Strain identifier

BacDive ID: 24186

Type strain: Yes

Species: Cryobacterium flavum

Strain Designation: Hh8

Strain history: CGMCC 1.11215 <-- Y. Xin Hh8.

NCBI tax ID(s): 1424659 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 20518

BacDive-ID: 24186

DSM-Number: 26475

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

description: Cryobacterium flavum Hh8 is an aerobe, psychrophilic, Gram-positive bacterium that was isolated from glacier ice.

NCBI tax id

  • NCBI tax id: 1424659
  • Matching level: species

strain history

@refhistory
20518<- NBRC <- CGMCC <- Y. Xin, CAS; Hh8
67770CGMCC 1.11215 <-- Y. Xin Hh8.

doi: 10.13145/bacdive24186.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Cryobacterium
  • species: Cryobacterium flavum
  • full scientific name: Cryobacterium flavum Liu et al. 2012

@ref: 20518

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Cryobacterium

species: Cryobacterium flavum

full scientific name: Cryobacterium flavum Liu et al. 2012

strain designation: Hh8

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapeconfidence
30337positive0.76 µm0.41 µmrod-shaped
69480positive100

pigmentation

  • @ref: 30337
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 20518
  • name: PP-MEDIUM (DSMZ Medium 513)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/513
  • composition: Name: PP-MEDIUM (DSMZ Medium 513) Composition: Agar 15.0 g/l Polypeptone 10.0 g/l Yeast extract 2.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20518positivegrowth10psychrophilic
30337positivegrowth0-19psychrophilic
67770positivegrowth10psychrophilic

culture pH

  • @ref: 30337
  • ability: positive
  • type: growth
  • pH: 5.5-10.5
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 30337
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.817

halophily

  • @ref: 30337
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

  • @ref: 67770
  • observation: quinones: MK-10, MK-11, MK-12

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3033722599arabinose+carbon source
3033717057cellobiose+carbon source
3033728757fructose+carbon source
3033728260galactose+carbon source
3033717234glucose+carbon source
3033717754glycerol+carbon source
3033737684mannose+carbon source
3033733942ribose+carbon source
303374853esculin+hydrolysis
3033717632nitrate+reduction

enzymes

@refvalueactivityec
30337acid phosphatase+3.1.3.2
30337catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
20518glacier iceXingjiang Uygur Autonomous RegionChinaCHNAsia
67770Ice of the No. 1 glacierXingjiang Uygur Autonomous Region, north-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Glacier
#Environmental#Aquatic#Ice

Safety information

risk assessment

  • @ref: 20518
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20518
  • description: Cryobacterium flavum strain Hh8 16S ribosomal RNA gene, partial sequence
  • accession: HQ845195
  • length: 1475
  • database: ena
  • NCBI tax ID: 1424659

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cryobacterium flavum strain CGMCC 1.112151424659.3wgspatric1424659
66792Cryobacterium flavum strain Hh81424659.4wgspatric1424659
66792Cryobacterium flavum CGMCC 1.112152663762753draftimg1424659
67770Cryobacterium flavum CGMCC 1.11215GCA_900103805scaffoldncbi1424659
67770Cryobacterium flavum Hh8GCA_004402625contigncbi1424659

GC content

@refGC-contentmethod
2051863.7
6777063.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes72.9no
gram-positiveyes91.482no
anaerobicno99.511yes
halophileno85.884no
spore-formingno88.978no
thermophileno99.014yes
glucose-utilyes85.796no
aerobicyes93.374no
flagellatedno92.836no
glucose-fermentno91.786no

External links

@ref: 20518

culture collection no.: DSM 26475, CGMCC 1.11215, NBRC 107879, JCM 18568

straininfo link

  • @ref: 88139
  • straininfo: 398041

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21784961Cryobacterium flavum sp. nov. and Cryobacterium luteum sp. nov., isolated from glacier ice.Liu Q, Liu H, Wen Y, Zhou Y, Xin YInt J Syst Evol Microbiol10.1099/ijs.0.033738-02011Actinomycetales/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Ice Cover/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism
Phylogeny23315411Cryobacterium levicorallinum sp. nov., a psychrophilic bacterium isolated from glacier ice.Liu Q, Liu H, Zhang J, Zhou Y, Xin YInt J Syst Evol Microbiol10.1099/ijs.0.046896-02013Actinomycetales/*classification/genetics/metabolism, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Ice, Ice Cover/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
20518Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26475Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26475)
30337Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172667828776041
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
88139Reimer, 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-ID398041.1