Draft Genome Sequence of the Shrimp Pathogen Vibrio harveyi CAIM 1792

Espinoza-Valles, Iliana; Soto-Rodríguez, Sonia A.; Edwards, Robert A.; Wang, Zheng; Vora, Gary J.; Gómez‐Gil, Bruno

doi:10.1128/jb.00079-12

Cited by 8 publications

(6 citation statements)

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“…The genome of this strain has been sequenced (Espinoza-Valles et al, 2012), and it is now possible to use bioinformatics tools to identify unique and shared genes among strains of this species and of phylogenetically closely related species. In this study, whole-genome sequences of strains of the closely related species V. harveyi, V. owensii, V. rotiferianus and V. campbellii were compared to the V. harveyi CAIM 1792 genome sequence to reveal the conservation level of genes between these strains and species.…”

Section: Introductionmentioning

confidence: 99%

Unique and conserved genome regions in Vibrio harveyi and related species in comparison with the shrimp pathogen Vibrio harveyi CAIM 1792

et al. 2015

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Vibrio harveyi CAIM 1792 is a marine bacterial strain that causes mortality in farmed shrimp in north-west Mexico, and the identification of virulence genes in this strain is important for understanding its pathogenicity. The aim of this work was to compare the V. harveyi CAIM 1792 genome with related genome sequences to determine their phylogenic relationship and explore unique regions in silico that differentiate this strain from other V. harveyi strains. Twenty-one newly sequenced genomes were compared in silico against the CAIM 1792 genome at nucleotidic and predicted proteome levels. The proteome of CAIM 1792 had higher similarity to those of other V. harveyi strains (78 %) than to those of the other closely related species Vibrio owensii (67 %), Vibrio rotiferianus (63 %) and Vibrio campbellii (59 %). Pan-genome ORFans trees showed the best fit with the accepted phylogeny based on DNA-DNA hybridization and multi-locus sequence analysis of 11 concatenated housekeeping genes. SNP analysis clustered 34/38 genomes within their accepted species. The pangenomic and SNP trees showed that V. harveyi is the most conserved of the four species studied and V. campbellii may be divided into at least three subspecies, supported by intergenomic distance analysis. BLASTP atlases were created to identify unique regions among the genomes most related to V. harveyi CAIM 1792; these regions included genes encoding glycosyltransferases, specific type restriction modification systems and a transcriptional regulator, LysR, reported to be involved in virulence, metabolism, quorum sensing and motility.

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Section: Introductionmentioning

confidence: 99%

Unique and conserved genome regions in Vibrio harveyi and related species in comparison with the shrimp pathogen Vibrio harveyi CAIM 1792

et al. 2015

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“…However, we did not find the anguibactin cluster in the draft genome sequence of V. harveyi CAIM 1792 (Espinoza‐Valles et al. ). Lin et al.…”

Section: Resultsmentioning

confidence: 67%

The anguibactin biosynthesis and transport genes are encoded in the chromosome of Vibrio harveyi: a possible evolutionary origin for the pJM1 plasmid–encoded system of Vibrio anguillarum?

2013

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Many Vibrio anguillarum serotype O1 strains carry 65-kb pJM1-type plasmids harboring genes involved in siderophore anguibactin biosynthesis and transport. The anguibactin system is an essential factor for V. anguillarum to survive under iron-limiting conditions, and as a consequence, it is a very important virulence factor of this bacterium. Our comparative analysis of genomic data identified a cluster harboring homologs of anguibactin biosynthesis and transport genes in the chromosome of Vibrio harveyi. We have purified the putative anguibactin siderophore and demonstrated that it is indeed anguibactin by mass spectrometry and specific bioassays. Furthermore, we characterized two genes, angR and fatA, in this chromosome cluster that, respectively, participate in anguibactin biosynthesis and transport as determined by mutagenesis analysis. Furthermore, we found that the V. harveyi FatA protein is located in the outer membrane fractions as previously demonstrated in V. anguillarum. Based on our data, we propose that the anguibactin biosynthesis and transport cluster in the V. anguillarum pJM1 plasmid have likely evolved from the chromosome cluster of V. harveyi or vice versa.

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“…The T4SS is responsible for the transport of virulent proteins or DNA into eukaryotic cells as well as for the conjugative transfer of plasmids from one bacterium to another ( Fronzes, Christie & Waksman, 2009 ) and were found in the insertion regions, suggesting that the T4SS may play important roles in the pathogenicity of QT520. The T6SS, which is associated with cytotoxic effectors ( Costa et al, 2015 ; Unterweger et al, 2014 ), translocates toxic effector proteins into eukaryotic and prokaryotic cells and has a pivotal role in pathogenesis and bacterial competition ( Ho, Dong & Mekalanos, 2014 ; Zoued et al, 2014 ), and this system was also reported in the pathogenic Vibrio harveyi strains ZJ0603 and CAIM 1792 ( Huang et al, 2012 ; Espinoza-Valles et al, 2012 ). This secretion system functions as a group of toxin proteins by transporting various bacterial effectors into eukaryotic cells, resulting in host cell death ( Costa et al, 2015 ), and its presence suggests that QT520 is a highly virulent strain based on our genome analysis.…”

Section: Discussionmentioning

confidence: 99%

Complete genome sequence and comparative genomics of the golden pompano (Trachinotus ovatus) pathogen, Vibrio harveyi strain QT520

Zhang

et al. 2017

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Vibrio harveyi is a Gram-negative, halophilic bacterium that is an opportunistic pathogen of commercially farmed marine vertebrate species. To understand the pathogenicity of this species, the genome of V. harveyi QT520 was analyzed and compared to that of other strains. The results showed the genome of QT520 has two unique circular chromosomes and three endogenous plasmids, totaling 6,070,846 bp with a 45% GC content, 5,701 predicted ORFs, 134 tRNAs and 37 rRNAs. Common virulence factors, including ACF, IlpA, OmpU, Flagellin, Cya, Hemolysin and MARTX, were detected in the genome, which are likely responsible for the virulence of QT520. The results of genomes comparisons with strains ATCC 33843 (392 (MAV)) and ATCC 43516 showed that greater numbers genes associated with types I, II, III, IV and VI secretion systems were detected in QT520 than in other strains, suggesting that QT520 is a highly virulent strain. In addition, three plasmids were only observed in the complete genome sequence of strain QT520. In plasmid p1 of QT520, specific virulence factors (cyaB, hlyB and rtxA) were identified, suggesting that the pathogenicity of this strain is plasmid-associated. Phylogenetic analysis of 12 complete Vibrio sp. genomes using ANI values, core genes and MLST revealed that QT520 was most closely related to ATCC 33843 (392 (MAV)) and ATCC 43516, suggesting that QT520 belongs to the species V. harveyi. This report is the first to describe the complete genome sequence of a V. harveyi strain isolated from an outbreak in a fish species in China. In addition, to the best of our knowledge, this report is the first to compare the V. harveyi genomes of several strains. The results of this study will expand our understanding of the genome, genetic characteristics, and virulence factors of V. harveyi, setting the stage for studies of pathogenesis, diagnostics, and disease prevention.

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Draft Genome Sequence of the Shrimp Pathogen Vibrio harveyi CAIM 1792

Cited by 8 publications

References 6 publications

Unique and conserved genome regions in Vibrio harveyi and related species in comparison with the shrimp pathogen Vibrio harveyi CAIM 1792

Unique and conserved genome regions in Vibrio harveyi and related species in comparison with the shrimp pathogen Vibrio harveyi CAIM 1792

The anguibactin biosynthesis and transport genes are encoded in the chromosome of Vibrio harveyi: a possible evolutionary origin for the pJM1 plasmid–encoded system of Vibrio anguillarum?

Complete genome sequence and comparative genomics of the golden pompano (Trachinotus ovatus) pathogen, Vibrio harveyi strain QT520

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