Kitasatospora herbaricolor (DSM 40123, AS 4.1849, ATCC 23922)

Name: Kitasatospora herbaricolor (DSM 40123, AS 4.1849, ATCC 23922)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 15292

Type strain

Culture col. no. DSM 40123 AS 4.1849 ATCC 23922 CBS 906.68 IFO 12876 21 more

NCBI tax ID(s) 68217

Special Collections DSMZ JCM JMRC

History DSMZ <- E.B. Shirling, ISP <- R. Shinobu OEU, 608 JCM <-- KCC S-0138 <-- R. Shinobu 608.

Links

Kitasatospora herbaricolor DSM 40123 is a bacterium that was isolated from soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 389275

ATCC 23922,IFO 12876,DSM 40123,NRRL B-3299,JCM 4138,CCRC 13772,IFO 3932,NCIMB 9837,VKM Ac-793,JCM 4645,IFO 3838,CBS 906.68,CBS 424.61,NBRC 12876,NBRC 3932,AS 4.1849,BCRC 13772,NBRC 3838,NBIMCC 494,NCIB 9837,CGMCC 4.1849,AS 4.1887,CGMCC 4.1887

@ref 20215

Last LPSN update 2026-05-29 08:28:30

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Kitasatospora

Species Kitasatospora herbaricolor

Full scientific name Kitasatospora herbaricolor (Kawato and Shinobu 1959) Labeda et al. 2017

Synonyms (1)

Streptomyces herbaricolor

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	99.964
125439		98.42
125438		93

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
9327	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
9327	positive	growth	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.196

Spore formation

@ref	Spore formation	Confidence
125439		98.29
125438		90.896

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
9327	soil
67770	Soil	Nishi Park, Fukuoka City	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9327	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM3081369v1 assembly for Kitasatospora herbaricolor DSM 40123	contig	GCA_030813695	68217.4	2926774088	68217	76.54
66792	ASM1464897v1 assembly for Kitasatospora herbaricolor JCM 4138	scaffold	GCA_014648975	68217.3	8109777287	68217	0

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces herbaricolor gene for 16S ribosomal RNA, partial sequence, strain: JCM 4138	D44014	120	68217
20218	Streptomyces herbaricolor gene for 16S rRNA, partial sequence, strain: NBRC 12876	AB184212	1468	68217
20218	Streptomyces herbaricolor gene for 16S rRNA, partial sequence, strain: NBRC 3932	AB184815	1451	68217
20218	Streptomyces herbaricolor strain NRRL B-3299T 16S ribosomal RNA gene, partial sequence	DQ442505	1497	68217
9327	Streptomyces herbaricolor gene for 16S rRNA, partial sequence, strain: NBRC 3838	AB184801	1474	68217
124043	Kitasatospora herbaricolor strain JCM 4138 16S ribosomal RNA gene, partial sequence.	MT760486	1333	68217

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM3081369v1 assembly for Kitasatospora herbaricolor DSM 40123
NCBI: GCA_030813695

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	99.96	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.20	no
125439	motility	BacteriaNetⓘ	no	98.42	no
125439	spore_formation	BacteriaNetⓘ	yes	98.29	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kitasatospora herbaricolor JCM 4138
NCBI: GCA_014648975.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	87.37	no
125438	anaerobic	anaerobicⓘ	no	96.28	no
125438	aerobic	aerobicⓘ	yes	86.11	no
125438	spore-forming	spore-formingⓘ	yes	90.90	no
125438	thermophilic	thermophileⓘ	no	97.00	no
125438	flagellated	motile2+ⓘ	no	93.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Responses of Soil Bacteria Communities to Organic Material Application and Their Antagonistic Activity against Diaporthe destruens Causing Sweet Potato Foot Rot Disease.	Soe ZM, Sakai M, Kihara S, Fukahori D, Nakamura M, Ueno D, Sakagami JI, Ikenaga M.	Microbes Environ	10.1264/jsme2.me25011	2025
	Generation of a high quality library of bioactive filamentous actinomycetes from extreme biomes using a culture-based bioprospecting strategy.	Swiecimska M, Golinska P, Goodfellow M.	Front Microbiol	10.3389/fmicb.2022.1054384	2022
Phylogeny	Phylogenetic relationships in the family Streptomycetaceae using multi-locus sequence analysis.	Labeda DP, Dunlap CA, Rong X, Huang Y, Doroghazi JR, Ju KS, Metcalf WW.	Antonie Van Leeuwenhoek	10.1007/s10482-016-0824-0	2017

References

#9327	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40123
#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 )
#20216	Curators of the JMRC: Jena Microbial Resource Collection (JMRC):
#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 )
#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;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

Rate our new design

Content

About us

Kitasatospora herbaricolor (DSM 40123, AS 4.1849, ATCC 23922)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_030813695

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media