Draft Genome Sequences of the Vibrio parahaemolyticus Strains VHT1 and VHT2, Pasteurization-Resistant Isolates from Environmental Seafood

Meza, Guadalupe; Majrshi, Hussain; Singh, Kumar Saurabh; Deole, Ratnakar; Tiong, Hung King

doi:10.1128/mra.00793-22

Cited by 2 publications

(2 citation statements)

References 9 publications

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“…In microbial genome analysis, it has been established that short-read sequencing alone permits simultaneous analysis of approximately 300 strains at an approximate cost of USD 3 per strain ( Shapland et al, 2015 ). The number of contigs resulting from the assembly may vary depending on the target microbial species; however, in the case of Vibrio , assembly of N 90 , which is defined to be the length for which the collection of all contigs of that length or longer contains at least 90% of the sum of the lengths of all contigs, with more than 100 kb, typically yielding fewer than 100 contigs, is achievable ( Castillo et al, 2015 ; Deb, Badhai & Das, 2020 ; LaPorte et al, 2023 ; Meza et al, 2022 ). Furthermore, the integration of long-read sequencing enables the relatively straightforward acquisition of complete genomes ( Chen, Erickson & Meng, 2020 ; Miyamoto et al, 2014 ; Wick, Judd & Holt, 2023 ).…”

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confidence: 99%

Deciphering the genomes of motility-deficient mutants of Vibrio alginolyticus 138-2

Uesaka,

Inaba,

Nishioka

et al. 2024

PeerJ

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The motility of Vibrio species plays a pivotal role in their survival and adaptation to diverse environments and is intricately associated with pathogenicity in both humans and aquatic animals. Numerous mutant strains of Vibrio alginolyticus have been generated using UV or EMS mutagenesis to probe flagellar motility using molecular genetic approaches. Identifying these mutations promises to yield valuable insights into motility at the protein structural physiology level. In this study, we determined the complete genomic structure of 4 reference specimens of laboratory V. alginolyticus strains: a precursor strain, V. alginolyticus 138-2, two strains showing defects in the lateral flagellum (VIO5 and YM4), and one strain showing defects in the polar flagellum (YM19). Subsequently, we meticulously ascertained the specific mutation sites within the 18 motility-deficient strains related to the polar flagellum (they fall into three categories: flagellar-deficient, multi-flagellar, and chemotaxis-deficient strains) by whole genome sequencing and mapping to the complete genome of parental strains VIO5 or YM4. The mutant strains had an average of 20.6 (±12.7) mutations, most of which were randomly distributed throughout the genome. However, at least two or more different mutations in six flagellar-related genes were detected in 18 mutants specifically selected as chemotaxis-deficient mutants. Genomic analysis using a large number of mutant strains is a very effective tool to comprehensively identify genes associated with specific phenotypes using forward genetics.

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Section: Introductionmentioning

confidence: 99%

Deciphering the genomes of motility-deficient mutants of Vibrio alginolyticus 138-2

Uesaka,

Inaba,

Nishioka

et al. 2024

PeerJ

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show abstract

Section: Introductionmentioning

confidence: 99%

Deciphering the Genomes of Motility-Deficient Mutants ofVibrio alginolyticus138-2

Uesaka,

Inaba,

Nishioka

et al. 2023

Preprint

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The motility ofVibriospecies plays a pivotal role in their survival and adaptation to diverse environments, and is intricately associated with pathogenicity in both humans and aquatic animals. Numerous mutant strains ofVibrio alginolyticushave been generated using UV or EMS mutagenesis to probe flagellar motility using molecular genetic approaches. Identifying these mutations promises to yield valuable insights into motility at the protein structural physiology level. In this study, we conducted an exhaustive analysis of the genomic structures of laboratoryVibriostrains that served as reference specimens. This assemblage notably encompassed the progenitor strainV. alginolyticus138-2, alongside two strains displaying deficiencies in the lateral flagella (VIO5 and YM4) and one evincing a deficiency in the polar flagella (YM19). Subsequently, we meticulously ascertained the specific mutation sites within the 18 motility-deficient strains whose parents could be traced back to VIO5 or YM4. The identified mutations were conclusively localized within well-established flagella-related genes, providing a coherent rationale for the phenotypic traits exhibited by each motility-deficient mutant. In addition to these motility-related mutations, an average of 20 additional mutations was detected in each mutant strain. Genomic analysis of many mutants is a highly effective tool for comprehensively identifying genes related to specific phenotypes using forward genetics.IMPORTANCEBacteria of theVibriospecies rely on their motility for survival, adaptation, and pathogenicity. Identifying specific changes in the genome of non-motile mutants can help understand the genes that regulate flagella and motility in these bacteria. Herin, we sequenced the genome ofVibrio alginolyticus138-2 strain and other motility defective strains and identified most of the mutations to be within genes encoding flagella. Additionally, we also provide a coherent rationale for the motility deficiency in these mutants. We believe that this study could provide a framework for genome sequencing-based methods for studying molecular functions in bacteria.

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Draft Genome Sequences of the Vibrio parahaemolyticus Strains VHT1 and VHT2, Pasteurization-Resistant Isolates from Environmental Seafood

Cited by 2 publications

References 9 publications

Deciphering the genomes of motility-deficient mutants of Vibrio alginolyticus 138-2

Deciphering the genomes of motility-deficient mutants of Vibrio alginolyticus 138-2

Deciphering the Genomes of Motility-Deficient Mutants ofVibrio alginolyticus138-2

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