Search

Your search keyword '"Njamkepo, Elisabeth"' showing total 204 results
Start Over Author "Njamkepo, Elisabeth"
204 results on '"Njamkepo, Elisabeth"'

1. Contribution of microbial genomics to cholera epidemiology

Author

Rouard, Caroline, Njamkepo, Elisabeth, Quilici, Marie-Laure, and Weill, François-Xavier

Subjects
Cholera, Vibrio cholerae, Genomic epidemiology, Whole-genome sequencing, Infectious disease, Biology (General), QH301-705.5
Abstract

In 2022, the burden of cholera—an acute watery diarrheal disease caused by Vibrio cholerae serogroup O1 (or more rarely O139) bacteria, which produce cholera toxin—remains high in many African and Asian countries. In the last few years, microbial genomics has made it possible to define the bacterial populations responsible for cholera more precisely. It has been shown that the current, seventh pandemic is due to a single lineage with a reservoir in the countries of the Bay of Bengal (India and Bangladesh). There have been several transmissions of the causal agent of cholera from this region to Africa, Asia and Latin America, suggesting a human-to-human transmission of the disease. Microbial genetics can help to fight this scourge by providing insight into cholera epidemiology and through its use in disease monitoring, thereby contributing to the achievement of the World Health Organization’s goal of reducing cholera deaths by 90% by 2030.

Published
2022
Full Text
View/download PDF

2. Genomic perspective on the bacillus causing paratyphoid B fever

Author

Hawkey, Jane, Frézal, Lise, Tran Dien, Alicia, Zhukova, Anna, Brown, Derek, Chattaway, Marie Anne, Simon, Sandra, Izumiya, Hidemasa, Fields, Patricia I., De Lappe, Niall, Kaftyreva, Lidia, Xu, Xuebin, Isobe, Junko, Clermont, Dominique, Njamkepo, Elisabeth, Akeda, Yukihiro, Issenhuth-Jeanjean, Sylvie, Makarova, Mariia, Wang, Yanan, Hunt, Martin, Jenkins, Brent M., Ravel, Magali, Guibert, Véronique, Serre, Estelle, Matveeva, Zoya, Fabre, Laëtitia, Cormican, Martin, Yue, Min, Zhu, Baoli, Morita, Masatomo, Iqbal, Zamin, Silva Nodari, Carolina, Pardos de la Gandara, Maria, and Weill, François-Xavier

Published
2024
Full Text
View/download PDF

3. An unusual two-strain cholera outbreak in Lebanon, 2022-2023: a genomic epidemiology study

Author

Abou Fayad, Antoine, Rafei, Rayane, Njamkepo, Elisabeth, Ezzeddine, Jana, Hussein, Hadi, Sinno, Solara, Gerges, Jose-Rita, Barada, Sara, Sleiman, Ahmad, Assi, Moubadda, Baakliny, Maryo, Hamedeh, Lama, Mahfouz, Rami, Dabboussi, Fouad, Feghali, Rita, Mohsen, Zeina, Rady, Alisar, Ghosn, Nada, Abiad, Firas, Abubakar, Abdinasir, Barakat, Amal, Wauquier, Nadia, Quilici, Marie-Laure, Hamze, Monzer, Weill, François-Xavier, and Matar, Ghassan M.

Published
2024
Full Text
View/download PDF

5. Global diversity and antimicrobial resistance of typhoid fever pathogens: Insights from a meta-analysis of 13,000 Salmonella Typhi genomes.

Author

Carey, Megan, Dyson, Zoe, Ingle, Danielle, Amir, Afreenish, Aworh, Mabel, Chattaway, Marie, Chew, Ka, Crump, John, Feasey, Nicholas, Howden, Benjamin, Keddy, Karen, Maes, Mailis, Parry, Christopher, Van Puyvelde, Sandra, Webb, Hattie, Afolayan, Ayorinde, Alexander, Anna, Anandan, Shalini, Andrews, Jason, Ashton, Philip, Basnyat, Buddha, Bavdekar, Ashish, Bogoch, Isaac, Clemens, John, da Silva, Kesia, De, Anuradha, de Ligt, Joep, Diaz Guevara, Paula, Dolecek, Christiane, Dutta, Shanta, Ehlers, Marthie, Francois Watkins, Louise, Garrett, Denise, Godbole, Gauri, Gordon, Melita, Greenhill, Andrew, Griffin, Chelsey, Gupta, Madhu, Hendriksen, Rene, Heyderman, Robert, Hooda, Yogesh, Hormazabal, Juan, Ikhimiukor, Odion, Iqbal, Junaid, Jacob, Jobin, Jenkins, Claire, Jinka, Dasaratha, John, Jacob, Kang, Gagandeep, Kanteh, Abdoulie, Kapil, Arti, Karkey, Abhilasha, Kariuki, Samuel, Kingsley, Robert, Koshy, Roshine, Lauer, A, Levine, Myron, Lingegowda, Ravikumar, Luby, Stephen, Mackenzie, Grant, Mashe, Tapfumanei, Msefula, Chisomo, Mutreja, Ankur, Nagaraj, Geetha, Nagaraj, Savitha, Nair, Satheesh, Naseri, Take, Nimarota-Brown, Susana, Njamkepo, Elisabeth, Okeke, Iruka, Perumal, Sulochana, Pollard, Andrew, Pragasam, Agila, Qadri, Firdausi, Qamar, Farah, Rahman, Sadia, Rambocus, Savitra, Rasko, David, Ray, Pallab, Robins-Browne, Roy, Rongsen-Chandola, Temsunaro, Rutanga, Jean, Saha, Samir, Saha, Senjuti, Saigal, Karnika, Sajib, Mohammad, Seidman, Jessica, Shakya, Jivan, Shamanna, Varun, Shastri, Jayanthi, Shrestha, Rajeev, Sia, Sonia, Sikorski, Michael, Singh, Ashita, Smith, Anthony, Tagg, Kaitlin, Tamrakar, Dipesh, Tanmoy, Arif, Thomas, Maria, and Thomas, Mathew

Subjects
S. enterica serovar typhi, antimicrobial resistance, epidemiology, genomics, global health, infectious disease, microbiology, typhoid conjugate vaccine, typhoid fever, Humans, Salmonella typhi, Typhoid Fever, Anti-Bacterial Agents, Travel, Drug Resistance, Bacterial, Ciprofloxacin
Abstract

BACKGROUND: The Global Typhoid Genomics Consortium was established to bring together the typhoid research community to aggregate and analyse Salmonella enterica serovar Typhi (Typhi) genomic data to inform public health action. This analysis, which marks 22 years since the publication of the first Typhi genome, represents the largest Typhi genome sequence collection to date (n=13,000). METHODS: This is a meta-analysis of global genotype and antimicrobial resistance (AMR) determinants extracted from previously sequenced genome data and analysed using consistent methods implemented in open analysis platforms GenoTyphi and Pathogenwatch. RESULTS: Compared with previous global snapshots, the data highlight that genotype 4.3.1 (H58) has not spread beyond Asia and Eastern/Southern Africa; in other regions, distinct genotypes dominate and have independently evolved AMR. Data gaps remain in many parts of the world, and we show the potential of travel-associated sequences to provide informal sentinel surveillance for such locations. The data indicate that ciprofloxacin non-susceptibility (>1 resistance determinant) is widespread across geographies and genotypes, with high-level ciprofloxacin resistance (≥3 determinants) reaching 20% prevalence in South Asia. Extensively drug-resistant (XDR) typhoid has become dominant in Pakistan (70% in 2020) but has not yet become established elsewhere. Ceftriaxone resistance has emerged in eight non-XDR genotypes, including a ciprofloxacin-resistant lineage (4.3.1.2.1) in India. Azithromycin resistance mutations were detected at low prevalence in South Asia, including in two common ciprofloxacin-resistant genotypes. CONCLUSIONS: The consortiums aim is to encourage continued data sharing and collaboration to monitor the emergence and global spread of AMR Typhi, and to inform decision-making around the introduction of typhoid conjugate vaccines (TCVs) and other prevention and control strategies. FUNDING: No specific funding was awarded for this meta-analysis. Coordinators were supported by fellowships from the European Union (ZAD received funding from the European Unions Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 845681), the Wellcome Trust (SB, Wellcome Trust Senior Fellowship), and the National Health and Medical Research Council (DJI is supported by an NHMRC Investigator Grant [GNT1195210]).

Published
2023

6. Genomic epidemiology reveals multidrug resistant plasmid spread between Vibrio cholerae lineages in Yemen

Author

Lassalle, Florent, Al-Shalali, Salah, Al-Hakimi, Mukhtar, Njamkepo, Elisabeth, Bashir, Ismail Mahat, Dorman, Matthew J., Rauzier, Jean, Blackwell, Grace A., Taylor-Brown, Alyce, Beale, Mathew A., Cazares, Adrián, Al-Somainy, Ali Abdullah, Al-Mahbashi, Anas, Almoayed, Khaled, Aldawla, Mohammed, Al-Harazi, Abdulelah, Quilici, Marie-Laure, Weill, François-Xavier, Dhabaan, Ghulam, and Thomson, Nicholas R.

Published
2023
Full Text
View/download PDF

8. Author Correction: The evolution and international spread of extensively drug resistant Shigella sonnei

Author

Mason, Lewis C. E., Greig, David R., Cowley, Lauren A., Partridge, Sally R., Martinez, Elena, Blackwell, Grace A., Chong, Charlotte E., De Silva, P. Malaka, Bengtsson, Rebecca J., Draper, Jenny L., Ginn, Andrew N., Sandaradura, Indy, Sim, Eby M., Iredell, Jonathan R., Sintchenko, Vitali, Ingle, Danielle J., Howden, Benjamin P., Lefèvre, Sophie, Njamkepo, Elisabeth, Weill, François-Xavier, Ceyssens, Pieter-Jan, Jenkins, Claire, and Baker, Kate S.

Published
2023
Full Text
View/download PDF

9. The evolution and international spread of extensively drug resistant Shigella sonnei

Author

Mason, Lewis C. E., Greig, David R., Cowley, Lauren A., Partridge, Sally R., Martinez, Elena, Blackwell, Grace A., Chong, Charlotte E., De Silva, P. Malaka, Bengtsson, Rebecca J., Draper, Jenny L., Ginn, Andrew N., Sandaradura, Indy, Sim, Eby M., Iredell, Jonathan R., Sintchenko, Vitali, Ingle, Danielle J., Howden, Benjamin P., Lefèvre, Sophie, Njamkepo, Elisabeth, Weill, François-Xavier, Ceyssens, Pieter-Jan, Jenkins, Claire, and Baker, Kate S.

Published
2023
Full Text
View/download PDF

11. Genomic Microevolution of Vibrio cholerae O1, Lake Tanganyika Basin, Africa

Author

Hounmanou, Yaovi M.G., Njamkepo, Elisabeth, Rauzier, Jean, Gallandat, Karin, Jeandron, Aurelie, Kamwiziku, Guyguy, Porten, Klaudia, Luquero, Francisco, Abedi, Aaron Aruna, Rumedeka, Baron Bashige, Miwanda, Berthe, Michael, Martin, Okitayemba, Placide Welo, Saidi, Jaime Mufitini, Piarroux, Renaud, Weill, Frangois-Xavier, Dalsgaard, Anders, and Quilici, Marie-Laure

Subjects
Lake Tanganyika -- Health aspects, Identification and classification, Research, Genetic aspects, Natural history, Causes of, Health aspects, Cholera -- Causes of, Vibrio cholerae -- Identification and classification -- Genetic aspects -- Natural history, Molecular evolution -- Research, Microbiological research
Abstract

Cholera is an acute life-threatening diarrheal disease responsible for [approximately equal to]4.3 million cases and 142,000 deaths annually worldwide (1). Excluding epidemic peaks in Haiti and Yemen (2,3), most cases [...]

Published
2023
Full Text
View/download PDF

12. Outbreak of Imported Seventh Pandemic Vibrio cholerae O1 El Tor, Algeria, 2018

Author

Benamrouche, Nabila, Belkader, Chafika, Njamkepo, Elisabeth, Zemam, Sarah Sihem, Sadat, Soraya, Saighi, Karima, Boutabba, Dalila Torkia, Mechouet, Faiza, Benhadj-Slimani, Rym, Zmit, Fatma-Zohra, Rauzier, Jean, Kias, Farid, Zouagui, Souad, Ruckly, Corinne, Yousfi, Mohamed, Zertal, Amel, Chouikrat, Ramdane, Quilici, Marie-Laure, and Weill, Francois-Xavier

Subjects
Statistics, Identification and classification, Genetic aspects, Causes of, Cholera -- Statistics -- Causes of, Vibrio cholerae -- Statistics -- Identification and classification -- Genetic aspects -- 2018 AD, Epidemics -- Statistics -- Causes of
Abstract

Cholera, a life-threatening diarrheal disease, is caused by Vibrio cholerae O1, or more rarely O139, serogroup bacteria that produce cholera toxin (CTX) and induce rapid massive loss of body fluids [...]

Published
2022
Full Text
View/download PDF

13. The genus Serratia revisited by genomics

Author

Williams, David J., Grimont, Patrick A. D., Cazares, Adrián, Grimont, Francine, Ageron, Elisabeth, Pettigrew, Kerry A., Cazares, Daniel, Njamkepo, Elisabeth, Weill, François-Xavier, Heinz, Eva, Holden, Matthew T. G., Thomson, Nicholas R., and Coulthurst, Sarah J.

Published
2022
Full Text
View/download PDF

14. Emergence of Vibrio cholerae O1 Sequence Type 75, South Africa, 2018-2020

Author

Smith, Anthony M., Weill, Francois-Xavier, Njamkepo, Elisabeth, Ngomane, Hlengiwe M., Ramalwa, Ntsieni, Sekwadi, Phuti, and Thomas, Juno

Subjects
Identification and classification, Distribution, Genetic aspects, Company distribution practices, Vibrio cholerae -- Distribution -- Identification and classification -- Genetic aspects
Abstract

The seventh cholera pandemic, caused by Vibrio cholerae O1 biotype El Tor (7PET), arrived in Africa during 1970 and became endemic in many countries on the continent (1). Cholera was [...]

Published
2021
Full Text
View/download PDF

15. Genomic analysis of Vibrio cholerae O1 isolates from cholera cases, Europe, 2022.

Author

Rouard, Caroline, Greig, David R., Tauhid, Thamida, Dupke, Susann, Njamkepo, Elisabeth, Amato, Ettore, van der Putten, Boas, Naseer, Umaer, Blaschitz, Marion, Mandilara, Georgia D., Stuart, James Cohen, Indra, Alexander, Noël, Harold, Sideroglou, Theologia, Heger, Florian, van den Beld, Maaike, Wester, Astrid Louise, Quilici, Marie-Laure, Scholz, Holger C., and Fröding, Inga

Published
2024
Full Text
View/download PDF

16. Seventh Pandemic Vibrio cholerae O1 Sublineages, Central African Republic

Author

Breurec, Sebastien, Franck, Thierry, Njamkepo, Elisabeth, Mbecko, Jean-Robert, Rauzier, Jean, Sanke-Waigana, Hugues, Kamwiziku, Guyguy, Piarroux, Renaud, Quilici, Marie-Laure, and Weill, Francois-Xavier

Subjects
Identification and classification, Diagnosis, Genetic aspects, History, Causes of, Cholera -- Diagnosis -- Causes of, Vibrio cholerae -- Identification and classification -- Genetic aspects, Epidemics -- History -- Central African Republic
Abstract

Cholera is a life-threatening diarrheal disease caused by the bacterium Vibrio cholerae, which produces cholera toxin. The seventh cholera pandemic, caused by V. cholerae O1 biotype El Tor, began in [...]

Published
2021
Full Text
View/download PDF

17. Genomic history of the seventh pandemic of cholera in Africa

Author

Weill, François-Xavier, Domman, Daryl, Njamkepo, Elisabeth, Tarr, Cheryl, Rauzier, Jean, Fawal, Nizar, Keddy, Karen H., Salje, Henrik, Moore, Sandra, Mukhopadhyay, Asish K., Bercion, Raymond, Luquero, Francisco J., Ngandjio, Antoinette, Dosso, Mireille, Monakhova, Elena, Garin, Benoit, Bouchier, Christiane, Pazzani, Carlo, Mutreja, Ankur, Grunow, Roland, Sidikou, Fati, Bonte, Laurence, Breurec, Sébastien, Damian, Maria, Njanpop-Lafourcade, Berthe-Marie, Sapriel, Guillaume, Page, Anne-Laure, Hamze, Monzer, Henkens, Myriam, Chowdhury, Goutam, Mengel, Martin, Koeck, Jean-Louis, Fournier, Jean-Michel, Dougan, Gordon, Grimont, Patrick A. D., Parkhill, Julian, Holt, Kathryn E., Piarroux, Renaud, Ramamurthy, Thandavarayan, Quilici, Marie-Laure, and Thomson, Nicholas R.

Published
2017

18. Integrated view of Vibrio cholerae in the Americas

Author

Domman, Daryl, Quilici, Marie-Laure, Dorman, Matthew J., Njamkepo, Elisabeth, Mutreja, Ankur, Mather, Alison E., Delgado, Gabriella, Morales-Espinosa, Rosario, Grimont, Patrick A. D., Lizárraga-Partida, Marcial Leonardo, Bouchier, Christiane, Aanensen, David M., Kuri-Morales, Pablo, Tarr, Cheryl L., Dougan, Gordon, Parkhill, Julian, Campos, Josefina, Cravioto, Alejandro, Weill, François-Xavier, and Thomson, Nicholas R.

Published
2017

20. Genomic insights into the 2016-2017 cholera epidemic in Yemen

Author

Weill, François-Xavier, Domman, Daryl, Njamkepo, Elisabeth, Almesbahi, Abdullrahman A., Naji, Mona, Nasher, Samar Saeed, and Rakesh, Ankur

Subjects
Genetic aspects, Cholera -- Genetic aspects, Epidemics -- Genetic aspects -- Yemen, Pets, Genomics, Microbial drug resistance, Phylogeny, Drug resistance, Epidemiology, Cholera toxin, Genomes, Radiation (Physics)
Abstract

Author(s): François-Xavier Weill [sup.1] , Daryl Domman [sup.2] [sup.3] , Elisabeth Njamkepo [sup.1] , Abdullrahman A. Almesbahi [sup.4] , Mona Naji [sup.4] , Samar Saeed Nasher [sup.4] , Ankur Rakesh [...], Yemen is currently experiencing, to our knowledge, the largest cholera epidemic in recent history. The first cases were declared in September 2016, and over 1.1 million cases and 2,300 deaths have since been reported.sup.1. Here we investigate the phylogenetic relationships, pathogenesis and determinants of antimicrobial resistance by sequencing the genomes of Vibrio cholerae isolates from the epidemic in Yemen and recent isolates from neighbouring regions. These 116 genomic sequences were placed within the phylogenetic context of a global collection of 1,087 isolates of the seventh pandemic V. cholerae serogroups O1 and O139 biotype El Tor.sup.2-4. We show that the isolates from Yemen that were collected during the two epidemiological waves of the epidemic.sup.1--the first between 28 September 2016 and 23 April 2017 (25,839 suspected cases) and the second beginning on 24 April 2017 (more than 1 million suspected cases)--are V. cholerae serotype Ogawa isolates from a single sublineage of the seventh pandemic V. cholerae O1 El Tor (7PET) lineage. Using genomic approaches, we link the epidemic in Yemen to global radiations of pandemic V. cholerae and show that this sublineage originated from South Asia and that it caused outbreaks in East Africa before appearing in Yemen. Furthermore, we show that the isolates from Yemen are susceptible to several antibiotics that are commonly used to treat cholera and to polymyxin B, resistance to which is used as a marker of the El Tor biotype.Isolates of the Vibrio cholerae O1 serotype Ogawa from Yemen are from a single sublineage of the seventh pandemic El Tor (7PET) lineage and are susceptible to several commonly used antibiotics as well as to polymyxins.

Published
2019
Full Text
View/download PDF

21. Global diversity and antimicrobial resistance of typhoid fever pathogens:Insights from a meta-analysis of 13,000 Salmonella Typhi genomes

Author

Carey, Megan E, Dyson, Zoe A, Ingle, Danielle J, Amir, Afreenish, Aworh, Mabel K, Chattaway, Marie Anne, Chew, Ka Lip, Crump, John A, Feasey, Nicholas A, Howden, Benjamin P, Keddy, Karen H, Maes, Mailis, Parry, Christopher M, Van Puyvelde, Sandra, Webb, Hattie E, Afolayan, Ayorinde Oluwatobiloba, Alexander, Anna P, Anandan, Shalini, Andrews, Jason R, Ashton, Philip M, Basnyat, Buddha, Bavdekar, Ashish, Bogoch, Isaac I, Clemens, John D, da Silva, Kesia Esther, De, Anuradha, de Ligt, Joep, Diaz Guevara, Paula Lucia, Dolecek, Christiane, Dutta, Shanta, Ehlers, Marthie M, Francois Watkins, Louise, Garrett, Denise O, Godbole, Gauri, Gordon, Melita A, Greenhill, Andrew R, Griffin, Chelsey, Gupta, Madhu, Hendriksen, Rene S, Heyderman, Robert S, Hooda, Yogesh, Hormazabal, Juan Carlos, Ikhimiukor, Odion O, Iqbal, Junaid, Jacob, Jobin John, Jenkins, Claire, Jinka, Dasaratha Ramaiah, John, Jacob, Kang, Gagandeep, Kanteh, Abdoulie, Kapil, Arti, Karkey, Abhilasha, Kariuki, Samuel, Kingsley, Robert A, Koshy, Roshine Mary, Lauer, AC, Levine, Myron M, Lingegowda, Ravikumar Kadahalli, Luby, Stephen P, Mackenzie, Grant Austin, Mashe, Tapfumanei, Msefula, Chisomo, Mutreja, Ankur, Nagaraj, Geetha, Nagaraj, Savitha, Nair, Satheesh, Naseri, Take K, Nimarota-Brown, Susana, Njamkepo, Elisabeth, Okeke, Iruka N, Perumal, Sulochana Putli Bai, Pollard, Andrew J, Pragasam, Agila Kumari, Qadri, Firdausi, Qamar, Farah N, Rahman, Sadia Isfat Ara, Rambocus, Savitra Devi, Rasko, David A, Ray, Pallab, Robins-Browne, Roy, Rongsen-Chandola, Temsunaro, Rutanga, Jean Pierre, Saha, Samir K, Saha, Senjuti, Saigal, Karnika, Sajib, Mohammad Saiful Islam, Seidman, Jessica C, Shakya, Jivan, Shamanna, Varun, Shastri, Jayanthi, Shrestha, Rajeev, Sia, Sonia, Sikorski, Michael J, Singh, Ashita, Smith, Anthony M, Tagg, Kaitlin A, Tamrakar, Dipesh, Tanmoy, Arif Mohammed, Thomas, Maria, Thomas, Mathew S, Thomsen, Robert, Thomson, Nicholas R, Tupua, Siaosi, Vaidya, Krista, Valcanis, Mary, Veeraraghavan, Balaji, Weill, François-Xavier, Wright, Jackie, Dougan, Gordon, Argimón, Silvia, Keane, Jacqueline A, Aanensen, David M, Baker, Stephen, Holt, Kathryn E, Carey, Megan E, Dyson, Zoe A, Ingle, Danielle J, Amir, Afreenish, Aworh, Mabel K, Chattaway, Marie Anne, Chew, Ka Lip, Crump, John A, Feasey, Nicholas A, Howden, Benjamin P, Keddy, Karen H, Maes, Mailis, Parry, Christopher M, Van Puyvelde, Sandra, Webb, Hattie E, Afolayan, Ayorinde Oluwatobiloba, Alexander, Anna P, Anandan, Shalini, Andrews, Jason R, Ashton, Philip M, Basnyat, Buddha, Bavdekar, Ashish, Bogoch, Isaac I, Clemens, John D, da Silva, Kesia Esther, De, Anuradha, de Ligt, Joep, Diaz Guevara, Paula Lucia, Dolecek, Christiane, Dutta, Shanta, Ehlers, Marthie M, Francois Watkins, Louise, Garrett, Denise O, Godbole, Gauri, Gordon, Melita A, Greenhill, Andrew R, Griffin, Chelsey, Gupta, Madhu, Hendriksen, Rene S, Heyderman, Robert S, Hooda, Yogesh, Hormazabal, Juan Carlos, Ikhimiukor, Odion O, Iqbal, Junaid, Jacob, Jobin John, Jenkins, Claire, Jinka, Dasaratha Ramaiah, John, Jacob, Kang, Gagandeep, Kanteh, Abdoulie, Kapil, Arti, Karkey, Abhilasha, Kariuki, Samuel, Kingsley, Robert A, Koshy, Roshine Mary, Lauer, AC, Levine, Myron M, Lingegowda, Ravikumar Kadahalli, Luby, Stephen P, Mackenzie, Grant Austin, Mashe, Tapfumanei, Msefula, Chisomo, Mutreja, Ankur, Nagaraj, Geetha, Nagaraj, Savitha, Nair, Satheesh, Naseri, Take K, Nimarota-Brown, Susana, Njamkepo, Elisabeth, Okeke, Iruka N, Perumal, Sulochana Putli Bai, Pollard, Andrew J, Pragasam, Agila Kumari, Qadri, Firdausi, Qamar, Farah N, Rahman, Sadia Isfat Ara, Rambocus, Savitra Devi, Rasko, David A, Ray, Pallab, Robins-Browne, Roy, Rongsen-Chandola, Temsunaro, Rutanga, Jean Pierre, Saha, Samir K, Saha, Senjuti, Saigal, Karnika, Sajib, Mohammad Saiful Islam, Seidman, Jessica C, Shakya, Jivan, Shamanna, Varun, Shastri, Jayanthi, Shrestha, Rajeev, Sia, Sonia, Sikorski, Michael J, Singh, Ashita, Smith, Anthony M, Tagg, Kaitlin A, Tamrakar, Dipesh, Tanmoy, Arif Mohammed, Thomas, Maria, Thomas, Mathew S, Thomsen, Robert, Thomson, Nicholas R, Tupua, Siaosi, Vaidya, Krista, Valcanis, Mary, Veeraraghavan, Balaji, Weill, François-Xavier, Wright, Jackie, Dougan, Gordon, Argimón, Silvia, Keane, Jacqueline A, Aanensen, David M, Baker, Stephen, and Holt, Kathryn E

Abstract

Background: The Global Typhoid Genomics Consortium was established to bring together the typhoid research community to aggregate and analyse Salmonella enterica serovar Typhi (Typhi) genomic data to inform public health action. This analysis, which marks 22 years since the publication of the first Typhi genome, represents the largest Typhi genome sequence collection to date (n=13,000). Methods: This is a meta-analysis of global genotype and antimicrobial resistance (AMR) determinants extracted from previously sequenced genome data and analysed using consistent methods implemented in open analysis platforms GenoTyphi and Pathogenwatch. Results: Compared with previous global snapshots, the data highlight that genotype 4.3.1 (H58) has not spread beyond Asia and Eastern/Southern Africa; in other regions, distinct genotypes dominate and have independently evolved AMR. Data gaps remain in many parts of the world, and we show the potential of travel-associated sequences to provide informal 'sentinel' surveillance for such locations. The data indicate that ciprofloxacin non-susceptibility (>1 resistance determinant) is widespread across geographies and genotypes, with high-level ciprofloxacin resistance (≥3 determinants) reaching 20% prevalence in South Asia. Extensively drug-resistant (XDR) typhoid has become dominant in Pakistan (70% in 2020) but has not yet become established elsewhere. Ceftriaxone resistance has emerged in eight non-XDR genotypes, including a ciprofloxacin-resistant lineage (4.3.1.2.1) in India. Azithromycin resistance mutations were detected at low prevalence in South Asia, including in two common ciprofloxacin-resistant genotypes. Conclusions: The consortium's aim is to encourage continued data sharing and collaboration to monitor the emergence and global spread of AMR Typhi, and to inform decision-making around the introduction of typhoid conjugate vaccines (TCVs) and other prevention and control s

Published
2023

23. The evolution and international spread of extensively drug resistant Shigella sonnei

Author

Mason, Lewis, primary, Greig, David, additional, Cowley, Lauren, additional, Partridge, Sally, additional, Martinez, Elena, additional, Blackwell, Grace, additional, Chong, Charlotte, additional, De Silva, Malaka, additional, Bengtsson, Rebecca, additional, Draper, Jenny, additional, Ginn, Andrew, additional, Sandaradura, Indy, additional, Sim, Eby, additional, Iredell, Jonathan, additional, Sintchenko, Vitali, additional, Ingle, Danielle, additional, Howden, Benjamin, additional, Lefevre, Sophie, additional, Njamkepo, Elisabeth, additional, Weill, François-Xavier, additional, Ceyssens, Pieter-Jan, additional, Jenkins, Claire, additional, and Baker, Kate, additional

Published
2022
Full Text
View/download PDF

24. Rapid emergence of extensively drug-resistant Shigella sonnei in France

Author

Lefèvre, Sophie, primary, Njamkepo, Elisabeth, additional, Feldman, Sarah, additional, Ruckly, Corinne, additional, Carle, Isabelle, additional, Lejay-Collin, Monique, additional, Fabre, Laëtitia, additional, Yassine, Iman, additional, Frezal, Lise, additional, de la Gandara, Maria Pardos, additional, Fontanet, Arnaud, additional, and Weill, François-Xavier, additional

Published
2022
Full Text
View/download PDF

26. Imported Cholera Cases, South Africa, 2023.

Author

Smith, Anthony M., Sekwadi, Phuti, Erasmus, Linda K., Lee, Christine C., Stroika, Steven G., Ndzabandzaba, Sinenhlanhla, Alex, Vinitha, Nel, Jeremy, Njamkepo, Elisabeth, Thomas, Juno, and Weill, François-Xavier

Subjects
CHOLERA, VIBRIO cholerae, PANDEMICS
Abstract

Since February 2022, Malawi has experienced a cholera outbreak of >54,000 cases. We investigated 6 cases in South Africa and found that isolates linked to the outbreak were Vibrio cholerae O1 serotype Ogawa from seventh pandemic El Tor sublineage AFR15, indicating a new introduction of cholera into Africa from south Asia. [ABSTRACT FROM AUTHOR]

Published
2023
Full Text
View/download PDF

27. Genomic epidemiology of the cholera outbreak in Yemen reveals the spread of a multi-drug resistance plasmid between diverse lineages of Vibrio cholerae

Author

Lassalle, Florent, primary, Al-Shalali, Salah, additional, Al-Hakimi, Mukhtar, additional, Njamkepo, Elisabeth, additional, Bashir, Ismail Mahat, additional, Dorman, Matthew J., additional, Rauzier, Jean, additional, Blackwell, Grace A., additional, Taylor-Brown, Alyce, additional, Beale, Mathew A., additional, Al-Somainy, Ali Abdullah, additional, Al-Mahbashi, Anas, additional, Almoayed, Khaled, additional, Aldawla, Mohammed, additional, Al-Harazi, Abdulelah, additional, Quilici, Marie-Laure, additional, Weill, François-Xavier, additional, Dhabaan, Ghulam, additional, and Thomson, Nicholas R., additional

Published
2022
Full Text
View/download PDF

31. The phylogenomic landscape of the genus Serratia

Author

Williams, David J., primary, Grimont, Patrick A. D., additional, Cazares, Adrián, additional, Grimont, Francine, additional, Ageron, Elisabeth, additional, Pettigrew, Kerry A., additional, Cazares, Daniel, additional, Njamkepo, Elisabeth, additional, Weill, François-Xavier, additional, Heinz, Eva, additional, Holden, Matthew T. G., additional, Thomson, Nicholas R., additional, and Coulthurst, Sarah J., additional

Published
2022
Full Text
View/download PDF

33. Publisher Correction: Genomic insights into the 2016–2017 cholera epidemic in Yemen

Author

Weill, François-Xavier, Domman, Daryl, Njamkepo, Elisabeth, Almesbahi, Abdullrahman A., Naji, Mona, Nasher, Samar Saeed, Rakesh, Ankur, Assiri, Abdullah M., Sharma, Naresh Chand, Kariuki, Samuel, Pourshafie, Mohammad Reza, Rauzier, Jean, Abubakar, Abdinasir, Carter, Jane Y., Wamala, Joseph F., Seguin, Caroline, Bouchier, Christiane, Malliavin, Thérèse, Bakhshi, Bita, Abulmaali, Hayder H. N., Kumar, Dhirendra, Njoroge, Samuel M., Malik, Mamunur Rahman, Kiiru, John, Luquero, Francisco J., Azman, Andrew S., Ramamurthy, Thandavarayan, Thomson, Nicholas R., and Quilici, Marie-Laure

Published
2019
Full Text
View/download PDF

34. Global phylogeography and evolutionary history of Shigella dysenteriae type 1

Author

Njamkepo, Elisabeth, Fawal, Nizar, Tran-Dien, Alicia, Hawkey, Jane, Strockbine, Nancy, Jenkins, Claire, Talukder, Kaisar A., Bercion, Raymond, Kuleshov, Konstantin, Kolínská, Renáta, Russell, Julie E., Kaftyreva, Lidia, Accou-Demartin, Marie, Karas, Andreas, Vandenberg, Olivier, Mather, Alison E., Mason, Carl J., Page, Andrew J., Ramamurthy, Thandavarayan, Bizet, Chantal, Gamian, Andrzej, Carle, Isabelle, Sow, Amy Gassama, Bouchier, Christiane, Wester, Astrid Louise, Lejay-Collin, Monique, Fonkoua, Marie-Christine, Le Hello, Simon, Blaser, Martin J., Jernberg, Cecilia, Ruckly, Corinne, Mérens, Audrey, Page, Anne-Laure, Aslett, Martin, Roggentin, Peter, Fruth, Angelika, Denamur, Erick, Venkatesan, Malabi, Bercovier, Hervé, Bodhidatta, Ladaporn, Chiou, Chien-Shun, Clermont, Dominique, Colonna, Bianca, Egorova, Svetlana, Pazhani, Gururaja P., Ezernitchi, Analia V., Guigon, Ghislaine, Harris, Simon R., Izumiya, Hidemasa, Korzeniowska-Kowal, Agnieszka, Lutyńska, Anna, Gouali, Malika, Grimont, Francine, Langendorf, Céline, Marejková, Monika, Peterson, Lorea A.M., Perez-Perez, Guillermo, Ngandjio, Antoinette, Podkolzin, Alexander, Souche, Erika, Makarova, Mariia, Shipulin, German A., Ye, Changyun, Žemličková, Helena, Herpay, Mária, Grimont, Patrick A. D., Parkhill, Julian, Sansonetti, Philippe, Holt, Kathryn E., Brisse, Sylvain, Thomson, Nicholas R., and Weill, François-Xavier

Published
2016
Full Text
View/download PDF

35. Bordetella petrii infection with long-lasting persistence in human

Author

Le Coustumier, Alain, Njamkepo, Elisabeth, Cattoir, Vincent, Guillot, Sophie, and Guiso, Nicole

Subjects
Research, Case studies, Health aspects, Causes of, Bordetella pertussis -- Health aspects -- Research -- Case studies, Bordetella bronchiseptica -- Research -- Health aspects -- Case studies, Bronchiectasis -- Research -- Causes of -- Case studies -- Health aspects
Abstract

The genus Bordetella comprises 9 species; all, except B. petrii, are obligatorily associated with host organisms (1). The first isolations of B. ansorpii were from a cyst (2) and from [...]

Published
2011

37. Genomic insights into the 2016-2017 Yemeni cholera epidemic

Author

Weill, François-Xavier, Domman, Daryl, Njamkepo, Elisabeth, Almesbahi, Abdullrahman A., Naji, Mona, Nasher, Samar Saeed, Rakesh, Ankur, Assiri, Abdullah M., Sharma, Naresh Chand, Kariuki, Samuel, Pourshafie, Mohammad Reza, Rauzier, Jean, Abubakar, Abdinasir, Carter, Jane Y., Wamala, Joseph F., Seguin, Caroline, Bouchier, Christiane, Malliavin, Thérèse, Bakhshi, Bita, Abulmaali, Hayder H. N., Kumar, Dhirendra, Njoroge, Samuel M., Malik, Mamunur Rahman, Kiiru, John, Luquero, Francisco J., Azman, Andrew S., Ramamurthy, Thandavarayan, Thomson, Nicholas R., and Quilici, Marie-Laure

Subjects
Article
Abstract

Yemen is currently experiencing the largest cholera epidemic in recent history. The first cases were declared in September 2016, and over 1.1 million cases and 2,300 deaths have since been reported1. We investigated the phylogenetic relationships, pathogenesis, and antimicrobial resistance determinants by sequencing the genomes of Vibrio cholerae isolates from the Yemen epidemic and recent isolates from neighbouring regions. These 116 genomic sequences were placed within the phylogenetic context of a global collection of 1087 seventh pandemic V. cholerae serogroup O1 and O139 biotype El Tor isolates [2–4]. We show that the Yemeni isolates collected during the two epidemiological waves of the epidemic [1], —the first between September 28th 2016 and April 23rd 2017 (25,839 suspected cases) and the second beginning on April 24th, 2017 (more than one million suspected cases), — are seventh pandemic V. cholerae O1 El Tor (7PET) serotype Ogawa isolates from a single sublineage. Using genomic approaches, we link the Yemen epidemic to global radiations of pandemic V. cholerae and show that this sublineage originated from South Asia and that it caused outbreaks in East Africa before appearing in Yemen. We also show that the Yemeni isolates are susceptible to several antibiotics commonly used to treat cholera, and to polymyxins, resistance to which is used as a marker of the El Tor biotype.

Published
2019

38. Highly Resistant Cholera Outbreak Strain in Zimbabwe

Author

Mashe, Tapfumanei, primary, Domman, Daryl, additional, Tarupiwa, Andrew, additional, Manangazira, Portia, additional, Phiri, Isaac, additional, Masunda, Kudzai, additional, Chonzi, Prosper, additional, Njamkepo, Elisabeth, additional, Ramudzulu, Masindi, additional, Mtapuri-Zinyowera, Sekesai, additional, Smith, Anthony M., additional, and Weill, François-Xavier, additional

Published
2020
Full Text
View/download PDF

41. Pertussis surveillance in private pediatric practices, France, 2002-2006

Author

Guiso, Nicole, de La Rocque, France, Njamkepo, Elisabeth, Lecuyer, Aurelie, Levy, Corinne, Romain, Olivier, Thollot, Franck, Abitbol, Veronique, Soubeyrand, Benoit, and Cohen, Robert

Abstract

To the Editor: In France, pertussis epidemiology has been extensively studied since 1993. Immunization of children with a highly efficacious pertussis whole-cell (Pw) vaccine (Sanofi Pasteur MSD, Lyon, France) for [...]

Published
2008

42. Erratum: Global phylogeography and evolutionary history of Shigella dysenteriae type 1

Author

Njamkepo, Elisabeth, Fawal, Nizar, Tran-Dien, Alicia, Hawkey, Jane, Strockbine, Nancy, Jenkins, Claire, Talukder, Kaisar A, Bercion, Raymond, Kuleshov, Konstantin, Kolínská, Renáta, Russell, Julie E, Kaftyreva, Lidia, Accou-Demartin, Marie, Karas, Andreas, Vandenberg, Olivier, Mather, Alison AE, Mason, Carl J, Page, Andrew J, Ramamurthy, Thandavarayan, Bizet, Chantal, Gamian, Andrzej, Carles, Isabelle, Sow, Amy Gassama, Bouchier, Christiane, Wester, Astrid Louise, Lejay-Collin, Monique, Fonkoua, Marie-Christine, Hello, Simon Le, Blaser, Martin J, Jernberg, Cecilia, Ruckly, Corinne, Mérens, Audrey, Page, Anne-Laure, Aslett, Martin, Roggentin, Peter, Fruth, Angelika, Denamur, Erick, Venkatesan, Malabi, Bercovier, Hervé, Bodhidatta, Ladaporn, Chiou, Chien-Shun, Clermont, Dominique, Colonna, Bianca, Egorova, Svetlana, Pazhani, Gururaja GP, Ezernitchi, Analia V, Guigon, Ghislaine, Harris, Simon R, Izumiya, Hidemasa, Korzeniowska-Kowal, Agnieszka, Lutyńska, Anna, Gouali, Malika, Grimont, Francine, Langendorf, Céline, Marejková, Monika, Peterson, Lorea A M LA, Perez-Perez, Guillermo, Ngandjio, Antoinette, Podkolzin, Alexander, Souche, Erika, Makarova, Mariia, Shipulin, German A, Ye, Changyun, Zemlickova, Helena, Herpay, Mária, Grimont, Patrick A D PA, Parkhill, Julian, Sansonetti, Philippe, Holt, Kathryn KE, Brisse, Sylvain, Thomson, Nicholas R, Weill, François-Xavier, Njamkepo, Elisabeth, Fawal, Nizar, Tran-Dien, Alicia, Hawkey, Jane, Strockbine, Nancy, Jenkins, Claire, Talukder, Kaisar A, Bercion, Raymond, Kuleshov, Konstantin, Kolínská, Renáta, Russell, Julie E, Kaftyreva, Lidia, Accou-Demartin, Marie, Karas, Andreas, Vandenberg, Olivier, Mather, Alison AE, Mason, Carl J, Page, Andrew J, Ramamurthy, Thandavarayan, Bizet, Chantal, Gamian, Andrzej, Carles, Isabelle, Sow, Amy Gassama, Bouchier, Christiane, Wester, Astrid Louise, Lejay-Collin, Monique, Fonkoua, Marie-Christine, Hello, Simon Le, Blaser, Martin J, Jernberg, Cecilia, Ruckly, Corinne, Mérens, Audrey, Page, Anne-Laure, Aslett, Martin, Roggentin, Peter, Fruth, Angelika, Denamur, Erick, Venkatesan, Malabi, Bercovier, Hervé, Bodhidatta, Ladaporn, Chiou, Chien-Shun, Clermont, Dominique, Colonna, Bianca, Egorova, Svetlana, Pazhani, Gururaja GP, Ezernitchi, Analia V, Guigon, Ghislaine, Harris, Simon R, Izumiya, Hidemasa, Korzeniowska-Kowal, Agnieszka, Lutyńska, Anna, Gouali, Malika, Grimont, Francine, Langendorf, Céline, Marejková, Monika, Peterson, Lorea A M LA, Perez-Perez, Guillermo, Ngandjio, Antoinette, Podkolzin, Alexander, Souche, Erika, Makarova, Mariia, Shipulin, German A, Ye, Changyun, Zemlickova, Helena, Herpay, Mária, Grimont, Patrick A D PA, Parkhill, Julian, Sansonetti, Philippe, Holt, Kathryn KE, Brisse, Sylvain, Thomson, Nicholas R, and Weill, François-Xavier

Abstract

info:eu-repo/semantics/published

Published
2016

43. Erratum: Global phylogeography and evolutionary history of Shigella dysenteriae type 1

Author

Njamkepo, Elisabeth, primary, Fawal, Nizar, additional, Tran-Dien, Alicia, additional, Hawkey, Jane, additional, Strockbine, Nancy, additional, Jenkins, Claire, additional, Talukder, Kaisar A., additional, Bercion, Raymond, additional, Kuleshov, Konstantin, additional, Kolínská, Renáta, additional, Russell, Julie E., additional, Kaftyreva, Lidia, additional, Accou-Demartin, Marie, additional, Karas, Andreas, additional, Vandenberg, Olivier, additional, Mather, Alison E., additional, Mason, Carl J., additional, Page, Andrew J., additional, Ramamurthy, Thandavarayan, additional, Bizet, Chantal, additional, Gamian, Andrzej, additional, Carle, Isabelle, additional, Sow, Amy Gassama, additional, Bouchier, Christiane, additional, Wester, Astrid Louise, additional, Lejay-Collin, Monique, additional, Fonkoua, Marie-Christine, additional, Le Hello, Simon, additional, Blaser, Martin J., additional, Jernberg, Cecilia, additional, Ruckly, Corinne, additional, Mérens, Audrey, additional, Page, Anne-Laure, additional, Aslett, Martin, additional, Roggentin, Peter, additional, Fruth, Angelika, additional, Denamur, Erick, additional, Venkatesan, Malabi, additional, Bercovier, Hervé, additional, Bodhidatta, Ladaporn, additional, Chiou, Chien-Shun, additional, Clermont, Dominique, additional, Colonna, Bianca, additional, Egorova, Svetlana, additional, Pazhani, Gururaja P., additional, Ezernitchi, Analia V., additional, Guigon, Ghislaine, additional, Harris, Simon R., additional, Izumiya, Hidemasa, additional, Korzeniowska-Kowal, Agnieszka, additional, Lutyńska, Anna, additional, Gouali, Malika, additional, Grimont, Francine, additional, Langendorf, Céline, additional, Marejková, Monika, additional, Peterson, Lorea A.M., additional, Perez-Perez, Guillermo, additional, Ngandjio, Antoinette, additional, Podkolzin, Alexander, additional, Souche, Erika, additional, Makarova, Mariia, additional, Shipulin, German A., additional, Ye, Changyun, additional, Žemličková, Helena, additional, Herpay, Mária, additional, Grimont, Patrick A. D., additional, Parkhill, Julian, additional, Sansonetti, Philippe, additional, Holt, Kathryn E., additional, Brisse, Sylvain, additional, Thomson, Nicholas R., additional, and Weill, François-Xavier, additional

Published
2016
Full Text
View/download PDF

46. Pulsed-Field Gel Electrophoresis Analysis of Bordetella pertussis Isolates Circulating in Europe from 1998 to 2009

Author

Advani, Abdolreza, primary, Hallander, Hans O., additional, Dalby, Tine, additional, Krogfelt, Karen Angeliki, additional, Guiso, Nicole, additional, Njamkepo, Elisabeth, additional, von Könnig, Carl Heinz Wirsing, additional, Riffelmann, Marion, additional, Mooi, Frits R., additional, Sandven, Per, additional, Lutyńska, Anna, additional, Fry, Norman K., additional, Mertsola, Jussi, additional, and He, Qiushui, additional

Published
2013
Full Text
View/download PDF

47. Prevalence of Bordetella pertussis and Bordetella parapertussis infections in Tunisian hospitalized infants: results of a 4-year prospective study

Author

Zouari, Asma, primary, Smaoui, Hanen, additional, Brun, Delphine, additional, Njamkepo, Elisabeth, additional, Sghaier, Soufien, additional, Zouari, Emna, additional, Félix, Renaud, additional, Menif, Khaled, additional, Ben Jaballah, Najla, additional, Guiso, Nicole, additional, and Kechrid, Amel, additional

Published
2012
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results