Strain identifier

BacDive ID: 133486

Type strain: Yes

Species: Flavobacterium tiangeerense

Strain Designation: 0563, 563

Strain history: CIP <- 2012, JCM <- 2007, D.C. Zhang and Y.G. Zhou: strain 0563

NCBI tax ID(s): 459471 (species)

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General

@ref: 29172

BacDive-ID: 133486

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

description: Flavobacterium tiangeerense 0563 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from China No.1 glacier .

NCBI tax id

  • NCBI tax id: 459471
  • Matching level: species

strain history

@refhistory
67770D.-C. Zhang and Y.-G. Zhou 0563.
123543CIP <- 2012, JCM <- 2007, D.C. Zhang and Y.G. Zhou: strain 0563

doi: 10.13145/bacdive133486.20230509.8.1

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 tiangeerense
  • full scientific name: Flavobacterium tiangeerense Xin et al. 2009

@ref: 29172

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium tiangeerense

strain designation: 0563, 563

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29172negative5.5 µm0.45 µmrod-shapedno
69480negative99.998
123543negativerod-shapedno

pigmentation

  • @ref: 29172
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlink
33354MEDIUM691 - for Flavobacterium glacieiyes
123543CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566
123543CIP Medium 691yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=691

culture temp

@refgrowthtypetemperaturerange
29172positivegrowth04-26
29172positiveoptimum22.5psychrophilic
33354positivegrowth18psychrophilic
67770positivegrowth18psychrophilic

culture pH

@refabilitytypepHPH range
29172positivegrowth6.5-9alkaliphile
29172positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29172
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29172no
69481no100
69480no99.997
123543no

halophily

  • @ref: 29172
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-0.5 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2917221217L-alaninamide+carbon source
2917216449alanine+carbon source
2917217057cellobiose+carbon source
2917223652dextrin+carbon source
2917217234glucose+carbon source
2917229987glutamate+carbon source
2917228087glycogen+carbon source
2917217306maltose+carbon source
2917237684mannose+carbon source
2917218257ornithine+carbon source
2917226271proline+carbon source
2917216704uridine+carbon source
291724853esculin+hydrolysis

enzymes

@refvalueactivityec
29172acid phosphatase+3.1.3.2
29172alkaline phosphatase+3.1.3.1
29172catalase+1.11.1.6
29172cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
67770China No.1 glacier (Xinjiang Uygur Autonomous Region)ChinaCHNAsia
123543China n°1 glacierChinaCHNAsiaXinjiang Uygur

Safety information

risk assessment

  • @ref: 123543
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 29172
  • description: Flavobacterium sp. 0563 16S ribosomal RNA gene, partial sequence
  • accession: EU036219
  • length: 1427
  • database: nuccore
  • NCBI tax ID: 459471

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium tiangeerense CGMCC 1.6847GCA_007830355scaffoldncbi459471
66792Flavobacterium tiangeerense strain CGMCC 1.6847459471.3wgspatric459471
66792Flavobacterium tiangeerense CGMCC 1.68472596583560draftimg459471

GC content

@refGC-contentmethod
2917234.8
6777034.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.073yes
flagellatedno94.212yes
gram-positiveno98.464yes
anaerobicno99.63no
aerobicyes94.48yes
halophileno97.574no
spore-formingno94.343yes
thermophileno98.812yes
glucose-utilyes87.09yes
glucose-fermentno94.024no

External links

@ref: 29172

culture collection no.: CGMCC 1.6847, JCM 15087, CIP 110391

straininfo link

  • @ref: 91464
  • straininfo: 363757

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19625423Flavobacterium tiangeerense sp. nov., a cold-living bacterium isolated from a glacier.Xin YH, Liang ZH, Zhang DC, Liu HC, Zhang JL, Yu Y, Xu MS, Zhou PJ, Zhou YGInt J Syst Evol Microbiol10.1099/ijs.0.007906-02009China, Cold Temperature, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Flavobacterium/classification/genetics/*isolation & purification/metabolism, Ice Cover/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism
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
29172Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172559628776041
33354Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8245
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/
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
91464Reimer, 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-ID363757.1
123543Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110391Collection of Institut Pasteur (CIP 110391)