Strain identifier
BacDive ID: 166286
Type strain: 
Species: Streptomyces otsuchiensis
Strain Designation: OTB305
Strain history: <- TBRC; TBRC 9682 <- IFO; NBRC 113255
NCBI tax ID(s): 2681388 (species)
version 9.1 (current version)
General
@ref: 68033
BacDive-ID: 166286
DSM-Number: 114175
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, pigmented
description: Streptomyces otsuchiensis OTB305 is an aerobe, spore-forming, Gram-positive bacterium that has a light yellow pigmentation and was isolated from marine sediment.
NCBI tax id
- NCBI tax id: 2681388
- Matching level: species
strain history
- @ref: 69125
- history: <- TBRC; TBRC 9682 <- IFO; NBRC 113255
doi: 10.13145/bacdive166286.20240916.9.1
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 otsuchiensis
- full scientific name: Streptomyces otsuchiensis Terahara et al. 2019
@ref: 68033
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Streptomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces otsuchiensis
full scientific name: Streptomyces otsuchiensis Terahara et al. 2019
strain designation: OTB305
type strain: yes
Morphology
cell morphology
| @ref | gram stain | motility | confidence |
|---|---|---|---|
| 68033 | positive | ||
| 69480 | no | 90 | |
| 69480 | positive | 90.316 |
pigmentation
| @ref | production | color | name |
|---|---|---|---|
| 68033 | yes | light yellow | |
| 68033 | yes | bright ash-yellow | bright ash-yellow |
multimedia
- @ref: 69125
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_114175.jpg
- caption: Medium871, 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link |
|---|---|---|---|
| 69125 | GYM + SEAWATER (DSMZ Medium 871) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium871.pdf |
| 69125 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 68033 | positive | growth | 15-37 |
| 69125 | positive | growth | 28 |
culture pH
- @ref: 68033
- ability: positive
- type: growth
- pH: 7.0-10.0
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 68033
- oxygen tolerance: aerobe
spore formation
| @ref | spore description | type of spore | spore formation | confidence |
|---|---|---|---|---|
| 68033 | Rectiflexibile, spore chains are observed on aerial mycelia. The spores are 0.6-1.2 0.8-1.6 µm in size and spore surface is smooth. | spore | yes | |
| 69481 | yes | 100 |
halophily
- @ref: 68033
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 1.0-6.0 %(w/v)
observation
| @ref | observation |
|---|---|
| 68033 | The peptidoglycan contains LL-diaminopimelic acid |
| 68033 | Whole-cell hydrolysates contain glucose and lack characteristic major sugars |
| 68033 | The predominant menaquinones are MK-9(H8) and MK-9(H6); MK-9(H4) and MK-9(H10) are minor components |
| 68033 | Diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and an unidentified phospholipid are observed as the polar lipids |
| 68033 | colour of aerial mycelia are white to yellow-white |
| 68033 | Substrate mycelia appear light yellow on ISP1, ISP4 and ISP6, dark reddish yellow on ISP2 and ISP5, dark yellow red on ISP3, ash yellow red on ISP7, and bright reddish yellow on ISP8 |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68033 | 17634 | D-glucose | + | carbon source |
| 68033 | 30849 | L-arabinose | + | carbon source |
| 68033 | 17992 | sucrose | + | carbon source |
| 68033 | 65327 | D-xylose | + | carbon source |
| 68033 | 17268 | myo-inositol | + | carbon source |
| 68033 | 16899 | D-mannitol | + | carbon source |
| 68033 | 15824 | D-fructose | + | carbon source |
| 68033 | 26546 | rhamnose | + | carbon source |
| 68033 | 16634 | raffinose | + | carbon source |
| 68033 | 17632 | nitrate | - | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68033 | alkaline phosphatase | + | 3.1.3.1 |
| 68033 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
| 68033 | catalase | + | 1.11.1.6 |
| 68033 | alpha-glucosidase | + | 3.2.1.20 |
| 68033 | gelatinase | + | |
| 68033 | leucine arylamidase | + | 3.4.11.1 |
| 68033 | alpha-mannosidase | + | 3.2.1.24 |
| 68033 | pyrazinamidase | + | 3.5.1.B15 |
| 68033 | acid phosphatase | +/- | 3.1.3.2 |
| 68033 | cystine arylamidase | +/- | 3.4.11.3 |
| 68033 | esterase (C 4) | +/- | |
| 68033 | esterase Lipase (C 8) | +/- | |
| 68033 | lipase (C 14) | +/- | |
| 68033 | valine arylamidase | +/- | |
| 68033 | naphthol-AS-BI-phosphohydrolase | +/- | |
| 68033 | alpha-chymotrypsin | - | 3.4.21.1 |
| 68033 | alpha-fucosidase | - | 3.2.1.51 |
| 68033 | alpha-galactosidase | - | 3.2.1.22 |
| 68033 | beta-galactosidase | - | 3.2.1.23 |
| 68033 | beta-glucuronidase | - | 3.2.1.31 |
| 68033 | beta-glucosidase | - | 3.2.1.21 |
| 68033 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
| 68033 | trypsin | - | 3.4.21.4 |
| 68033 | urease | - | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 68033 | marine sediment | Otsuchi Bay, Iwate Prefecture | Japan | JPN | Asia |
| 69125 | marine sediment | Japan | JPN | Asia |
Sequence information
16S sequences
- @ref: 68033
- description: Streptomyces otsuchiensis OTB305 gene for 16S ribosomal RNA, partial sequence
- accession: LC430327
- length: 1461
- database: nuccore
- NCBI tax ID: 2681388
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Streptomyces sp. OTB305 | 2484744.3 | wgs | patric | 2681388 |
| 66792 | Streptomyces otsuchiensis OTB305 | 2868441088 | draft | img | 2681388 |
| 68033 | Streptomyces otsuchiensis OTB305 | GCA_004305975 | scaffold | ncbi | 2681388 |
GC content
- @ref: 68033
- GC-content: 72.83
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 90.316 | yes |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.863 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 88.734 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 89.863 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 91.047 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 90 | no |
External links
@ref: 68033
culture collection no.: NBRC 113255, TBRC 9682, DSM 114175
straininfo link
- @ref: 114768
- straininfo: 404724
literature
- topic: Phylogeny
- Pubmed-ID: 31693473
- title: Streptomyces otsuchiensis sp. nov., a biosurfactant-producing actinobacterium isolated from marine sediment.
- authors: Terahara T, Naemura T, Nampo Y, Kobayashi T, Imada C, Hamada M, Tamura T
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003638
- year: 2019
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Japan, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Streptomyces/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | journal | catalogue |
|---|---|---|---|---|---|
| 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 | 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) | https://diaspora-project.de/progress.html#genomes | ||
| 68033 | Takeshi Terahara, Takuya Naemura, Yukiko Nampo, Takeshi Kobayashi, Chiaki Imada, Moriyuki Hamada, Tomohiko Tamura | Streptomyces otsuchiensis sp. nov., a biosurfactant-producing actinobacterium isolated from marine sediment | 10.1099/ijsem.0.003638 | IJSEM 69: 3740-3744 2019 | |
| 69125 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-114175 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 114175) | ||
| 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) | https://diaspora-project.de/progress.html#genomes | ||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | ||
| 114768 | 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 | 10.60712/SI-ID404724.1 |