Name: Psychroserpens mesophilus KCCM 42261
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134187

Type strain:

Species: Psychroserpens mesophilus

Culture col. no.: KCCM 42261, JCM 13413, KOPRI 13649, CIP 109253

Strain history: H. K. Lee and K. K. Kwon KOPRI 13649.

NCBI tax ID(s): 325473 (species)

Section

Psychroserpens mesophilus KCCM 42261 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from biofilm.

Gram-negative
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Psychroserpens*
	Species	**Psychroserpens mesophilus**
	Full Scientific Name (LPSN)	Psychroserpens mesophilus Kwon et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31746]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #31746]	Cell length	0.57-1.67 µm

[Ref.: #31746]	Cell width	0.41-0.51 µm

[Ref.: #31746]	Cell shape	rod-shaped

[Ref.: #31746]	Motility	no

[Ref.: #31746]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #31746]	growth	10-34 °C
[Ref.: #31746]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #31746]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31746]			optimum	6.5-8
[Ref.: #31746]			growth	06-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31746]

Oxygen tolerance

aerobe

[Ref.: #31746]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31746]		NaCl		growth	0.5-4	%
[Ref.: #31746]		NaCl		optimum	1	%

[Ref.: #31746]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31746]	alanine ChEBI	+	carbon source
[Ref.: #31746]	alpha-cyclodextrin ChEBI	+	carbon source
[Ref.: #31746]	arabinose ChEBI	+	carbon source
[Ref.: #31746]	fructose ChEBI	+	carbon source
[Ref.: #31746]	glucose ChEBI	+	carbon source
[Ref.: #31746]	lactate ChEBI	+	carbon source
[Ref.: #31746]	leucine ChEBI	+	carbon source
[Ref.: #31746]	maltose ChEBI	+	carbon source
[Ref.: #31746]	mannitol ChEBI	+	carbon source
[Ref.: #31746]	mannose ChEBI	+	carbon source
[Ref.: #31746]	melibiose ChEBI	+	carbon source
[Ref.: #31746]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #31746]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #31746]	nitrate ChEBI	+	reduction
[Ref.: #31746]	ornithine ChEBI	+	carbon source
[Ref.: #31746]	proline ChEBI	+	carbon source
[Ref.: #31746]	propionate ChEBI	+	carbon source
[Ref.: #31746]	rhamnose ChEBI	+	carbon source
[Ref.: #31746]	serine ChEBI	+	carbon source
[Ref.: #31746]	sorbitol ChEBI	+	carbon source
[Ref.: #31746]	sucrose ChEBI	+	carbon source
[Ref.: #31746]	threonine ChEBI	+	carbon source
[Ref.: #31746]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31746]		catalase	+	1.11.1.6
[Ref.: #31746]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #31746]	Sample type/isolated from	biofilm

[Ref.: #67770]	Sample type/isolated from	Young biofilm formed on an acrylic surface in Gangneung
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Biofilm

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ001321 (>99% sequence identity) for Psychroserpens mesophilus subclade from Microbeatlas

Aquatic Samples	988
Soil Samples	19
Animal Samples	16
Plant Samples	4
Total Samples	1027

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.: #31746]	Psychroserpens mesophilus strain KOPRI 13649 16S ribosomal RNA gene, partial sequence	DQ001321	1501	GenBank	325473 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Psychroserpens mesophilus JCM 13413	GCA_000826645	contig	GenBank	325473 tax ID
[Ref.: #66792]	Psychroserpens mesophilus JCM 13413	325473.3	wgs	PATRIC	325473 tax ID	*
[Ref.: #66792]	Psychroserpens mesophilus JCM 13413	2654587584	draft	JGI IMG/M	325473 tax ID	*

[Ref.: #31746]

GC-content

29.8 mol%

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: Psychroserpens mesophilus JCM 13413 PATRIC: 325473.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Psychroserpens mesophilus JCM 13413 PATRIC: 325473.3
[Ref.: #69480]	gram-positive	no	98.713	yes
[Ref.: #69480]	anaerobic	no	98.593	yes
[Ref.: #69480]	halophile	no	76.769	no
[Ref.: #69480]	spore-forming	no	96.005	yes
[Ref.: #69480]	glucose-util	yes	87.537	yes
[Ref.: #69480]	motile	no	89.278	yes
[Ref.: #69480]	flagellated	no	95.894	no
[Ref.: #69480]	aerobic	yes	91.734	no
[Ref.: #69480]	thermophile	no	98.541	yes
[Ref.: #69480]	glucose-ferment	no	92.222	no

Availability in culture collections External links

[Ref.: #31746]

Culture collection no.

KCCM 42261, JCM 13413, KOPRI 13649, CIP 109253

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Psychroserpens damuponensis sp. nov., isolated from seawater.	Lee DH, Cho SJ, Kim SM, Lee SB	Int J Syst Evol Microbiol	10.1099/ijs.0.041632-0	2012	*
Phylogeny	Psychroserpens mesophilus sp. nov., a mesophilic marine bacterium belonging to the family Flavobacteriaceae isolated from a young biofilm.	Kwon KK, Lee SJ, Park JH, Ahn TY, Lee HK	Int J Syst Evol Microbiol	10.1099/ijs.0.64171-0	2006	*

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 )

#31746

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 #28020 (see below)

#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 )

#28020

IJSEM 1055 2006 ( DOI 10.1099/ijs.0.64171-0 , PubMed 16627654 )

* These data were automatically processed and therefore are not curated

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Psychroserpens mesophilus JCM 13413

Psychroserpens mesophilus JCM 13413

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