Name: Herbidospora cretacea K-319
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 16507

Type strain:

Species: Herbidospora cretacea

Strain Designation: K-319

Culture col. no.: DSM 44071, IAM 14284, IFO 15474, JCM 8553, NBRC 15474, ATCC 51904, BCRC 16356, IMSNU 21364, KCTC 9335, NCIMB 13372, VKM Ac-1997

Strain history: T. Kudo K-319.

NCBI tax ID(s): 28444 (species)

SI-ID 46177

ATCC 51904, JCM 8553, IFO 15474, NCIMB 13372, DSM 44071, IAM 14284, VKM Ac-1997, KCTC 9335, NBRC 15474, BCRC 16356, CCRC 16356, IAM 142840

Special Collections

Other strains from Herbidospora cretacea

Section

Herbidospora cretacea K-319 is a spore-forming bacterium that was isolated from soil collected in Saitama.

spore-forming
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Streptosporangiales*
	Family	*Streptosporangiaceae*
	Genus	*Herbidospora*
	Species	**Herbidospora cretacea**
	Full Scientific Name (LPSN)	Herbidospora cretacea Kudo et al. 1993

	Synonym	Herbidospora osyris
	Synonym	Streptosporangium claviforme

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %90.508

Multimedia content

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Intellectual property rights:

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Caption:

Medium 65 28°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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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

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Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

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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.: #11470]			growth	28 °C
[Ref.: #67770]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]	Ability of spore formation	yes Confidence in %91.475
[Ref.: #69481]	Ability of spore formation	yes Confidence in %97

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Observation

quinones: MK-10(III,IX-H₄), MK-10(H₂), MK-10(H₆)

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

[Ref.: #11470]	Sample type/isolated from	soil collected in Saitama
[Ref.: #11470]	Geographic location (country and/or sea, region)	Saitama
[Ref.: #11470]	Country	Japan
[Ref.: #11470]	Country ISO 3 Code	JPN
[Ref.: #11470]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Saitama Pref.
[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?

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.: #11470]	Herbidospora cretacea gene for 16S ribosomal RNA, partial sequence	D85485	1475	GenBank ENA	28444 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Herbidospora cretacea NBRC 15474	GCA_001570605	scaffold	GenBank ENA	28444 tax ID
[Ref.: #66792]	Herbidospora cretacea strain NBRC 15474	28444.4	wgs	PATRIC	28444 tax ID	*
[Ref.: #66792]	Herbidospora cretacea NBRC 15474	2724679244	draft	JGI IMG/M	28444 tax ID	*

[Ref.: #67770]	GC-content	70.7 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	70 mol%	high performance liquid chromatography (HPLC)

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: Herbidospora cretacea NBRC 15474 NCBI: GCA_001570605.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	97	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Herbidospora cretacea strain NBRC 15474 PATRIC: 28444.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.508	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.9	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	91.475	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	89.453	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.5	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	88	no

Availability in culture collections External links

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Culture collection no.

DSM 44071, IAM 14284, IFO 15474, JCM 8553, NBRC 15474, ATCC 51904, BCRC 16356, IMSNU 21364, KCTC 9335, NCIMB 13372, VKM Ac-1997

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SI-ID 46177

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genome-based analysis of non-ribosomal peptide synthetase and type-I polyketide synthase gene clusters in all type strains of the genus Herbidospora.	Komaki H, Ichikawa N, Oguchi A, Hamada M, Tamura T, Fujita N	BMC Res Notes	10.1186/s13104-015-1526-9	2015	*
Phylogeny	Herbidospora yilanensis sp. nov. and Herbidospora daliensis sp. nov., from sediment.	Tseng M, Yang SF, Yuan GF	Int J Syst Evol Microbiol	10.1099/ijs.0.014803-0	2009	*
Phylogeny	Herbidospora osyris sp. nov., isolated from surface-sterilized tissue of Osyris wightiana Wall. ex Wight.	Li J, Zhao GZ, Qin S, Zhu WY, Xu LH, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.010579-0	2009	*
Phylogeny	Cell wall teichoic acids of actinomycetes of three genera of the order actinomycetales.	Streshinskaya GM, Shashkov AS, Usov AI, Evtushenko LI, Naumova IB	Biochemistry (Mosc)	10.1023/a:1016348724308	2002	*
Phylogeny	Herbidospora gen. nov., a new genus of the family Streptosporangiaceae Goodfellow et al. 1990.	Kudo T, Itoh T, Miyadoh S, Shomura T, Seino A	Int J Syst Bacteriol	10.1099/00207713-43-2-319	1993	*

References

#11470

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44071

#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 )

#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;

#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 )

#85540

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-ID46177.1 )

* These data were automatically processed and therefore are not curated

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Herbidospora cretacea NBRC 15474

Herbidospora cretacea strain NBRC 15474

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