Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues
Meehan, Conor J., Goig, Galo A., Kohl, Thomas A., Verboven, Lennert, Dippenaar, Anzaan, Ezewudo, Matthew, Farhat, Maha R., Guthrie, Jennifer L., Laukens, Kris, Miotto, Paolo, Ofori-Anyinam, Boatema, Dreyer, Viola, Supply, Philip, Suresh, Anita, Utpatel, Christian, van Soolingen, Dick, Zhou, Yang, Ashton, Philip M., Brites, Daniela, Cabibbe, Andrea M., de Jong, Bouke C., de Vos, Margaretha, Menardo, Fabrizio, Gagneux, Sebastien, Gao, Qian, Heupink, Tim H., Liu, Qingyun, Loiseau, Chloé, Rigouts, Leen, Rodwell, Timothy C., Tagliani, Elisa, Walker, Timothy M., Warren, Robin M., Zhao, Yanlin, Zignol, Matteo, Schito, Marco, Gardy, Jennifer, Cirillo, Daniela M., Niemann, Stefan, Comas, Inaki, Van Rie, Annelies
Published in Nature reviews. Microbiology (01.09.2019)
Published in Nature reviews. Microbiology (01.09.2019)
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A New Phylogenetic Framework for the Animal-Adapted Mycobacterium tuberculosis Complex
Brites, Daniela, Loiseau, Chloé, Menardo, Fabrizio, Borrell, Sonia, Boniotti, Maria Beatrice, Warren, Robin, Dippenaar, Anzaan, Parsons, Sven David Charles, Beisel, Christian, Behr, Marcel A, Fyfe, Janet A, Coscolla, Mireia, Gagneux, Sebastien
Published in Frontiers in microbiology (27.11.2018)
Published in Frontiers in microbiology (27.11.2018)
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Journal Article
Rifampicin Resistant Tuberculosis in Lesotho: Diagnosis, Treatment Initiation and Outcomes
Katende, Bulemba, Esterhuizen, Tonya M., Dippenaar, Anzaan, Warren, Robin M.
Published in Scientific reports (05.02.2020)
Published in Scientific reports (05.02.2020)
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Journal Article
Bedaquiline Microheteroresistance after Cessation of Tuberculosis Treatment
de Vos, Margaretha, Ley, Serej D, Wiggins, Kristin B, Derendinger, Brigitta, Dippenaar, Anzaan, Grobbelaar, Melanie, Reuter, Anja, Dolby, Tania, Burns, Scott, Schito, Marco, Engelthaler, David M, Metcalfe, John, Theron, Grant, van Rie, Annelies, Posey, James, Warren, Rob, Cox, Helen
Published in The New England journal of medicine (30.05.2019)
Published in The New England journal of medicine (30.05.2019)
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Journal Article
Droplet based whole genome amplification for sequencing minute amounts of purified Mycobacterium tuberculosis DNA
Dippenaar, Anzaan, Ismail, Nabila, Heupink, Tim H., Grobbelaar, Melanie, Loubser, Johannes, Van Rie, Annelies, Warren, Robin M.
Published in Scientific reports (30.04.2024)
Published in Scientific reports (30.04.2024)
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Assessing the propensity of TB clinical isolates to form viable but non-replicating subpopulations
Coetzee, Julian L., Kriel, Nastassja L., Loubser, Johannes, Dippenaar, Anzaan, Sampson, Samantha L., Malherbe, Stephanus T., Mouton, Jacoba M.
Published in Scientific reports (12.11.2024)
Published in Scientific reports (12.11.2024)
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Comprehensive Characterization of the Attenuated Double Auxotroph Mycobacterium tuberculosis Δ leuD Δ panCD as an Alternative to H37Rv
Mouton, Jomien M, Heunis, Tiaan, Dippenaar, Anzaan, Gallant, James L, Kleynhans, Léanie, Sampson, Samantha L
Published in Frontiers in microbiology (20.08.2019)
Published in Frontiers in microbiology (20.08.2019)
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Journal Article
Bedaquiline resistance probability to guide treatment decision making for rifampicin-resistant tuberculosis: insights from a qualitative study
Tu, Pham Hien Trang, Anlay, Degefaye Zelalem, Dippenaar, Anzaan, Conceição, Emilyn Costa, Loos, Jasna, Van Rie, Annelies
Published in BMC infectious diseases (22.11.2022)
Published in BMC infectious diseases (22.11.2022)
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A landscape of genomic alterations at the root of a near-untreatable tuberculosis epidemic
Klopper, Marisa, Heupink, Tim Hermanus, Hill-Cawthorne, Grant, Streicher, Elizabeth Maria, Dippenaar, Anzaan, de Vos, Margaretha, Abdallah, Abdallah Musa, Limberis, Jason, Merker, Matthias, Burns, Scott, Niemann, Stefan, Dheda, Keertan, Posey, James, Pain, Arnab, Warren, Robin Mark
Published in BMC medicine (21.02.2020)
Published in BMC medicine (21.02.2020)
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Journal Article
Accuracy of whole genome sequencing versus phenotypic (MGIT) and commercial molecular tests for detection of drug-resistant Mycobacterium tuberculosis isolated from patients in Brazil and Mozambique
Feliciano, Cinara Silva, Namburete, Evangelina Inacio, Rodrigues Plaça, Jéssica, Peronni, Kamila, Dippenaar, Anzaan, Warren, Robin Mark, Silva, Wilson Araújo, Bollela, Valdes Roberto
Published in Tuberculosis (Edinburgh, Scotland) (01.05.2018)
Published in Tuberculosis (Edinburgh, Scotland) (01.05.2018)
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Journal Article
Microfluidic Capture of Mycobacterium tuberculosis from Clinical Samples for Culture-Free Whole-Genome Sequencing
Ismail, Nabila, Dippenaar, Anzaan, Morgan, George, Grobbelaar, Melanie, Wells, Felicia, Caffry, Jessica, Morais, Cristiana, Gizynski, Krzysztof, McGurk, David, Boada, Eduardo, Murton, Heather, Warren, Robin M, Van Rie, Annelies
Published in Microbiology spectrum (17.08.2023)
Published in Microbiology spectrum (17.08.2023)
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Journal Article
New insights on tuberculosis transmission dynamics and drug susceptibility profiles among the prison population in Southern Brazil based on whole-genome sequencing
Anselmo, Lívia Maria Pala, Gallo, Juliana Failde, Pinhata, Juliana Maira Watanabe, Peronni, Kamila Chagas, Silva Junior, Wilson Araújo da, Ruy, Patricia de Cássia, Conceição, Emilyn Costa, Dippenaar, Anzaan, Warren, Robin Mark, Monroe, Aline Aparecida, Oliveira, Rosangela Siqueira, Bollela, Valdes Roberto
Published in Revista da Sociedade Brasileira de Medicina Tropical (01.01.2023)
Published in Revista da Sociedade Brasileira de Medicina Tropical (01.01.2023)
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Journal Article
Review of Diagnostic Tests for Detection of Mycobacterium bovis Infection in South African Wildlife
Bernitz, Netanya, Kerr, Tanya J, Goosen, Wynand J, Chileshe, Josephine, Higgitt, Roxanne L, Roos, Eduard O, Meiring, Christina, Gumbo, Rachiel, de Waal, Candice, Clarke, Charlene, Smith, Katrin, Goldswain, Samantha, Sylvester, Taschnica T, Kleynhans, Léanie, Dippenaar, Anzaan, Buss, Peter E, Cooper, David V, Lyashchenko, Konstantin P, Warren, Robin M, van Helden, Paul D, Parsons, Sven D C, Miller, Michele A
Published in Frontiers in veterinary science (28.01.2021)
Published in Frontiers in veterinary science (28.01.2021)
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Journal Article
The Detection of Mutations and Genotyping of Drug-Resistant Mycobacterium tuberculosis Strains Isolated from Patients in the Rural Eastern Cape Province
Faye, Lindiwe M, Hosu, Mojisola C, Oostvogels, Selien, Dippenaar, Anzaan, Warren, Robin M, Sineke, Ncomeka, Vasaikar, Sandeep, Apalata, Teke
Published in Infectious disease reports (10.07.2023)
Published in Infectious disease reports (10.07.2023)
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Journal Article
Spatial Distribution of Drug-Resistant Mycobacterium tuberculosis Infections in Rural Eastern Cape Province of South Africa
Faye, Lindiwe M, Hosu, Mojisola C, Vasaikar, Sandeep, Dippenaar, Anzaan, Oostvogels, Selien, Warren, Rob M, Apalata, Teke
Published in Pathogens (Basel) (17.03.2023)
Published in Pathogens (Basel) (17.03.2023)
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Journal Article
Whole genome sequencing improves the discrimination between Mycobacterium bovis strains on the southern border of Kruger National Park, South Africa
Roos, Eduard O., Loubser, Johannes, Kerr, Tanya J., Dippenaar, Anzaan, Streicher, Elizma, Olea-Popelka, Francisco, Robbe-Austerman, Suelee, Stuber, Tod, Buss, Peter, de Klerk-Lorist, Lin-Mari, Warren, Robin M., van Helden, Paul D., Parsons, Sven D.C., Miller, Michele A.
Published in One health (01.12.2023)
Published in One health (01.12.2023)
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Journal Article
Fatal Tuberculosis in a Free-Ranging African Elephant and One Health Implications of Human Pathogens in Wildlife
Miller, Michele A, Buss, Peter, Roos, Eduard O, Hausler, Guy, Dippenaar, Anzaan, Mitchell, Emily, van Schalkwyk, Louis, Robbe-Austerman, Suelee, Waters, W Ray, Sikar-Gang, Alina, Lyashchenko, Konstantin P, Parsons, Sven D C, Warren, Robin, van Helden, Paul
Published in Frontiers in veterinary science (06.02.2019)
Published in Frontiers in veterinary science (06.02.2019)
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Journal Article
A Genome-Focused Investigation Reveals the Emergence of a Mycobacterium tuberculosis Strain Related to Multidrug-Resistant Tuberculosis in the Amazon Region of Brazil
Conceição, Emilyn Costa, Loubser, Johannes, Guimarães, Arthur Emil Dos Santos, Sharma, Abhinav, Rutaihwa, Liliana Kokusanilwa, Dippenaar, Anzaan, Salvato, Richard Steiner, de Paula Souza E Guimarães, Ricardo José, da Silva Lourenço, Maria Cristina, Barros, Wandyra Araújo, Cardoso, Ninarosa Calzavara, Warren, Robin Mark, Gagneux, Sebastien, Grinsztejn, Beatriz Gilda Jegerhorn, Suffys, Philip Noel, Lima, Karla Valéria Batista
Published in Microorganisms (Basel) (02.09.2024)
Published in Microorganisms (Basel) (02.09.2024)
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Potential contribution of HIV during first-line tuberculosis treatment to subsequent rifampicin-monoresistant tuberculosis and acquired tuberculosis drug resistance in South Africa: a retrospective molecular epidemiology study
Cox, Helen, Salaam-Dreyer, Zubeida, Goig, Galo A, Nicol, Mark P, Menardo, Fabrizio, Dippenaar, Anzaan, Mohr-Holland, Erika, Daniels, Johnny, Cudahy, Patrick G T, Borrell, Sonia, Reinhard, Miriam, Doetsch, Anna, Beisel, Christian, Reuter, Anja, Furin, Jennifer, Gagneux, Sebastien, Warren, Robin M
Published in The Lancet. Microbe (01.11.2021)
Published in The Lancet. Microbe (01.11.2021)
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