Strain identifier
BacDive ID: 15005
Type strain:
Species: Streptomyces atroolivaceus
Strain history: CIP <- 2004, CCUG <- 1981, M. Ridell, Göteborg Univ., Göteborg, Sweden <- S.T. Williams
NCBI tax ID(s): 66869 (species)
General
@ref: 9339
BacDive-ID: 15005
DSM-Number: 40137
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, rod-shaped
description: Streptomyces atroolivaceus DSM 40137 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 66869
- Matching level: species
strain history
@ref | history |
---|---|
9339 | <- E.B. Shirling, ISP <- T.P. Preobrazhenskaya, INA |
67770 | KCC S-0345 <-- IFO 12741 <-- SAJ <-- ISP 5137 <-- INA 4776. |
116541 | CIP <- 2004, CCUG <- 1981, M. Ridell, Göteborg Univ., Göteborg, Sweden <- S.T. Williams |
doi: 10.13145/bacdive15005.20230509.8.1
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 atroolivaceus
- full scientific name: Streptomyces atroolivaceus (Preobrazhenskaya et al. 1957) Pridham et al. 1958 (Approved Lists 1980)
synonyms
@ref synonym 20215 Actinomyces atroolivaceus 20215 Actinomyces olivoviridis 20215 Streptomyces olivoviridis
@ref: 9339
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces atroolivaceus
full scientific name: Streptomyces atroolivaceus (Preobrazhenskaya et al. 1957) Pridham et al. 1958 emend. Nouioui et al. 2018
type strain: yes
Morphology
cell morphology
- @ref: 116541
- gram stain: positive
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 116541
- hemolysis ability: 1
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9339 | 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 |
36711 | MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum | yes | Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g) | |
116541 | CIP Medium 57 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
18542 | positive | optimum | 28 | mesophilic |
9339 | positive | growth | 28 | mesophilic |
36711 | positive | growth | 25 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
116541 | positive | growth | 10-37 | |
116541 | no | growth | 41 | thermophilic |
116541 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 116541
- oxygen tolerance: obligate aerobe
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
116541 | NaCl | positive | growth | 0-6 % |
116541 | NaCl | no | growth | 8 % |
116541 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
18542 | 17234 | glucose | + | |
18542 | 22599 | arabinose | +/- | |
18542 | 17992 | sucrose | - | |
18542 | 18222 | xylose | - | |
18542 | 17268 | myo-inositol | - | |
18542 | 29864 | mannitol | - | |
18542 | 28757 | fructose | - | |
18542 | 26546 | rhamnose | + | |
18542 | 16634 | raffinose | - | |
18542 | 62968 | cellulose | - | |
68368 | 5291 | gelatin | + | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | + | hydrolysis |
68368 | 16947 | citrate | + | assimilation |
68368 | 18257 | ornithine | + | degradation |
68368 | 25094 | lysine | + | degradation |
68368 | 29016 | arginine | + | hydrolysis |
116541 | 16947 | citrate | - | carbon source |
116541 | 4853 | esculin | + | hydrolysis |
116541 | 606565 | hippurate | + | hydrolysis |
116541 | 17632 | nitrate | - | reduction |
116541 | 16301 | nitrite | - | reduction |
116541 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 116541
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | yes |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
116541 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test | methylred-test |
---|---|---|---|---|---|
68368 | 15688 | acetoin | + | ||
68368 | 35581 | indole | - | ||
116541 | 15688 | acetoin | - | ||
116541 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | gelatinase | + | |
68368 | tryptophan deaminase | + | 4.1.99.1 |
68368 | urease | + | 3.5.1.5 |
68368 | ornithine decarboxylase | + | 4.1.1.17 |
68368 | lysine decarboxylase | + | 4.1.1.18 |
68368 | arginine dihydrolase | + | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
116541 | oxidase | - | |
116541 | beta-galactosidase | + | 3.2.1.23 |
116541 | alcohol dehydrogenase | - | 1.1.1.1 |
116541 | gelatinase | +/- | |
116541 | amylase | + | |
116541 | DNase | - | |
116541 | caseinase | - | 3.4.21.50 |
116541 | catalase | + | 1.11.1.6 |
116541 | tween esterase | + | |
116541 | gamma-glutamyltransferase | + | 2.3.2.2 |
116541 | lecithinase | + | |
116541 | lipase | - | |
116541 | lysine decarboxylase | - | 4.1.1.18 |
116541 | ornithine decarboxylase | - | 4.1.1.17 |
116541 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
116541 | tryptophan deaminase | - | |
116541 | urease | + | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | trypsin | + | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116541 | - | + | + | + | + | + | + | + | + | - | + | + | - | + | - | + | + | - | - | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
18542 | + | + | + | + | + | - | + | + | - | + | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116541 | + | + | + | + | + | - | - | - | - | + | + | + | + | - | - | + | + | - | + | + | + | - | - | + | + | - | - | - | - | - | - | + | - | + | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | + | + | - | + | + | - | + | - | - | - | - | - | + | + | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | continent |
---|---|---|---|
9339 | soil | USSR | Asia |
67770 | Soil |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_135.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_102;97_109;98_120;99_135&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: AJ781320
- Sequence Identity:
- Total samples: 4030
- soil counts: 2441
- aquatic counts: 286
- animal counts: 1009
- plant counts: 294
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9339 | 1 | Risk group (German classification) |
18542 | 1 | German classification |
116541 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Streptomyces atroolivaceus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4345 | D44064 | 120 | ena | 66869 |
20218 | Streptomyces atroolivaceus strain KCTC 9017 16S ribosomal RNA gene, partial sequence | AY999832 | 1420 | ena | 66869 |
20218 | Streptomyces atroolivaceus 16S rRNA gene, type strain LMG 19306 | AJ781320 | 1478 | ena | 66869 |
20218 | Streptomyces atroolivaceus gene for 16S rRNA, partial sequence, strain: NBRC 12741 | AB184113 | 1473 | ena | 66869 |
Genome sequences
- @ref: 67770
- description: Streptomyces atroolivaceus NRRL ISP-5137
- accession: GCA_000717025
- assembly level: contig
- database: ncbi
- NCBI tax ID: 66869
GC content
- @ref: 67770
- GC-content: 70.7
- method: genome sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 94.939 | no |
flagellated | no | 97.792 | no |
gram-positive | yes | 89.416 | no |
anaerobic | no | 99.221 | no |
halophile | no | 92.199 | no |
spore-forming | yes | 96.057 | no |
thermophile | no | 99.084 | yes |
glucose-util | yes | 88.198 | yes |
aerobic | yes | 94.215 | no |
glucose-ferment | no | 87.086 | no |
External links
@ref: 9339
culture collection no.: DSM 40137, ATCC 19725, CBS 464.68, IFO 12741, INA 4776/54, ISP 5137, NBRC 12741, RIA 1006, CCUG 11112, CIP 108257, JCM 4345, BCRC 12073, CECT 3316, CGMCC 4.1405, IMET 43088, INA 4776, LMG 19306, NRRL ISP-5137, VKM Ac-970, VTT E-052933, CBS 464-68, IPV 1612
straininfo link
- @ref: 84113
- straininfo: 13329
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 27137499 | Biosynthetic Genes for the Tetrodecamycin Antibiotics. | Gverzdys T, Nodwell JR | J Bacteriol | 10.1128/JB.00140-16 | 2016 | Anti-Bacterial Agents/*biosynthesis/chemistry, Bacterial Proteins/*genetics/metabolism, Biosynthetic Pathways, Furans/chemistry/metabolism, Multigene Family, Streptomyces/chemistry/genetics/*metabolism | |
Phylogeny | 34889725 | Streptomyces silvae sp. nov., isolated from forest soil. | Besaury L, Martinet L, Muhle E, Clermont D, Remond C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005147 | 2021 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Forests, France, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, *Streptomyces/classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9339 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40137) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-40137 | |||
18542 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM40137.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
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 | |
36711 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5859 | ||||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68368 | Automatically annotated from API 20E | |||||
68382 | Automatically annotated from API zym | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
84113 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID13329.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
116541 | Curators of the CIP | Collection of Institut Pasteur (CIP 108257) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108257 |