Evaluation of miniaturized Illumina DNA preparation protocols for SARS-CoV-2 whole genome sequencing von Pillay, Sureshnee, San, James Emmanuel, Tshiabuila, Derek, Naidoo, Yeshnee, Pillay, Yusasha, Maharaj, Akhil, Anyaneji, Ugochukwu J, Wilkinson, Eduan, Tegally, Houriiyah, Lessells, Richard J, Baxter, Cheryl, de Oliveira, Tulio, Giandhari, Jennifer

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Comparison of SARS-CoV-2 sequencing using the ONT GridION and the Illumina MiSeq von Tshiabuila, Derek, Giandhari, Jennifer, Pillay, Sureshnee, Ramphal, Upasana, Ramphal, Yajna, Maharaj, Arisha, Anyaneji, Ugochukwu Jacob, Naidoo, Yeshnee, Tegally, Houriiyah, San, Emmanuel James, Wilkinson, Eduan, Lessells, Richard J, de Oliveira, Tulio

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Emergence and phenotypic characterization of the global SARS-CoV-2 C.1.2 lineage von Scheepers, Cathrine, Everatt, Josie, Amoako, Daniel G., Tegally, Houriiyah, Wibmer, Constantinos Kurt, Mnguni, Anele, Ismail, Arshad, Mahlangu, Boitshoko, Lambson, Bronwen E., Martin, Darren P., Wilkinson, Eduan, San, James Emmanuel, Giandhari, Jennifer, Manamela, Nelia, Ntuli, Noxolo, Kgagudi, Prudence, Cele, Sandile, Richardson, Simone I., Pillay, Sureshnee, Mohale, Thabo, Ramphal, Upasana, Naidoo, Yeshnee, Khumalo, Zamantungwa T., Kwatra, Gaurav, Gray, Glenda, Bekker, Linda-Gail, Madhi, Shabir A., Baillie, Vicky, Van Voorhis, Wesley C., Treurnicht, Florette K., Venter, Marietjie, Mlisana, Koleka, Wolter, Nicole, Sigal, Alex, Williamson, Carolyn, Hsiao, Nei-yuan, Msomi, Nokukhanya, Maponga, Tongai, Preiser, Wolfgang, Makatini, Zinhle, Lessells, Richard, Moore, Penny L., de Oliveira, Tulio, von Gottberg, Anne, Bhiman, Jinal N.

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Rapid Replacement of SARS-CoV-2 Variants by Delta and Subsequent Arrival of Omicron, Uganda, 2021 von Bbosa, Nicholas, Ssemwanga, Deogratius, Namagembe, Hamidah, Kiiza, Ronald, Kiconco, Jocelyn, Kayiwa, John, Lutalo, Tom, Lutwama, Julius, Ssekagiri, Alfred, Ssewanyana, Isaac, Nabadda, Susan, Kyobe-Bbosa, Henry, Giandhari, Jennifer, Pillay, Sureshnee, Ramphal, Upasana, Ramphal, Yajna, Naidoo, Yeshnee, Tshiabuila, Derek, Tegally, Houriiyah, San, Emmanuel J, Wilkinson, Eduan, de Oliveira, Tulio, Kaleebu, Pontiano

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SARS-CoV-2 spike protein diversity at an intra-host level, among SARS-CoV-2 infected individuals in South Africa, 2020 to 2022 von Subramoney, Kathleen, Mtileni, Nkhensani, Davis, Ashlyn, Giandhari, Jennifer, Tegally, Houriiyah, Wilkinson, Eduan, Naidoo, Yeshnee, Ramphal, Yajna, Pillay, Sureshnee, Ramphal, Upasana, Simane, Andiswa, Reddy, Bhaveshan, Mashishi, Bonolo, Mbenenge, Nonhlanhla, de Oliveira, Tulio, Fielding, Burtram C, Treurnicht, Florette K

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Molecular Epidemiology of SARS-CoV-2 during Five COVID-19 Waves and the Significance of Low-Frequency Lineages von Subramoney, Kathleen, Mtileni, Nkhensani, Giandhari, Jennifer, Naidoo, Yeshnee, Ramphal, Yajna, Pillay, Sureshnee, Ramphal, Upasana, Maharaj, Akhil, Tshiabuila, Derek, Tegally, Houriiyah, Wilkinson, Eduan, de Oliveira, Tulio, Fielding, Burtram C, Treurnicht, Florette K

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Correction: Subramoney et al. Molecular Epidemiology of SARS-CoV-2 during Five COVID-19 Waves and the Significance of Low-Frequency Lineages. Viruses 2023, 15 , 1194 von Subramoney, Kathleen, Mtileni, Nkhensani, Giandhari, Jennifer, Naidoo, Yeshnee, Ramphal, Yajna, Pillay, Sureshnee, Ramphal, Upasana, Maharaj, Akhil, Tshiabuila, Derek, Tegally, Houriiyah, Wilkinson, Eduan, Oliveira, Tulio de, Fielding, Burtram C, Treurnicht, Florette K

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Prevalence of Vitamin D deficiency in a multiracial female population in KwaZulu-Natal province, South Africa von Naidoo, Yeshnee, Moodley, Jagidesa, Madurai, Lorna, Naicker, Thajasvarie

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Consequences of rpoB mutations missed by the GenoType MTBDRplus assay in a programmatic setting in South Africa von Mvelase, Nomonde R., Cele, Lindiwe P., Singh, Ravesh, Naidoo, Yeshnee, Giandhari, Jennifer, Wilkinson, Eduan, De Oliveira, Tulio, Swe Swe-Han, Khine, Mlisana, Koleka P.

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Genomic epidemiology of SARS-CoV-2 during the first four waves in Mozambique von Ismael, Nalia, van Wyk, Stephanie, Tegally, Houriiyah, Giandhari, Jennifer, San, James Emmanuel, Moir, Monika, Pillay, Sureshnee, Utpatel, Christian, Singh, Lavanya, Naidoo, Yeshnee, Ramphal, Upasana, Mabunda, Nédio, Abílio, Nuro, Arnaldo, Paulo, Xavier, Joicymara, Amoako, Daniel Gyamfi, Everatt, Josie, Ramphal, Yajna, Maharaj, Arisha, de Araujo, Leonardo, Anyaneji, Ugochukwu J, Tshiabuila, Derek, Viegas, Sofia, Lessells, Richard, Engelbrecht, Susan, Gudo, Eduardo, Jani, Ilesh, Niemann, Stefan, Wilkinson, Eduan, de Oliveira, Túlio

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SARS-CoV-2 variants from COVID-19 positive cases in the Free State province, South Africa from July 2020 to December 2021 von Mwangi, Peter, Okendo, Javan, Mogotsi, Milton, Ogunbayo, Ayodeji, Adelabu, Olusesan, Sondlane, Hlengiwe, Maotoana, Makgotso, Mahomed, Lutfiyya, Morobadi, Molefi Daniel, Vawda, Sabeehah, von Gottberg, Anne, Bhiman, Jinal, Tegally, Houriiyah, Wilkinson, Eduan, Giandhari, Jennifer, Pillay, Sureshnee, Naidoo, Yeshnee, Ramphal, Upasana, de Oliveira, Tulio, Bester, Armand, Goedhals, Dominique, Nyaga, Martin

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Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa von Viana, Raquel, Moyo, Sikhulile, Amoako, Daniel G., Tegally, Houriiyah, Scheepers, Cathrine, Althaus, Christian L., Anyaneji, Ugochukwu J., Bester, Phillip A., Boni, Maciej F., Chand, Mohammed, Choga, Wonderful T., Colquhoun, Rachel, Davids, Michaela, Deforche, Koen, Doolabh, Deelan, du Plessis, Louis, Engelbrecht, Susan, Everatt, Josie, Giandhari, Jennifer, Giovanetti, Marta, Hardie, Diana, Hill, Verity, Hsiao, Nei-Yuan, Iranzadeh, Arash, Ismail, Arshad, Joseph, Charity, Joseph, Rageema, Koopile, Legodile, Kosakovsky Pond, Sergei L., Kraemer, Moritz U. G., Kuate-Lere, Lesego, Laguda-Akingba, Oluwakemi, Lesetedi-Mafoko, Onalethatha, Lessells, Richard J., Lockman, Shahin, Lucaci, Alexander G., Maharaj, Arisha, Mahlangu, Boitshoko, Maponga, Tongai, Mahlakwane, Kamela, Makatini, Zinhle, Marais, Gert, Maruapula, Dorcas, Masupu, Kereng, Matshaba, Mogomotsi, Mayaphi, Simnikiwe, Mbhele, Nokuzola, Mbulawa, Mpaphi B., Mendes, Adriano, Mlisana, Koleka, Mnguni, Anele, Mohale, Thabo, Moir, Monika, Moruisi, Kgomotso, Mosepele, Mosepele, Motsatsi, Gerald, Motswaledi, Modisa S., Mphoyakgosi, Thongbotho, Msomi, Nokukhanya, Mwangi, Peter N., Naidoo, Yeshnee, Ntuli, Noxolo, Nyaga, Martin, Olubayo, Lucier, Pillay, Sureshnee, Radibe, Botshelo, Ramphal, Yajna, Ramphal, Upasana, San, James E., Scott, Lesley, Shapiro, Roger, Singh, Lavanya, Smith-Lawrence, Pamela, Stevens, Wendy, Strydom, Amy, Subramoney, Kathleen, Tebeila, Naume, Tshiabuila, Derek, Tsui, Joseph, van Wyk, Stephanie, Weaver, Steven, Wibmer, Constantinos K., Wilkinson, Eduan, Wolter, Nicole, Zarebski, Alexander E., Zuze, Boitumelo, Goedhals, Dominique, Preiser, Wolfgang, Treurnicht, Florette, Venter, Marietje, Williamson, Carolyn, Pybus, Oliver G., Bhiman, Jinal, Glass, Allison, Martin, Darren P., Rambaut, Andrew, Gaseitsiwe, Simani, von Gottberg, Anne, de Oliveira, Tulio

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Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa von Tegally, Houriiyah, Moir, Monika, Everatt, Josie, Giovanetti, Marta, Scheepers, Cathrine, Wilkinson, Eduan, Subramoney, Kathleen, Makatini, Zinhle, Moyo, Sikhulile, Amoako, Daniel G., Baxter, Cheryl, Althaus, Christian L., Anyaneji, Ugochukwu J., Kekana, Dikeledi, Viana, Raquel, Giandhari, Jennifer, Lessells, Richard J., Maponga, Tongai, Maruapula, Dorcas, Choga, Wonderful, Matshaba, Mogomotsi, Mbulawa, Mpaphi B., Msomi, Nokukhanya, Naidoo, Yeshnee, Pillay, Sureshnee, Sanko, Tomasz Janusz, San, James E., Scott, Lesley, Singh, Lavanya, Magini, Nonkululeko A., Smith-Lawrence, Pamela, Stevens, Wendy, Dor, Graeme, Tshiabuila, Derek, Wolter, Nicole, Preiser, Wolfgang, Treurnicht, Florette K., Venter, Marietjie, Chiloane, Georginah, McIntyre, Caitlyn, O’Toole, Aine, Ruis, Christopher, Peacock, Thomas P., Roemer, Cornelius, Kosakovsky Pond, Sergei L., Williamson, Carolyn, Pybus, Oliver G., Bhiman, Jinal N., Glass, Allison, Martin, Darren P., Jackson, Ben, Rambaut, Andrew, Laguda-Akingba, Oluwakemi, Gaseitsiwe, Simani, von Gottberg, Anne, de Oliveira, Tulio

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T cell responses to SARS-CoV-2 spike cross-recognize Omicron von Keeton, Roanne, Tincho, Marius B., Ngomti, Amkele, Baguma, Richard, Benede, Ntombi, Suzuki, Akiko, Khan, Khadija, Cele, Sandile, Bernstein, Mallory, Karim, Farina, Madzorera, Sharon V., Moyo-Gwete, Thandeka, Mennen, Mathilda, Skelem, Sango, Adriaanse, Marguerite, Mutithu, Daniel, Aremu, Olukayode, Stek, Cari, du Bruyn, Elsa, Van Der Mescht, Mieke A., de Beer, Zelda, de Villiers, Talita R., Bodenstein, Annie, van den Berg, Gretha, Mendes, Adriano, Strydom, Amy, Venter, Marietjie, Giandhari, Jennifer, Naidoo, Yeshnee, Pillay, Sureshnee, Tegally, Houriiyah, Grifoni, Alba, Weiskopf, Daniela, Sette, Alessandro, Wilkinson, Robert J., de Oliveira, Tulio, Bekker, Linda-Gail, Gray, Glenda, Ueckermann, Veronica, Rossouw, Theresa, Boswell, Michael T., Bhiman, Jinal N., Moore, Penny L., Sigal, Alex, Ntusi, Ntobeko A. B., Burgers, Wendy A., Riou, Catherine

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Escape of SARS-CoV-2 501Y.V2 from neutralization by convalescent plasma von Cele, Sandile, Gazy, Inbal, Jackson, Laurelle, Hwa, Shi-Hsia, Tegally, Houriiyah, Lustig, Gila, Giandhari, Jennifer, Pillay, Sureshnee, Wilkinson, Eduan, Naidoo, Yeshnee, Karim, Farina, Ganga, Yashica, Khan, Khadija, Bernstein, Mallory, Balazs, Alejandro B., Gosnell, Bernadett I., Hanekom, Willem, Moosa, Mahomed-Yunus S., Lessells, Richard J., de Oliveira, Tulio, Sigal, Alex

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Identification of SARS‐CoV‐2 Omicron variant using spike gene target failure and genotyping assays, Gauteng, South Africa, 2021 von Subramoney, Kathleen, Mtileni, Nkhensani, Bharuthram, Avani, Davis, Ashlyn, Kalenga, Beauty, Rikhotso, Mikateko, Maphahlele, Mpho, Giandhari, Jennifer, Naidoo, Yeshnee, Pillay, Sureshnee, Ramphal, Upasana, Ramphal, Yajna, Tegally, Houriiyah, Wilkinson, Eduan, Mohale, Thabo, Ismail, Arshad, Mashishi, Bonolo, Mbenenge, Nonhlanhla, Oliveira, Tulio, Makatini, Zinhle, Fielding, Burtram C., Treurnicht, Florette K.

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An Oxford Nanopore Technology-Based Hepatitis B Virus Sequencing Protocol Suitable for Genomic Surveillance Within Clinical Diagnostic Settings von Tshiabuila, Derek, Choga, Wonderful, San, James E, Maponga, Tongai, Van Zyl, Gert, Giandhari, Jennifer, Pillay, Sureshnee, Preiser, Wolfgang, Naidoo, Yeshnee, Baxter, Cheryl, Martin, Darren P, de Oliveira, Tulio

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Rapid Replacement of SARS-CoV-2 Variants by Delta and Subsequent Arrival of Omicron, Uganda, 2021 von Bbosa, Nicholas, Ssemwanga, Deogratius, Namagembe, Hamidah, Kiiza, Ronald, Kiconco, Jocelyn, Kayiwa, John, Lutalo, Tom, Lutwama, Julius, Ssekagiri, Alfred, Ssewanyana, Isaac, Nabadda, Susan, Kyobe-Bbosa, Henry, Giandhari, Jennifer, Pillay, Sureshnee, Ramphal, Upasana, Ramphal, Yajna, Naidoo, Yeshnee, Tshiabuila, Derek, Tegally, Houriiyah, San, Emmanuel J, Wilkinson, Eduan, de Oliveira, Tulio, Kaleebu, Pontiano

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Correction: Subramoney et al. Molecular Epidemiology of SARS-CoV-2 during Five COVID-19 Waves and the Significance of Low-Frequency Lineages. IViruses/I 2023, I15/I, 1194 von Subramoney, Kathleen, Mtileni, Nkhensani, Giandhari, Jennifer, Naidoo, Yeshnee, Ramphal, Yajna, Pillay, Sureshnee, Ramphal, Upasana, Maharaj, Akhil, Tshiabuila, Derek, Tegally, Houriiyah, Wilkinson, Eduan, Oliveira, Tulio de, Fielding, Burtram C, Treurnicht, Florette K

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Prevalence of Vitamin D deficiency in a multiracial female population in KwaZulu-Natal province, South Africa von Naidoo, Yeshnee, Moodley, Jagidesa, Madurai, Lorna, Naicker, Thajasvarie

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