Genomic attributes of Vibrio cholerae O1 responsible for 2022 massive cholera outbreak in Bangladesh

Monir, Md Mamun; Islam, Mohammad Tarequl; Mazumder, Razib; Mondal, Dinesh; Nahar, Kazi Sumaita; Sultana, Marzia; Morita, Masatomo; Ohnishi, Makoto; Huq, Anwar; Watanabe, Haruo; Qadri, Firdausi; Rahman, Mustafizur; Thomson, Nicholas R.; Seed, Kimberley D.; Colwell, Rita R.; Ahmed, Tahmeed; Alam, Munirul

doi:10.1038/s41467-023-36687-7

Cited by 17 publications

(6 citation statements)

References 41 publications

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“…S8 and table S5), which are both associated with Vc in our metagenomes (fig. S9) and previously were linked with CIP resistance in Vc but classically are linked to resistance to antibiotics in other classes ( 16 , 38 ) . Taken together, these results suggest that CIP exposure selects for resistance genes within patients, potentially explaining why CIP may be less effective at suppressing Vc than AZI.…”

Section: Resultsmentioning

confidence: 94%

Phage predation, disease severity, and pathogen genetic diversity in cholera patients

Madi,

Cato,

Abu Sayeed

et al. 2024

Science

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Despite an increasingly detailed picture of the molecular mechanisms of bacteriophage (phage)–bacterial interactions, we lack an understanding of how these interactions evolve and impact disease within patients. In this work, we report a year-long, nationwide study of diarrheal disease patients in Bangladesh. Among cholera patients, we quantified Vibrio cholerae (prey) and its virulent phages (predators) using metagenomics and quantitative polymerase chain reaction while accounting for antibiotic exposure using quantitative mass spectrometry. Virulent phage (ICP1) and antibiotics suppressed V. cholerae to varying degrees and were inversely associated with severe dehydration depending on resistance mechanisms. In the absence of antiphage defenses, predation was “effective,” with a high predator:prey ratio that correlated with increased genetic diversity among the prey. In the presence of antiphage defenses, predation was “ineffective,” with a lower predator:prey ratio that correlated with increased genetic diversity among the predators. Phage-bacteria coevolution within patients should therefore be considered in the deployment of phage-based therapies and diagnostics.

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Section: Resultsmentioning

confidence: 94%

Phage predation, disease severity, and pathogen genetic diversity in cholera patients

Madi,

Cato,

Abu Sayeed

et al. 2024

Science

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“…The paired-end bacterial WGS libraries were constructed from 220 to 250 ng of genomic DNA using the Illumina DNA Prep kit as per the manufacturer’s instructions ( Mazumder et al, 2021 ). The pooled libraries thus obtained were sequenced at the icddr,b Genome Centre on Illumina NextSeq 500 system to obtain 100- to 150-fold coverage for each genome using a NextSeq v2.5 Mid Output reagent kit (2 × 150 bp) ( Mazumder et al, 2022 ; Monir et al, 2023 ).…”

Section: Methodsmentioning

confidence: 99%

Genomic and functional portrait of multidrug-resistant, hydrogen sulfide (H2S)-producing variants of Escherichia coli

Mazumder¹,

Hussain²,

Rahman³

et al. 2023

Front. Microbiol.

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Atypical Escherichia coli forms exhibit unusual characteristics compared to typical strains. The H2S-producing variants of some atypical E. coli strains cause a wide range of illnesses in humans and animals. However, there are sparse reports on such strains worldwide. We performed whole-genome sequencing (WGS) and detailed characterization of four H2S-producing E. coli variants from poultry and human clinical sources in Dhaka, Bangladesh. All four isolates were confirmed as E. coli using biochemical tests and genomic analysis, and were multidrug-resistant (MDR). WGS analysis including an additional Chinese strain, revealed diverse STs among the five H2S-producing E. coli genomes, with clonal complex ST10 being detected in 2 out of 5 genomes. The predominant phylogroup detected was group A (n = 4/5). The blaTEM1B (n = 5/5) was the most predominant extended-spectrum beta-lactamase (ESBL) gene, followed by different alleles of blaCTX-M (blaCTX-M -55,-65,-123; n = 3/5). Multiple plasmid replicons were detected, with IncX being the most common. One E. coli strain was classified as enteropathogenic E. coli. The genomes of all five isolates harbored five primary and four secondary function genes related to H2S production. These findings suggest the potential of these isolates to cause disease and spread antibiotic resistance. Therefore, such atypical E. coli forms should be included in differential diagnosis to understand the pathogenicity, antimicrobial resistance and evolution of H2S-producing E. coli.

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“…Other markers of V. cholerae pathogenicity are four genes localized in the so-called "virulence cassette", i.e. ctx AB, the zot gene encoding the protein of ZOT toxin (zonula occludens toxin) which increases the permeability of the small intestine and is responsible for closing intercellular spaces, the ace gene, encoding the protein of accessory cholera toxin, and the cep gene encoding the material of fimbriae that facilitate colonization of the intestine [7,8].…”

Section: Vibrio Choleraementioning

confidence: 99%

“…With established cirrhosis or blood neoplastic disease, infections can lead to serious complications. Mortality rates range from 50-60% [6,8].…”

Section: Vibrio Nagmentioning

confidence: 99%

Properties and Pathogenicity of the Vibrio Bacilli

Tarasiuk¹,

Weiner²

2023

hpc

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Genomic attributes of Vibrio cholerae O1 responsible for 2022 massive cholera outbreak in Bangladesh

Cited by 17 publications

References 41 publications

Phage predation, disease severity, and pathogen genetic diversity in cholera patients

Phage predation, disease severity, and pathogen genetic diversity in cholera patients

Genomic and functional portrait of multidrug-resistant, hydrogen sulfide (H2S)-producing variants of Escherichia coli

Properties and Pathogenicity of the Vibrio Bacilli

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