TY - JOUR
T1 - Genomic analysis of Vibrio cholerae O1 isolates from cholera cases, Europe, 2022
AU - Rouard, Caroline
AU - Greig, David R.
AU - Tauhid, Thamida
AU - Dupke, Susann
AU - Njamkepo, Elisabeth
AU - Amato, Ettore
AU - van der Putten, Boas
AU - Naseer, Umaer
AU - Blaschitz, Marion
AU - Mandilara, Georgia D.
AU - Stuart, James Cohen
AU - Indra, Alexander
AU - Noël, Harold
AU - Sideroglou, Theologia
AU - Heger, Florian
AU - van den Beld, Maaike
AU - Wester, Astrid Louise
AU - Quilici, Marie Laure
AU - Scholz, Holger C.
AU - Fröding, Inga
AU - Jenkins, Claire
AU - Weill, François Xavier
N1 - Publisher Copyright:
© 2024 European Centre for Disease Prevention and Control (ECDC). All rights reserved.
PY - 2024/9/5
Y1 - 2024/9/5
N2 - Background: The number of cholera cases reported to the World Health Organization (WHO) in 2022 was more than double that of 2021. Nine countries of the WHO European Region reported 51 cases of cholera in 2022 vs five reported cases in 2021. Aim: We aimed to confirm that the Vibrio cholerae O1 isolates reported by WHO European Region countries in 2022 belonged to the seventh pandemic El Tor lineage (7PET). We also studied their virulence, antimicrobial resistance (AMR) determinants and phylogenetic relationships. Methods: We used microbial genomics to study the 49 V. cholerae O1 isolates recovered from the 51 European cases. We also used>1,450 publicly available 7PET genomes to provide a global phylogenetic context for these 49 isolates. Results: All 46 good-quality genomes obtained belonged to the 7PET lineage. All but two isolates belonged to genomic Wave 3 and were grouped within three sub-lineages, one of which, Pre-AFR15, predominated (34/44). This sub-lineage, corresponding to isolates from several countries in Southern Asia, the Middle East and Eastern or Southern Africa, was probably a major contributor to the global upsurge of cholera cases in 2022. No unusual AMR profiles were inferred from analysis of the AMR gene content of the 46 genomes. Conclusion: Reference laboratories in high-income countries should use whole genome sequencing to assign V. cholerae O1 isolates formally to the 7PET or non-epidemic lineages. Periodic collaborative genomic studies based on isolates from travellers can provide useful information on the circulating strains and their evolution, particularly as concerns AMR.
AB - Background: The number of cholera cases reported to the World Health Organization (WHO) in 2022 was more than double that of 2021. Nine countries of the WHO European Region reported 51 cases of cholera in 2022 vs five reported cases in 2021. Aim: We aimed to confirm that the Vibrio cholerae O1 isolates reported by WHO European Region countries in 2022 belonged to the seventh pandemic El Tor lineage (7PET). We also studied their virulence, antimicrobial resistance (AMR) determinants and phylogenetic relationships. Methods: We used microbial genomics to study the 49 V. cholerae O1 isolates recovered from the 51 European cases. We also used>1,450 publicly available 7PET genomes to provide a global phylogenetic context for these 49 isolates. Results: All 46 good-quality genomes obtained belonged to the 7PET lineage. All but two isolates belonged to genomic Wave 3 and were grouped within three sub-lineages, one of which, Pre-AFR15, predominated (34/44). This sub-lineage, corresponding to isolates from several countries in Southern Asia, the Middle East and Eastern or Southern Africa, was probably a major contributor to the global upsurge of cholera cases in 2022. No unusual AMR profiles were inferred from analysis of the AMR gene content of the 46 genomes. Conclusion: Reference laboratories in high-income countries should use whole genome sequencing to assign V. cholerae O1 isolates formally to the 7PET or non-epidemic lineages. Periodic collaborative genomic studies based on isolates from travellers can provide useful information on the circulating strains and their evolution, particularly as concerns AMR.
UR - http://www.scopus.com/inward/record.url?scp=85203420508&partnerID=8YFLogxK
U2 - 10.2807/1560-7917.ES.2024.29.36.2400069
DO - 10.2807/1560-7917.ES.2024.29.36.2400069
M3 - Article
C2 - 39239731
AN - SCOPUS:85203420508
SN - 1025-496X
VL - 29
JO - Eurosurveillance
JF - Eurosurveillance
IS - 36
ER -