Comparative genomics of<i>Vibrio cholerae</i>O1 isolated from cholera patients in Bangladesh

Hossain, Zenat Zebin; Leekitcharoenphon, Pimlapas; Dalsgaard, Anders; Sultana, Rokaia; Begum, Anowara; Jensen, Peter Kjær Mackie; Hendriksen, René S.

doi:10.1111/lam.13046

Cited by 16 publications

(14 citation statements)

References 32 publications

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“…Most of our strains carried the SXT integrative conjugative element containing resistance genes to aminoglycosides, sulfamethoxazole, trimethoprim, phenicols and quinolones with genomic similarity to V. cholerae ICEVchHai1 (Hendriksen et al, 2011; Kaas et al, 2016). Some of our strains carrying genes encoding phenicol resistance were susceptible to chloramphenicol (Siriphap et al, 2017; Hossain et al, 2018b) which shows that the expression of a phenotype is not solely related to the possession of encoding gene. Moreover, the nucleotide deletions that occurred within the SXT element are not rare, as studies have underlined frequent mutation rates in the ICE cassette (Spagnoletti et al, 2014; Wang et al, 2016; Hossain et al, 2018b).…”

Section: Discussionmentioning

confidence: 92%

“…Some of our strains carrying genes encoding phenicol resistance were susceptible to chloramphenicol (Siriphap et al, 2017; Hossain et al, 2018b) which shows that the expression of a phenotype is not solely related to the possession of encoding gene. Moreover, the nucleotide deletions that occurred within the SXT element are not rare, as studies have underlined frequent mutation rates in the ICE cassette (Spagnoletti et al, 2014; Wang et al, 2016; Hossain et al, 2018b). This could also explain why the strain Plankton1, which was negative for the SXT element, was genetically distinct from the rest (Figure 5).…”

Section: Discussionmentioning

confidence: 92%

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Surveillance and Genomics of Toxigenic Vibrio cholerae O1 From Fish, Phytoplankton and Water in Lake Victoria, Tanzania

et al. 2019

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The occurrence of toxigenic Vibrio cholerae O1 during a non- outbreak period in Lake Victoria was studied and genetic characteristics for environmental persistence and relatedness to pandemic strains were assessed. We analyzed 360 samples of carps, phytoplankton and water collected in 2017 during dry and rainy seasons in the Tanzanian basin of Lake Victoria. Samples were tested using PCR ( omp W and ctx A) with DNA extracted from bacterial isolates and samples enriched in alkaline peptone water. Isolates were screened with polyvalent antiserum O1 followed by antimicrobial susceptibility testing. Whole genome sequencing and bioinformatics tools were employed to investigate the genomic characteristics of the isolates. More V. cholerae positive samples were recovered by PCR when DNA was obtained from enriched samples than from isolates (69.0% vs. 21.3%, p < 0.05), irrespectively of season. We identified ten V. cholerae O1 among 22 ctx A-positive isolates. Further studies are needed to serotype the remaining ctx A-positive non-O1 strains. Sequenced strains belonged to El Tor atypical biotype of V. cholerae O1 of MLST ST69 harboring the seventh pandemic gene. Major virulence genes, ctxA, ctxB, zot, ace, tcpA, hlyA, rtxA, ompU, toxR, T6SS, alsD, makA and pathogenicity islands VPI-1, VPI-2, VSP-1, and VSP-2 were found in all strains. The strains contained Vibrio polysaccharide biosynthesis enzymes, the mshA gene and two-component response regulator proteins involved in stress response and autoinducers for quorum sensing and biofilm formation. They carried the SXT integrative conjugative element with phenotypic and genotypic resistance to aminoglycoside, sulfamethoxazole, trimethoprim, phenicol, and quinolones. Strains contained a multidrug efflux pump component and were resistant to toxic compounds with copper homeostasis and cobalt-zinc-cadmium resistance proteins. The environmental strains belonged to the third wave of the seventh pandemic and most are genetically closely related to recent outbreak strains from Tanzania, Kenya, and Uganda with as low as three SNPs difference. Some strains have persisted longer in the environment and were more related to older outbreak strains in the region. V. cholerae O1 of outbreak potential seem to persist in Lake Victoria through interactions with fish and phytoplankton supported by the optimum water parameters and intrinsic genetic features enhancing survival in the aquatic environment.

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Section: Discussionmentioning

confidence: 92%

Section: Discussionmentioning

confidence: 92%

Surveillance and Genomics of Toxigenic Vibrio cholerae O1 From Fish, Phytoplankton and Water in Lake Victoria, Tanzania

et al. 2019

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“…A single CTXφ region, which include the core and RS2 regions, was found in all isolates. In the core region, ctxB1 (the classical allele) that contains histidine and threonine in position 39 and 68, respectively, was found along with ctxA, zot, ace, orfU , and cep (37). Due to the incompleteness of the genome assemblies, only partial fragments of RS1, which is absent in the classical biotype strain, and RS2 regions were recovered, and sufficient to confirm that Korean isolate contains a hybrid form of CTXφ prophage (34, 38).…”

Section: Resultsmentioning

confidence: 99%

Comparative Genomic Analysis of the 2016 Vibrio cholerae Outbreak in South Korea

Chalita

Yang³

et al. 2019

Front. Public Health

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In August 2016, South Korea experienced a cholera outbreak that caused acute watery diarrhea in three patients. This outbreak was the first time in 15 years that an outbreak was not linked to an overseas source. To identify the cause and to study the epidemiological implications of this outbreak, we sequenced the whole genome of Vibrio cholerae isolates; three from each patient and one from a seawater sample. Herein we present comparative genomic data which reveals that the genome sequences of these four isolates are very similar. Interestingly, these isolates form a monophyletic clade with V. cholerae strains that caused an outbreak in the Philippines in 2011. The V. cholerae strains responsible for the Korean and Philippines outbreaks have almost identical genomes in which two unique genomic islands are shared, and they both lack SXT elements. Furthermore, we confirm that seawater is the likely source of this outbreak, which suggests the necessity for future routine surveillance of South Korea's seashore.

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“…The objective of antibiotics to treat cholera infections is to reduce both (1) the time and severity of the illness and (2) the transmission to other individuals. Acute infection with severe dehydration is treated with ORT and antibiotics to produce synergistic efficacy 10– 12, 16 . Effective antibiotics to treat cholera are doxycycline, azithromycin, and tetracycline.…”

Section: Antibiotics/antimicrobialsmentioning

confidence: 99%

“…Furthermore, V. cholerae is evolving new genetic mechanisms to confer resistance to these drugs. Models that predict the emergence of new pandemic strains in heavy-burden, developing countries may be useful for planning future antibiotic treatment strategies, including proper drug allocation, and for elucidating the epidemiology of drug-resistant outbreak strains 10 .…”

Section: Antibiotics/antimicrobialsmentioning

confidence: 99%

Combating Cholera

Hsueh

Waters

2019

F1000Res

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Cholera infections caused by the gamma-proteobacterium Vibrio cholerae have ravaged human populations for centuries, and cholera pandemics have afflicted every corner of the globe. Fortunately, interventions such as oral rehydration therapy, antibiotics/antimicrobials, and vaccines have saved countless people afflicted with cholera, and new interventions such as probiotics and phage therapy are being developed as promising approaches to treat even more cholera infections. Although current therapies are mostly effective and can reduce disease transmission, cholera outbreaks remain deadly, as was seen during recent outbreaks in Haiti, Ethiopia, and Yemen. This is due to significant underlying political and socioeconomic complications, including shortages of vaccines and clean food and water and a lack of health surveillance. In this review, we highlight the strengths and weaknesses of current cholera therapies, discuss emerging technologies, and argue that a multi-pronged, flexible approach is needed to continue to reduce the worldwide burden of cholera.

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Comparative genomics ofVibrio choleraeO1 isolated from cholera patients in Bangladesh

Abstract: Some of the authors of this publication are also working on these related projects:

Cited by 16 publications

References 32 publications

Surveillance and Genomics of Toxigenic Vibrio cholerae O1 From Fish, Phytoplankton and Water in Lake Victoria, Tanzania

Surveillance and Genomics of Toxigenic Vibrio cholerae O1 From Fish, Phytoplankton and Water in Lake Victoria, Tanzania

Comparative Genomic Analysis of the 2016 Vibrio cholerae Outbreak in South Korea

Combating Cholera

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