Name: Paenibacillus kobensis YK205
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11511

Type strain:

Species: Paenibacillus kobensis

Strain Designation: YK205

Culture col. no.: DSM 10249, IFO 15729, NBRC 15729, JCM 12164, ATCC 51900, CCM 4537, CIP 104576, HSCC 488, LMG 18049, NRRL B-23246

Strain history: NBRC 15729 <-- IFO 15729 <-- T. Harada YK205.

NCBI tax ID(s): 1220566 (strain), 59841 (species)

Other strains from Paenibacillus kobensis

P. kobensis YK207, DSM 10250, IFO 15730, NBRC ...

Section

Paenibacillus kobensis YK205 is a mesophilic bacterium that was isolated from soil.

mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Paenibacillaceae*
	Genus	*Paenibacillus*
	Species	**Paenibacillus kobensis**
	Full Scientific Name (LPSN)	Paenibacillus kobensis (Kanzawa et al. 1995) Shida et al. 1997

Synonym

Bacillus kobensis

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #69480]	Motility	yes Confidence in %95.851

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3869]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #3869]

Culture medium growth

[Ref.: #3869]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3869]

Culture medium composition

expand / minimize

[Ref.: #41228]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #41228]

Culture medium growth

[Ref.: #41228]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #3869]	growth	30 °C
[Ref.: #41228]	growth	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #3869]	Temperature range	mesophilic
[Ref.: #41228]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

[Ref.: #3869]

Name of produced compound

exo-(1-3)-ß-D glucanase

[Ref.: #67770]

Observation

quinones: MK-7

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

[Ref.: #3869]	Sample type/isolated from	soil
[Ref.: #3869]	Geographic location (country and/or sea, region)	Kobe City
[Ref.: #3869]	Country	Japan
[Ref.: #3869]	Country ISO 3 Code	JPN
[Ref.: #3869]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kobe City
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB073363 (>99% sequence identity) for Paenibacillus kobensis subclade from Microbeatlas

Aquatic Samples
Soil Samples	1
Animal Samples
Plant Samples	2
Total Samples	3

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

[Ref.: #3869]

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.: #20218]	Paenibacillus kobensis gene for 16S rRNA, partial sequence	AB073363	1503	ENA	59841 tax ID	*
[Ref.: #20218]	Paenibacillus kobensis DNA for 16S rRNA	D78471	1436	ENA	59841 tax ID	*
[Ref.: #20218]	Paenibacillus kobensis gene for 16S rRNA, partial sequence, strain: NBRC 15729	AB680952	1478	ENA	59841 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Paenibacillus kobensis NBRC 15729 NBRC 15729	GCA_004000825	contig	GenBank	1220566 tax ID
[Ref.: #66792]	Paenibacillus kobensis NBRC 15729	1220566.3	wgs	PATRIC	1220566 tax ID	*

[Ref.: #3869]

GC-content

51 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paenibacillus kobensis NBRC 15729 PATRIC: 1220566.3
[Ref.: #69480]	spore-forming	yes	100	yes
[Ref.: #69480]	anaerobic	no	97.698	no
[Ref.: #69480]	gram-positive	yes	100	yes
[Ref.: #69480]	thermophile	no	98.227	yes
[Ref.: #69480]	motile	yes	95.851	yes

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Paenibacillus kobensis NBRC 15729 PATRIC: 1220566.3
[Ref.: #69481]	spore-forming	yes	100	no

Availability in culture collections External links

[Ref.: #3869]

Culture collection no.

DSM 10249, IFO 15729, NBRC 15729, JCM 12164, ATCC 51900, CCM 4537, CIP 104576, HSCC 488, LMG 18049, NRRL B-23246

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus cisolokensis sp. nov., isolated from litter of a geyser.	Yokota A, Ningsih F, Nurlaili DG, Sakai Y, Yabe S, Oetari A, Santoso I, Sjamsuridzal W	Int J Syst Evol Microbiol	10.1099/ijsem.0.001151	2016	*
Phylogeny	Paenibacillus glycanilyticus sp. nov., a novel species that degrades heteropolysaccharide produced by the cyanobacterium Nostoc commune.	Dasman, Kajiyama S, Kawasaki H, Yagi M, Seki T, Fukusaki E, Kobayashi A	Int J Syst Evol Microbiol	10.1099/00207713-52-5-1669	2002	*
Phylogeny	Bacillus curdlanolyticus sp. nov. and Bacillus kobensis sp. nov., which hydrolyze resistant curdlan.	Kanzawa Y, Harada A, Takeuchi M, Yokota A, Harada T	Int J Syst Bacteriol	10.1099/00207713-45-3-515	1995	*

References

#3869

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10249

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#41228 ; 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) .

#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 )

* These data were automatically processed and therefore are not curated

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Paenibacillus kobensis NBRC 15729

Paenibacillus kobensis NBRC 15729

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