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Research Articles (Medical Microbiology): Recent submissions

  • Genomic epidemiology of global carbapenemase-producing Escherichia coli, 2015–2017 
    Peirano, Gisele; Chen, Liang; Nobrega, Diego; Finn, Thomas J. (Centers for Disease Control and Prevention, 2022-05)
    We describe the global molecular epidemiology of 229 carbapenemase-producing Escherichia coli in 36 countries during 2015–2017. Common carbapenemases were oxacillinase (OXA) 181 (23%), New Delhi metallo-β-lactamase (NDM) ...
  • Case-fatality and sequelae following acute bacterial meningitis in South Africa, 2016 through 2020 
    Meiring, Susan; Cohen, Cheryl; De Gouveia, Linda; Du Plessis, Mignon; Quan, Vanessa; Kleynhans, Jackie; Menezes, Colin; Reubenson, Gary; Dawood, Halima; Nchabeleng, Maphoshane; Said, Mohamed; Mvelase, Nomonde; Mahabeer, Prasha; Chomba, Rispah; Lekalakala, Ruth; Nana, Trusha; Chibabhai, Vindana; Black, Marianne; Von Gottberg, Anne (Elsevier, 2022-09)
    OBJECTIVES : Providing country-specific estimates of case fatality and sequelae from bacterial meningitis (BM) is important to evaluate and monitor progress toward the World Health Organization's roadmap to “defeating ...
  • Outbreak and control of Achromobacter denitrificans at an academic hospital in Pretoria, South Africa 
    Said, Mohamed; Mitton, Barend; Skosana, Lebogang Busisiwe; Kopotsa, Katlego; Naidoo, Rashmika; Amutenya, Victoria (Cambridge University Press, 2023-01)
    OBJECTIVE : In this study, we sought to determine the source of an outbreak of Achromobacter denitrificans infections in patients at a tertiary-care academic hospital. DESIGN : Outbreak report study with intervention. The ...
  • Characteristics and outcomes of patients admitted to a tertiary academic hospital in Pretoria with HIV and severe pneumonia : a retrospective cohort study 
    Ueckermann, Veronica; Janse van Rensburg, Luricke; Pannell, N.; Ehlers, Marthie Magdaleen (BMC, 2022-06-15)
    BACKGROUND : Human immunodeficiency virus (HIV) contributes significantly to morbidity and mortality in South Africa. Pneumonia and opportunistic infections remain a major cause for hospital admission among those living ...
  • Importance of Candida infection and fluconazole resistance in women with vaginal discharge syndrome in Namibia 
    Dunaiski, Cara M.; Kock, Martha Magdalena; Jung, Hyunsul; Peters, Remco P.H. (BMC, 2022-08-15)
    BACKGROUND : Vaginal discharge syndrome (VDS) is a common condition. Clinical management targets sexually transmitted infections (STIs) and bacterial vaginosis (BV); there is limited focus on Candida infection as cause ...
  • Stigma in the health clinic and implications for PrEP access and use by adolescent girls and young women : conflicting perspectives in South Africa 
    Nyblade, Laura; Ndirangu, Jacqueline W.; Speizer, Ilene S.; Browne, Felicia A.; Bonner, Courtney Peasant; Kline, Tracy L.; Ahmed, Khatija; Howard, Brittni N.; Cox, Erin N.; Rinderle, Abigail; Wechsberg, Wendee M. (BMC, 2022-10-14)
    BACKGROUND : Globally, an urgent need exists to expand access to HIV prevention among adolescent girls and young women (AGYW), but the need is particularly acute in sub-Saharan Africa. Oral pre-exposure prophylaxis (PrEP) ...
  • PulseNet International survey on the implementation of whole genome sequencing in low and middle-income countries for foodborne disease surveillance 
    Davedow, Taylor; Carleton, Heather; Kubota, Kristy; Palm, Daniel; Schroeder, Morgan; Gerner-Smidt, Peter; Al-Jardani, Amina; Chinen, Isabel; Kam, Kai Man; Smith, Anthony Marius; Nadon, Celine (Mary Ann Liebert, 2022-05)
    PulseNet International (PNI) is a global network of 88 countries who work together through their regional and national public health laboratories to track foodborne disease around the world. The vision of PNI is to implement ...
  • Genital inflammatory status and the innate immune response to contraceptive initiation 
    Radzey, Nina; Harryparsad, Rushil; Meyer, Bahiah; Chen, Pai Lien; Gao, Xiaoming; Morrison, Charles; Taku, Ongeziwe; Williamson, Anna-Lise; Mehou-Loko, Celia; Lefebvre d’Hellencourt, Florence; Buck, Gregory; Smit, Jennifer; Strauss, Jerome; Nanda, Kavita; Ahmed, Khatija; Beksinska, Mags; Serrano, Myrna; Bailey, Veronique; Masson, Lindi; Deese, Jennifer (Wiley, 2022-08)
    PROBLEM : Data on the effects of contraceptives on female genital tract (FGT) immune mediators are inconsistent, possibly in part due to pre-existing conditions that influence immune mediator changes in response to ...
  • The importance of Escherichia coli clonal complex 10 and ST131 among Tanzanian patients on antimicrobial resistance surveillance programs 
    Seni, Jeremiah; Peirano, Gisele; Mshana, Stephen E.; Pitout, Johann D.D.; DeVinney, Rebekah (Springer, 2023)
    Please read abstract in the article.
  • Population-based epidemiology of Escherichia coli ST1193 causing blood stream infections in a centralized Canadian region 
    Peirano, Gisele; Matsumara, Yasufumi; Nobrega, Diego; DeVinney, Rebekah; Pitout, Johann D.D. (Springer, 2023)
    Please read abstract in the article.
  • Klebsiella pneumoniae ST147 : and then there were three carbapenemases 
    Mataseje, L.F.; Chen, L.; Peirano, Gisele; Fakharuddin, K.; Kreiswith, B.; Mulvey, M.; Pitout, Johann D.D. (Springer, 2022-12)
    Please read abstract in the article.
  • Sexually transmitted infection screening to prevent adverse birth and newborn outcomes: study protocol for a randomized‑controlled hybrid‑effectiveness trial 
    Medina‑Marino, Andrew; Cleary, Susan; Muzny, Christina A.; Taylor, Christopher; Tamhane, Ashutosh; Ngwepe, Phuti; Bezuidenhout, Charl; Facente, Shelley N.; Mlisana, Koleka; Peters, Remco P.H.; Klausner, Jeffrey D (BMC, 2022-05)
    BACKGROUND : Sexually transmitted infections (STIs) during pregnancy are associated with adverse birth outcomes, including preterm birth, low birth weight, perinatal death, and congenital infections such as increased ...
  • Assessment of the efficacy of clofazimine alone and in combination with primary agents against Mycobacterium tuberculosis in vitro 
    Mashele, Sizeka Aubrey; Steel, Helen C.; Matjokotja, Maborwa T.; Rasehlo, S.S.M. (Sipho); Anderson, Ronald; Cholo, Moloko C. (Elsevier, 2022-06)
    OBJECTIVES : The chemotherapeutic regimens of patients with drug-susceptible (DS)- tuberculosis (TB) comprise four primary anti-TB drugs: rifampicin (RMP), isoniazid (INH), ethambutol (EMB) and pyrazinamide (PZA), administered ...
  • Exploring a community’s understanding of HIV vaccine‑induced seropositivity in a South African research setting 
    Malahleha, Mookho; Dilraj, A.; Jean, J.; Morar, N.S.; Dietrich, J.J.; Ross, M.; Mbatsane, E.; Keefer, M.C.; Ahmedm, K. (Health and Medical Publishing Group, 2022-01)
    BACKGROUND. The high HIV prevalence and incidence in South Africa makes it suitable for recruitment of participants for large-scale HIV preventive vaccine trials. However, fear of vaccine-induced seropositivity (VISP) may ...
  • The lung microbiome in HIV‑positive patients with active pulmonary tuberculosis 
    Ueckermann, Veronica; Lebre, Pedro H.; Geldenhuys, Janri; Hoosien, Ebrahim; Cowan, Don A.; Janse van Rensburg, Luricke; Ehlers, Marthie Magdaleen (Nature Research, 2022-05-28)
    Tuberculosis poses one of the greatest infectious disease threats of our time, especially when associated with human immunodeficiency virus (HIV) infection. Very little data is available on the lung microbiome in pulmonary ...
  • Molecular screening of clinical multidrug-resistant gram-negative bacteria shows endemicity of carbapenemases, coexistence of multiple carbapenemases, and rarity of mcr in South Africa 
    Mmatli, Masego; Leshaba, Tumisho Mmatumelo Seipei; Skosana, Lebogang Busisiwe; Mbelle, Nontombi Marylucy; Osei Sekyere, John (Mary Ann Liebert, 2022-11)
    Please read abstract in the article.
  • Genetic variation in the MBL2 gene is associated with Chlamydia trachomatis infection and host humoral response to Chlamydia trachomatis infection 
    Verweij, Stephan P.; Peters, Remco P.H.; Catsburg, Arnold; De Vries, Henry J.C.; Ouburg, Sander; Morre, Servaas A. (MDPI, 2022-08-18)
    This study aims to assess the potential association of MBL2 gene single nucleotide polymorphisms (SNPs) to Chlamydia trachomatis infection. We analysed a selected sample of 492 DNA and serum specimens from Dutch Caucasian ...
  • Predicting the environmental suitability for onchocerciasis in Africa as an aid to elimination planning 
    Ahmadpour, Ehsan; Beshir Ahmed, Muktar; Akalu, Temesgen Yihunie; Al- Aly, Ziyad; Alanezi, Fahad Mashhour; Alanzi, Turki M.; Alipour, Vahid; Andrei, Catalina Liliana; Ansari, Fereshteh; Ansha, Mustafa Geleto; Anvari, Davood; Appiah, Seth Christopher Yaw; Arabloo, Jalal; Arnold, Benjamin F.; Ausloos, Marcel; Ayanore, Martin Amogre; Baig, Atif Amin; Banach, Maciej; Barac, Aleksandra; Barnighausen, Till Winfried; Bayati, Mohsen; Bhattacharyya, Krittika; Bhutta, Zulfiqar A.; Bibi, Sadia; Bijani, Ali; Bohlouli, Somayeh; Bohluli, Mahdi; Brady, Oliver J.; Bragazzi, Nicola Luigi; Butt, Zahid A.; Carvalho, Felix; Chatterjee, Souranshu; Chattu, Vijay Kumar; Chattu, Soosanna Kumary; Cormier, Natalie Maria; Dahlawi, Saad M.A.; Damiani, Giovanni; Daoud, Farah; Darwesh, Aso Mohammad; Daryani, Ahmad; Deribe, Kebede; Dharmaratne, Samath Dhamminda; Diaz, Daniel; Do, Hoa Thi; Zaki, Maysaa El Sayed; Tantawi, Maha El; Elemineh, Demelash Abewa; Faraj, Anwar; Harandi, Majid Fasihi; Fatahi, Yousef; Feigin, Valery L.; Fernandes, Eduarda; Foigt, Nataliya A.; Foroutan, Masoud; Franklin, Richard Charles; Gubari, Mohammed Ibrahim Mohialdeen; Guido, Davide; Guo, Yuming; Haj-Mirzaian, Arvin; Abdullah, Kanaan Hamagharib; Hamidi, Samer; Herteliu, Claudiu; De Hidru, Hagos Degefa; Higazi, Tarig B.; Hossain, Naznin; Hosseinzadeh, Mehdi; Househ, Mowafa; Ilesanmi, Olayinka Stephen; Ilic, Milena D.; Ilic, Irena M.; Iqbal, Usman; Irvani, Seyed Sina Naghibi; Jha, Ravi Prakash; Joukar, Farahnaz; Jozwiak, Jacek Jerzy; Kabir, Zubair; Kalankesh, Leila R.; Kalhor, Rohollah; Matin, Behzad Karami; Karimi, Salah Eddin; Kasaeian, Amir; Kavetskyy, Taras; Kayode, Gbenga A.; Karyani, Ali Kazemi; Kelbore, Abraham Getachew; Keramati, Maryam; Khalilov, Rovshan; Khan, Ejaz Ahmad; Khan, Md Nuruzzaman Nuruzzaman; Khatab, Khaled; Khater, Mona M.; Kianipour, Neda; Kibret, Kelemu Tilahun; Kim, Yun Jin; Kosen, Soewarta; Krohn, Kris J.; Kusuma, Dian; La Vecchia, Carlo; Lansingh, Charles; Lee, Paul H.; LeGrand, Kate E.; Li, Shanshan; Longbottom, Joshua; Abd El Razek, Hassan Magdy; Abd El Razek, Muhammed Magdy; Maleki, Afshin; Mamun, Abdullah A.; Manafi, Ali; Manafi, Navid; Mansournia, Mohammad Ali; Martins- Melo, Francisco Rogerlandio; Mazidi, Mohsen; McAlinden, Colm; Meharie, Birhanu Geta; Mendoza, Walter; Mengesha, Endalkachew Worku; Mengistu, Desalegn Tadese; Mereta, Seid Tiku; Mestrovic, Tomislav; Miller, Ted R.; Miri, Mohammad; Moghadaszadeh, Masoud; Mohammadian-Hafshejani, Abdollah; Mohammadpourhodki, Reza; Mohammed, Shafiu; Mohammed, Salahuddin; Moradi, Masoud; Moradzadeh, Rahmatollah; Moraga, Paula; Mosser, Jonathan F.; Naderi, Mehdi; Nagarajan, Ahamarshan Jayaraman; Naik, Gurudatta; Negoi, Ionut; Nguyen, Cuong Tat; Nguyen, Huong Lan Thi; Nguyen, Trang Huyen; Nikbakhsh, Rajan; Oancea, Bogdan; Olagunju, Tinuke O.; Olagunju, Andrew T.; Bali, Ahmed Omar; Onwujekwe, Obinna E.; Pana, Adrian; Pourjafar, Hadi; Rahim, Fakher; Rahman, Mohammad Hifz Ur; Rathi, Priya; Rawaf, Salman; Rawaf, David Laith; Rawassizadeh, Reza; Resnikoff, Serge; Reta, Melese Abate; Rezapour, Aziz; Rubagotti, Enrico; Rubino, Salvatore; Sadeghi, Ehsan; Saghafipour, Abedin; Sajadi, S. Mohammad (Public Library of Science, 2021-07-28)
    Recent evidence suggests that, in some foci, elimination of onchocerciasis from Africa may be feasible with mass drug administration (MDA) of ivermectin. To achieve continental elimination of transmission, mapping surveys ...
  • Southern African HIV Clinicians Society 2022 guideline for the management of sexually transmitted infections : moving towards best practice 
    Peters, Remco P.H.; Garret, Nigel; Chandiwana, Nomathemba; Kularatne, Ranmini; Brink, Adrian J.; Cohen, Karen; Cohen, Karen; Chidarikire, Thato; Wattrus, Camilla; Nel, Jeremy S.; Moosa, Mahomed Y.S.; Bekker, Linda‑Gail (AOSIS, 2022-09-27)
    Sexually transmitted infections (STIs) are among the most common acute conditions worldwide with sub-Saharan Africa ranking among the regions with the highest burdens globally. Adolescent girls and young women (AGYW), people ...
  • Evaluating the usefulness of the estimated glomerular filtration rate for determination of imipenem dosage in critically ill patients 
    Mitton, Barend; Paruk, Fathima; Gous, A.; Chausse, J.; Milne, M.; Becker, Piet J.; Said, Mohamed (South African Medical Association, 2022-09)
    BACKGROUND. Antibiotic dosing in critically ill patients is complicated by variations in the pharmacokinetics of antibiotics in this group. The dosing of imipenem/cilastatin is usually determined by severity of illness and ...