Strain identifier

BacDive ID: 5640

Type strain: Yes

Species: Salegentibacter flavus

Strain Designation: Fg 69

Variant: Isotype of BacDive ID 131115

Strain history: CIP <- 2003, E. Ivanova, Swinburne Inst., Victoria, Australia: strain Fg 69 <- N. Gorshkova

NCBI tax ID(s): 287099 (species)

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General

@ref: 7189

BacDive-ID: 5640

DSM-Number: 17794

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

description: Salegentibacter flavus Fg 69 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sediments.

NCBI tax id

  • NCBI tax id: 287099
  • Matching level: species

strain history

@refhistory
7189<- E. P. Ivanova, Swinburne Univ. of Techn., Hawthorn, Australia; Fg 69
119389CIP <- 2003, E. Ivanova, Swinburne Inst., Victoria, Australia: strain Fg 69 <- N. Gorshkova

doi: 10.13145/bacdive5640.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Salegentibacter
  • species: Salegentibacter flavus
  • full scientific name: Salegentibacter flavus Ivanova et al. 2006

@ref: 7189

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Salegentibacter

species: Salegentibacter flavus

full scientific name: Salegentibacter flavus Ivanova et al. 2006 emend. Hahnke et al. 2016

strain designation: Fg 69

variant: Isotype of BacDive ID 131115

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31705negative2.5-4 µm0.5-0.7 µmrod-shapedno
69480negative99.972
119389negativerod-shapedno

pigmentation

@refproductionname
31705yes
119389noFlexirubin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7189BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 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 NaHCO3 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
39952Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@refgrowthtypetemperaturerange
7189positivegrowth28mesophilic
31705positivegrowth10-35
31705positiveoptimum22-25
39952positivegrowth30mesophilic
119389positivegrowth15-30
119389nogrowth5psychrophilic
119389nogrowth37mesophilic
119389nogrowth41thermophilic
119389nogrowth45thermophilic

culture pH

@refabilitytypepHPH range
31705positivegrowth05-10alkaliphile
31705positiveoptimum8-8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31705
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31705no
69481no100
69480no99.988

halophily

@refsaltgrowthtested relationconcentration
31705NaClpositivegrowth03-10 %
31705NaClpositiveoptimum3 %
119389NaClnogrowth0 %
119389NaClnogrowth2 %
119389NaClnogrowth4 %
119389NaClnogrowth6 %
119389NaClnogrowth8 %
119389NaClnogrowth10 %

observation

  • @ref: 31705
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1193894853esculin+hydrolysis
119389606565hippurate+hydrolysis
11938917632nitrate-reduction
11938916301nitrite-reduction
11938915792malonate-assimilation
11938917632nitrate-respiration

metabolite production

  • @ref: 119389
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11938915688acetoin-
11938917234glucose-

enzymes

@refvalueactivityec
31705catalase+1.11.1.6
31705gelatinase+
31705cytochrome oxidase+1.9.3.1
31705urease+3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
119389oxidase+
119389beta-galactosidase+3.2.1.23
119389alcohol dehydrogenase-1.1.1.1
119389gelatinase+/-
119389amylase+
119389caseinase+3.4.21.50
119389catalase+1.11.1.6
119389tween esterase+
119389gamma-glutamyltransferase+2.3.2.2
119389lecithinase-
119389lipase-
119389lysine decarboxylase-4.1.1.18
119389ornithine decarboxylase-4.1.1.17
119389phenylalanine ammonia-lyase+4.3.1.24
119389protease+
119389tryptophan deaminase-
119389urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119389-+++-++-+--+-----+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
7189sedimentsSea of Japan, Chazhma BayRussiaRUSAsia
119389Environment, Sediment sampleJapanJPNAsia2002

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Sediment

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
71891Risk group (German classification)
1193891Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7189
  • description: Salegentibacter flavus strain Fg 69 16S ribosomal RNA gene, partial sequence
  • accession: AY682200
  • length: 1471
  • database: ena
  • NCBI tax ID: 287099

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salegentibacter flavus DSM 17794GCA_900115145scaffoldncbi287099
66792Salegentibacter flavus strain DSM 17794287099.4wgspatric287099
66792Salegentibacter flavus DSM 177942599185209draftimg287099

GC content

@refGC-contentmethod
718940.4
718939.8sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.848yes
flagellatedno96.055no
gram-positiveno97.853no
anaerobicno98.215yes
aerobicyes83.438yes
halophileyes58.148no
spore-formingno93.984yes
glucose-fermentno90.349no
thermophileno98.786yes
glucose-utilyes87.467no

External links

@ref: 7189

culture collection no.: DSM 17794, CIP 107843, KMM 6000

straininfo link

  • @ref: 75123
  • straininfo: 291008

literature

  • topic: Phylogeny
  • Pubmed-ID: 16514031
  • title: Salegentibacter flavus sp. nov.
  • authors: Ivanova EP, Bowman JP, Christen R, Zhukova NV, Lysenko AM, Gorshkova NM, Mitik-Dineva N, Sergeev AF, Mikhailov VV
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64087-0
  • year: 2006
  • mesh: DNA, Ribosomal/chemistry, Fatty Acids/analysis, Flavobacteriaceae/chemistry/*classification/genetics, Geologic Sediments/*microbiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA
  • topic2: Phenotype

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
7189Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17794)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17794
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
31705Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2798228776041
39952Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5399
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
75123Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID291008.1StrainInfo: A central database for resolving microbial strain identifiers
119389Curators of the CIPCollection of Institut Pasteur (CIP 107843)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107843