Strain identifier
BacDive ID: 15422
Type strain: 
Species: Streptomyces neyagawaensis
Strain history: KCC S-0796 <-- IFO 13477 <-- SAJ <-- ISP 5588 <-- H. Yamamoto 41895.
NCBI tax ID(s): 42238 (species)
version 8.1 (current version)
General
@ref: 9665
BacDive-ID: 15422
DSM-Number: 40588
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, antibiotic compound production
description: Streptomyces neyagawaensis DSM 40588 is a mesophilic bacterium that produces antibiotic compounds and was isolated from soil.
NCBI tax id
- NCBI tax id: 42238
- Matching level: species
strain history
| @ref | history |
|---|---|
| 9665 | <- E.B. Shirling, ISP <- IFO |
| 67770 | KCC S-0796 <-- IFO 13477 <-- SAJ <-- ISP 5588 <-- H. Yamamoto 41895. |
doi: 10.13145/bacdive15422.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- 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)
@ref: 9665
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces neyagawaensis
full scientific name: Streptomyces neyagawaensis Yamamoto et al. 1960
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 9665 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | 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) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 9665 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
compound production
- @ref: 9665
- compound: folimycin
metabolite production
- @ref: 67770
- Chebi-ID: 73167
- metabolite: concanamycin A
- production: yes
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | geographic location |
|---|---|---|---|---|---|
| 9665 | soil | Japan | JPN | Asia | |
| 67770 | Soil | Japan | JPN | Asia | Neyagawa, Osaka Pref. |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 9665
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Streptomyces neyagawaensis gene for 16S ribosomal RNA, 23S ribosomal RNA, complete and partial sequence, strain:ATCC 27449 | AB026219 | 1859 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis gene for 16S rRNA, 16S-23S intergenic spacer, 23S rRNA, partial and complete sequence, isolate:ATCC 27449, clone:NE1 | AB041129 | 325 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis genes for 16S ribosomal RNA,16S-23S rDNA spacer, 23S ribosomal RNA, isolate:ATCC 27449 | AB042783 | 332 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain DSM40588 16S-23S intergenic spacer region, partial sequence | AF363498 | 306 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis 16S ribosomal RNA, complete sequence | D63869 | 1531 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain CGMCC 4.1990 16S ribosomal RNA gene, partial sequence | JN566030 | 1389 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis partial 16S rRNA gene, strain ISP 5588 | AJ399493 | 1449 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4796 | D44369 | 121 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain KCCM 12304 clone ITS 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296945 | 280 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain KCCM 12304 clone ITS19 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296946 | 269 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain KCCM 12304 clone ITS22 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296947 | 271 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain KCCM 12304 clone ITS26 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296948 | 274 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain KCCM 12304 clone ITS5 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296949 | 274 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis strain KCCM 12304 clone ITS8 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY296950 | 274 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis gene for 16S rRNA, partial sequence, strain: NBRC 13477 | AB184431 | 1472 | ena | 42238 |
| 20218 | Streptomyces neyagawaensis gene for 16S rRNA, partial sequence, strain: NBRC 3784 | AB184799 | 1478 | ena | 42238 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces neyagawaensis ATCC 27449 | 651716940 | draft | img | 42238 |
| 67770 | Streptomyces neyagawaensis NRRL B-3092 | GCA_001418645 | scaffold | ncbi | 42238 |
| 66792 | Streptomyces neyagawaensis JCM 4796 | GCA_023516595 | contig | ncbi | 42238 |
| 66792 | Streptomyces neyagawaensis JCM 4796 | GCA_028863365 | contig | ncbi | 42238 |
GC content
- @ref: 67770
- GC-content: 72.4
- method: thermal denaturation, midpoint method (Tm)
External links
@ref: 9665
culture collection no.: DSM 40588, ATCC 27449, CBS 778.72, IFO 13477, IFO 3784, ISP 5588, JCM 4796, NBRC 13477, NBRC 3784, NRRL B-3092, RIA 1438, BCRC 15184, CGMCC 4.1990, MTCC 4732, NCAIM B.02006, VKM Ac-1915
straininfo link
- @ref: 84510
- straininfo: 92921
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 16207901 | 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 | Acyl Carrier Protein/chemistry/genetics/metabolism, Amino Acid Sequence, Bacterial Proteins/chemistry/genetics/metabolism, Cloning, Molecular, Enzyme Inhibitors/chemistry/*metabolism, Gene Expression Regulation, Bacterial, *Genes, Bacterial, Macrolides/chemistry/*metabolism, Molecular Sequence Data, Multigene Family, Polyketide Synthases/chemistry/genetics/metabolism, Sequence Analysis, DNA, Streptomyces/*genetics/metabolism | Enzymology |
| Phylogeny | 22707527 | 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 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Fatty Alcohols/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Soybeans/*microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analysis | Genetics |
| Phylogeny | 36018780 | 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 | *Actinobacteria, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lead, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces, Vitamin K 2 | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 9665 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40588) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40588 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 84510 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID92921.1 | StrainInfo: A central database for resolving microbial strain identifiers |