Cryobacterium flavum (DSM 26475, CGMCC 1.11215, NBRC 107879)

Name: Cryobacterium flavum (DSM 26475, CGMCC 1.11215, NBRC 107879)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24186

Type strain

Strain Designation Hh8

Culture col. no. DSM 26475 CGMCC 1.11215 NBRC 107879 Hh8 JCM 18568

NCBI tax ID(s) 1424659

Special Collections DSMZ JCM Literature strains

History DSMZ <- NBRC <- CGMCC <- Y. Xin, CAS; Hh8 JCM <-- CGMCC 1.11215 <-- Y. Xin Hh8.

Links

Cryobacterium flavum Hh8 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from glacier ice.

Gram-positive rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 398041

NBRC 107879,DSM 26475

@ref 20215

Last LPSN update 2026-05-29 08:30:34

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Cryobacterium

Species Cryobacterium flavum

Full scientific name Cryobacterium flavum Liu et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
30337	positive	0.76 µm	0.41 µm	rod-shaped

Pigmentation

30337

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
20518	PP-MEDIUM (DSMZ Medium 513)		Medium recipe at MediaDive	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

@ref	Growth	Type	Temperature (°C)
20518	positive	growth	10
30337	positive	growth	0-19
67770	positive	growth	10

Culture pH

@ref	Ability	Type	PH	PH range
30337	positive	growth	5.5-10.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30337	aerobe
125439	obligate aerobe	92.704

Spore formation

@ref	Spore formation	Confidence
125439		93.537

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30337	NaCl	positive	growth	0-3 %

Observation

67770

Observationquinones: MK-10, MK-11, MK-12

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30337	22599 ChEBI	arabinose	+	carbon source
30337	17057 ChEBI	cellobiose	+	carbon source
30337	4853 ChEBI	esculin	+	hydrolysis
30337	28757 ChEBI	fructose	+	carbon source
30337	28260 ChEBI	galactose	+	carbon source
30337	17234 ChEBI	glucose	+	carbon source
30337	17754 ChEBI	glycerol	+	carbon source
30337	37684 ChEBI	mannose	+	carbon source
30337	17632 ChEBI	nitrate	+	reduction
30337	33942 ChEBI	ribose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30337	acid phosphatase	+	3.1.3.2
30337	catalase	+	1.11.1.6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Glacier
#Environmental	#Aquatic	#Ice

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
20518	glacier ice	Xingjiang Uygur Autonomous Region	China	CHN	Asia
67770	Ice of the No. 1 glacier	Xingjiang Uygur Autonomous Region, north-west China	China	CHN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20518	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2663762753 annotated assembly for Cryobacterium flavum CGMCC 1.11215	scaffold	GCA_900103805	1424659.3	2663762753	1424659	69.51
67770	ASM440262v1 assembly for Cryobacterium flavum Hh8	contig	GCA_004402625	1424659.4	8048174674	1424659	67.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20518	Cryobacterium flavum strain Hh8 16S ribosomal RNA gene, partial sequence	HQ845195	1475		1424659

GC content

@ref	GC-content (mol%)	Method
20518	63.7
67770	63.7	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: IMG-taxon 2663762753 annotated assembly for Cryobacterium flavum CGMCC 1.11215
BV-BRC: 1424659.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	92.70	no
125439	gram_stain	BacteriaNetⓘ	positive	69.19	no
125439	spore_formation	BacteriaNetⓘ	no	93.54	no
125439	motility	BacteriaNetⓘ	no	70.29	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cryobacterium flavum strain CGMCC 1.11215
PATRIC: 1424659.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	85.60	no
125438	anaerobic	anaerobicⓘ	no	96.85	yes
125438	spore-forming	spore-formingⓘ	no	70.63	no
125438	thermophilic	thermophileⓘ	no	95.00	yes
125438	aerobic	aerobicⓘ	yes	86.30	yes
125438	flagellated	motile2+ⓘ	no	75.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.	Liu Y, Shen L, Zeng Y, Xing T, Xu B, Wang N.	Front Microbiol	10.3389/fmicb.2020.01530	2020
Phylogeny	Cryobacterium levicorallinum sp. nov., a psychrophilic bacterium isolated from glacier ice.	Liu Q, Liu H, Zhang J, Zhou Y, Xin Y	Int J Syst Evol Microbiol	10.1099/ijs.0.046896-0	2013
Phylogeny	Cryobacterium flavum sp. nov. and Cryobacterium luteum sp. nov., isolated from glacier ice.	Liu Q, Liu H, Wen Y, Zhou Y, Xin Y	Int J Syst Evol Microbiol	10.1099/ijs.0.033738-0	2011

References

#20215	Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20518	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26475
#26678	IJSEM 1296 2012 ( DOI 10.1099/ijs.0.033738-0 , PubMed 21784961 )
#30337	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26678
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Cryobacterium flavum (DSM 26475, CGMCC 1.11215, NBRC 107879)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900103805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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