Strain identifier

BacDive ID: 17364

Type strain: Yes

Species: Vibrio plantisponsor

Strain Designation: MSSRF60

Strain history: <- S. Nair, M.S. Swaminathan Research Foundation, Taramani, India; MSSRF60 <- N. Ramesh Kumar

NCBI tax ID(s): 664643 (species)

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General

@ref: 15514

BacDive-ID: 17364

DSM-Number: 21026

keywords: genome sequence, 16S sequence, Bacteria, motile

description: Vibrio plantisponsor MSSRF60 is a motile bacterium that was isolated from roots of mangrove-associated wild rice .

NCBI tax id

  • NCBI tax id: 664643
  • Matching level: species

strain history

  • @ref: 15514
  • history: <- S. Nair, M.S. Swaminathan Research Foundation, Taramani, India; MSSRF60 <- N. Ramesh Kumar

doi: 10.13145/bacdive17364.20230509.8.1

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 plantisponsor
  • full scientific name: Vibrio plantisponsor Rameshkumar et al. 2012

@ref: 15514

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio plantisponsor

full scientific name: Vibrio plantisponsor Rameshkumar et al. 2012

strain designation: MSSRF60

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.541
6948099.99negative

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.996

Isolation, sampling and environmental information

isolation

  • @ref: 15514
  • sample type: roots of mangrove-associated wild rice (Porteresia coarctata)
  • host species: Porteresia coarctata
  • geographic location: Tamil Nadu, Pichavaram mangroves
  • country: India
  • origin.country: IND
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root (Rhizome)

taxonmaps

  • @ref: 69479
  • File name: preview.99_6055.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_3549;98_4492;99_6055&stattab=map
  • Last taxonomy: Vibrio
  • 16S sequence: GQ352641
  • Sequence Identity:
  • Total samples: 9385
  • soil counts: 394
  • aquatic counts: 4875
  • animal counts: 3964
  • plant counts: 152

Safety information

risk assessment

  • @ref: 15514
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15514
  • description: Vibrio plantisponsor strain MSSRF60 16S ribosomal RNA gene, partial sequence
  • accession: GQ352641
  • length: 1338
  • database: ena
  • NCBI tax ID: 664643

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio plantisponsor LMG 24470GCA_013041605scaffoldncbi664643
66792Vibrio plantisponsor strain LMG 24470664643.4wgspatric664643

GC content

  • @ref: 15514
  • GC-content: 41.8
  • method: fluorimetric

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes92.933no
flagellatedyes91.912no
gram-positiveno99.032no
anaerobicno97.343no
aerobicyes81.911no
halophileyes56.474no
spore-formingno95.864no
glucose-utilyes93.294no
thermophileno99.502no
glucose-fermentyes87.566no

External links

@ref: 15514

culture collection no.: DSM 21026, CAIM 1392, LMG 24470

straininfo link

  • @ref: 86365
  • straininfo: 363019

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21596509Vibrio plantisponsor sp. nov., a diazotrophic bacterium isolated from a mangrove associated wild rice (Porteresia coarctata Tateoka).Rameshkumar N, Gomez-Gil B, Sproer C, Lang E, Dinesh Kumar N, Krishnamurthi S, Nair S, Roque ASyst Appl Microbiol10.1016/j.syapm.2011.02.0052011Bacterial Typing Techniques, Base Composition, Base Sequence, DNA Gyrase/genetics, Fatty Acids/chemistry, Genes, Bacterial, Genes, rRNA, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization/methods, Oxidoreductases/genetics, Phenotype, Phylogeny, Plant Roots/microbiology, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Alignment, Vibrio/chemistry/*classification/genetics/*isolation & purificationGenetics
Phylogeny26296768Vibrio oceanisediminis sp. nov., a nitrogen-fixing bacterium isolated from an artificial oil-spill marine sediment.Kang SR, Srinivasan S, Lee SSInt J Syst Evol Microbiol10.1099/ijsem.0.0004562015Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, *Petroleum Pollution, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vibrio/*classification/genetics/isolation & purificationGenetics
Phylogeny33480834Vibrio agarilyticus sp. nov., an agar-digesting marine bacterium isolated from coastal seawater in Daya Bay (Guangdong, China).Wang X, Guo F, Tian P, Yu S, Xue CX, Wang W, Xiao J, Niu WInt J Syst Evol Microbiol10.1099/ijsem.0.0046472021Agar/metabolism, Bacterial Typing Techniques, Base Composition, Bays, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vibrio/*classification/isolation & purificationTranscriptome
Phylogeny33887169Vibrio ziniensis sp. nov., isolated from mangrove sediments.Wu J, Qu W, Lai Q, Pei S, Zhang T, Zhuang Y, Chan Z, Zeng RInt J Syst Evol Microbiol10.1099/ijsem.0.0047772021Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vibrio/*classification/isolation & purification, *WetlandsTranscriptome

Reference

@idauthorscataloguedoi/urltitle
15514Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21026)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21026
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
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)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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
86365Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID363019.1StrainInfo: A central database for resolving microbial strain identifiers