjes G. (2020). Lancet Infect Dis DOI: 10.1016/S1473-3099(19)30695-4

Visualizing variation within Global Pneumococcal Sequence Clusters (GPSCs) and country population snapshots to contextualize pneumococcal isolates. Gladstone RA, Lo SW, Goater R, Yeats C, Taylor B, Hadfield J, Lees JA, Croucher NJ, van Tonder AJ, Bentley LJ, Quah FX, Blaschke AJ, Pershing NL, Byington CL, Balaji V, Hryniewicz W, Sigauque B, Ravikumar KL, Almeida SCG, Ochoa TJ, Ho PL, du Plessis M, Ndlangisa KM, Cornick JE, Kwambana-Adams B, Benisty R, Nzenze SA, Madhi SA, Hawkins PA, Pollard AJ, Everett DB, Antonio M, Dagan R, Klugman KP, von Gottberg A, Metcalf BJ, Li Y, Beall BW, McGee L, Breiman RF, Aanensen DM, Bentley SD; The Global Pneumococcal Sequencing Consortium. (2020). Microb Genom DOI: 10.1099/mgen.0.000357

Human surveillance and phylogeny of highly pathogenic avian influenza A(H5N8) during an outbreak in poultry in South Africa, 2017. Valley-Omar Z, Cloete A, Pieterse R, Walaza S, Salie-Bassier Y, Smith M, Govender N, Seleka M, Hellferscee O, Mtshali PS, Allam M, Ismail A, Anthony T, Seutloali M, McCarthy K, van Helden L, Cohen C, Treurnicht FK. (2020). Influenza Other Respir Viruses DOI: 10.1111/irv.12724

Residual colonization by vaccine serotypes in rural South Africa four years following initiation of pneumococcal conjugate vaccine immunization. Madhi SA, Nzenze SA, Nunes MC, Chinyanganya L, Van Niekerk N, Kahn K, Twine R, De Gouveia L, Von Gottberg A, Shiri T. (2020). Expert Rev Vaccines DOI: 10.1080/14760584.2020.1750377

Global burden of respiratory infections associated with seasonal influenza in children under 5 years in 2018: a systematic review and modelling study. Wang X, Li Y, O'Brien KL, Madhi SA, Widdowson MA, Byass P, Omer SB, Abbas Q, Ali A, Amu A, Azziz-Baumgartner E, Bassat Q, Abdullah Brooks W, Chaves SS, Chung A, Cohen C, Echavarria M, Fasce RA, Gentile A, Gordon A, Groome M, Heikkinen T, Hirve S, Jara JH, Katz MA, Khuri-Bulos N, Krishnan A, de Leon O, Lucero MG, McCracken JP, Mira-Iglesias A, Moïsi JC, Munywoki PK, Ourohiré M, Polack FP, Rahi M, Rasmussen ZA, Rath BA, Saha SK, Simões EA, Sotomayor V, Thamthitiwat S, Treurnicht FK, Wamukoya M, Yoshida LM, Zar HJ, Campbell H, Nair H; Respiratory Virus Global Epidemiology Network. (2020). Lancet Glob Health DOI: 10.1016/S2214-109X(19)30545-5

A mosaic tetracycline resistance gene tet(S/M) detected in an MDR pneumococcal CC230 lineage that underwent capsular switching in South Africa. Lo SW, Gladstone RA, van Tonder AJ, Du Plessis M, Cornick JE, Hawkins PA, Madhi SA, Nzenze SA, Kandasamy R, Ravikumar KL, Elmdaghri N, Kwambana-Adams B, Almeida SCG, Skoczynska A, Egorova E, Titov L, Saha SK, Paragi M, Everett DB, Antonio M, Klugman KP, Li Y, Metcalf BJ, Beall B, McGee L, Breiman RF, Bentley SD, von Gottberg A; Global Pneumococcal Sequencing Consortium. (2020). J Antimicrob Chemother DOI: 10.1093/jac/dkz477

Impact of HIV status and vaccination schedule on bacterial nasopharyngeal carriage following infant immunisation with the pneumococcal non-typeable Haemophilus influenzae protein D conjugate vaccine in South Africa. Madhi SA, Moreira M, Koen A, van Niekerk N, de Gouveia L, Jose L, Cutland CL, François N, Schoonbroodt S, Ruiz-Guiñazú J, Yarzabal JP, Borys D, Schuerman L. (2020). Vaccine DOI: 10.1016/j.vaccine.2020.01.062

The cost-effectiveness of using pneumococcal conjugate vaccine (PCV13) versus pneumococcal polysaccharide vaccine (PPSV23), in South African adults. Feldman C, Dlamini SK, Madhi SA, Meiring S, von Gottberg A, de Beer JC, de Necker M, Stander MP. (2020). PLoS One DOI: 10.1371/journal.pone.0227945

Pneumococcal serotype determines growth and capsule size in human cerebrospinal fluid. Müller A, Salmen A, Aebi S, de Gouveia L, von Gottberg A, Hathaway LJ. (2020). BMC Microbiol DOI: 10.1186/s12866-020-1700-7

Vaccinating Mothers to Protect Their Babies Against Influenza. Cohen C, Nunes MC. (2020). J Infect Dis DOI: 10.1093/infdis/jiz387

Influenza and tuberculosis co-infection: A systematic review. Walaza S, Cohen C, Tempia S, Moyes J, Nguweneza A, Madhi SA, McMorrow M, Cohen AL. (2020). Influenza Other Respir Viruses DOI: 10.1111/irv.12670

The Impact of Human Immunodeficiency Virus Exposure on Respiratory Syncytial Virus-associated Severe Respiratory Illness in South African Infants, 2011-2016. McMorrow ML, Tempia S, Walaza S, Treurnicht FK, Moyes J, Cohen AL, Pretorius M, Hellferscee O, Wolter N, von Gottberg A, Nguweneza A, McAnerney JM, Naby F, Mekgoe O, Venter M, Madhi SA, Cohen C. (2019). Clin Infect Dis DOI: 10.1093/cid/ciz288

Heterogeneity in influenza seasonality and vaccine effectiveness in Australia, Chile, New Zealand and South Africa: early estimates of the 2019 influenza season. Sullivan SG, Arriola CS, Bocacao J, Burgos P, Bustos P, Carville KS, Cheng AC, Chilver MB, Cohen C, Deng YM, El Omeiri N, Fasce RA, Hellferscee O, Huang QS, Gonzalez C, Jelley L, Leung VK, Lopez L, McAnerney JM, McNeill A, Olivares MF, Peck H, Sotomayor V, Tempia S, Vergara N, von Gottberg A, Walaza S, Wood T. (2019). Euro Surveill DOI: 10.2807/1560-7917.ES.2019.24.45.1900645

A cost-effectiveness analysis of antenatal influenza vaccination among HIV-infected and HIV-uninfected pregnant women in South Africa. Biggerstaff M, Cohen C, Reed C, Tempia S, McMorrow ML, Walaza S, Moyes J, Treurnicht FK, Cohen AL, Hutchinson P, Stoecker C, Steinberg J. (2019). Vaccine DOI: 10.1016/j.vaccine.2019.09.059

Impact of Maternal HIV Infection and Placental Malaria on the Transplacental Transfer of Influenza Antibodies in Mother-Infant Pairs in Malawi, 2013-2014. Ho A, Mapurisa G, Madanitsa M, Kalilani-Phiri L, Kamiza S, Makanani B, Ter Kuile FO, Buys A, Treurnicht F, Everett D, Mwapasa V, Widdowson MA, Mcmorrow M, Heyderman RS. (2019). Open Forum Infect Dis DOI: 10.1093/ofid/ofz383

Genomic differences among carriage and invasive nontypeable pneumococci circulating in South Africa. Mohale T, Wolter N, Allam M, Nzenze SA, Madhi SA, du Plessis M, von Gottberg A. (2019). Microb Genom DOI: 10.1099/mgen.0.000299

Performance of Surveillance Case Definitions in Detecting Respiratory Syncytial Virus Infection Among Young Children Hospitalized With Severe Respiratory Illness-South Africa, 2009-2014. Rha B, Dahl RM, Moyes J, Binder AM, Tempia S, Walaza S, Bi D, Groome MJ, Variava E, Naby F, Kahn K, Treurnicht F, Cohen AL, Gerber SI, Madhi SA, Cohen C. (2019). J Pediatric Infect Dis Soc DOI: 10.1093/jpids/piy055

The performance of different case definitions for severe influenza surveillance among HIV-infected and HIV-uninfected children aged <5 years in South Africa, 2011-2015. Ngobeni H, Tempia S, Cohen AL, Walaza S, Kuonza L, Musekiwa A, von Gottberg A, Hellferscee O, Wolter N, Treurnicht FK, Moyes J, Naby F, Mekgoe O, Cohen C. (2019). PLoS One DOI: 10.1371/journal.pone.0222294

Shiga toxin-producing Escherichia coli O26:H11 associated with a cluster of haemolytic uraemic syndrome cases in South Africa, 2017. Smith AM, Tau NP, Kalule BJ, Nicol MP, McCulloch M, Jacobs CA, McCarthy KM, Ismail A, Allam M, Kleynhans J. (2019). Access Microbiol DOI: 10.1099/acmi.0.000061

The epidemiological signature of influenza B virus and its B/Victoria and B/Yamagata lineages in the 21st century. Caini S, Kusznierz G, Garate VV, Wangchuk S, Thapa B, de Paula Júnior FJ, Ferreira de Almeida WA, Njouom R, Fasce RA, Bustos P, Feng L, Peng Z, Araya JL, Bruno A, de Mora D, Barahona de Gámez MJ, Pebody R, Zambon M, Higueros R, Rivera R, Kosasih H, Castrucci MR, Bella A, Kadjo HA, Daouda C, Makusheva A, Bessonova O, Chaves SS, Emukule GO, Heraud JM, Razanajatovo NH, Barakat A, El Falaki F, Meijer A, Donker GA, Huang QS, Wood T, Balmaseda A, Palekar R, Arévalo BM, Rodrigues AP, Guiomar R, Lee VJM, Ang LW, Cohen C, Treurnicht F, Mironenko A, Holubka O, Bresee J, Brammer L, Le MTQ, Hoang PVM, El Guerche-Séblain C, Paget J; Global Influenza B Study team. (2019). PLoS One DOI: 10.1371/journal.pone.0222381

Can pneumococcal meningitis surveillance be used to assess the impact of pneumococcal conjugate vaccine on total invasive pneumococcal disease? A case-study from South Africa, 2005-2016. Kleynhans J, Cohen C, McMorrow M, Tempia S, Crowther-Gibson P, Quan V, de Gouveia L, von Gottberg A; for GERMS-SA. (2019). Vaccine DOI: 10.1016/j.vaccine.2019.04.090

Pneumococcal Conjugate Vaccine Impact on Meningitis and Pneumonia Among Children Aged <5 Years-Zimbabwe, 2010-2016. Dondo V, Mujuru H, Nathoo K, Jacha V, Tapfumanei O, Chirisa P, Manangazira P, Macharaga J, de Gouveia L, Mwenda JM, Katsande R, Weldegebriel G, Pondo T, Matanock A, Lessa FC. (2019). Clin Infect Dis DOI: 10.1093/cid/ciz462

Pediatric Bacterial Meningitis Surveillance in the World Health Organization African Region Using the Invasive Bacterial Vaccine-Preventable Disease Surveillance Network, 2011-2016. Mwenda JM, Soda E, Weldegebriel G, Katsande R, Biey JN, Traore T, de Gouveia L, du Plessis M, von Gottberg A, Antonio M, Kwambana-Adams B, Worwui A, Gierke R, Schwartz S, van Beneden C, Cohen A, Serhan F, Lessa FC. (2019). Clin Infect Dis DOI: 10.1093/cid/ciz472

Health and economic burden of influenza-associated illness in South Africa, 2013-2015. Tempia S, Moyes J, Cohen AL, Walaza S, Edoka I, McMorrow ML, Treurnicht FK, Hellferscee O, Wolter N, von Gottberg A, Nguweneza A, McAnerney JM, Dawood H, Variava E, Cohen C. (2019). Influenza Other Respir Viruses DOI: 10.1111/irv.12650

Quantifying How Different Clinical Presentations, Levels of Severity, and Healthcare Attendance Shape the Burden of Influenza-associated Illness: A Modeling Study From South Africa. Tempia S, Walaza S, Moyes J, Cohen AL, McMorrow ML, Treurnicht FK, Hellferscee O, Wolter N, von Gottberg A, Nguweneza A, McAnerney JM, Dawood H, Variava E, Madhi SA, Cohen C. (2019). Clin Infect Dis DOI: 10.1093/cid/ciy1017

Live attenuated influenza vaccines for African children. Cohen C, Sullivan SG. (2019). Lancet Respir Med DOI: 10.1016/S2213-2600(19)30145-6

Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes. Bose ME, Shrivastava S, He J, Nelson MI, Bera J, Fedorova N, Halpin R, Town CD, Lorenzi HA, Amedeo P, Gupta N, Noyola DE, Videla C, Kok T, Buys A, Venter M, Vabret A, Cordey S, Henrickson KJ. (2019). PLoS One DOI: 10.1371/journal.pone.0220057

Declining Incidence of Invasive Meningococcal Disease in South Africa: 2003-2016. Meiring S, Cohen C, de Gouveia L, du Plessis M, Kularatne R, Hoosen A, Lekalakala R, Lengana S, Seetharam S, Naicker P, Quan V, Reubenson G, Tempia S, von Mollendorf C, von Gottberg A; GERMS-SA. (2019). Clin Infect Dis DOI: 10.1093/cid/ciy914

Influenza-associated pneumonia hospitalizations in Uganda, 2013-2016. Emukule GO, Namagambo B, Owor N, Bakamutumaho B, Kayiwa JT, Namulondo J, Byaruhanga T, Tempia S, Chaves SS, Lutwama JJ. (2019). PLoS One DOI: 10.1371/journal.pone.0219012

Healthcare seeking behaviour for common infectious syndromes among people in three administrative regions of Johannesburg, South Africa, 2015: a cross-sectional study. Mapuroma R, Cohen C, Kuonza L, Musekiwa A, Tempia S, Tshangela A, von Mollendorf C. (2019). Pan Afr Med J DOI: 10.11604/pamj.2019.33.159.18461

Meningitis: a frequently fatal diagnosis in Africa. von Gottberg A, Meintjes G. (2019). Lancet Infect Dis DOI: 10.1016/S1473-3099(19)30111-2

Pneumococcal lineages associated with serotype replacement and antibiotic resistance in childhood invasive pneumococcal disease in the post-PCV13 era: an international whole-genome sequencing study. Lo SW, Gladstone RA, van Tonder AJ, Lees JA, du Plessis M, Benisty R, Givon-Lavi N, Hawkins PA, Cornick JE, Kwambana-Adams B, Law PY, Ho PL, Antonio M, Everett DB, Dagan R, von Gottberg A, Klugman KP, McGee L, Breiman RF, Bentley SD; Global Pneumococcal Sequencing Consortium. (2019). Lancet Infect Dis DOI: 10.1016/S1473-3099(19)30297-X

Putative novel cps loci in a large global collection of pneumococci. van Tonder AJ, Gladstone RA, Lo SW, Nahm MH, du Plessis M, Cornick J, Kwambana-Adams B, Madhi SA, Hawkins PA, Benisty R, Dagan R, Everett D, Antonio M, Klugman KP, von Gottberg A, Breiman RF, McGee L, Bentley SD; The Global Pneumococcal Sequencing Consortium. (2019). Microb Genom DOI: 10.1099/mgen.0.000274

Hepatitis B sero-prevalence in children under 15 years of age in South Africa using residual samples from community-based febrile rash surveillance. Prabdial-Sing N, Makhathini L, Smit SB, Manamela MJ, Motaze NV, Cohen C, Suchard MS. (2019). PLoS One DOI: 10.1371/journal.pone.0217415

Outbreak of influenza A in a boarding school in South Africa, 2016. Kleynhans J, Treurnicht FK, Cohen C, Vedan T, Seleka M, Maki L, von Gottberg A, McCarthy K, Ramkrishna W, McMorrow M, Walaza S. (2019). Pan Afr Med J DOI: 10.11604/pamj.2019.33.42.16666

Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis. Lees JA, Ferwerda B, Kremer PHC, Wheeler NE, Serón MV, Croucher NJ, Gladstone RA, Bootsma HJ, Rots NY, Wijmega-Monsuur AJ, Sanders EAM, Trzcinski K, Wyllie AL, Zwinderman AH, van den Berg LH, van Rheenen W, Veldink JH, Harboe ZB, Lundbo LF, de Groot LCPGM, van Schoor NM, van der Velde N, Ängquist LH, Sørensen TIA, Nohr EA, Mentzer AJ, Mills TC, Knight JC, du Plessis M, Nzenze S, Weiser JN, Parkhill J, Madhi S, Benfield T, von Gottberg A, van der Ende A, Brouwer MC, Barrett JC, Bentley SD, van de Beek D. (2019). Nat Commun DOI: 10.1038/s41467-019-09976-3

The Fraction of Rhinovirus Detections Attributable to Mild and Severe Respiratory Illness in a Setting of High Human Immunodeficiency Virus Prevalence, South Africa, 2013-2015. Hellferscee O, Treurnicht FK, Walaza S, Du Plessis M, Von Gottberg A, Wolter N, Moyes J, Dawood H, Variava E, Pretorius M, Venter M, Cohen C, Tempia S. (2019). J Infect Dis DOI: 10.1093/infdis/jiy725

Congenital Rubella Syndrome Surveillance in South Africa Using a Sentinel Site Approach: A Cross-sectional Study. Motaze NV, Manamela J, Smit S, Rabie H, Harper K, duPlessis N, Reubenson G, Coetzee M, Ballot D, Moore D, Nuttall J, Linley L, Tooke L, Kriel J, Hallbauer U, Sutton C, Moodley P, Hardie D, Mazanderani AH, Goosen F, Kyaw T, Leroux D, Hussain A, Singh R, Kelly C, Ducasse G, Muller M, Blaauw M, Hamese M, Leeuw T, Mekgoe O, Rakgole P, Dungwa N, Maphosa T, Sanyane K, Preiser W, Cohen C, Suchard M. (2019). Clin Infect Dis DOI: 10.1093/cid/ciy758

International genomic definition of pneumococcal lineages, to contextualise disease, antibiotic resistance and vaccine impact. Gladstone RA, Lo SW, Lees JA, Croucher NJ, van Tonder AJ, Corander J, Page AJ, Marttinen P, Bentley LJ, Ochoa TJ, Ho PL, du Plessis M, Cornick JE, Kwambana-Adams B, Benisty R, Nzenze SA, Madhi SA, Hawkins PA, Everett DB, Antonio M, Dagan R, Klugman KP, von Gottberg A, McGee L, Breiman RF, Bentley SD; Global Pneumococcal Sequencing Consortium. (2019). EBioMedicine DOI: 10.1016/j.ebiom.2019.04.021

Healthcare utilisation patterns for respiratory and gastrointestinal syndromes and meningitis in Msunduzi municipality, Pietermaritzburg, KwaZulu-Natal Province, South Africa, 2013. McAnerney JM, Cohen C, Cohen AL, Tempia S, Walaza S, Wong KK, Im J, Marks F, Dawood H, Panzner U, Keddy KH, Von Mollendorf C. (2019). S Afr Med J DOI: 10.7196/SAMJ.2019.v109i5.13024

Household Transmission of Seasonal Influenza From HIV-Infected and HIV-Uninfected Individuals in South Africa, 2013-2014. Cohen C, Tshangela A, Valley-Omar Z, Iyengar P, Von Mollendorf C, Walaza S, Hellferscee O, Venter M, Martinson N, Mahlase G, McMorrow M, Cowling BJ, Treurnicht FK, Cohen AL, Tempia S. (2019). J Infect Dis DOI: 10.1093/infdis/jiy702

Surveillance for incidence and etiology of early-onset neonatal sepsis in Soweto, South Africa. Velaphi SC, Westercamp M, Moleleki M, Pondo T, Dangor Z, Wolter N, von Gottberg A, Shang N, Demirjian A, Winchell JM, Diaz MH, Nakwa F, Okudo G, Wadula J, Cutland C, Schrag SJ, Madhi SA. (2019). PLoS One DOI: 10.1371/journal.pone.0214077

Invasive Pneumococcal Disease in Neonates Prior to Pneumococcal Conjugate Vaccine Use in South Africa: 2003-2008. Moodley K, Coovadia YM, Cohen C, Meiring S, Lengana S, De Gouveia L, von Mollendorf C, Crowther-Gibson P, Quan V, Eley B, Reubenson G, Nana T, von Gottberg A. (2019). Pediatr Infect Dis J DOI: 10.1097/INF.0000000000002096

Challenges and clinical relevance of molecular detection of Bordetella pertussis in South Africa. Moosa F, du Plessis M, Wolter N, Carrim M, Cohen C, von Mollendorf C, Walaza S, Tempia S, Dawood H, Variava E, von Gottberg A. (2019). BMC Infect Dis DOI: 10.1186/s12879-019-3869-7

The Impact of Influenza and Tuberculosis Interaction on Mortality Among Individuals Aged =15 Years Hospitalized With Severe Respiratory Illness in South Africa, 2010-2016. Walaza S, Tempia S, Dawood H, Variava E, Wolter N, Dreyer A, Moyes J, Von Mollendorf C, McMorrow M, Von Gottberg A, Haffejee S, Venter M, Treurnicht FK, Hellferscee O, Martinson NA, Ismail N, Cohen C. (2019). Open Forum Infect Dis DOI: 10.1093/ofid/ofz020

Burden and epidemiology of influenza- and respiratory syncytial virus-associated severe acute respiratory illness hospitalization in Madagascar, 2011-2016. Rabarison JH, Tempia S, Harimanana A, Guillebaud J, Razanajatovo NH, Ratsitorahina M, Heraud JM. (2019). Influenza Other Respir Viruses DOI: 10.1111/irv.12557

The Role of Human Immunodeficiency Virus in Influenza- and Respiratory Syncytial Virus-associated Hospitalizations in South African Children, 2011-2016. McMorrow ML, Tempia S, Walaza S, Treurnicht FK, Moyes J, Cohen AL, Pretorius M, Hellferscee O, Wolter N, von Gottberg A, Nguweneza A, McAnerney JM, Naby F, Mekgoe O, Venter M, Madhi SA, Cohen C. (2019). Clin Infect Dis DOI: 10.1093/cid/ciy532

What causes symptoms suggestive of tuberculosis in HIV-positive people with negative initial investigations?. Hanifa Y, Toro Silva S, Karstaedt A, Sahid F, Charalambous S, Chihota VN, Churchyard GJ, von Gottberg A, McCarthy K, Nicol MP, Ndlovu NT, Stevens W, Fielding KL, Grant AD. (2019). Int J Tuberc Lung Dis DOI: 10.5588/ijtld.18.0251

Prioritization of risk groups for influenza vaccination in resource limited settings - A case study from South Africa. McMorrow ML, Tempia S, Walaza S, Treurnicht FK, Ramkrishna W, Azziz-Baumgartner E, Madhi SA, Cohen C. (2019). Vaccine DOI: 10.1016/j.vaccine.2018.11.048

Replacement of neuraminidase inhibitor-susceptible influenza A(H1N1) with resistant phenotype in 2008 and circulation of susceptible influenza A and B viruses during 2009-2013, South Africa. Treurnicht FK, Buys A, Tempia S, Seleka M, Cohen AL, Walaza S, Glass AJ, Rossouw I, McAnerney J, Blumberg L, Cohen C, Venter M. (2019). Influenza Other Respir Viruses DOI: 10.1111/irv.12611

Global emergence and population dynamics of divergent serotype 3 CC180 pneumococci. Azarian T, Mitchell PK, Georgieva M, Thompson CM, Ghouila A, Pollard AJ, von Gottberg A, du Plessis M, Antonio M, Kwambana-Adams BA, Clarke SC, Everett D, Cornick J, Sadowy E, Hryniewicz W, Skoczynska A, Moïsi JC, McGee L, Beall B, Metcalf BJ, Breiman RF, Ho PL, Reid R, O'Brien KL, Gladstone RA, Bentley SD, Hanage WP. (2018). PLoS Pathog DOI: 10.1371/journal.ppat.1007438

The national and provincial burden of medically attended influenza-associated influenza-like illness and severe acute respiratory illness in the Democratic Republic of Congo, 2013-2015. Babakazo P, Lubula L, Disasuani W, Manya LK, Nkwembe E, Mitongo N, Kavunga-Membo H, Changachanga JC, Muhemedi S, Ilunga BK, Wemakoy EO, Tamfum JM, Kabamba-Tshilobo J, Tempia S. (2018). Influenza Other Respir Viruses DOI: 10.1111/irv.12601

The relative invasive disease potential of Streptococcus pneumoniae among children after PCV introduction: A systematic review and meta-analysis. Balsells E, Dagan R, Yildirim I, Gounder PP, Steens A, Muñoz-Almagro C, Mameli C, Kandasamy R, Givon Lavi N, Daprai L, van der Ende A, Trzcinski K, Nzenze SA, Meiring S, Foster D, Bulkow LR, Rudolph K, Valero-Rello A, Ducker S, Vestrheim DF, von Gottberg A, Pelton SI, Zuccotti G, Pollard AJ, Sanders EAM, Campbell H, Madhi SA, Nair H, Kyaw MH. (2018). J Infect DOI: 10.1016/j.jinf.2018.06.004

Influenza Viral Shedding in a Prospective Cohort of HIV-Infected and Uninfected Children and Adults in 2 Provinces of South Africa, 2012-2014. von Mollendorf C, Hellferscee O, Valley-Omar Z, Treurnicht FK, Walaza S, Martinson NA, Lebina L, Mothlaoleng K, Mahlase G, Variava E, Cohen AL, Venter M, Cohen C, Tempia S. (2018). J Infect Dis DOI: 10.1093/infdis/jiy310

Longitudinal characterization of nasopharyngeal colonization with Streptococcus pneumoniae in a South African birth cohort post 13-valent pneumococcal conjugate vaccine implementation. Dube FS, Ramjith J, Gardner-Lubbe S, Nduru P, Robberts FJL, Wolter N, Zar HJ, Nicol MP. (2018). Sci Rep DOI: 10.1038/s41598-018-30345-5

Healthcare utilization for common infectious disease syndromes in Soweto and Klerksdorp, South Africa. Wong KK, von Mollendorf C, Martinson N, Norris S, Tempia S, Walaza S, Variava E, McMorrow ML, Madhi S, Cohen C, Cohen AL. (2018). Pan Afr Med J DOI: 10.11604/pamj.2018.30.271.14477

Human bocavirus, coronavirus, and polyomavirus detected among patients hospitalised with severe acute respiratory illness in South Africa, 2012 to 2013. Subramoney K, Hellferscee O, Pretorius M, Tempia S, McMorrow M, von Gottberg A, Wolter N, Variava E, Dawood H, Kahn K, Walaza S, Madhi SA, Cohen C, Venter M, Treurnicht FK. (2018). Health Sci Rep DOI: 10.1002/hsr2.59

Erratum to South African guideline for the management of community-acquired pneumonia in adults. Boyles TH, Brink A, Calligaro GL, Cohen C, Dheda K, Maartens G, Richards GA, van Zyl Smit R, Smith C, Wasserman S, Whitelaw AC, Feldman C; South African Thoracic Society; Federation of Infectious Diseases Societies of Southern Africa. (2018). J Thorac Dis DOI: 10.21037/jtd.2018.07.137

Responses to hypothetical health scenarios overestimate healthcare utilization for common infectious syndromes: a cross-sectional survey, South Africa, 2012. Wong KK, Cohen AL, Martinson NA, Norris SA, Tempia S, von Mollendorf C, Walaza S, Madhi SA, McMorrow ML, Cohen C. (2018). BMC Infect Dis DOI: 10.1186/s12879-018-3252-0

Hib combination vaccines: efficient and effective. Cohen C, von Gottberg A. (2018). Lancet Infect Dis DOI: 10.1016/S1473-3099(18)30234-2

Global Distribution of Invasive Serotype 35D Streptococcus pneumoniae Isolates following Introduction of 13-Valent Pneumococcal Conjugate Vaccine. Lo SW, Gladstone RA, van Tonder AJ, Hawkins PA, Kwambana-Adams B, Cornick JE, Madhi SA, Nzenze SA, du Plessis M, Kandasamy R, Carter PE, Eser ÖK, Ho PL, Elmdaghri N, Shakoor S, Clarke SC, Antonio M, Everett DB, von Gottberg A, Klugman KP, McGee L, Breiman RF, Bentley SD. (2018). J Clin Microbiol DOI: 10.1128/JCM.00228-18

Distribution of influenza virus types by age using case-based global surveillance data from twenty-nine countries, 1999-2014. Caini S, Spreeuwenberg P, Kusznierz GF, Rudi JM, Owen R, Pennington K, Wangchuk S, Gyeltshen S, Ferreira de Almeida WA, Pessanha Henriques CM, Njouom R, Vernet MA, Fasce RA, Andrade W, Yu H, Feng L, Yang J, Peng Z, Lara J, Bruno A, de Mora D, de Lozano C, Zambon M, Pebody R, Castillo L, Clara AW, Matute ML, Kosasih H, Nurhayati, Puzelli S, Rizzo C, Kadjo HA, Daouda C, Kiyanbekova L, Ospanova A, Mott JA, Emukule GO, Heraud JM, Razanajatovo NH, Barakat A, El Falaki F, Huang SQ, Lopez L, Balmaseda A, Moreno B, Rodrigues AP, Guiomar R, Ang LW, Lee VJM, Venter M, Cohen C, Badur S, Ciblak MA, Mironenko A, Holubka O, Bresee J, Brammer L, Hoang PVM, Le MTQ, Fleming D, Séblain CE, Schellevis F, Paget J; Global Influenza B Study group. (2018). BMC Infect Dis DOI: 10.1186/s12879-018-3181-y

Intra-host and intra-household diversity of influenza A viruses during household transmissions in the 2013 season in 2 peri-urban communities of South Africa. Valley-Omar Z, Iyengar P, von Mollendorf C, Tempia S, Moerdyk A, Hellferscee O, Martinson N, McMorrow M, Variava E, Masonoke K, Cohen AL, Cohen C, Treurnicht FK. (2018). PLoS One DOI: 10.1371/journal.pone.0198101

The effects of the attributable fraction and the duration of symptoms on burden estimates of influenza-associated respiratory illnesses in a high HIV prevalence setting, South Africa, 2013-2015. Tempia S, Walaza S, Moyes J, Cohen AL, von Mollendorf C, McMorrow ML, Mhlanga S, Treurnicht FK, Venter M, Pretorius M, Hellferscee O, Wolter N, von Gottberg A, Nguweneza A, McAnerney JM, Dawood H, Variava E, Madhi SA, Cohen C. (2018). Influenza Other Respir Viruses DOI: 10.1111/irv.12529

Pertussis in Africa: Findings and recommendations of the Global Pertussis Initiative (GPI). Muloiwa R, Wolter N, Mupere E, Tan T, Chitkara AJ, Forsyth KD, von König CW, Hussey G. (2018). Vaccine DOI: 10.1016/j.vaccine.2018.03.025

Estimates of global seasonal influenza-associated respiratory mortality: a modelling study. Iuliano AD, Roguski KM, Chang HH, Muscatello DJ, Palekar R, Tempia S, Cohen C, Gran JM, Schanzer D, Cowling BJ, Wu P, Kyncl J, Ang LW, Park M, Redlberger-Fritz M, Yu H, Espenhain L, Krishnan A, Emukule G, van Asten L, Pereira da Silva S, Aungkulanon S, Buchholz U, Widdowson MA, Bresee JS; Global Seasonal Influenza-associated Mortality Collaborator Network. (2018). Lancet DOI: 10.1016/S0140-6736(17)33293-2

The cost-effectiveness of trivalent and quadrivalent influenza vaccination in communities in South Africa, Vietnam and Australia. de Boer PT, Kelso JK, Halder N, Nguyen TP, Moyes J, Cohen C, Barr IG, Postma MJ, Milne GJ. (2018). Vaccine DOI: 10.1016/j.vaccine.2017.12.073

In- and Out-of-hospital Mortality Associated with Seasonal and Pandemic Influenza and Respiratory Syncytial Virus in South Africa, 2009-2013. Cohen C, Walaza S, Treurnicht FK, McMorrow M, Madhi SA, McAnerney JM, Tempia S. (2018). Clin Infect Dis DOI: 10.1093/cid/cix740

Advances in measuring influenza burden of disease. Lee VJ, Ho ZJM, Goh EH, Campbell H, Cohen C, Cozza V, Fitzner J, Jara J, Krishnan A, Bresee J; WHO Working Group on Influenza Burden of Disease. (2018). Influenza Other Respir Viruses DOI: 10.1111/irv.12533

The national burden of influenza-associated severe acute respiratory illness hospitalization in Zambia, 2011-2014. Theo A, Tempia S, Cohen AL, Simusika P, Chentulo E, Chikamukwa CM, Monze M. (2018). Influenza Other Respir Viruses DOI: 10.1111/irv.12492

Influenza-associated mortality in South Africa, 2009-2013: The importance of choices related to influenza infection proxies. Gul D, Cohen C, Tempia S, Newall AT, Muscatello DJ. (2018). Influenza Other Respir Viruses DOI: 10.1111/irv.12498

The national burden of influenza-associated severe acute respiratory illness hospitalization in Rwanda, 2012-2014. Nyamusore J, Rukelibuga J, Mutagoma M, Muhire A, Kabanda A, Williams T, Mutoni A, Kamwesiga J, Nyatanyi T, Omolo J, Kabeja A, Koama JB, Mukarurangwa A, Umuringa JD, Granados C, Gasana M, Moen A, Tempia S. (2018). Influenza Other Respir Viruses DOI: 10.1111/irv.12494

Invasive Disease Caused Simultaneously by Dual Serotypes of Streptococcus pneumoniae. Ndlangisa K, du Plessis M, Allam M, Wolter N, de Gouveia L, Klugman KP, Cohen C, Gladstone RA, von Gottberg A. (2017). J Clin Microbiol DOI: 10.1128/JCM.01149-17

Influenza epidemiology and immunization during pregnancy: Final report of a World Health Organization working group. Fell DB, Azziz-Baumgartner E, Baker MG, Batra M, Beauté J, Beutels P, Bhat N, Bhutta ZA, Cohen C, De Mucio B, Gessner BD, Gravett MG, Katz MA, Knight M, Lee VJ, Loeb M, Luteijn JM, Marshall H, Nair H, Pottie K, Salam RA, Savitz DA, Serruya SJ, Skidmore B, Ortiz JR; WHO taskforce to evaluate influenza data to inform vaccine impact and economic modelling. (2017). Vaccine DOI: 10.1016/j.vaccine.2017.08.037

Global respiratory syncytial virus-associated mortality in young children (RSV GOLD): a retrospective case series. Scheltema NM, Gentile A, Lucion F, Nokes DJ, Munywoki PK, Madhi SA, Groome MJ, Cohen C, Moyes J, Thorburn K, Thamthitiwat S, Oshitani H, Lupisan SP, Gordon A, Sánchez JF, O'Brien KL; PERCH Study Group; Gessner BD, Sutanto A, Mejias A, Ramilo O, Khuri-Bulos N, Halasa N, de-Paris F, Pires MR, Spaeder MC, Paes BA, Simões EAF, Leung TF, da Costa Oliveira MT, de Freitas Lázaro Emediato CC, Bassat Q, Butt W, Chi H, Aamir UB, Ali A, Lucero MG, Fasce RA, Lopez O, Rath BA, Polack FP, Papenburg J, Roglic S, Ito H, Goka EA, Grobbee DE, Nair H, Bont LJ. (2017). Lancet Glob Health DOI: 10.1016/S2214-109X(17)30344-3

Respiratory syncytial virus in adults with severe acute respiratory illness in a high HIV prevalence setting. Moyes J, Walaza S, Pretorius M, Groome M, von Gottberg A, Wolter N, Haffejee S, Variava E, Cohen AL, Tempia S, Kahn K, Dawood H, Venter M, Cohen C, Madhi SA; South African Severe Acute Respiratory Illness (SARI) Surveillance Group. (2017). J Infect DOI: 10.1016/j.jinf.2017.06.007

Enterovirus genotypes among patients with severe acute respiratory illness, influenza-like illness, and asymptomatic individuals in South Africa, 2012-2014. Hellferscee O, Tempia S, Walaza S, Variava E, Dawood H, Wolter N, Madhi SA, du Plessis M, Cohen C, Treurnicht FK. (2017). J Med Virol DOI: 10.1002/jmv.24869

Genome Sequence for Shiga Toxin-Producing Escherichia coli O26:H11, Associated with a Cluster of Hemolytic-Uremic Syndrome Cases in South Africa, 2017. Smith AM, Bosco KJ, Nicol MP, Kleynhans J, McCulloch M, Duze ST, Ismail A, Allam M, Tau NP, Keddy KH. (2017). Genome Announc DOI: 10.1128/genomeA.00989-17

Risk of Human Infections With Highly Pathogenic H5N2 and Low Pathogenic H7N1 Avian Influenza Strains During Outbreaks in Ostriches in South Africa. Venter M, Treurnicht FK, Buys A, Tempia S, Samudzi R, McAnerney J, Jacobs CA, Thomas J, Blumberg L. (2017). J Infect Dis DOI: 10.1093/infdis/jix018

Global, regional, and national disease burden estimates of acute lower respiratory infections due to respiratory syncytial virus in young children in 2015: a systematic review and modelling study. Shi T, McAllister DA, O'Brien KL, Simoes EAF, Madhi SA, Gessner BD, Polack FP, Balsells E, Acacio S, Aguayo C, Alassani I, Ali A, Antonio M, Awasthi S, Awori JO, Azziz-Baumgartner E, Baggett HC, Baillie VL, Balmaseda A, Barahona A, Basnet S, Bassat Q, Basualdo W, Bigogo G, Bont L, Breiman RF, Brooks WA, Broor S, Bruce N, Bruden D, Buchy P, Campbell S, Carosone-Link P, Chadha M, Chipeta J, Chou M, Clara W, Cohen C, de Cuellar E, Dang DA, Dash-Yandag B, Deloria-Knoll M, Dherani M, Eap T, Ebruke BE, Echavarria M, de Freitas Lázaro Emediato CC, Fasce RA, Feikin DR, Feng L, Gentile A, Gordon A, Goswami D, Goyet S, Groome M, Halasa N, Hirve S, Homaira N, Howie SRC, Jara J, Jroundi I, Kartasasmita CB, Khuri-Bulos N, Kotloff KL, Krishnan A, Libster R, Lopez O, Lucero MG, Lucion F, Lupisan SP, Marcone DN, McCracken JP, Mejia M, Moisi JC, Montgomery JM, Moore DP, Moraleda C, Moyes J, Munywoki P, Mutyara K, Nicol MP, Nokes DJ, Nymadawa P, da Costa Oliveira MT, Oshitani H, Pandey N, Paranhos-Baccalà G, Phillips LN, Picot VS, Rahman M, Rakoto-Andrianarivelo M, Rasmussen ZA, Rath BA, Robinson A, Romero C, Russomando G, Salimi V, Sawatwong P, Scheltema N, Schweiger B, et al. (2017). Lancet DOI: 10.1016/S0140-6736(17)30938-8

The Burden and Clinical Presentation of Pulmonary Tuberculosis in Adults With Severe Respiratory Illness in a High Human Immunodeficiency Virus Prevalence Setting, 2012-2014. Walaza S, Tempia S, Dreyer A, Dawood H, Variava E, Martinson NA, Moyes J, Cohen AL, Wolter N, von Mollendorf C, von Gottberg A, Haffejee S, Treurnicht F, Hellferscee O, Ismail N, Cohen C. (2017). Open Forum Infect Dis DOI: 10.1093/ofid/ofx116

Comparison of quantitative real-time PCR and direct immunofluorescence for the detection of Pneumocystis jirovecii. Moodley B, Tempia S, Frean JA. (2017). PLoS One DOI: 10.1371/journal.pone.0180589

Estimated severe pneumococcal disease cases and deaths before and after pneumococcal conjugate vaccine introduction in children younger than 5 years of age in South Africa. von Mollendorf C, Tempia S, von Gottberg A, Meiring S, Quan V, Feldman C, Cloete J, Madhi SA, O'Brien KL, Klugman KP, Whitney CG, Cohen C. (2017). PLoS One DOI: 10.1371/journal.pone.0179905

Meningococcal disease in the Middle East and Africa: Findings and updates from the Global Meningococcal Initiative. Borrow R, Caugant DA, Ceyhan M, Christensen H, Dinleyici EC, Findlow J, Glennie L, Von Gottberg A, Kechrid A, Vázquez Moreno J, Razki A, Smith V, Taha MK, Tali-Maamar H, Zerouali K; Global Meningococcal Initiative (GMI). (2017). J Infect DOI: 10.1016/j.jinf.2017.04.007

Case-control vaccine effectiveness studies: Preparation, design, and enrollment of cases and controls. Verani JR, Baqui AH, Broome CV, Cherian T, Cohen C, Farrar JL, Feikin DR, Groome MJ, Hajjeh RA, Johnson HL, Madhi SA, Mulholland K, O'Brien KL, Parashar UD, Patel MM, Rodrigues LC, Santosham M, Scott JA, Smith PG, Sommerfelt H, Tate JE, Victor JC, Whitney CG, Zaidi AK, Zell ER. (2017). Vaccine DOI: 10.1016/j.vaccine.2017.04.037

Case-control vaccine effectiveness studies: Data collection, analysis and reporting results. Verani JR, Baqui AH, Broome CV, Cherian T, Cohen C, Farrar JL, Feikin DR, Groome MJ, Hajjeh RA, Johnson HL, Madhi SA, Mulholland K, O'Brien KL, Parashar UD, Patel MM, Rodrigues LC, Santosham M, Scott JA, Smith PG, Sommerfelt H, Tate JE, Victor JC, Whitney CG, Zaidi AK, Zell ER. (2017). Vaccine DOI: 10.1016/j.vaccine.2017.04.035

South African guideline for the management of community-acquired pneumonia in adults. Boyles TH, Brink A, Calligaro GL, Cohen C, Dheda K, Maartens G, Richards GA, van Zyl Smit R, Smith C, Wasserman S, Whitelaw AC, Feldman C; South African Thoracic Society; Federation of Infectious Diseases Societies of Southern Africa. (2017). J Thorac Dis DOI: 10.21037/jtd.2017.05.31

Epidemiology of influenza B/Yamagata and B/Victoria lineages in South Africa, 2005-2014. Seleka M, Treurnicht FK, Tempia S, Hellferscee O, Mtshali S, Cohen AL, Buys A, McAnerney JM, Besselaar TG, Pretorius M, von Gottberg A, Walaza S, Cohen C, Madhi SA, Venter M. (2017). PLoS One DOI: 10.1371/journal.pone.0177655

Enterovirus D68 and other enterovirus serotypes identified in South African patients with severe acute respiratory illness, 2009-2011. Hellferscee O, Treurnicht FK, Tempia S, Variava E, Dawood H, Kahn K, Cohen AL, Pretorius M, Cohen C, Madhi SA, Venter M. (2017). Influenza Other Respir Viruses DOI: 10.1111/irv.12444

The Global Meningococcal Initiative: global epidemiology, the impact of vaccines on meningococcal disease and the importance of herd protection. Borrow R, Alarcón P, Carlos J, Caugant DA, Christensen H, Debbag R, De Wals P, Echániz-Aviles G, Findlow J, Head C, Holt D, Kamiya H, Saha SK, Sidorenko S, Taha MK, Trotter C, Vázquez Moreno JA, von Gottberg A, Sáfadi MA; Global Meningococcal Initiative. (2017). Expert Rev Vaccines DOI: 10.1080/14760584.2017.1258308

Knowledge, attitudes and practices of South African healthcare workers regarding the prevention and treatment of influenza among HIV-infected individuals. Duque J, Gaga S, Clark D, Muller M, Kuwane B, Cohen C, Walaza S, Tempia S, Ramatoboe P, Furumele T, Widdowson MA, McMorrow ML, Cohen AL. (2017). PLoS One DOI: 10.1371/journal.pone.0173983

Effectiveness of seasonal influenza vaccination in community-dwelling elderly people: an individual participant data meta-analysis of test-negative design case-control studies. Darvishian M, van den Heuvel ER, Bissielo A, Castilla J, Cohen C, Englund H, Gefenaite G, Huang WT, la Bastide-van Gemert S, Martinez-Baz I, McAnerney JM, Ntshoe GM, Suzuki M, Turner N, Hak E. (2017). Lancet Respir Med DOI: 10.1016/S2213-2600(17)30043-7

Effectiveness of the 13-valent pneumococcal conjugate vaccine against invasive pneumococcal disease in South African children: a case-control study. Cohen C, von Mollendorf C, de Gouveia L, Lengana S, Meiring S, Quan V, Nguweneza A, Moore DP, Reubenson G, Moshe M, Madhi SA, Eley B, Hallbauer U, Finlayson H, Varughese S, O'Brien KL, Zell ER, Klugman KP, Whitney CG, von Gottberg A; South African IPD Case-Control Study Group. (2017). Lancet Glob Health DOI: 10.1016/S2214-109X(17)30043-8

Estimating vaccine effectiveness in preventing laboratory-confirmed influenza in outpatient settings in South Africa, 2015. McAnerney JM, Walaza S, Tempia S, Blumberg L, Treurnicht FK, Madhi SA, Valley-Omar Z, Cohen C. (2017). Influenza Other Respir Viruses DOI: 10.1111/irv.12436

Molecular characterization of invasive capsule null Neisseria meningitidis in South Africa. Ganesh K, Allam M, Wolter N, Bratcher HB, Harrison OB, Lucidarme J, Borrow R, de Gouveia L, Meiring S, Birkhead M, Maiden MC, von Gottberg A, du Plessis M. (2017). BMC Microbiol DOI: 10.1186/s12866-017-0942-5

Severity of Respiratory Syncytial Virus Lower Respiratory Tract Infection With Viral Coinfection in HIV-Uninfected Children. Mazur NI, Bont L, Cohen AL, Cohen C, von Gottberg A, Groome MJ, Hellferscee O, Klipstein-Grobusch K, Mekgoe O, Naby F, Moyes J, Tempia S, Treurnicht FK, Venter M, Walaza S, Wolter N, Madhi SA; South African Severe Acute Respiratory Illness (SARI) Surveillance Group. (2017). Clin Infect Dis DOI: 10.1093/cid/ciw756

Risk Factors for Influenza-Associated Severe Acute Respiratory Illness Hospitalization in South Africa, 2012-2015. Tempia S, Walaza S, Moyes J, Cohen AL, von Mollendorf C, Treurnicht FK, Venter M, Pretorius M, Hellferscee O, Mtshali S, Seleka M, Tshangela A, Nguweneza A, McAnerney JM, Wolter N, von Gottberg A, Dawood H, Variava E, Madhi SA, Cohen C. (2017). Open Forum Infect Dis DOI: 10.1093/ofid/ofw262

The global distribution and diversity of protein vaccine candidate antigens in the highly virulent Streptococcus pnuemoniae serotype 1. Cornick JE, Tastan Bishop Ö, Yalcin F, Kiran AM, Kumwenda B, Chaguza C, Govindpershad S, Ousmane S, Senghore M, du Plessis M, Pluschke G, Ebruke C, McGee L, Sigaùque B, Collard JM, Bentley SD, Kadioglu A, Antonio M, von Gottberg A, French N, Klugman KP, Heyderman RS, Alderson M, Everett DB; PAGe consortium. (2017). Vaccine DOI: 10.1016/j.vaccine.2016.12.037

Development of a respiratory severity score for hospitalized adults in a high HIV-prevalence setting-South Africa, 2010-2011. Millman AJ, Greenbaum A, Walaza S, Cohen AL, Groome MJ, Reed C, McMorrow M, Tempia S, Venter M, Treurnicht FK, Madhi SA, Cohen C, Variava E. (2017). BMC Pulm Med DOI: 10.1186/s12890-017-0368-8

Comparing the Yield of Nasopharyngeal Swabs, Nasal Aspirates, and Induced Sputum for Detection of Bordetella pertussis in Hospitalized Infants. Nunes MC, Soofie N, Downs S, Tebeila N, Mudau A, de Gouveia L, Madhi SA. (2016). Clin Infect Dis DOI: 10.1093/cid/ciw521

The Burden of Pertussis Hospitalization in HIV-Exposed and HIV-Unexposed South African Infants. Soofie N, Nunes MC, Kgagudi P, van Niekerk N, Makgobo T, Agosti Y, Hwinya C, Pathirana J, Madhi SA. (2016). Clin Infect Dis DOI: 10.1093/cid/ciw545

Autopsy Prevalence of Tuberculosis and Other Potentially Treatable Infections among Adults with Advanced HIV Enrolled in Out-Patient Care in South Africa. Karat AS, Omar T, von Gottberg A, Tlali M, Chihota VN, Churchyard GJ, Fielding KL, Johnson S, Martinson NA, McCarthy K, Wolter N, Wong EB, Charalambous S, Grant AD. (2016). PLoS One DOI: 10.1371/journal.pone.0166158

Understanding pneumococcal serotype 1 biology through population genomic analysis. Chaguza C, Cornick JE, Harris SR, Andam CP, Bricio-Moreno L, Yang M, Yalcin F, Ousmane S, Govindpersad S, Senghore M, Ebruke C, Du Plessis M, Kiran AM, Pluschke G, Sigauque B, McGee L, Klugman KP, Turner P, Corander J, Parkhill J, Collard JM, Antonio M, von Gottberg A, Heyderman RS, French N, Kadioglu A, Hanage WP, Everett DB, Bentley SD; PAGe Consortium. (2016). BMC Infect Dis DOI: 10.1186/s12879-016-1987-z

Risk factors associated with hospitalisation for influenza-associated severe acute respiratory illness in South Africa: A case-population study. Abadom TR, Smith AD, Tempia S, Madhi SA, Cohen C, Cohen AL. (2016). Vaccine DOI: 10.1016/j.vaccine.2016.09.011

Comparison of multiple viral population characterization methods on a candidate cross-protection Citrus tristeza virus (CTV) source. Kleynhans J, Pietersen G. (2016). J Virol Methods DOI: 10.1016/j.jviromet.2016.09.003

The Epidemiology of Meningitis among Adults in a South African Province with a High HIV Prevalence, 2009-2012. Britz E, Perovic O, von Mollendorf C, von Gottberg A, Iyaloo S, Quan V, Chetty V, Sriruttan C, Ismail NA, Nanoo A, Musekiwa A, Reddy C, Viljoen K, Cohen C, Govender NP. (2016). PLoS One DOI: 10.1371/journal.pone.0163036

Knowledge, attitudes, and practices about influenza illness and vaccination: a cross-sectional survey in two South African communities. Wong KK, Cohen AL, Norris SA, Martinson NA, von Mollendorf C, Tempia S, Walaza S, Madhi SA, McMorrow ML, Variava E, Motlhaoleng KM, Cohen C. (2016). Influenza Other Respir Viruses DOI: 10.1111/irv.12388

Influenza vaccination of pregnant women protects them over two consecutive influenza seasons in a randomized controlled trial. Mutsaerts E, Madhi SA, Cutland CL, Jones S, Hugo A, Trenor S, Treurnicht FK, Klipstein-Grobusch K, Weinberg A, Nunes MC. (2016). Expert Rev Vaccines DOI: 10.1080/14760584.2016.1192473

Trivalent and quadrivalent influenza vaccination effectiveness in Australia and South Africa: results from a modelling study. Milne GJ, Halder N, Kelso JK, Barr IG, Moyes J, Kahn K, Twine R, Cohen C. (2016). Influenza Other Respir Viruses DOI: 10.1111/irv.12367

Two cases of serotypeable and non-serotypeable variants of Streptococcus pneumoniae detected simultaneously during invasive disease. Ndlangisa KM, du Plessis M, Allam M, Wolter N, Mohale T, de Gouveia L, Birkhead M, Klugman KP, von Gottberg A. (2016). BMC Microbiol DOI: 10.1186/s12866-016-0745-0

Genomic analysis of nontypeable pneumococci causing invasive pneumococcal disease in South Africa, 2003-2013. Mohale T, Wolter N, Allam M, Ndlangisa K, Crowther-Gibson P, du Plessis M, von Gottberg A. (2016). BMC Genomics DOI: 10.1186/s12864-016-2808-x

Clinical characterisation and phylogeny of respiratory syncytial virus infection in hospitalised children at Red Cross War Memorial Children's Hospital, Cape Town. Oladokun R, Muloiwa R, Hsiao NY, Valley-Omar Z, Nuttall J, Eley B. (2016). BMC Infect Dis DOI: 10.1186/s12879-016-1572-5

Sapovirus prevalence in children less than five years of age hospitalised for diarrhoeal disease in South Africa, 2009-2013. Page N, Groome MJ, Murray T, Nadan S, Netshikweta R, Keddy KH, Poonsamy B, Moyes J, Walaza S, Kahn K, Kuonza L, Taylor MB, Madhi SA, Cohen C. (2016). J Clin Virol DOI: 10.1016/j.jcv.2016.03.013

Phylogenetic Analysis of Invasive Serotype 1 Pneumococcus in South Africa, 1989 to 2013. du Plessis M, Allam M, Tempia S, Wolter N, de Gouveia L, von Mollendorf C, Jolley KA, Mbelle N, Wadula J, Cornick JE, Everett DB, McGee L, Breiman RF, Gladstone RA, Bentley SD, Klugman KP, von Gottberg A. (2016). J Clin Microbiol DOI: 10.1128/JCM.00055-16

Invasive Group B Streptococcal Disease in South Africa: Importance of Surveillance Methodology. Quan V, Verani JR, Cohen C, von Gottberg A, Meiring S, Cutland CL, Schrag SJ, Madhi SA. (2016). PLoS One DOI: 10.1371/journal.pone.0152524

Epidemiology of Acute Lower Respiratory Tract Infection in HIV-Exposed Uninfected Infants. Cohen C, Moyes J, Tempia S, Groome M, Walaza S, Pretorius M, Naby F, Mekgoe O, Kahn K, von Gottberg A, Wolter N, Cohen AL, von Mollendorf C, Venter M, Madhi SA. (2016). Pediatrics DOI: 10.1542/peds.2015-3272

Temporal Patterns of Influenza A and B in Tropical and Temperate Countries: What Are the Lessons for Influenza Vaccination?. Caini S, Andrade W, Badur S, Balmaseda A, Barakat A, Bella A, Bimohuen A, Brammer L, Bresee J, Bruno A, Castillo L, Ciblak MA, Clara AW, Cohen C, Cutter J, Daouda C, de Lozano C, De Mora D, Dorji K, Emukule GO, Fasce RA, Feng L, Ferreira de Almeida WA, Guiomar R, Heraud JM, Holubka O, Huang QS, Kadjo HA, Kiyanbekova L, Kosasih H, Kusznierz G, Lara J, Li M, Lopez L, Mai Hoang PV, Pessanha Henriques CM, Matute ML, Mironenko A, Moreno B, Mott JA, Njouom R, Nurhayati, Ospanova A, Owen R, Pebody R, Pennington K, Puzelli S, Quynh Le MT, Razanajatovo NH, Rodrigues A, Rudi JM, Tzer Pin Lin R, Venter M, Vernet MA, Wangchuk S, Yang J, Yu H, Zambon M, Schellevis F, Paget J; Global Influenza B Study. (2016). PLoS One DOI: 10.1371/journal.pone.0152310

HIV Infection and the Epidemiology of Invasive Pneumococcal Disease (IPD) in South African Adults and Older Children Prior to the Introduction of a Pneumococcal Conjugate Vaccine (PCV). Meiring S, Cohen C, Quan V, de Gouveia L, Feldman C, Karstaedt A, Klugman KP, Madhi SA, Rabie H, Sriruttan C, von Gottberg A; GERMS-SA. (2016). PLoS One DOI: 10.1371/journal.pone.0149104

Recommendations pertaining to the use of influenza vaccines and influenza antiviral drugs, 2016. Walaza S, Cohen C. (2016). S Afr Med J DOI: 10.7196/SAMJ.2016.v106i3.10586

The role of influenza, RSV and other common respiratory viruses in severe acute respiratory infections and influenza-like illness in a population with a high HIV sero-prevalence, South Africa 2012-2015. Pretorius MA, Tempia S, Walaza S, Cohen AL, Moyes J, Variava E, Dawood H, Seleka M, Hellferscee O, Treurnicht F, Cohen C, Venter M. (2016). J Clin Virol DOI: 10.1016/j.jcv.2015.12.004

Risk factors for respiratory syncytial virus associated with acute lower respiratory infection in children under five years: Systematic review and meta-analysis. Shi T, Balsells E, Wastnedge E, Singleton R, Rasmussen ZA, Zar HJ, Rath BA, Madhi SA, Campbell S, Vaccari LC, Bulkow LR, Thomas ED, Barnett W, Hoppe C, Campbell H, Nair H. (2015). J Glob Health DOI: 10.7189/jogh.05.020416

Parainfluenza Virus Infection Among Human Immunodeficiency Virus (HIV)-Infected and HIV-Uninfected Children and Adults Hospitalized for Severe Acute Respiratory Illness in South Africa, 2009-2014. Cohen AL, Sahr PK, Treurnicht F, Walaza S, Groome MJ, Kahn K, Dawood H, Variava E, Tempia S, Pretorius M, Moyes J, Olorunju SA, Malope-Kgokong B, Kuonza L, Wolter N, von Gottberg A, Madhi SA, Venter M, Cohen C. (2015). Open Forum Infect Dis DOI: 10.1093/ofid/ofv139

Etiology and Incidence of Pleural Empyema in South African Children. Zampoli M, Kappos A, Wolter N, von Gottberg A, Verwey C, Mamathuba R, Zar HJ. (2015). Pediatr Infect Dis J DOI: 10.1097/INF.0000000000000880

Phylogenetic Exploration of Nosocomial Transmission Chains of 2009 Influenza A/H1N1 among Children Admitted at Red Cross War Memorial Children's Hospital, Cape Town, South Africa in 2011. Valley-Omar Z, Nindo F, Mudau M, Hsiao M, Martin DP. (2015). PLoS One DOI: 10.1371/journal.pone.0141744

Case-ascertained study of household transmission of seasonal influenza - South Africa, 2013. Iyengar P, von Mollendorf C, Tempia S, Moerdyk A, Valley-Omar Z, Hellferscee O, Martinson N, Chhagan M, McMorrow M, Gambhir M, Cauchemez S, Variava E, Masonoke K, Cohen AL, Cohen C. (2015). J Infect DOI: 10.1016/j.jinf.2015.09.001

Genomic resolution of an aggressive, widespread, diverse and expanding meningococcal serogroup B, C and W lineage. Lucidarme J, Hill DM, Bratcher HB, Gray SJ, du Plessis M, Tsang RS, Vazquez JA, Taha MK, Ceyhan M, Efron AM, Gorla MC, Findlow J, Jolley KA, Maiden MC, Borrow R. (2015). J Infect DOI: 10.1016/j.jinf.2015.07.007

Assessing the impact of pneumococcal conjugate vaccines on invasive pneumococcal disease using polymerase chain reaction-based surveillance: an experience from South Africa. Tempia S, Wolter N, Cohen C, Walaza S, von Mollendorf C, Cohen AL, Moyes J, de Gouveia L, Nzenze S, Treurnicht F, Venter M, Groome MJ, Madhi SA, von Gottberg A. (2015). BMC Infect Dis DOI: 10.1186/s12879-015-1198-z

Streptococcus pneumoniae Serotypes and Mortality in Adults and Adolescents in South Africa: Analysis of National Surveillance Data, 2003 - 2008. Cohen C, Naidoo N, Meiring S, de Gouveia L, von Mollendorf C, Walaza S, Naicker P, Madhi SA, Feldman C, Klugman KP, Dawood H, von Gottberg A; GERMS-SA. (2015). PLoS One DOI: 10.1371/journal.pone.0140185

Mortality Associated With Seasonal and Pandemic Influenza Among Pregnant and Nonpregnant Women of Childbearing Age in a High-HIV-Prevalence Setting-South Africa, 1999-2009. Tempia S, Walaza S, Cohen AL, von Mollendorf C, Moyes J, McAnerney JM, Cohen C. (2015). Clin Infect Dis DOI: 10.1093/cid/civ448

Temporal Changes in Pneumococcal Colonization in HIV-infected and HIV-uninfected Mother-Child Pairs Following Transitioning From 7-valent to 13-valent Pneumococcal Conjugate Vaccine, Soweto, South Africa. Nzenze SA, von Gottberg A, Shiri T, van Niekerk N, de Gouveia L, Violari A, Nunes MC, Madhi SA. (2015). J Infect Dis DOI: 10.1093/infdis/jiv167

An Outbreak of Lymphocutaneous Sporotrichosis among Mine-Workers in South Africa. Govender NP, Maphanga TG, Zulu TG, Patel J, Walaza S, Jacobs C, Ebonwu JI, Ntuli S, Naicker SD, Thomas J. (2015). PLoS Negl Trop Dis DOI: 10.1371/journal.pntd.0004096

Severe Acute Respiratory Illness Deaths in Sub-Saharan Africa and the Role of Influenza: A Case Series From 8 Countries. McMorrow ML, Wemakoy EO, Tshilobo JK, Emukule GO, Mott JA, Njuguna H, Waiboci L, Heraud JM, Rajatonirina S, Razanajatovo NH, Chilombe M, Everett D, Heyderman RS, Barakat A, Nyatanyi T, Rukelibuga J, Cohen AL, Cohen C, Tempia S, Thomas J, Venter M, Mwakapeje E, Mponela M, Lutwama J, Duque J, Lafond K, Nzussouo NT, Williams T, Widdowson MA. (2015). J Infect Dis DOI: 10.1093/infdis/jiv100

Comparison of a Real-Time Multiplex PCR and Sequetyping Assay for Pneumococcal Serotyping. Dube FS, van Mens SP, Robberts L, Wolter N, Nicol P, Mafofo J, Africa S, Zar HJ, Nicol MP. (2015). PLoS One DOI: 10.1371/journal.pone.0137349

Region-specific diversification of the highly virulent serotype 1 Streptococcus pneumoniae. Cornick JE, Chaguza C, Harris SR, Yalcin F, Senghore M, Kiran AM, Govindpershad S, Ousmane S, Plessis MD, Pluschke G, Ebruke C, McGee L, Sigaùque B, Collard JM, Antonio M, von Gottberg A, French N, Klugman KP, Heyderman RS, Bentley SD, Everett DB, For The PAGe Consortium. (2015). Microb Genom DOI: 10.1099/mgen.0.000027

Human metapneumovirus-associated severe acute respiratory illness hospitalisation in HIV-infected and HIV-uninfected South African children and adults. Groome MJ, Moyes J, Cohen C, Walaza S, Tempia S, Pretorius M, Hellferscee O, Chhagan M, Haffejee S, Dawood H, Kahn K, Variava E, Cohen AL, Gottberg Av, Wolter N, Venter M, Madhi SA; South African Severe Acute Respiratory Illness (SARI) Surveillance Group. (2015). J Clin Virol DOI: 10.1016/j.jcv.2015.06.089

Evaluation of influenza vaccine effectiveness and description of circulating strains in outpatient settings in South Africa, 2014. McAnerney JM, Treurnicht F, Walaza S, Cohen AL, Tempia S, Mtshali S, Buys A, Blumberg L, Cohen C. (2015). Influenza Other Respir Viruses DOI: 10.1111/irv.12314

Excess Mortality Associated with Influenza among Tuberculosis Deaths in South Africa, 1999-2009. Walaza S, Cohen C, Nanoo A, Cohen AL, McAnerney J, von Mollendorf C, Moyes J, Tempia S. (2015). PLoS One DOI: 10.1371/journal.pone.0129173

Potential Impact of Co-Infections and Co-Morbidities Prevalent in Africa on Influenza Severity and Frequency: A Systematic Review. Cohen AL, McMorrow M, Walaza S, Cohen C, Tempia S, Alexander-Scott M, Widdowson MA. (2015). PLoS One DOI: 10.1371/journal.pone.0128580

Longitudinal study on Streptococcus pneumoniae, Haemophilus influenzae and Staphylococcus aureus nasopharyngeal colonization in HIV-infected and -uninfected infants vaccinated with pneumococcal conjugate vaccine. Madhi SA, Izu A, Nunes MC, Violari A, Cotton MF, Jean-Philippe P, Klugman KP, von Gottberg A, van Niekerk N, Adrian PV; CIPRA 4 team. (2015). Vaccine DOI: 10.1016/j.vaccine.2015.04.024

Effectiveness and knowledge, attitudes and practices of seasonal influenza vaccine in primary healthcare settings in South Africa, 2010-2013. McAnerney JM, Walaza S, Cohen AL, Tempia S, Buys A, Venter M, Blumberg L, Duque J, Cohen C. (2015). Influenza Other Respir Viruses DOI: 10.1111/irv.12305

Increased risk for and mortality from invasive pneumococcal disease in HIV-exposed but uninfected infants aged <1 year in South Africa, 2009-2013. von Mollendorf C, von Gottberg A, Tempia S, Meiring S, de Gouveia L, Quan V, Lengana S, Avenant T, du Plessis N, Eley B, Finlayson H, Reubenson G, Moshe M, O'Brien KL, Klugman KP, Whitney CG, Cohen C; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa. (2015). Clin Infect Dis DOI: 10.1093/cid/civ059

Evaluation of two influenza surveillance systems in South Africa. Budgell E, Cohen AL, McAnerney J, Walaza S, Madhi SA, Blumberg L, Dawood H, Kahn K, Tempia S, Venter M, Cohen C. (2015). PLoS One DOI: 10.1371/journal.pone.0120226

Mortality amongst patients with influenza-associated severe acute respiratory illness, South Africa, 2009-2013. Cohen C, Moyes J, Tempia S, Groome M, Walaza S, Pretorius M, Dawood H, Chhagan M, Haffejee S, Variava E, Kahn K, von Gottberg A, Wolter N, Cohen AL, Malope-Kgokong B, Venter M, Madhi SA. (2015). PLoS One DOI: 10.1371/journal.pone.0118884

Epidemiology of severe acute respiratory illness (SARI) among adults and children aged =5 years in a high HIV-prevalence setting, 2009-2012. Cohen C, Walaza S, Moyes J, Groome M, Tempia S, Pretorius M, Hellferscee O, Dawood H, Haffejee S, Variava E, Kahn K, Tshangela A, von Gottberg A, Wolter N, Cohen AL, Kgokong B, Venter M, Madhi SA. (2015). PLoS One DOI: 10.1371/journal.pone.0117716

Acquisition of Streptococcus pneumoniae in South African children vaccinated with 7-valent pneumococcal conjugate vaccine at 6, 14 and 40 weeks of age. Nunes MC, Jones SA, Groome MJ, Kuwanda L, Van Niekerk N, von Gottberg A, de Gouveia L, Adrian PV, Madhi SA. (2015). Vaccine DOI: 10.1016/j.vaccine.2014.12.023

Influenza virus infection is associated with increased risk of death amongst patients hospitalized with confirmed pulmonary tuberculosis in South Africa, 2010-2011. Walaza S, Tempia S, Dawood H, Variava E, Moyes J, Cohen AL, Wolter N, Groome M, von Mollendorf C, Kahn K, Pretorius M, Venter M, Madhi SA, Cohen C. (2015). BMC Infect Dis DOI: 10.1186/s12879-015-0746-x

Recommendations pertaining to the use of influenza vaccines and influenza antiviral drugs: Influenza 2015. Walaza S, Cohen C. (2015). S Afr Med J DOI: 10.7196/samj.9367

Epidemiology of viral-associated acute lower respiratory tract infection among children <5 years of age in a high HIV prevalence setting, South Africa, 2009-2012. Cohen C, Walaza S, Moyes J, Groome M, Tempia S, Pretorius M, Hellferscee O, Dawood H, Chhagan M, Naby F, Haffejee S, Variava E, Kahn K, Nzenze S, Tshangela A, von Gottberg A, Wolter N, Cohen AL, Kgokong B, Venter M, Madhi SA. (2015). Pediatr Infect Dis J DOI: 10.1097/INF.0000000000000478

Risk factors for invasive pneumococcal disease among children less than 5 years of age in a high HIV prevalence setting, South Africa, 2010 to 2012. von Mollendorf C, Cohen C, de Gouveia L, Naidoo N, Meiring S, Quan V, Lindani S, Moore DP, Reubenson G, Moshe M, Eley B, Hallbauer UM, Finlayson H, Madhi SA, Conklin L, Zell ER, Klugman KP, Whitney CG, von Gottberg A; South African IPD Case–Control Study Group. (2015). Pediatr Infect Dis J DOI: 10.1097/INF.0000000000000484

Hospitalizations associated with influenza and respiratory syncytial virus among patients attending a network of private hospitals in South Africa, 2007-2012. Kyeyagalire R, Tempia S, Cohen AL, Smith AD, McAnerney JM, Dermaux-Msimang V, Cohen C. (2014). BMC Infect Dis DOI: 10.1186/s12879-014-0694-x

Global, regional, and national estimates of pneumonia burden in HIV-infected children in 2010: a meta-analysis and modelling study. Theodoratou E, McAllister DA, Reed C, Adeloye DO, Rudan I, Muhe LM, Madhi SA, Campbell H, Nair H. (2014). Lancet Infect Dis DOI: 10.1016/S1473-3099(14)70990-9

High nasopharyngeal pneumococcal density, increased by viral coinfection, is associated with invasive pneumococcal pneumonia. Wolter N, Tempia S, Cohen C, Madhi SA, Venter M, Moyes J, Walaza S, Malope-Kgokong B, Groome M, du Plessis M, Magomani V, Pretorius M, Hellferscee O, Dawood H, Kahn K, Variava E, Klugman KP, von Gottberg A. (2014). J Infect Dis DOI: 10.1093/infdis/jiu326

Effects of vaccination on invasive pneumococcal disease in South Africa. von Gottberg A, de Gouveia L, Tempia S, Quan V, Meiring S, von Mollendorf C, Madhi SA, Zell ER, Verani JR, O'Brien KL, Whitney CG, Klugman KP, Cohen C; GERMS-SA Investigators. (2014). N Engl J Med DOI: 10.1056/NEJMoa1401914

Effectiveness of monovalent human rotavirus vaccine against admission to hospital for acute rotavirus diarrhoea in South African children: a case-control study. Groome MJ, Page N, Cortese MM, Moyes J, Zar HJ, Kapongo CN, Mulligan C, Diedericks R, Cohen C, Fleming JA, Seheri M, Mphahlele J, Walaza S, Kahn K, Chhagan M, Steele AD, Parashar UD, Zell ER, Madhi SA. (2014). Lancet Infect Dis DOI: 10.1016/S1473-3099(14)70940-5

Population snapshot of Streptococcus pneumoniae causing invasive disease in South Africa prior to introduction of pneumococcal conjugate vaccines. Ndlangisa KM, du Plessis M, Wolter N, de Gouveia L, Klugman KP, von Gottberg A; GERMS-SA. (2014). PLoS One DOI: 10.1371/journal.pone.0107666

Effectiveness of 7-valent pneumococcal conjugate vaccine against invasive pneumococcal disease in HIV-infected and -uninfected children in south africa: a matched case-control study. Cohen C, von Mollendorf C, de Gouveia L, Naidoo N, Meiring S, Quan V, Nokeri V, Fortuin-de Smit M, Malope-Kgokong B, Moore D, Reubenson G, Moshe M, Madhi SA, Eley B, Hallbauer U, Kularatne R, Conklin L, O'Brien KL, Zell ER, Klugman K, Whitney CG, von Gottberg A; South African Invasive Pneumococcal Disease Case-Control Study Group. (2014). Clin Infect Dis DOI: 10.1093/cid/ciu431

Genetic diversity and molecular epidemiology of human rhinoviruses in South Africa. Pretorius MA, Tempia S, Treurnicht FK, Walaza S, Cohen AL, Moyes J, Hellferscee O, Variava E, Dawood H, Chhagan M, Haffjee S, Madhi SA, Cohen C, Venter M. (2014). Influenza Other Respir Viruses DOI: 10.1111/irv.12264

Challenges of using molecular serotyping for surveillance of pneumococcal disease. Magomani V, Wolter N, Tempia S, du Plessis M, de Gouveia L, von Gottberg A. (2014). J Clin Microbiol DOI: 10.1128/JCM.01061-14

Defining the estimated core genome of bacterial populations using a Bayesian decision model. van Tonder AJ, Mistry S, Bray JE, Hill DM, Cody AJ, Farmer CL, Klugman KP, von Gottberg A, Bentley SD, Parkhill J, Jolley KA, Maiden MC, Brueggemann AB. (2014). PLoS Comput Biol DOI: 10.1371/journal.pcbi.1003788

Factors associated with ceftriaxone nonsusceptibility of Streptococcus pneumoniae: analysis of South African national surveillance data, 2003 to 2010. von Mollendorf C, Cohen C, de Gouveia L, Quan V, Meiring S, Feldman C, Klugman KP, von Gottberg A. (2014). Antimicrob Agents Chemother DOI: 10.1128/AAC.02580-13

Macroarray assay for differential diagnosis of meningoencephalitis in southern Africa. Venter M, Zaayman D, van Niekerk S, Stivaktas V, Goolab S, Weyer J, Paweska JT, Swanepoel R. (2014). J Clin Virol DOI: 10.1016/j.jcv.2014.02.001

Meningococcal serogroup Y lpxL1 variants from South Africa are associated with clonal complex 23 among young adults. du Plessis M, Wolter N, Crowther-Gibson P, Hamstra HJ, Schipper K, Moodley C, Cohen C, van de Beek D, van der Ley P, von Gottberg A, van der Ende A. (2014). J Infect DOI: 10.1016/j.jinf.2013.12.011

Influenza epidemiology and vaccine effectiveness among patients with influenza-like illness, viral watch sentinel sites, South Africa, 2005-2009. Ntshoe GM, McAnerney JM, Tempia S, Blumberg L, Moyes J, Buys A, Naidoo D, Venter M, Besselaar T, Schoub BD, Harris BN, Cohen C. (2014). PLoS One DOI: 10.1371/journal.pone.0094681

Temporal association in hospitalizations for tuberculosis, invasive pneumococcal disease and influenza virus illness in South African children. Dangor Z, Izu A, Moore DP, Nunes MC, Solomon F, Beylis N, von Gottberg A, McAnerney JM, Madhi SA. (2014). PLoS One DOI: 10.1371/journal.pone.0091464

HIV and influenza virus infections are associated with increased blood pneumococcal load: a prospective, hospital-based observational study in South Africa, 2009-2011. Wolter N, Cohen C, Tempia S, Madhi SA, Venter M, Moyes J, Walaza S, Malope Kgokong B, Groome M, du Plessis M, Pretorius M, Dawood H, Kahn K, Variava E, Klugman KP, von Gottberg A. (2014). J Infect Dis DOI: 10.1093/infdis/jit427

Replacement and positive evolution of subtype A and B respiratory syncytial virus G-protein genotypes from 1997-2012 in South Africa. Pretorius MA, van Niekerk S, Tempia S, Moyes J, Cohen C, Madhi SA, Venter M; SARI Surveillance Group. (2013). J Infect Dis DOI: 10.1093/infdis/jit477

Epidemiology of respiratory syncytial virus-associated acute lower respiratory tract infection hospitalizations among HIV-infected and HIV-uninfected South African children, 2010-2011. Moyes J, Cohen C, Pretorius M, Groome M, von Gottberg A, Wolter N, Walaza S, Haffejee S, Chhagan M, Naby F, Cohen AL, Tempia S, Kahn K, Dawood H, Venter M, Madhi SA; South African Severe Acute Respiratory Illness Surveillance Group. (2013). J Infect Dis DOI: 10.1093/infdis/jit479

Impact of rotavirus vaccine on childhood diarrheal hospitalization after introduction into the South African public immunization program. Msimang VM, Page N, Groome MJ, Moyes J, Cortese MM, Seheri M, Kahn K, Chagan M, Madhi SA, Cohen C. (2013). Pediatr Infect Dis J DOI: 10.1097/INF.0b013e3182a72fc0

Temporal changes in pneumococcal colonization in a rural African community with high HIV prevalence following routine infant pneumococcal immunization. Nzenze SA, Shiri T, Nunes MC, Klugman KP, Kahn K, Twine R, de Gouveia L, von Gottberg A, Madhi SA. (2013). Pediatr Infect Dis J DOI: 10.1097/01.inf.0000435805.25366.64

Epidemiology of invasive pneumococcal disease in the pre-conjugate vaccine era: South Africa, 2003-2008. von Gottberg A, Cohen C, de Gouveia L, Meiring S, Quan V, Whitelaw A, Crowther-Gibson P, Madhi SA, Whitney CG, Klugman KP. (2013). Vaccine DOI: 10.1016/j.vaccine.2013.04.077

Global and regional burden of hospital admissions for severe acute lower respiratory infections in young children in 2010: a systematic analysis. Nair H, Simões EA, Rudan I, Gessner BD, Azziz-Baumgartner E, Zhang JSF, Feikin DR, Mackenzie GA, Moiïsi JC, Roca A, Baggett HC, Zaman SM, Singleton RJ, Lucero MG, Chandran A, Gentile A, Cohen C, Krishnan A, Bhutta ZA, Arguedas A, Clara AW, Andrade AL, Ope M, Ruvinsky RO, Hortal M, McCracken JP, Madhi SA, Bruce N, Qazi SA, Morris SS, El Arifeen S, Weber MW, Scott JAG, Brooks WA, Breiman RF, Campbell H; Severe Acute Lower Respiratory Infections Working Group. (2013). Lancet DOI: 10.1016/S0140-6736(12)61901-1

Measles outbreak in South Africa: epidemiology of laboratory-confirmed measles cases and assessment of intervention, 2009-2011. Ntshoe GM, McAnerney JM, Archer BN, Smit SB, Harris BN, Tempia S, Mashele M, Singh B, Thomas J, Cengimbo A, Blumberg LH, Puren A, Moyes J, van den Heever J, Schoub BD, Cohen C. (2013). PLoS One DOI: 10.1371/journal.pone.0055682

Evolutionary dynamics of 2009 pandemic influenza A virus subtype H1N1 in South Africa during 2009-2010. Venter M, Naidoo D, Pretorius M, Buys A, McAnerney J, Blumberg L, Madhi SA, Cohen C, Schoub B. (2012). J Infect Dis DOI: 10.1093/infdis/jis539

Respiratory viral coinfections identified by a 10-plex real-time reverse-transcription polymerase chain reaction assay in patients hospitalized with severe acute respiratory illness--South Africa, 2009-2010. Pretorius MA, Madhi SA, Cohen C, Naidoo D, Groome M, Moyes J, Buys A, Walaza S, Dawood H, Chhagan M, Haffjee S, Kahn K, Puren A, Venter M. (2012). J Infect Dis DOI: 10.1093/infdis/jis538

Twenty-five years of outpatient influenza surveillance in South Africa, 1984-2008. McAnerney JM, Cohen C, Moyes J, Besselaar TG, Buys A, Schoub BD, Blumberg L. (2012). J Infect Dis DOI: 10.1093/infdis/jis575

Introduction of 2009 pandemic influenza A virus subtype H1N1 into South Africa: clinical presentation, epidemiology, and transmissibility of the first 100 cases. Archer BN, Timothy GA, Cohen C, Tempia S, Huma M, Blumberg L, Naidoo D, Cengimbo A, Schoub BD. (2012). J Infect Dis DOI: 10.1093/infdis/jis583

A comparison of cases of paediatric-onset and adult-onset cryptococcosis detected through population-based surveillance, 2005-2007. Meiring ST, Quan VC, Cohen C, Dawood H, Karstaedt AS, McCarthy KM, Whitelaw AC, Govender NP; Group for Enteric, Respiratory and Meningeal disease Surveillance in South Africa (GERMS-SA). (2012). AIDS DOI: 10.1097/QAD.0b013e3283570567

Clonal analysis of Neisseria meningitidis serogroup B strains in South Africa, 2002 to 2006: emergence of new clone ST-4240/6688. Moodley C, du Plessis M, Ndlangisa K, de Gouveia L, Klugman KP, von Gottberg A; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa. (2012). J Clin Microbiol DOI: 10.1128/JCM.01079-12

Risk factors for multidrug-resistant invasive pneumococcal disease in South Africa, a setting with high HIV prevalence, in the prevaccine era from 2003 to 2008. Crowther-Gibson P, Cohen C, Klugman KP, de Gouveia L, von Gottberg A; Group for Enteric, Respiratory, and Meningeal Disease Surveillance in South Africa (GERMS-SA). (2012). Antimicrob Agents Chemother DOI: 10.1128/AAC.06463-11

Influenza-related mortality among adults aged 25-54 years with AIDS in South Africa and the United States of America. Cohen C, Simonsen L, Sample J, Kang JW, Miller M, Madhi SA, Campsmith M, Viboud C. (2012). Clin Infect Dis DOI: 10.1093/cid/cis549

Introduction of pneumococcal conjugate vaccine into the public immunization program in South Africa: translating research into policy. Madhi SA, Cohen C, von Gottberg A. (2012). Vaccine DOI: 10.1016/j.vaccine.2012.05.055

Population snapshot of invasive serogroup B meningococci in South Africa from 2005 to 2008. du Plessis M, Moodley C, Mothibeli KM, Fali A, Klugman KP, von Gottberg A; Group for Enteric, Respiratory and Meningeal Disease Surveillance—South Africa. (2012). J Clin Microbiol DOI: 10.1128/JCM.00401-12

Systemic shigellosis in South Africa. Keddy KH, Sooka A, Crowther-Gibson P, Quan V, Meiring S, Cohen C, Nana T, Sriruttan C, Seetharam S, Hoosen A, Naicker P, Elliott E, Haffejee S, Whitelaw A, Klugman KP; Group for Enteric, Respiratory, and Meningeal Disease Surveillance in South Africa (GERMS-SA). (2012). Clin Infect Dis DOI: 10.1093/cid/cis224

External quality assessment of national public health laboratories in Africa, 2002-2009. Frean J, Perovic O, Fensham V, McCarthy K, von Gottberg A, de Gouveia L, Poonsamy B, Dini L, Rossouw J, Keddy K, Alemu W, Yahaya A, Pierson A, Dolmazon V, Cognat S, Ndihokubwayo JB. (2012). Bull World Health Organ DOI: 10.2471/BLT.11.091876

Invasive disease due to Haemophilus influenzae serotype b ten years after routine vaccination, South Africa, 2003-2009. von Gottberg A, Cohen C, Whitelaw A, Chhagan M, Flannery B, Cohen AL, de Gouveia L, Plessis Md, Madhi SA, Klugman KP; Group for Enteric, Respiratory, Meningeal Disease Surveillance in South Africa (GERMS-SA). (2012). Vaccine DOI: 10.1016/j.vaccine.2011.11.066

Reproductive number and serial interval of the first wave of influenza A(H1N1)pdm09 virus in South Africa. Archer BN, Tempia S, White LF, Pagano M, Cohen C. (2012). PLoS One DOI: 10.1371/journal.pone.0049482

Distribution of factor H binding protein beyond serogroup B: variation among five serogroups of invasive Neisseria meningitidis in South Africa. Mothibeli KM, du Plessis M, von Gottberg A, Murphy E, Hoiseth SK, Zlotnick G, Klugman KP. (2011). Vaccine DOI: 10.1016/j.vaccine.2010.11.072

Elevated influenza-related excess mortality in South African elderly individuals, 1998-2005. Cohen C, Simonsen L, Kang JW, Miller M, McAnerney J, Blumberg L, Schoub B, Madhi SA, Viboud C. (2010). Clin Infect Dis DOI: 10.1086/657314

Increased incidence of meningococcal disease in HIV-infected individuals associated with higher case-fatality ratios in South Africa. Cohen C, Singh E, Wu HM, Martin S, de Gouveia L, Klugman KP, Meiring S, Govender N, von Gottberg A; Group for Enteric, Respiratory and Meningeal disease Surveillance in South Africa (GERMS-SA). (2010). AIDS DOI: 10.1097/QAD.0b013e32833a2520

An unusual pneumococcal sequence type is the predominant cause of serotype 3 invasive disease in South Africa. Mothibeli KM, du Plessis M, von Gottberg A, de Gouveia L, Adrian P, Madhi SA, Klugman KP; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa (GERMS-SA). (2010). J Clin Microbiol DOI: 10.1128/JCM.01011-09

Nosocomial outbreak of novel arenavirus infection, southern Africa. Paweska JT, Sewlall NH, Ksiazek TG, Blumberg LH, Hale MJ, Lipkin WI, Weyer J, Nichol ST, Rollin PE, McMullan LK, Paddock CD, Briese T, Mnyaluza J, Dinh TH, Mukonka V, Ching P, Duse A, Richards G, de Jong G, Cohen C, Ikalafeng B, Mugero C, Asomugha C, Malotle MM, Nteo DM, Misiani E, Swanepoel R, Zaki SR; Outbreak Control and Investigation Teams. (2009). Emerg Infect Dis DOI: 10.3201/eid1510.090211

Molecular characterization of emerging non-levofloxacin-susceptible pneumococci isolated from children in South Africa. Wolter N, du Plessis M, von Gottberg A, de Gouveia L, Klugman KP. (2009). J Clin Microbiol DOI: 10.1128/JCM.02280-08

Serotype 6C is associated with penicillin-susceptible meningeal infections in human immunodeficiency virus (HIV)-infected adults among invasive pneumococcal isolates previously identified as serotype 6A in South Africa. du Plessis M, von Gottberg A, Madhi SA, Hattingh O, de Gouveia L, Klugman KP; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa (GERMS-SA). (2008). Int J Antimicrob Agents DOI: 10.1016/j.ijantimicag.2008.06.002

Neisseria meningitidis intermediately resistant to penicillin and causing invasive disease in South Africa in 2001 to 2005. du Plessis M, von Gottberg A, Cohen C, de Gouveia L, Klugman KP; Group for Enteric Respiratory and Meningeal Disease Surveillance in South Africa (GERMS-SA). (2008). J Clin Microbiol DOI: 10.1128/JCM.00221-08

Molecular basis and clonal nature of increasing pneumococcal macrolide resistance in South Africa, 2000-2005. Wolter N, von Gottberg A, du Plessis M, de Gouveia L, Klugman KP; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa. (2008). Int J Antimicrob Agents DOI: 10.1016/j.ijantimicag.2008.01.013

Emergence of levofloxacin-non-susceptible Streptococcus pneumoniae and treatment for multidrug-resistant tuberculosis in children in South Africa: a cohort observational surveillance study. von Gottberg A, Klugman KP, Cohen C, Wolter N, de Gouveia L, du Plessis M, Mpembe R, Quan V, Whitelaw A, Hoffmann R, Govender N, Meiring S, Smith AM, Schrag S; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa (GERMS-SA). (2008). Lancet DOI: 10.1016/S0140-6736(08)60350-5

Emergence of endemic serogroup W135 meningococcal disease associated with a high mortality rate in South Africa. von Gottberg A, du Plessis M, Cohen C, Prentice E, Schrag S, de Gouveia L, Coulson G, de Jong G, Klugman K; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa. (2008). Clin Infect Dis DOI: 10.1086/525260

Telithromycin resistance in Streptococcus pneumoniae is conferred by a deletion in the leader sequence of erm(B) that increases rRNA methylation. Wolter N, Smith AM, Farrell DJ, Northwood JB, Douthwaite S, Klugman KP. (2008). Antimicrob Agents Chemother DOI: 10.1128/AAC.01074-07

Epidemiology and molecular virus characterization of reemerging rabies, South Africa. Cohen C, Sartorius B, Sabeta C, Zulu G, Paweska J, Mogoswane M, Sutton C, Nel LH, Swanepoel R, Leman PA, Grobbelaar AA, Dyason E, Blumberg L. (2007). Emerg Infect Dis DOI: 10.3201/eid1312.070836

High-level telithromycin resistance in a clinical isolate of Streptococcus pneumoniae. Wolter N, Smith AM, Low DE, Klugman KP. (2007). Antimicrob Agents Chemother DOI: 10.1128/AAC.01153-06

Meningococcal disease in South Africa, 1999-2002. Coulson GB, von Gottberg A, du Plessis M, Smith AM, de Gouveia L, Klugman KP; Group for Enteric, Respiratory and Meningeal Disease Surveillance in South Africa. (2007). Emerg Infect Dis DOI: 10.3201/eid1302.051553

Vaccine effectiveness estimates, 2004-2005 mumps outbreak, England. Cohen C, White JM, Savage EJ, Glynn JR, Choi Y, Andrews N, Brown D, Ramsay ME. (2007). Emerg Infect Dis DOI: 10.3201/eid1301.060649

Prevalence of DHPS polymorphisms associated with sulfa resistance in South African Pneumocystis jirovecii strains. Dini L, Du Plessis M, Wong M, Karstaedt A, Fernandez V, Frean J. (2006). J Eukaryot Microbiol DOI: 10.1111/j.1550-7408.2006.00193.x

Heterogeneous macrolide resistance and gene conversion in the pneumococcus. Wolter N, Smith AM, Farrell DJ, Klugman KP. (2006). Antimicrob Agents Chemother DOI: 10.1128/AAC.50.1.359-361.2006

Novel mechanism of resistance to oxazolidinones, macrolides, and chloramphenicol in ribosomal protein L4 of the pneumococcus. Wolter N, Smith AM, Farrell DJ, Schaffner W, Moore M, Whitney CG, Jorgensen JH, Klugman KP. (2005). Antimicrob Agents Chemother DOI: 10.1128/AAC.49.8.3554-3557.2005

Emergence of fluoroquinolone-resistant Streptococcus pneumoniae in a South African child in a tuberculosis treatment facility. von Gottberg A, Ludewick H, Bamber S, Govind C, Sturm AW, Klugman KP. (2003). Pediatr Infect Dis J DOI: 10.1097/01.inf.0000095430.29265.7f