Name: Polymorphobacter fuscus D40P
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132959

Type strain:

Species: Polymorphobacter fuscus

Strain Designation: D40P

Culture col. no.: DSM 105347, CGMCC 1.12714, JCM 19740

Strain history: J. Lv D40P.

NCBI tax ID(s): 1439888 (species)

SI-ID 404984

DSM 105347

Section

Polymorphobacter fuscus D40P is a mesophilic, Gram-negative bacterium that was isolated from permafrost soil.

Gram-negative
mesophilic
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	*Sphingomonadales*
	Family	*Sphingosinicellaceae*
	Genus	*Polymorphobacter*
	Species	**Polymorphobacter fuscus**
	Full Scientific Name (LPSN)	Polymorphobacter fuscus Jia et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.976

Multimedia content

[Ref.: #24747]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24747]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #24747]			growth	28 °C
[Ref.: #67770]			growth	25 °C

[Ref.: #24747]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.991

[Ref.: #67770]

Observation

quinones: Q-10, Q-9

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

[Ref.: #24747]	Sample type/isolated from	permafrost soil
[Ref.: #24747]	Geographic location (country and/or sea, region)	Kunlun Pass Basin, Qinghai-Tibet Plateau
[Ref.: #24747]	Country	China
[Ref.: #24747]	Country ISO 3 Code	CHN
[Ref.: #24747]	Continent	Asia
[Ref.: #24747]	Geographic location	35.6667°/94.0500°

[Ref.: #67770]	Sample type/isolated from	Permafrost soil of Kunlun Mountains Gap
[Ref.: #67770]	Geographic location (country and/or sea, region)	Qinghai-Tibet Plateau
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Permafrost
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KF737330 (>99% sequence identity) for Polymorphobacter from Microbeatlas

Aquatic Samples	12147
Soil Samples	2630
Animal Samples	1756
Plant Samples	315
Total Samples	16848

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

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Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #24747]	Polymorphobacter fuscus strain D40P 16S ribosomal RNA gene, partial sequence	KF737330	1452	ENA	1439888 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Polymorphobacter fuscus DSM 105347	GCA_011927825	contig	GenBank	1439888 tax ID
[Ref.: #66792]	Polymorphobacter fuscus D40P	GCA_009372075	scaffold	GenBank	1439888 tax ID	*
[Ref.: #66792]	Polymorphobacter fuscus D40P	GCA_009607675	scaffold	GenBank	1439888 tax ID	*
[Ref.: #66792]	Polymorphobacter fuscus strain DSM 105347	1439888.6	wgs	PATRIC	1439888 tax ID	*
[Ref.: #66792]	Polymorphobacter fuscus DSM 105347	2830037985	draft	JGI IMG/M	1439888 tax ID	*

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GC-content

67.4 mol%

thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Polymorphobacter fuscus D40P NCBI: GCA_009607675.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Polymorphobacter fuscus D40P NCBI: GCA_009372075.1
[Ref.: #69480]	motile	yes	55.83	no
[Ref.: #69480]	flagellated	no	90.552	no
[Ref.: #69480]	gram-positive	no	97.278	no
[Ref.: #69480]	anaerobic	no	98.88	no
[Ref.: #69480]	aerobic	yes	95.363	no
[Ref.: #69480]	halophile	no	90.146	no
[Ref.: #69480]	spore-forming	no	95.371	no
[Ref.: #69480]	thermophile	no	97.619	yes
[Ref.: #69480]	glucose-util	yes	83.29	no
[Ref.: #69480]	glucose-ferment	no	92.112	no

Availability in culture collections External links

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Culture collection no.

DSM 105347, CGMCC 1.12714, JCM 19740

[Ref.: #91236]

SI-ID 404984

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Polymorphobacter fuscus sp. nov., isolated from permafrost soil, and emended description of the genus Polymorphobacter.	Jia L, Feng X, Zheng Z, Han L, Hou X, Lu Z, Lv J	Int J Syst Evol Microbiol	10.1099/ijsem.0.000514	2015	*

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 )

#24747

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105347

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#91236

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-ID404984.1 )

* These data were automatically processed and therefore are not curated

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