Genomic perspective on the bacillus causing paratyphoid B fever

François-Xavier Weill (1) , Lise Frézal (1) , Alicia Tran-Dien (1) , Anna Zhukova (2) , Derek Brown (3) , Marie Chattaway (4) , Sandra Simon (5) , Hidemasa Izumiya (6) , Patricia Fields (7) , Niall de Lappe (8) , Lidia Kaftyreva (9) , Xuebin Xu (10) , Junko Isobe (11) , Dominique Clermont (12) , Elisabeth Njamkepo (1) , Yukihiro Akeda (6) , Sylvie Issenhuth-Jeanjean (1) , Mariia Makarova (9) , Yanan Wang (13, 14) , Martin Hunt (15, 16, 17) , Brent Jenkins (7) , Magali Ravel (1) , Véronique Guibert (1) , Estelle Serre (1) , Zoya Matveeva (9) , Laetitia Fabre (1) , Martin Cormican (8, 18) , Min Yue (19, 20) , Masatomo Morita (6) , Zamin Iqbal (15, 21) , Carolina Silva Nodari (1) , Maria Pardos de La Gandara (1) , Jane Hawkey (22)

1 BPE - Bactéries pathogènes entériques / Enteric bacterial pathogens
2 Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB
3 Glasgow Royal Infirmary
4 Public Health England [London]
5 RKI - Robert Koch Institute [Berlin]
6 National Institute of Infectious Diseases [Tokyo]
7 CDC - Centers for Disease Control and Prevention
8 University Hospital Galway
9 Institut Pasteur de Saint-Pétersbourg
10 Shanghai Municipal Center for Disease Control and Prevention
11 Toyama Institute of Health
12 CIP - Collection de l'Institut Pasteur
13 Henan Agricultural University
14 Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology
15 EMBL-EBI - European Bioinformatics Institute [Hinxton]
16 University of Oxford
17 John Radcliffe Hospital [Oxford University Hospital]
18 NUI Galway - National University of Ireland [Galway]
19 Zhejiang University
20 UCAS - University of Chinese Academy of Sciences [Beijing]
21 University of Bath [Bath]
22 Monash University [Melbourne]

Paratyphoid B fever (PTB) is caused by an invasive lineage (phylogroup 1, PG1) of Salmonella enterica serotype Paratyphi B (SPB). Here, we provide a genomic overview of the population structure, geographic distribution, and evolution of SPB PG1 by analysing genomes from 568 historical and contemporary isolates, obtained globally, between 1898 and 2021. We show that this pathogen existed in the 13th century, subsequently diversifying into 11 lineages and 38 genotypes with strong phylogeographic patterns. Following its discovery in 1896, it circulated across Europe until the 1970s, after which it was mostly reimported into Europe from South America, the Middle East, South Asia, and North Africa. Antimicrobial resistance recently emerged in various genotypes of SPB PG1, mostly through mutations of the quinolone-resistance-determining regions of gyrA and gyrB . This study provides an unprecedented insight into SPB PG1 and essential genomic tools for identifying and tracking this pathogen, thereby facilitating the global genomic surveillance of PTB.

Domaines: Sciences du Vivant [q-bio]

François-Xavier Weill, Lise Frézal, Alicia Tran-Dien, Anna Zhukova, Derek Brown, et al.. Genomic perspective on the bacillus causing paratyphoid B fever. 2024. ⟨pasteur-04638433⟩