Strain identifier
BacDive ID: 24459
Type strain:
Species: Actinophytocola sediminis
Strain history: BCRC 16956 <-- W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM M13705.
NCBI tax ID(s): 1476870 (species)
General
@ref: 21209
BacDive-ID: 24459
DSM-Number: 45939
keywords: 16S sequence, Bacteria, mesophilic
description: Actinophytocola sediminis DSM 45939 is a mesophilic bacterium that was isolated from marine sediment.
NCBI tax id
- NCBI tax id: 1476870
- Matching level: species
strain history
@ref | history |
---|---|
21209 | <- W.-J. Li, YIM; YIM M13705 <- D.-F. Zhang, Yunnan University,China |
67770 | BCRC 16956 <-- W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM M13705. |
doi: 10.13145/bacdive24459.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Actinophytocola
- species: Actinophytocola sediminis
- full scientific name: Actinophytocola sediminis Zhang et al. 2014
@ref: 21209
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Actinophytocola
species: Actinophytocola sediminis
full scientific name: Actinophytocola sediminis Zhang et al. 2014
type strain: yes
Culture and growth conditions
culture medium
- @ref: 21209
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
21209 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-10(H2)
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
21209 | marine sediment | South China Sea (112° 30.203' E 18° 1.654' N, at a depth of 2439 m) | China | CHN | Asia | 18.0276 | 112.503 |
67770 | Marine sediment of the South China Sea |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_49329.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_770;97_898;98_35467;99_49329&stattab=map
- Last taxonomy: Actinophytocola sediminis subclade
- 16S sequence: KJ013500
- Sequence Identity:
- Total samples: 14
- soil counts: 14
Safety information
risk assessment
- @ref: 21209
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21209
- description: Actinophytocola sediminis strain YIM M13705 16S ribosomal RNA gene, partial sequence
- accession: KJ013500
- length: 1528
- database: ena
- NCBI tax ID: 1476870
GC content
- @ref: 21209
- GC-content: 68.2
- method: high performance liquid chromatography (HPLC)
External links
@ref: 21209
culture collection no.: DSM 45939, BCRC 16956, YIM M13705, JCM 30581
straininfo link
- @ref: 88334
- straininfo: 399711
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 24867173 | Actinophytocola sediminis sp. nov., an actinomycete isolated from a marine sediment. | Zhang DF, Jiang Z, Zhang XM, Yang LL, Tian XP, Long LJ, Zhang S, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.062638-0 | 2014 | Actinomycetales/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Vitamin K 2/chemistry | Genetics |
Phylogeny | 28073395 | Actinophytocola xanthii sp. nov., an actinomycete isolated from rhizosphere soil of the plant Xanthium sibiricum. | Wang W, Wang B, Meng H, Xing Z, Lai Q, Yuan L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001781 | 2017 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, Xanthium/*microbiology | Transcriptome |
Reference
@id | authors | title | doi/url | 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 | |
21209 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45939 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45939) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
88334 | 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-ID399711.1 |