Name: Devosia psychrophila Cr7-05
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6173

Type strain:

Species: Devosia psychrophila

Strain Designation: Cr7-05

Culture col. no.: DSM 22950, CGMCC 1.10210, CIP 110130

Strain history: CIP <- 2010, R. Margesin, Innsbruck Univ., Innsbruck, Austria: strain Cr7-05

NCBI tax ID(s): 728005 (species)

SI-ID 379343

CGMCC 1.10210, CIP 110130, DSM 22950

Special Collections

Section

Devosia psychrophila Cr7-05 is an aerobe, Gram-negative, motile bacterium that was isolated from glacier cryoconite.

Gram-negative
motile
rod-shaped
aerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Devosiaceae*
	Genus	*Devosia*
	Species	**Devosia psychrophila**
	Full Scientific Name (LPSN)	Devosia psychrophila Zhang et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #29880]	Gram stain	negative
[Ref.: #122020]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.833

[Ref.: #29880]	Cell length	04-05 µm

[Ref.: #29880]	Cell width	0.4-0.6 µm

[Ref.: #29880]	Cell shape	rod-shaped
[Ref.: #122020]	Cell shape	rod-shaped

[Ref.: #29880]	Motility	yes
[Ref.: #122020]	Motility	no

[Ref.: #29880]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16628]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #16628]

Culture medium growth

[Ref.: #16628]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16628]

Culture medium composition

expand / minimize

[Ref.: #37921]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #37921]

Culture medium growth

[Ref.: #37921]

Culture medium composition

expand / minimize

[Ref.: #122020]

Culture medium

CIP Medium 566

[Ref.: #122020]

Culture medium growth

[Ref.: #122020]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #16628]	growth	10 °C
[Ref.: #29880]	growth	1-20 °C
[Ref.: #37921]	growth	15 °C

	pH	Kind of pH		pH
[Ref.: #29880]			growth	07-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29880]

Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %91.089
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29880]		NaCl		growth	0-1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29880]	arabinose ChEBI	+	carbon source
[Ref.: #29880]	glucose ChEBI	+	carbon source
[Ref.: #29880]	maltose ChEBI	+	carbon source
[Ref.: #29880]	mannitol ChEBI	+	carbon source
[Ref.: #29880]	mannose ChEBI	+	carbon source
[Ref.: #29880]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #122020]	nitrate ChEBI	-	reduction
[Ref.: #122020]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #122020]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #29880]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #29880]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #122020]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #122020]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #122020]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #122020]	12383	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #16628]	Sample type/isolated from	glacier cryoconite
[Ref.: #16628]	Geographic location (country and/or sea, region)	Tyrol, Oetztaler Alps, Pitztaler Jöchl glacier (46° 56' 31.22'' N 10° 55' 20.15'' E)
[Ref.: #16628]	Country	Austria
[Ref.: #16628]	Country ISO 3 Code	AUT
[Ref.: #16628]	Continent	Europe
[Ref.: #16628]	Geographic location	46.9420°/10.9223°

[Ref.: #122020]	Sample type/isolated from	Alpine glacier cryoconite
[Ref.: #122020]	Geographic location (country and/or sea, region)	Tyrol
[Ref.: #122020]	Country	Austria
[Ref.: #122020]	Country ISO 3 Code	AUT
[Ref.: #122020]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Glacier
#Environmental	#Terrestrial	#Geologic
#Condition	#Psychrophilic (<10°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GU441678 (>99% sequence identity) for Devosia psychrophila from Microbeatlas

Aquatic Samples	45
Soil Samples	64
Animal Samples	99
Plant Samples	7
Total Samples	215

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #16628]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122020]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #16628]	Devosia psychrophila strain Cr7-05 16S ribosomal RNA gene, partial sequence	GU441678	1474	GenBank ENA	728005 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Devosia psychrophila CGMCC 1.10210	GCA_900112505	scaffold	GenBank ENA	728005 tax ID	*
[Ref.: #66792]	Devosia psychrophila Cr7-05	GCA_000971275	contig	GenBank ENA	728005 tax ID	*
[Ref.: #66792]	Devosia psychrophila strain CGMCC 1.10210	728005.4	wgs	PATRIC	728005 tax ID	*
[Ref.: #66792]	Devosia psychrophila CGMCC 1.10210	2617270931	draft	JGI IMG/M	728005 tax ID	*
[Ref.: #66792]	Devosia psychrophila Cr7-05	2627853832	draft	JGI IMG/M	728005 tax ID	*

[Ref.: #16628]	GC-content	61.4 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29880]	GC-content	61.4 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Devosia psychrophila CGMCC 1.10210 NCBI: GCA_900112505.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Devosia psychrophila CGMCC 1.10210 NCBI: GCA_900112505.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.833	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.82	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.637	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	91.089	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.981	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	68.305	no

Availability in culture collections External links

[Ref.: #16628]

Culture collection no.

DSM 22950, CGMCC 1.10210, CIP 110130

[Ref.: #75656]

SI-ID 379343

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Devosia beringensis sp. nov., isolated from surface sediment of the Bering Sea.	Zhang YX, Yu Y, Luo W, Zeng YX, Du ZJ, Li HR	Int J Syst Evol Microbiol	10.1099/ijsem.0.004995	2021	*
Phylogeny	Methyloterrigena soli gen. nov., sp. nov., a methanol-utilizing bacterium isolated from chloroethylene-contaminated soil.	Kim HS, Srinivasan S, Lee SS	Int J Syst Evol Microbiol	10.1099/ijsem.0.000680	2015	*
Phylogeny	Devosia submarina sp. nov., isolated from deep-sea surface sediments.	Romanenko LA, Tanaka N, Svetashev VI	Int J Syst Evol Microbiol	10.1099/ijs.0.046607-0	2013	*
Phylogeny	Devosia psychrophila sp. nov. and Devosia glacialis sp. nov., from alpine glacier cryoconite, and an emended description of the genus Devosia.	Zhang DC, Redzic M, Liu HC, Zhou YG, Schinner F, Margesin R	Int J Syst Evol Microbiol	10.1099/ijs.0.023937-0	2011	*

References

#16628

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22950

#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 )

#29880

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 #26253 (see below)

#37921 ; Curators of the CIP;

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#68382

Automatically annotated from API zym .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#75656

Reimer, 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 identifiers . ( DOI 10.60712/SI-ID379343.1 )

#122020 Collection of Institut Pasteur ; Curators of the CIP; CIP 110130

#26253

IJSEM 710 2012 ( DOI 10.1099/ijs.0.023937-0 , PubMed 21551324 )

* These data were automatically processed and therefore are not curated

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Devosia psychrophila CGMCC 1.10210

Devosia psychrophila CGMCC 1.10210

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