Strain identifier

BacDive ID: 133555

Type strain: Yes

Species: Flavobacterium sinopsychrotolerans

Strain Designation: 0533, 533

Strain history: CIP <- 2011, CGMCC <- M. Xu: strain 0533

NCBI tax ID(s): 604089 (species)

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General

@ref: 29491

BacDive-ID: 133555

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

description: Flavobacterium sinopsychrotolerans 0533 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from The China No. 1 glacier.

NCBI tax id

  • NCBI tax id: 604089
  • Matching level: species

strain history

@refhistory
67770CGMCC 1.8704 <-- M. Xu 0533.
122634CIP <- 2011, CGMCC <- M. Xu: strain 0533

doi: 10.13145/bacdive133555.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flavobacterium
  • species: Flavobacterium sinopsychrotolerans
  • full scientific name: Flavobacterium sinopsychrotolerans Xu et al. 2011

@ref: 29491

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium sinopsychrotolerans

strain designation: 0533, 533

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapeconfidencemotility
29491negative3 µm0.35 µmrod-shaped
69480negative99.999
122634negativerod-shapedno

pigmentation

  • @ref: 29491
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
42057MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122634CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
29491positivegrowth04-25
29491positiveoptimum21.5psychrophilic
42057positivegrowth20psychrophilic
67770positivegrowth20psychrophilic

culture pH

@refabilitytypepHPH range
29491positivegrowth6.5-10alkaliphile
29491positiveoptimum7.25

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29491aerobe
122634obligate aerobe

spore formation

@refspore formationconfidence
29491no
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
29491NaClpositivegrowth<2 %
29491NaClpositiveoptimum0.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2949128757fructose+carbon source
2949117234glucose+carbon source
2949129987glutamate+carbon source
2949117306maltose+carbon source
2949137684mannose+carbon source
29491506227N-acetylglucosamine+carbon source
2949117992sucrose+carbon source
2949153425tween 60+carbon source
294914853esculin+hydrolysis
12263417632nitrate-reduction
12263416301nitrite-reduction

metabolite production

  • @ref: 122634
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29491acid phosphatase+3.1.3.2
29491alkaline phosphatase+3.1.3.1
29491alpha-galactosidase+3.2.1.22
29491catalase+1.11.1.6
29491cytochrome oxidase+1.9.3.1
122634oxidase+
122634catalase+1.11.1.6
122634urease-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
122634-++--++-+-++---+-+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
67770The China No. 1 glacier
122634Environment, Frozen soil, glacierXinjiang UygurChinaCHNAsia2005

Safety information

risk assessment

  • @ref: 122634
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 29491
  • description: Flavobacterium sinopsychrotolerans strain 0533 16S ribosomal RNA gene, partial sequence
  • accession: FJ654474
  • length: 1378
  • database: nuccore
  • NCBI tax ID: 604089

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium sinopsychrotolerans strain CGMCC 1.8704604089.3wgspatric604089
66792Flavobacterium sinopsychrotolerans CGMCC 1.87042619618873draftimg604089
67770Flavobacterium sinopsychrotolerans CGMCC 1.8704GCA_900110375scaffoldncbi604089

GC content

@refGC-contentmethod
2949132.5
6777032.5thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.853yes
anaerobicno99.273no
halophileno94.861yes
spore-formingno93.644yes
glucose-utilyes88.106no
thermophileno99.555yes
flagellatedno93.982no
aerobicyes93.917yes
motileno85.655no
glucose-fermentno93.828no

External links

@ref: 29491

culture collection no.: CGMCC 1.8704, JCM 16398, CIP 110296

straininfo link

  • @ref: 91501
  • straininfo: 376101

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20118284Flavobacterium sinopsychrotolerans sp. nov., isolated from a glacier.Xu M, Xin Y, Tian J, Dong K, Yu Y, Zhang J, Liu H, Zhou YInt J Syst Evol Microbiol10.1099/ijs.0.014126-02010Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/chemistry/*classification/genetics/*isolation & purification, Ice Cover/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysisGenetics
Phylogeny21724953Flavobacterium xueshanense sp. nov. and Flavobacterium urumqiense sp. nov., two psychrophilic bacteria isolated from glacier ice.Dong K, Liu H, Zhang J, Zhou Y, Xin YInt J Syst Evol Microbiol10.1099/ijs.0.030049-02011Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/*isolation & purification, *Ice, Ice Cover/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
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
29491Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172589128776041
42057Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8140
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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
91501Reimer, 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-ID376101.1
122634Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110296Collection of Institut Pasteur (CIP 110296)