Strain identifier
BacDive ID: 16499
Type strain: 
Species: Streptomyces abyssalis
Strain history: <- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM M10400 <- Y. Xu
NCBI tax ID(s): 933944 (species)
version 8.1 (current version)
General
@ref: 17382
BacDive-ID: 16499
DSM-Number: 42024
keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic
description: Streptomyces abyssalis DSM 42024 is an aerobe, spore-forming, mesophilic bacterium that was isolated from deep-sea sediment.
NCBI tax id
- NCBI tax id: 933944
- Matching level: species
strain history
- @ref: 17382
- history: <- S.-K. Tang, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM M10400 <- Y. Xu
doi: 10.13145/bacdive16499.20230509.8.1
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 abyssalis
- full scientific name: Streptomyces abyssalis Xu et al. 2012
@ref: 17382
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces abyssalis
full scientific name: Streptomyces abyssalis Xu et al. 2012
type strain: yes
Morphology
pigmentation
- @ref: 30409
- production: no
Culture and growth conditions
culture medium
- @ref: 17382
- name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)
- growth: yes
- link: https://mediadive.dsmz.de/medium/84
- composition: 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 | range |
|---|---|---|---|---|
| 17382 | positive | growth | 28 | mesophilic |
| 30409 | positive | growth | 28-37 | mesophilic |
| 30409 | positive | optimum | 32.5 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30409 | positive | growth | 06-08 |
| 30409 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 30409
- oxygen tolerance: aerobe
spore formation
- @ref: 30409
- spore formation: yes
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30409 | NaCl | positive | growth | 0-6 % |
| 30409 | NaCl | positive | optimum | 1.5 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30409 | 28757 | fructose | + | carbon source |
| 30409 | 17234 | glucose | + | carbon source |
| 30409 | 17754 | glycerol | + | carbon source |
| 30409 | 17306 | maltose | + | carbon source |
| 30409 | 29864 | mannitol | + | carbon source |
| 30409 | 26546 | rhamnose | + | carbon source |
| 30409 | 17992 | sucrose | + | carbon source |
| 30409 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30409 | catalase | + | 1.11.1.6 |
| 30409 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 17382
- sample type: deep-sea sediment
- geographic location: South China Sea, Xisha Islands sea area (17° 59' 48.135'' N 114° 34' 16.668'' E) at a depth of 3587 m
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 17.9967
- longitude: 114.571
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Sediment |
Safety information
risk assessment
- @ref: 17382
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17382
- description: Streptomyces abyssalis strain YIM M 10400 16S ribosomal RNA gene, partial sequence
- accession: HQ585121
- length: 1527
- database: ena
- NCBI tax ID: 933944
GC content
| @ref | GC-content | method |
|---|---|---|
| 17382 | 71.3 | high performance liquid chromatography (HPLC) |
| 30409 | 71.3 |
External links
@ref: 17382
culture collection no.: DSM 42024, CCTCC AA 2010008, YIM M 10400
straininfo link
- @ref: 85532
- straininfo: 401849
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22140161 | Streptomyces glycovorans sp. nov., Streptomyces xishensis sp. nov. and Streptomyces abyssalis sp. nov., isolated from marine sediments. | Xu Y, He J, Tian XP, Li J, Yang LL, Xie Q, Tang SK, Chen YG, Zhang S, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.035386-0 | 2011 | Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification | Genetics |
| Phylogeny | 27553490 | Streptomyces ovatisporus sp. nov., isolated from deep marine sediment. | Veyisoglu A, Cetin D, Inan Bektas K, Guven K, Sahin N | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001442 | 2016 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Turkey, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 32915250 | Streptomyces boncukensis sp. nov., isolated from saltern soil. | Tatar D, Veyisoglu A, Saygin H, Sahin N | Arch Microbiol | 10.1007/s00203-020-02036-1 | 2020 | DNA, Bacterial/genetics, Diaminopimelic Acid/metabolism, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Species Specificity, Streptomyces/*classification/genetics/isolation & purification, Turkey | Metabolism |
| Phylogeny | 33595745 | Streptomyces bathyalis sp. nov., an actinobacterium isolated from the sponge in a deep sea. | Risdian C, Landwehr W, Rohde M, Schumann P, Hahnke RL, Sproer C, Bunk B, Kampfer P, Schupp PJ, Wink J | Antonie Van Leeuwenhoek | 10.1007/s10482-021-01528-4 | 2021 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid, Fatty Acids/analysis, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/genetics, Vitamin K 2 | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 17382 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42024) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-42024 | ||||
| 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 | ||||
| 30409 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26746 | 28776041 | ||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 85532 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID401849.1 | StrainInfo: A central database for resolving microbial strain identifiers |