Strain identifier

BacDive ID: 17246

Type strain: Yes

Species: Salinivibrio siamensis

Strain Designation: ND1-1

Strain history: S. Tanasupawat; Chulalongkorn Univ., Thailand; ND1-1.

NCBI tax ID(s): 414286 (species)

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General

@ref: 18179

BacDive-ID: 17246

DSM-Number: 26187

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Salinivibrio siamensis ND1-1 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from fermented fish .

NCBI tax id

  • NCBI tax id: 414286
  • Matching level: species

strain history

@refhistory
18179<- JCM <- S. Tanasupawat, Dept. Microbiology, Chulalongkorn Univ., Thailand; ND1-1
67770S. Tanasupawat; Chulalongkorn Univ., Thailand; ND1-1.

doi: 10.13145/bacdive17246.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Vibrionales
  • family: Vibrionaceae
  • genus: Salinivibrio
  • species: Salinivibrio siamensis
  • full scientific name: Salinivibrio siamensis Chamroensaksri et al. 2009

@ref: 18179

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Salinivibrio

species: Salinivibrio siamensis

full scientific name: Salinivibrio siamensis Chamroensaksri et al. 2009

strain designation: ND1-1

type strain: yes

Morphology

cell morphology

  • @ref: 28927
  • gram stain: negative
  • cell length: 5 µm
  • cell width: 0.45 µm
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

  • @ref: 18179
  • name: LENTIBACILLUS MEDIUM (DSMZ Medium 1449)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1449
  • composition: Name: LENTIBACILLUS MEDIUM (DSMZ Medium 1449) Composition: NaCl 100.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Trisodium citrate 3.0 g/l Glutamic acid 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.0004 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
18179positivegrowth37mesophilic
28927positivegrowth10-47
28927positiveoptimum37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
28927positivegrowth05-09alkaliphile
28927positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 28927
  • oxygen tolerance: anaerobe

spore formation

  • @ref: 28927
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
28927NaClpositivegrowth01-22 %
28927NaClpositiveoptimum9.5 %

observation

  • @ref: 67770
  • observation: quinones: Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2892716449alanine+carbon source
2892728757fructose+carbon source
2892728260galactose+carbon source
289275291gelatin+carbon source
2892717234glucose+carbon source
2892717754glycerol+carbon source
2892715428glycine+carbon source
2892717306maltose+carbon source
2892729864mannitol+carbon source
2892737684mannose+carbon source
2892717272propionate+carbon source
2892715361pyruvate+carbon source
2892733942ribose+carbon source
2892730031succinate+carbon source
2892717992sucrose+carbon source
2892727082trehalose+carbon source
2892718222xylose+carbon source
2892717632nitrate+reduction

enzymes

@refvalueactivityec
28927acid phosphatase+3.1.3.2
28927alkaline phosphatase+3.1.3.1
28927catalase+1.11.1.6
28927cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
18179fermented fish (pla-ra)Nakornnayok provinceThailandTHAAsia
67770Fermented fish (pla-ra) in Thailandpla-ra

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Seafood
#Host#Fishes
#Engineered#Food production#Fermented

Safety information

risk assessment

  • @ref: 18179
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18179
  • description: Salinivibrio siamensis gene for 16S ribosomal RNA, partial sequence
  • accession: AB285018
  • length: 1487
  • database: ena
  • NCBI tax ID: 414286

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salinivibrio siamensis JCM 144722791354968draftimg414286
67770Salinivibrio siamensis JCM 14472GCA_001996005contigncbi414286

GC content

@refGC-contentmethod
1817949.0high performance liquid chromatography (HPLC)
2892749
6777049high performance liquid chromatography (HPLC)

External links

@ref: 18179

culture collection no.: DSM 26187, JCM 14472, PCU 301, TISTR 1810

straininfo link

  • @ref: 86244
  • straininfo: 399107

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19329624Salinivibrio siamensis sp. nov., from fermented fish (pla-ra) in Thailand.Chamroensaksri N, Tanasupawat S, Akaracharanya A, Visessanguan W, Kudo T, Itoh TInt J Syst Evol Microbiol10.1099/ijs.0.001768-02009Animals, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fishes/*microbiology, *Food Microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Temperature, Thailand, Vibrionaceae/*classification/genetics/*isolation & purification/physiologyBiotechnology
Phylogeny21287211Salinivibrio sharmensis sp. nov., a novel haloalkaliphilic bacterium from a saline lake in Ras Mohammed Park (Egypt).Romano I, Orlando P, Gambacorta A, Nicolaus B, Dipasquale L, Pascual J, Giordano A, Lama LExtremophiles10.1007/s00792-010-0349-92011Carbohydrates/chemistry, DNA/chemistry/genetics, Hydrogen-Ion Concentration, Lipids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, Phosphatidylglycerols/chemistry, Phylogeny, Quinones/chemistry, RNA, Ribosomal, 16S/genetics, Sodium Chloride/chemistry, Temperature, Vibrionaceae/*genetics, Water MicrobiologyGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
18179Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26187)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26187
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
28927Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2536628776041
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/
86244Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399107.1StrainInfo: A central database for resolving microbial strain identifiers