Strain identifier

BacDive ID: 17310

Type strain: Yes

Species: Vibrio halioticoli

Strain Designation: A431

Strain history: CIP <- 1999, T. Sawabe, Fisheries Fac., Hokkaido Univ., Sapporo, Japan: strain A431 <- Y. Oda

NCBI tax ID(s): 1219072 (strain), 71388 (species)

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General

@ref: 15726

BacDive-ID: 17310

DSM-Number: 21474

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Vibrio halioticoli A431 is a mesophilic, Gram-negative bacterium that was isolated from gut of the abalone Haliotis discus hannai.

NCBI tax id

NCBI tax idMatching level
71388species
1219072strain

strain history

@refhistory
15726<- CIP <- T. Sawabe, Univ. Hokkaido; A431 <- Y. Oda
67770IAM 14596 <-- T. Sawabe A431.
119794CIP <- 1999, T. Sawabe, Fisheries Fac., Hokkaido Univ., Sapporo, Japan: strain A431 <- Y. Oda

doi: 10.13145/bacdive17310.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Vibrionales
  • family: Vibrionaceae
  • genus: Vibrio
  • species: Vibrio halioticoli
  • full scientific name: Vibrio halioticoli Sawabe et al. 1998

@ref: 15726

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio halioticoli

full scientific name: Vibrio halioticoli Sawabe et al. 1998

strain designation: A431

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.982
119794negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15726REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)yeshttps://mediadive.dsmz.de/medium/514cName: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c) Composition: NaCl 19.45 g/l Agar 18.0 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l Na2CO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
32951Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119794CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
15726positivegrowth28mesophilic
32951positivegrowth25mesophilic
67770positivegrowth25mesophilic
119794positivegrowth5-30
119794nogrowth37mesophilic
119794nogrowth41thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.725

compound production

  • @ref: 15726
  • compound: alginolytic enzymes

halophily

@refsaltgrowthtested relationconcentration
119794NaClpositivegrowth2-6 %
119794NaClnogrowth0 %
119794NaClnogrowth8 %
119794NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371Potassium 2-ketogluconate+builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
68369malate+assimilation25115
68369adipate-assimilation17128
68369decanoate-assimilation27689
68369gluconate-assimilation24265
68369maltose-assimilation17306
68369N-acetylglucosamine-assimilation59640
68369D-mannitol-assimilation16899
68369D-mannose-assimilation16024
68369L-arabinose-assimilation30849
68369D-glucose-assimilation17634
68369gelatin-hydrolysis5291
68369esculin-hydrolysis4853
68369urea-hydrolysis16199
68369arginine-hydrolysis29016
68369D-glucose+fermentation17634
68369tryptophan-energy source27897
68369nitrate+reduction17632
119794esculin-hydrolysis4853
119794nitrate+reduction17632
119794nitrite-reduction16301

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11979435581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
11979415688acetoin-
11979417234glucose+

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
119794oxidase+
119794alcohol dehydrogenase-1.1.1.1
119794gelatinase-
119794amylase-
119794caseinase-3.4.21.50
119794catalase+1.11.1.6
119794tween esterase-
119794gamma-glutamyltransferase-2.3.2.2
119794lecithinase-
119794lipase-
119794lysine decarboxylase-4.1.1.18
119794ornithine decarboxylase-4.1.1.17
119794phenylalanine ammonia-lyase-4.3.1.24
119794protease-
119794tryptophan deaminase-
119794urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119794-+++-+-----------+--

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
15726+-+--------------+--+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119794+---+-----+++----+---+-----+-------++---------+++

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
15726gut of the abalone Haliotis discus hannaiHaliotis discus hannaiHokkaidoJapanJPNAsia
67770Gut of abalones
119794Animal, Abalone, gutHokkaidoJapanJPNAsia1993

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Mollusca
#Host Body-Site#Gastrointestinal tract#Stomach

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
157261Risk group (German classification)
1197942Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Vibrio halioticoli gene for 16S rRNA, partial sequence, strain: NBRC 102217AB6817311478ena71388
20218Vibrio halioticoli strain CAIM 283 16S ribosomal RNA gene, partial sequenceEF094889544ena71388
15726Vibrio halioticoli gene for 16S rRNA, partial sequence, strain:IAM14596AB0003901428ena71388

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio halioticoli NBRC 1022171219072.3wgspatric1219072
66792Vibrio halioticoli strain IAM 1459671388.4wgspatric71388
66792Vibrio halioticoli NBRC 1022172563367142draftimg1219072
66792Vibrio halioticoli IAM 145962916722216draftimg71388
67770Vibrio halioticoli NBRC 102217GCA_000496695contigncbi1219072
67770Vibrio halioticoli IAM 14596GCA_003568965scaffoldncbi71388

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno82.997no
gram-positiveno98.434no
anaerobicno97.186no
aerobicyes72.173no
halophileyes82.039no
spore-formingno94.8no
thermophileno99.63no
glucose-utilyes85.096yes
glucose-fermentyes85.278yes
flagellatedno82.922no

External links

@ref: 15726

culture collection no.: DSM 21474, ATCC 700680, CAIM 283, CIP 106283, IAM 14596, JCM 21271, LMG 18542, NBRC 102217, NCIMB 13540

straininfo link

  • @ref: 86310
  • straininfo: 12663

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9731299Vibrio halioticoli sp. nov., a non-motile alginolytic marine bacterium isolated from the gut of the abalone Haliotis discus hannai.Sawabe T, Sugimura I, Ohtsuka M, Nakano K, Tajima K, Ezura Y, Christen RInt J Syst Bacteriol10.1099/00207713-48-2-5731998Animals, Base Sequence, DNA, Bacterial, Molecular Sequence Data, Mollusca/*microbiology, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/analysis, RNA, Ribosomal, 16S/analysis, Vibrio/*classification/genetics/ultrastructureGenetics
Enzymology10804241Cloning and Sequence Analysis of Vibrio halioticoli Genes Encoding Three Types of Polyguluronate Lyase.Sugimura I I, Sawabe T, Ezura YMar Biotechnol (NY)10.1007/s1012699000102000Transcriptome
10804242In Situ Polymerase Chain Reaction Visualization of Vibrio halioticoli Using Alginate Lyase Gene AlyVG2.Sugimura I I, Sawabe T, Ezura YMar Biotechnol (NY)10.1007/s1012699000092000
Phylogeny27262360Vibrio ishigakensis sp. nov., in Halioticoli clade isolated from seawater in Okinawa coral reef area, Japan.Gao F, Al-Saari N, Rohul Amin AK, Sato K, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Hargreaves PI, Meirelles PM, Thompson FL, Thompson C, Gomez-Gil B, Sawabe T, Sawabe TSyst Appl Microbiol10.1016/j.syapm.2016.04.0022016Alginates/metabolism, Animals, Anthozoa/*microbiology, Base Composition/genetics, Base Sequence, *Coral Reefs, DNA, Bacterial/genetics, Genes, Essential/genetics, Japan, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, *Vibrio/classification/genetics/isolation & purificationTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15726Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21474)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21474
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
32951Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18396
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86310Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12663.1StrainInfo: A central database for resolving microbial strain identifiers
119794Curators of the CIPCollection of Institut Pasteur (CIP 106283)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106283