Publications

To download pdf of the GERMS-SA Annual Report-2016 click here.
LINK is the newsletter for The GERMS-SA surveillance network: click here.

GERMS-SA Publications 2003 – 2016

Peer-reviewed Publications

  1. Cole DC, Govender NP, Chakrabarti A, Sacarlal J, Denning DW. Improving fungal disease identification and management – combined health systems and public health approaches are needed. Lancet Infect Dis 2017. Jul 31. pii: S1473-3099(17)30308-0. doi: 10.1016/S1473-3099(17)30308-0.
  1. Rajasingham R, Smith R, Park BJ, Jarvis JN, Govender NP, Chiller TM, Denning DW, Loyse A, Boulware DR. Global burden of disease of HIV-associated cryptococcal meningitis: An updated analysis. Lancet Infect Dis. 2017. Aug;17(8):873-881. doi: 10.1016/S1473-3099(17)30243-8.
  1. Chen Y, Farrer RA, Giamberardino C, Sakthikumar S, Jones A, Yang T, Tenor JL, Wagih O, Van Wyk M, Govender NP, Mitchell TG, Litvintseva AP, Cuomo CA, Perfect JR. Microevolution of Serial Clinical Isolates of Cryptococcus neoformans var. grubii and C. gattii. MBio. 2017 Mar 7;8(2). pii: e00166-17. doi: 10.1128/mBio.00166-17.
  1. Perovic O, Singh-Moodley A, Govender NP, Kularatne R, Whitelaw A, Chibabhai V, Naicker P, Mbelle N, Lekalakala R, Quan V, Samuel C, van Schalkwyk E for GERMS-SA. Small proportion of community-associated methicillin-resistant Staphylococcus aureus bacteraemia, as compared to healthcare-associated cases, in two South African provinces. Eur J Clin Microbiol Infect Dis 2017. In press
  1. Molloy SF, Chiller T, Greene G, Govender NP, Kanyama C, Mfinanga S, Boulware D, Bury J, Dromer F, Denning D, Day J, Mapoure YN, Stone N, Bicanic T, Jarvis J, Lortholary O, Harrison T, Jaffar S, Loyse A. Cryptococcal meningitis: a neglected NTD? PLoS Negl Trop Dis. 2017. Jun 29;11(6):e0005575. doi: 10.1371/journal.pntd.0005575. eCollection 2017 Jun.
  1. Espinel-Ingroff A, Arendrup M, Cantón E, Cordoba S, Dannaoui E, García-Rodríguez J, González G, Govender N, Martín-Mazuelos E, Lackner M, Lass-Flörl C, Linares-Sicilia M, Rodriguez-Iglesias M, Pelaez T, Shields R, Garcia-Effron G, Guinea J, Sanguinetti M, and Turnidge J. A multi-center study of method-dependent epidemiological cutoff values (ECVs) for resistance detection in Candida spp. and Aspergillus spp. to amphotericin B and echinocandins for the Etest agar diffusion method. Antimicrob. Agents Chemother. 2016. Dec 27;61(1). pii: e01792-16. doi: 10.1128/AAC.01792-16.
  1. 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. The epidemiology of meningitis among adults in a South African province with a high HIV prevalence, 2009-2012. PLoS One 2016. Sep 26;11(9):e0163036.
  1. Du Plessis D, et al. Laboratory-based surveillance for Pneumocystis pneumonia in South Africa, 2006 through 2010. S Afr J Infect Dis 2016; 1(1):1-6.
  1. Susan Meiring, Gregory Hussey, Prakash Jeena, Salim Parker, Anne von Gottberg (2017) Recommendations for the use of meningococcal vaccines in South Africa, Southern African Journal of Infectious Diseases, 32:3, 82-86, DOI:10.1080/23120053.2017.1359939
  1. von Mollendorf C, Tempia S, von Gottberg A, Meiring S, Quan V, Feldman C, Cloete J, Madhi SA, O’Brien KL, Klugman KP, Whitney C, Cohen C. 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. PLoS One. 2017 Jul 3;12(7): e0179905. doi: 10.1371/journal.pone.0179905. eCollection 2017
  1. 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. 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. Clin Infect Dis. 2014 Sep

15;59(6):808-18. doi: 10.1093/cid/ciu431.

  1. 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). Emergence of levofloxacin-non-susceptible Streptococcus

pneumoniae and treatment for multidrug-resistant tuberculosis in children in

South Africa: a cohort observational surveillance study. Lancet. 2008 Mar

29;371(9618):1108-13. doi: 10.1016/S0140-6736(08)60350-5.

  1. Smith AM, Bosco KJ, Nicol MP, Kleyhans J, McCulloch M, Duze ST, Ismail A, Allam M, Tau NP, Keddy KH, Genome Sequence for Shiga Toxin-producing Escherichia coli O26:H11, associated with a cluster of haemolytic-uremic syndrome cases in South Africa, 2017. Genome Announc. 5(38). doi: 10.1128/genomeA.00989-17.
  1. Smith AM, Smouse SL, Tau NP, Bamford C, Moodley VM, Jacobs C, McCarthy KM, Lourens A, Keddy KH, GERMS-SA Surveillance Network. 2017. Laboratory-acquired infections of Salmonella enterica serotype Typhi in South Africa: phenotypic and genotypic analysis of isolates. BMC Infectious Diseases 17:656. doi: 10.1186/s12879-017-2757-2.
  1. Muvhali M, Smith AM, Rakgantso AM, Keddy KH, GERMS-SA Surveillance Network. 2017. Investigation of Salmonella Enteritidis outbreaks in South Africa using multiple-locus variable-number tandem-repeats analysis. BMC Infectious Diseases 17:661 doi: 10.1186/s12879-017-2751-8.
  1. Tau N, Smith AM, Wain J, Tarupiwa A, Coulibaly KJ, Keddy KH, GERMS-SA Surveillance Network. 2017. Development and evaluation of a multiple-locus variable-number tandem-repeats analysis assay for subtyping Salmonella Typhi strains from Sub-Saharan Africa. Journal of Medical Microbiology 66:937-945. doi: 10.1099/jmm.0.000526. Epub 2017 Jul 19.
  1. Keddy KH, Sooka A, Smith AM, Musekiwa A, Tau N, Klugman KP, Angulo FJ for GERMS-SA. Typhoid fever in South Africa in an endemic HIV setting. PLOS One. (2016) Oct 25;11(10): e0164939. doi: 10.1371/journal.pone.0164939.
  1. Keddy KH, Takuva S, Musekiwa A, Puren AJ, Sooka A, Karstaedt A, Klugman KP, Angulo FJ. An association between decreasing incidence of invasive non-typhoidal salmonellosis and increased use of antiretroviral therapy, Gauteng Province, South Africa, 2003 – 2013. PLOS One: PLoS One. (2017) Mar 6;12(3): e0173091. doi: 10.1371/journal.pone.0173091.
  1. Keddy KH, Musekiwa A, Sooka A, Karstaedt A, Nana T, Seetharam S, Nchabaleng M, Lekalakala R, Angulo FJ, Klugman KP, for GERMS-SA. Clinical and microbiological features of invasive nontyphoidal Salmonella associated with HIV-infected patients, Gauteng Province, South Africa. Medicine (Baltimore). (2017) Mar;96(13): e6448. doi: 10.1097/MD.0000000000006448.

20Ashika Singh-Moodley, Olga Perovic. Antimicrobial susceptibility testing in predicting the presence of carbapenemase genes in Enterobacteriaceae in South Africa. BMC Infectious Diseases (2016) 16:536 DOI 10.1186/s12879-016-1858-7

  1. Perovic, E Britz, V Chetty, A Singh-Moodley. Molecular detection of carbapenemase-producing genes in referral Enterobacteriaceae in South Africa: A short report. SAMJ October 2016, Vol. 106, No. 10; 975-77

22. Olga Perovic, Constance Schultsz. Stepwise approach for implementation of antimicrobial resistance surveillance in Africa. 2016 African Journal of Laboratory Medicine ISSN: (Online) 2225-2010, (Print) 2225-2002

  1. Perovic, A. Singh-Moodley, N. P. Govender, R. Kularatne, A. Whitelaw, V. Chibabhai, P. Naicker, N. Mbelle, R. Lekalakala, V. Quan, C. Samuel, E.Van Schalkwyk for GERMS-SA. A small proportion of community-associated methicillin-resistant Staphylococcus aureus bacteraemia, compared to healthcare-associated cases, in two South African provinces. Eur J Clin Microbiol Infect Dis. DOI 10.1007/s10096-017-3096-3, 28 September 2017

24. Smith AM, Bosco KJ, Nicol MP, Kleyhans J, McCulloch M, Duze ST, Ismail A, Allam M, Tau NP, Keddy KH, Genome Sequence for Shiga Toxin-producing Escherichia coli O26:H11, associated with a cluster of haemolytic-uremic syndrome cases in South Africa, 2017. Genome Announc. 5(38). doi: 10.1128/genomeA.00989-17.

  1. Smith AM, Smouse SL, Tau NP, Bamford C, Moodley VM, Jacobs C, McCarthy KM, Lourens A, Keddy KH, GERMS-SA Surveillance Network. 2017. Laboratory-acquired infections of Salmonella enterica serotype Typhi in South Africa: phenotypic and genotypic analysis of isolates. BMC Infectious Diseases 17:656. doi: 10.1186/s12879-017-2757-2.
  1. Muvhali M, Smith AM, Rakgantso AM, Keddy KH, GERMS-SA Surveillance Network. 2017. Investigation of Salmonella Enteritidis outbreaks in South Africa using multiple-locus variable-number tandem-repeats analysis. BMC Infectious Diseases 17:661 doi: 10.1186/s12879-017-2751-8.
  1. Tau N, Smith AM, Wain J, Tarupiwa A, Coulibaly KJ, Keddy KH, GERMS-SA Surveillance Network. 2017. Development and evaluation of a multiple-locus variable-number tandem-repeats analysis assay for subtyping Salmonella Typhi strains from Sub-Saharan Africa. Journal of Medical Microbiology 66:937-945. doi: 10.1099/jmm.0.000526. Epub 2017 Jul 19.
  1. Millman AJ, Greenbaum A, Walaza S, Cohen AL et al. Development of a respiratory severity score for hospitalized adults in a high HIV-prevalence setting- South Africa, 2010-2011. BMC Pulmonary Medicine (2017) 17:28. Doi 10.1186/s12890-017-0368-8.
  1. Davishian M, van den Heuvel ER, Bissielo A, Castilla J, Cohen C et al. Effectiveness of seasonal influenza vaccination in community-dwelling elderly people: an individual participant data meta-analysis of test-negative design case-control studies. Lancet Respr Med 2017.http.//dx.doi.org/10/1016/S2213-2600(17)30043-7.
  1. Borrow R, Alarcón J, Caugant, DA, Christensen H, Debbag R et al. The global Meningococcal Initiative: global epidemiology, the impact of vaccines on meningococcal disease and the importance of herd protection. Expert Review of Vaccines: 1744-8395.
  1. Mazur NI, Bont L, Cohen C, von Gottberg A et al. Severity of respiratory syncytial virus lower respiratory tract infection with viral coinfection in HIV-uninfected children. Clinical Infectious Diseases 2017:64 (15 February)
  1. Cohen C, von Mollendorf C, de Gouveia L, Lengan S, Meiring S, Quan V et al. Effectiveness of the 13-valent pneumococcal conjugate vaccine against invasive pneumococcal disease in South African children: a case-control study. The Lancet, Vol 5. March 2017 e359-69. http.//dx.doi.org/10.1016/S2214-109X(17)30043-8.
  1. Ganesh K, Allam M, Wolter N, Bratcher HB, Harrison OB, Lucidame J, Borrow R, de Gouveia L, Meiring S, Birkhead M, Maiden MCJ, von Gottberg A, du Plessis M. Molecular characterization of invasive capsule null Neisseria meningitides in South Africa. BMC Microbiology (2017) 17:40. DOI 10.1186/s12866-017-0942-5.
  1. Tempia S, Walaza S, Moyes J, Cohen AL, von Mollendorf C et al. Attributable fraction of influenza virus detection to mild and severe respiratory illnesses in HIV-infected and HIV-uninfected patients, South Africa, 2012-2016. Emerging Infectious Diseases Vol 23 No 7, July 2017;1124-1132.
  1. Boyles TH, Brink A, Calligaro GL, Cohen C et al. South African guideline for the management of community-acquired pneumonia in adults. J.Toracid Dis 2017;9(6):1469-1502.
  1. McAnerney JM, Walaza S, Tempia S, Blumberg. Estimating vaccine effectiveness in preventing laboratory-confirmed influenza in outpatient settings in South Africa, 2015. Influenza Other Respi Viruses 2017; 11:177-181. DOI. 10.1111/irv.12436.
  1. Moyes J, Walaza S, Pretorius M, Groome M, von Gottberg A, Wolter N et al. Respiratory syncytial virus in adults with severe acute respiratory illness in a high HIV prevalence setting. Journal of Infection (2017) xx, 1-10. http:/0dx.doi.org/10.1016/j.jinf.2017.06.007.
  1. Tempia S, Walaza S, Moyes J, Cohen AL, von Mollendorf C et al. Risk factors for influenza-associated severe acute respiratory illness hospitalization in South Africa, 2012-2015.Open Forum Infectious Diseases.2017. DOI: 10.1093/ofid/ofw262.
  1. Abadom TR, Smith AD, Tempia S, Madhi S, Cohen C, Cohen AL. Risk factors associated with hospitalisation for influenza-associated severe acute respiratory illness in South Africa: A case-population study. Vaccine 34 (2016) 5649-5655. http://dx.doi.org/10.1016/j.vaccine.2016.09.011.
  1. Duque J, Gag S, Clark D, Muller M, Kuwane B, Cohen C, Walaza S et al. Knowledge, attitudes and practices of South African healthcare workers regarding the prevention and treatment of influenza among HIV-infected individuals.

PLOS ONE|https://doi.org./10.1371/journal.pone.0179905 July 3 2017 https://doi.org/10.1371/journal.pone.0173983 March 16 2017:1/10

  1. Darvishian M, van den Heuvel ER. Bissielo A, Castilla J, Cohen C et al. Effectiveness of seasonal influenza vaccination in community-dwelling elderly people: an individual participant data meta-analysis of test-negative design case-control studies. Lancet Respir Med 2017; 5:200-11.
  1. Von Mollendorf C, Tempia S, von Gottberg A, Meiring S et al. 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. PLOS ONE|https://doi.org/10.1371/journal.pone.0179905 July 3, 2017:1/19.
  1. Nzenze SA, Madhi SA, Shiri T, Klugman KP, de Gouveia L, Moore DP, Karstaedt AS, TempiaS, Nunes MC, von Gottberg A. Imputing the direct and indirect effectiveness of childhood pneumococcal conjugate vaccine against invasive pneumococcal disease by surveying temporal changes in nasopharyngeal pneumococcal colonization. American Journal of Epidemiology 2017;186(4):435-444. DOI: 10.1093/aje/kwx048.
  1. Page NA, GroomeMJ, Nadan S, Netshikweta R, Keddy KH, Poonsamy B, Moyes J, Walaza S, et al. Norovirus epidemiology in South African children <5 years hospitalised for diarrhoeal illness between 2009 and 2013. Epidemiol. Infect. (2017), 145, 1942-1952. Doi: 10.1017/S0950268817000668.
  1. Hellferscee O, Tempia S, Walaza S, Variava E et al. Enterovirus genotypes among patients with severe acute respiratory illness, influenza-like illness and asymptomatic individuals in South Africa, 2012-2014.J Med Virol. 2017;1-9.
  1. Walaza S, Tempia S, Dreyer A, Dawood H et al. The burden and clinical presentation of pulmonary tuberculosis in adults with severe respiratory illness in a high human immunodeficiency virus prevalence setting, 2012-2014. Open Forum Infectious Diseases. DOI: 10.1093/ofid/ofx116.
  1. Paweska JT, Jansen van Vuren P, Meier GH, le Roux C, Conteh OS, Kemp A, Fourie C et al. South African Ebola diagnostic response in Sierra Leone: A modular high biosafety field laboratory. PLOS | Neglected Tropical Diseases|https:doi.org/10.1371/journal.pntd.0005665 June 19, 2017: 1/23.
  1. Moyes J, Walaza S, Preotrius, M, Groome M, von Gottberg A et al. Respiratory syncytial virus in adults with severe acute respiratory illness in a high HIV prevalence setting. Journal of Infection (2017) 75,346-355. http://dx.doi.org./10.1016/j.jnf.2017.06.007.
  1. Verani JR, Baqui AH, Broome CV, Cherian T, Cohen C et al. Case-control vaccine effectiveness studies: Preparation, design and enrolment of cases and controls. Vaccine 35 (2017) 3295-3302. http://dx.doi.org/10/1016/j.vaccine.2017.04.037.
  1. Verani JR, Baqui AH, Broome CV, Cherian T, Cohen C et al. Case –control vaccine effectiveness studies: Data collection, analysis and reporting results. Vaccine 35 (2017) 3303-3308. http://dx.doi.org/10/1016/j.vaccine.2017.04.035.
  1. Mahomed S, Archary M, Mutevedzi, Mahabeer Yl, Govender P, Ntshoe G, Kuhn W, Thomas, J, Olowolagba A, Blumberg L, McCarthy K, Mlisana K, du Plessis M, von Gottberg A, Moodley P. An isolated outbreak of diphtheria in South Africa, 2015. Epidemiol. Infect. (2017), 145, 2100-2108. Doi.10.1017/S0950268817000851.
  1. Du Plessis M, Wolter N, Allam M, de Gouveia L et al. Molecular characterization of Corynebacterium diphtheria outbreak isolates, South Africa, March-June 2015. Emerging Infectious Diseases Vol 23, No 8, August 2017; 1308-1315. DOI:https://doi.org/1032201.eid2308.162039.
  1. Seleka M, Treurnicht FK, Tempia S, Hellferscee O et al. Epidemiology of influenza B/Yamagata and B/Victoria lineages in South Africa, 2005-2014. PLOS ONE | https://doi.org/10.1371/journal.pone.0177655 May 25, 2017. 1/15.
  1. Hellferscee O, Treurnicht FK, Tempia S, Variava E et al. Enterovirus D68 and other enterovirus serotypes identified in South African patients with severe acute respiratory illness, 2009-2011. Influenza Other Respi Viruses 2017;1-9. DOI: 10.1111/irv.12444.
  1. Venter M, Treurnicht FK, Buys A, Tempia S et al. Risk of human infections with highly pathogenic H5N2 and low pathogenic H7N1 Avian Influenza strains during outbreaks in ostriches in South Africa. The Journal of Infectious Diseases 2017:216 (Supple 4) S512-S519. DOI: 10.1093/infdis/jix018.
  1. Fell Db, Azziz-Baumgartner E, Baker MG, Batra M, Beauté J, Beutels P, Bhat N, Bhutta ZA, Cohen C et al. Influenza epidemiology and immunization during pregnancy: Final report of a World Health Organization working group. Vaccine 35 (2017) 5738-5750. http://dx.doi.org/10.1016/j.vaccine.2017.08.037
  1. Nhantumbo AA, Weldegebriel G, Katsande R, de Gouveia L et al. Surveillance of impact of PCV-10 vaccine on pneumococcal meningitis in Mozambique, 2013-2015. PLOS ONE|https://doi.org/10.1371/journal.pone.0177746 June 12, 2017: 1-12.
  1. Borrow R, Caugant DA, Ceyhan M, Christensen H, Dinleyici EC, FindlowJ, GlennieL, von Gottberg A et al. Meningococcal disease in the Middle East and Africa” Findings and updates from the Global Meningococcal Initiative. Journal of Infection (2017) 75,1-11. http://dx.doi.org/10.1016/jinf.2017.04.007.
  1. Cornick JE, Bishop OT, Yalcin F, Kiran AM, Kumwenda B, Chaguza C, Govindpershad S et al. The global distribution and diversity of protein vaccine candidate antigens in the highly virulent Streptococcus pneumoniae serotype 1. Vaccine 35 (2017) 972-980. http://dx.doi.org.10.1016/j.vaccine.2016.12.037.
  1. Millman AJ, Greenbaum A Walaza S, Cohen AL et al. Development of a respiratory severity score for hospitalized adults in a high HIV-prevalence setting – South Africa, 2010-2011. BMC Pulmonary Medicine (2017) 17:28. DOI 10.1186/s12890-017-0368-8.
  1. Scheltema NM, Gentile A, Lucion F, Nokes DJ, Munywoki PK, Madhi SA, Groome MJ, Cohen C et al. Global respiratory syncytial virus-associated mortality in young children (RSV GOLD): a retrospective case series. Lancet Glob Health 2017;5:e9984-91.

DOI: 10.1016/S2214-109X(17)30344-3

  1. Venter M, Treurnicht FK, Buys A, Tempia S et al. Risk of human infections with highly pathogenic H5N2 and low pathogenic H7N1 avian influenza strains during outbreaks in ostriches in South Africa. The Journal of Infectious Diseases 2017:216 (Suppl 4). DOIU: 10.1093/infdis/jix018.