Strain identifier
BacDive ID: 133479
Type strain: 
Species: Tenacibaculum crassostreae
Strain Designation: JO-1
Strain history: J. S. Jung JO-1.
NCBI tax ID(s): 502683 (species)
version 8.1 (current version)
General
@ref: 29128
BacDive-ID: 133479
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Tenacibaculum crassostreae JO-1 is an aerobe, Gram-negative, motile bacterium that was isolated from oyster.
NCBI tax id
- NCBI tax id: 502683
- Matching level: species
strain history
- @ref: 67770
- history: J. S. Jung JO-1.
doi: 10.13145/bacdive133479.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Tenacibaculum
- species: Tenacibaculum crassostreae
- full scientific name: Tenacibaculum crassostreae Lee et al. 2009
@ref: 29128
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Tenacibaculum
species: Tenacibaculum crassostreae
strain designation: JO-1
type strain: yes
Morphology
cell morphology
- @ref: 29128
- gram stain: negative
- cell length: 3.25 µm
- cell width: 0.3 µm
- cell shape: rod-shaped
- motility: yes
- flagellum arrangement: gliding
pigmentation
- @ref: 29128
- production: no
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 29128 | positive | growth | 15-37 | |
| 29128 | positive | optimum | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 29128 | positive | growth | 6.0-7.0 |
| 29128 | positive | optimum | 6.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 29128
- oxygen tolerance: aerobe
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29128 | 22653 | asparagine | + | carbon source |
| 29128 | 35391 | aspartate | + | carbon source |
| 29128 | 23652 | dextrin | + | carbon source |
| 29128 | 33984 | fucose | + | carbon source |
| 29128 | 24996 | lactate | + | carbon source |
| 29128 | 29864 | mannitol | + | carbon source |
| 29128 | 18257 | ornithine | + | carbon source |
| 29128 | 26271 | proline | + | carbon source |
| 29128 | 30031 | succinate | + | carbon source |
| 29128 | 17748 | thymidine | + | carbon source |
| 29128 | 53426 | tween 80 | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29128 | acid phosphatase | + | 3.1.3.2 |
| 29128 | catalase | + | 1.11.1.6 |
| 29128 | gelatinase | + | |
| 29128 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|---|
| 29128 | oyster | |||||
| 67770 | Pacific oyster, Crassostrea gigas | Crassostrea gigas | Wan Island, Jeonnam Province | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Host
- Cat2: #Invertebrates (Other)
- Cat3: #Mollusca
taxonmaps
- @ref: 69479
- File name: preview.99_178731.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_214;96_2278;97_2761;98_116679;99_178731&stattab=map
- Last taxonomy: Tenacibaculum crassostreae subclade
- 16S sequence: EU428783
- Sequence Identity:
- Total samples: 73
- soil counts: 1
- aquatic counts: 59
- animal counts: 13
Sequence information
16S sequences
- @ref: 29128
- description: Tenacibaculum crassostreae strain JO-1 16S ribosomal RNA gene, partial sequence
- accession: EU428783
- length: 1396
- database: nuccore
- NCBI tax ID: 502683
GC content
| @ref | GC-content | method |
|---|---|---|
| 29128 | 31.4 | |
| 67770 | 31.4 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 29128
culture collection no.: KCTC 22329, JCM 15428
literature
- topic: Phylogeny
- Pubmed-ID: 19542127
- title: Tenacibaculum crassostreae sp. nov., isolated from the Pacific oyster, Crassostrea gigas.
- authors: Lee YS, Baik KS, Park SY, Kim EM, Lee DH, Kahng HY, Jeon CO, Jung JS
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.006866-0
- year: 2009
- mesh: Animals, Bacterial Typing Techniques, Base Composition, Crassostrea/*microbiology, DNA, Bacterial/analysis, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 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 | ||
| 29128 | 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 | 25554 | 28776041 |
| 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/ |