Strain identifier

BacDive ID: 132189

Type strain: Yes

Species: Vibrio thalassae

Strain Designation: MD16

Strain history: <- MJ Pujalte,Univ. of Valencia, Spain

NCBI tax ID(s): 1243014 (species)

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For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 23978

BacDive-ID: 132189

DSM-Number: 102810

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

description: Vibrio thalassae MD16 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 1243014
  • Matching level: species

strain history

@refhistory
23978<- CECT <- M. J. Pujalte, Departamento de Microbiología y Ecologia, Universidad de Valencia, Spain; MD16
67771<- MJ Pujalte,Univ. of Valencia, Spain

doi: 10.13145/bacdive132189.20230509.8.1

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 thalassae
  • full scientific name: Vibrio thalassae Tarazona et al. 2014

@ref: 23978

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio thalassae

full scientific name: Vibrio thalassae Tarazona et al. 2014

strain designation: MD16

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
67771negative
69480yes98.175
69480negative99.961

Culture and growth conditions

culture medium

  • @ref: 23978
  • name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514c
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
23978positivegrowth28mesophilic
67771positivegrowth26mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.977

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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
23978----------+-++----+-------+++---+-------+---------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
23978seawaterValencia, Malvarrosa BeachSpainESPEurope
67771From sulface sea waterthe Mediterranean coast in Malvarrosa beach, ValenciaSpainESPEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_4949.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_193;98_3702;99_4949&stattab=map
  • Last taxonomy: Vibrio
  • 16S sequence: HF541973
  • Sequence Identity:
  • Total samples: 336
  • soil counts: 3
  • aquatic counts: 325
  • animal counts: 7
  • plant counts: 1

Safety information

risk assessment

  • @ref: 23978
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 23978
  • description: Vibrio thalassae partial 16S rRNA gene, type strain MD16T
  • accession: HF541973
  • length: 1467
  • database: ena
  • NCBI tax ID: 1243014

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio thalassae CECT8203GCA_900089835scaffoldncbi1243014
66792Vibrio thalassae strain CECT82031243014.3wgspatric1243014

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes92.46no
flagellatedyes91.372no
gram-positiveno98.742no
anaerobicno98.165no
aerobicyes86.866yes
halophileyes57.762no
spore-formingno95.526no
glucose-fermentyes88.168no
thermophileno98.811no
glucose-utilyes92.614no

External links

@ref: 23978

culture collection no.: DSM 102810, CECT 8203, KCTC 32373

straininfo link

  • @ref: 90543
  • straininfo: 394597

literature

  • topic: Phylogeny
  • Pubmed-ID: 24935234
  • title: Multilocus sequence analysis of putative Vibrio mediterranei strains and description of Vibrio thalassae sp. nov.
  • authors: Tarazona E, Lucena T, Arahal DR, Macian MC, Ruvira MA, Pujalte MJ
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2014.05.005
  • year: 2014
  • mesh: Animals, Aquatic Organisms/*microbiology, Bacterial Proteins/genetics, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, *Multilocus Sequence Typing, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vibrio/*classification/genetics/*isolation & purification
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
23978Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102810Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102810)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90543Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID394597.1