Streptomyces neyagawaensis (DSM 40588, ATCC 27449, CBS 778.72)

Name: Streptomyces neyagawaensis (DSM 40588, ATCC 27449, CBS 778.72)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 15422

Type strain

Culture col. no. DSM 40588 ATCC 27449 CBS 778.72 IFO 13477 IFO 3784 11 more

NCBI tax ID(s) 42238

Special Collections DSMZ JCM

History <- E.B. Shirling, ISP <- IFO KCC S-0796 <-- IFO 13477 <-- SAJ <-- ISP 5588 <-- H. Yamamoto 41895.

Links

Streptomyces neyagawaensis DSM 40588 is a mesophilic prokaryote that produces antibiotic compounds and was isolated from soil.

antibiotic compound production mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 92921

MTCC 4732,ATCC 27449,IFO 3784,IFO 13477,DSM 40588,JCM 4796,NRRL B-3092,VKM Ac-1915,CBS 778.72,NBRC 13477,NBRC 3784,KACC 20130,BCRC 15184,CCRC 15184,NCAIM B.02006,CGMCC 4.1990

@ref 20215

Last LPSN update 2026-02-09 11:21:41

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces neyagawaensis

Full scientific name Streptomyces neyagawaensis Yamamoto et al. 1960 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Gram stain	Confidence	Motility
125439	positive	99.8
125439		92.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
9665	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
9665	ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)		Medium recipe at MediaDive	Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
9665	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	97.6

Compound production

9665

Compoundfolimycin

Metabolite production

@ref	Chebi-ID	Metabolite	Production
67770	73167 ChEBI	concanamycin A

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
9665	soil		Japan	JPN	Asia
67770	Soil	Neyagawa, Osaka Pref.	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9665	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
66792	Streptomyces neyagawaensis ATCC 27449	complete			651716940	42238	99.66
124043	ASM5117177v1 assembly for Streptomyces neyagawaensis ISP 5588	contig	GCA_051171775			42238	74.74
66792	ASM2886336v1 assembly for Streptomyces neyagawaensis JCM 4796	contig	GCA_028863365	42238.9	8049089543	42238	51.49
66792	ASM2351659v1 assembly for Streptomyces neyagawaensis JCM 4796	contig	GCA_023516595	42238.6	8119627702	42238	24.15
67770	ASM141864v1 assembly for Streptomyces neyagawaensis NRRL B-3092	scaffold	GCA_001418645		2663762943	42238

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces neyagawaensis gene for 16S ribosomal RNA, 23S ribosomal RNA, complete and partial sequence, strain:ATCC 27449	AB026219	1859	42238
20218	Streptomyces neyagawaensis genes for 16S ribosomal RNA,16S-23S rDNA spacer, 23S ribosomal RNA, isolate:ATCC 27449	AB042783	332	42238
20218	Streptomyces neyagawaensis strain DSM40588 16S-23S intergenic spacer region, partial sequence	AF363498	306	42238
20218	Streptomyces neyagawaensis 16S ribosomal RNA, complete sequence	D63869	1531	42238
20218	Streptomyces neyagawaensis strain CGMCC 4.1990 16S ribosomal RNA gene, partial sequence	JN566030	1389	42238
20218	Streptomyces neyagawaensis partial 16S rRNA gene, strain ISP 5588	AJ399493	1449	42238
20218	Streptomyces neyagawaensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4796	D44369	121	42238
20218	Streptomyces neyagawaensis gene for 16S rRNA, partial sequence, strain: NBRC 13477	AB184431	1472	42238
20218	Streptomyces neyagawaensis gene for 16S rRNA, partial sequence, strain: NBRC 3784	AB184799	1478	42238

GC content

@ref	GC-content (mol%)	Method
67770	72.4	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Streptomyces neyagawaensis NRRL B-3092
NCBI: GCA_001418645

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	89.10	no
125439	motility	BacteriaNetⓘ	no	92.50	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.60	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Genome mining of biosynthetic and chemotherapeutic gene clusters in Streptomyces bacteria.	Belknap KC, Park CJ, Barth BM, Andam CP.	Sci Rep	10.1038/s41598-020-58904-9	2020
	Estimation of antimicrobial activities and fatty acid composition of actinobacteria isolated from water surface of underground lakes from Badzheyskaya and Okhotnichya caves in Siberia.	Voytsekhovskaya IV, Axenov-Gribanov DV, Murzina SA, Pekkoeva SN, Protasov ES, Gamaiunov SV, Timofeyev MA.	PeerJ	10.7717/peerj.5832	2018
Phylogeny	Web-based phylogenetic assignment tool for analysis of terminal restriction fragment length polymorphism profiles of microbial communities.	Kent AD, Smith DJ, Benson BJ, Triplett EW.	Appl Environ Microbiol	10.1128/aem.69.11.6768-6776.2003	2003
	Optimized production of concanamycins using a rational metabolic engineering strategy.	Pereira F, McCauley M, Lev K, Verhey-Henke L, Condren AR, Harte RJ, Galvez J, Sherman DH.	Metab Eng	10.1016/j.ymben.2024.11.008	2025
	Complete Genome Sequences of Six BI Cluster Streptomyces Bacteriophages, HotFries, Moozy, Rainydai, RavenPuff, Scap1, and SenditCS.	Blocker D, Koert M, Mattson C, Patel H, Patel P, Patel R, Paudel H, 2017 UMBC Phage Hunters, Erill I, Caruso SM.	Microbiol Resour Announc	10.1128/mra.00993-18	2018
Phylogeny	A Novel Genus of Actinobacterial Tectiviridae.	Caruso SM, deCarvalho TN, Huynh A, Morcos G, Kuo N, Parsa S, Erill I.	Viruses	10.3390/v11121134	2019
	Co-expression of a pair of interdependent regulators coding genes ovmZ and ovmW awakens the production of angucyclinones antibiotics in Streptomyces neyagawaensis.	Li J, Wang K, Luo S, Tian Y, Li Y, Hu S, Tan H, Zhang J, Li J.	Microb Cell Fact	10.1186/s12934-024-02478-y	2024
	Isolation of a Novel Streptomyces sp. TH05 with Potent Cyanocidal Effects on Microcystis aeruginosa.	Wang X, Zhu S, Tao S, Zhang S, Wang R, Zhang L.	Toxins (Basel)	10.3390/toxins17070354	2025
	Biosynthesis of the bacterial antibiotic 3,7-dihydroxytropolone through enzymatic salvaging of catabolic shunt products.	Hoing L, Sowa ST, Toplak M, Reinhardt JK, Jakob R, Maier T, Lill MA, Teufel R.	Chem Sci	10.1039/d4sc01715c	2024
Pathogenicity	Assessing Biofungicides and Host Resistance against Rhizoctonia Large Patch in Zoysiagrass.	Ghimire B, Orellana R, Chowdhury SR, Vermeer CB, Patel P, Raymer P, Milla-Lewis S, Buck JW, Martinez-Espinoza AD, Bahri BA.	Pathogens	10.3390/pathogens13100864	2024
Metabolism	ATP modulates the growth of specific microbial strains.	Li M, Lee SK, Yang SH, Ko JH, Han JS, Kim TJ, Suh JW.	Curr Microbiol	10.1007/s00284-010-9677-3	2011
	Streptomyces neyagawaensis as a control for the hazardous biomass of Microcystis aeruginosa (Cyanobacteria) in eutrophic freshwaters	Choi HJ, Kim BH, Kim JD, Han MS.	Biol Control	10.1016/j.biocontrol.2005.03.007	2005
	Sulfation and amidinohydrolysis in the biosynthesis of giant linear polyenes.	Hong H, Samborskyy M, Usachova K, Schnatz K, Leadlay PF.	Beilstein J Org Chem	10.3762/bjoc.13.238	2017
	Dihydrochalcomycin Production and Glycosyltransferase from Streptomyces SP. KCTC 0041BP.	Thuy TT, Sohng JK, Pfeifer B.	EJIFCC		2010
Metabolism	Bestatin analogue from Streptomyces neyagawaensis SL-387.	Chung MC, Lee HJ, Chun HK, Lee CH, Kim SI, Kho YH.	Biosci Biotechnol Biochem	10.1271/bbb.60.898	1996
	Tetrafibricin: a nonpeptidic fibrinogen receptor inhibitor from Streptomyces neyagawaensis (I). Its GPIIb/IIIa blockage on solid phase binding assay.	Satoh T, Yamashita Y, Kamiyama T, Watanabe J, Steiner B, Hadvary P, Arisawa M.	Thromb Res	10.1016/0049-3848(93)90239-k	1993
Pathogenicity	Tetrafibricin: a nonpeptidic fibrinogen receptor inhibitor from Streptomyces neyagawaensis. (II). Its antiplatelet activities.	Satoh T, Yamashita Y, Kamiyama T, Arisawa M.	Thromb Res	10.1016/0049-3848(93)90240-o	1993
Phylogeny	Phylogenetic analysis of Streptomyces spp. causing potato scab based on 16S rRNA sequences.	Takeuchi T, Sawada H, Tanaka F, Matsuda I.	Int J Syst Bacteriol	10.1099/00207713-46-2-476	1996
	Organization and characterization of a biosynthetic gene cluster for bafilomycin from Streptomyces griseus DSM 2608.	Hwang JY, Kim HS, Kim SH, Oh HR, Nam DH.	AMB Express	10.1186/2191-0855-3-24	2013
Enzymology	Bacteria associated with cysts of the soybean cyst nematode (Heterodera glycines).	Nour SM, Lawrence JR, Zhu H, Swerhone GD, Welsh M, Welacky TW, Topp E.	Appl Environ Microbiol	10.1128/aem.69.1.607-615.2003	2003
Metabolism	Synthesis and characterization of a novel inhibitor of an aminoglycoside-inactivating enzyme.	Kirst HA, Marconi GG, Counter FT, Ensminger PW, Jones ND, Chaney MO, Toth JE, Allen NE.	J Antibiot (Tokyo)	10.7164/antibiotics.35.1651	1982
Metabolism	Interactions of Freshwater Cyanobacteria with Bacterial Antagonists.	Osman OA, Beier S, Grabherr M, Bertilsson S.	Appl Environ Microbiol	10.1128/aem.02634-16	2017
Genetics	Biological characterization of the hygrobafilomycin antibiotic JBIR-100 and bioinformatic insights into the hygrolide family of natural products.	Molloy EM, Tietz JI, Blair PM, Mitchell DA.	Bioorg Med Chem	10.1016/j.bmc.2016.05.021	2016
	Development of a Double Allylboration Reagent Targeting 1,5-syn-(E)-Diols: Application to the Synthesis of the C(23)-C(40) Fragment of Tetrafibricin.	Nuhant P, Kister J, Lira R, Sorg A, Roush WR.	Tetrahedron	10.1016/j.tet.2011.06.008	2011
Metabolism	Organization of the biosynthetic gene cluster for the macrolide concanamycin A in Streptomyces neyagawaensis ATCC 27449.	Haydock SF, Appleyard AN, Mironenko T, Lester J, Scott N, Leadlay PF	Microbiology (Reading)	10.1099/mic.0.28194-0	2005
Phylogeny	Streptomyces heilongjiangensis sp. nov., a novel actinomycete that produces borrelidin isolated from the root surface of soybean [Glycine max (L.) Merr].	Liu C, Wang X, Yan Y, Wang J, Zhang B, Zhang J, Xiang W	Int J Syst Evol Microbiol	10.1099/ijs.0.041483-0	2012
Phylogeny	Streptomyces plumbidurans sp. nov., a Pb(2+)-tolerant actinomycete.	Jiao Y, Fan BJ, Cao YR, Zhu GX, Wu YJ, Zhang Y, Hou XL, He JB, Liang LM	Int J Syst Evol Microbiol	10.1099/ijsem.0.005505	2022

References

#9665	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40588
#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 )
#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 .
#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 )

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Streptomyces neyagawaensis (DSM 40588, ATCC 27449, CBS 778.72)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Compound production

Metabolite production

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_051171775

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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