Strain identifier
BacDive ID: 140017
Type strain: 
Species: Rapidithrix thailandica
Strain history: IAM 15448 <-- A. Yokota <-- TISTR 1750.
NCBI tax ID(s): 413964 (species)
version 9 (current version)
General
@ref: 42625
BacDive-ID: 140017
DSM-Number: 103551
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, motile
description: Rapidithrix thailandica DSM 103551 is an aerobe, Gram-negative, motile bacterium that was isolated from Marine algae.
NCBI tax id
- NCBI tax id: 413964
- Matching level: species
strain history
| @ref | history |
|---|---|
| 42625 | <- JCM 23209T <- IAM 15448 <- A. Yokota <- TISTR 1750 |
| 67770 | IAM 15448 <-- A. Yokota <-- TISTR 1750. |
doi: 10.13145/bacdive140017.20240510.9
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Flammeovirgaceae
- genus: Rapidithrix
- species: Rapidithrix thailandica
- full scientific name: Rapidithrix thailandica Srisukchayakul et al. 2007
@ref: 42625
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Flammeovirgaceae
genus: Rapidithrix
species: Rapidithrix thailandica
full scientific name: Rapidithrix thailandica Srisukchayakul et al. 2007
type strain: yes
Morphology
cell morphology
- @ref: 32182
- gram stain: negative
- cell length: 60 µm
- cell width: 0.7 µm
- motility: yes
- flagellum arrangement: gliding
pigmentation
- @ref: 32182
- production: yes
Culture and growth conditions
culture medium
- @ref: 42625
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 32182 | positive | growth | 25-30 |
| 32182 | positive | optimum | 25-30 |
| 67770 | positive | growth | 25 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 32182 | positive | growth | 05-10 | alkaliphile |
| 32182 | positive | optimum | 05-10 |
Physiology and metabolism
oxygen tolerance
- @ref: 32182
- oxygen tolerance: aerobe
spore formation
- @ref: 32182
- spore formation: no
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32182 | 22599 | arabinose | + | carbon source |
| 32182 | 17057 | cellobiose | + | carbon source |
| 32182 | 33984 | fucose | + | carbon source |
| 32182 | 28260 | galactose | + | carbon source |
| 32182 | 5291 | gelatin | + | carbon source |
| 32182 | 17234 | glucose | + | carbon source |
| 32182 | 17754 | glycerol | + | carbon source |
| 32182 | 17716 | lactose | + | carbon source |
| 32182 | 17306 | maltose | + | carbon source |
| 32182 | 37684 | mannose | + | carbon source |
| 32182 | 28053 | melibiose | + | carbon source |
| 32182 | 27082 | trehalose | + | carbon source |
| 32182 | 53424 | tween 20 | + | carbon source |
| 32182 | 18222 | xylose | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32182 | acid phosphatase | + | 3.1.3.2 |
| 32182 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 42625 | Marine algae | Andaman Sea, Krabi Province | Thailand | THA | Asia |
| 67770 | Marine algae from the Andaman Sea | Krabi Province | Thailand | THA | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Host | #Algae |
taxonmaps
- @ref: 69479
- File name: preview.99_113067.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_390;96_31386;97_39690;98_51645;99_113067&stattab=map
- Last taxonomy: Rapidithrix thailandica subclade
- 16S sequence: LC191863
- Sequence Identity:
- Total samples: 111
- soil counts: 3
- aquatic counts: 103
- animal counts: 4
- plant counts: 1
Safety information
risk assessment
- @ref: 42625
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 32182 | Rapidithrix thailandica gene for 16S ribosomal RNA, partial sequence, strain: TISTR 1750 | AB265192 | 1465 | nuccore | 413964 |
| 67770 | Rapidithrix thailandica gene for 16S ribosomal RNA, partial sequence, strain: JCM 23209 | LC191863 | 1446 | nuccore | 413964 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 32182 | 40 | |
| 67770 | 40 | high performance liquid chromatography (HPLC) |
External links
@ref: 42625
culture collection no.: DSM 103551, JCM 23209, TISTR 1750, IAM 15448
straininfo link
- @ref: 96445
- straininfo: 310999
literature
- topic: Phylogeny
- Pubmed-ID: 17911296
- title: Rapidithrix thailandica gen. nov., sp. nov., a marine gliding bacterium isolated from samples collected from the Andaman sea, along the southern coastline of Thailand.
- authors: Srisukchayakul P, Suwanachart C, Sangnoi Y, Kanjana-Opas A, Hosoya S, Yokota A, Arunpairojana V
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65087-0
- year: 2007
- mesh: Bacterial Typing Techniques, Bacteroidetes/chemistry/*classification/genetics/*isolation & purification, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Thailand
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed | 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 | |||
| 32182 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 28424 | 28776041 | |
| 42625 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103551 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103551) | |||
| 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/ | |||
| 96445 | 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-ID310999.1 |