Strain identifier
BacDive ID: 133174
Type strain: 
Species: Spongiibacter taiwanensis
Strain Designation: SPT1
Strain history: W. Y. Shieh; Inst. of Oceanogr., Natl. Taiwan Univ., Taiwan; SPT1.
NCBI tax ID(s): 1748242 (species)
version 8.1 (current version)
General
@ref: 24950
BacDive-ID: 133174
keywords: genome sequence, 16S sequence, Bacteria, aerobe, heterotroph, Gram-negative, rod-shaped, colony-forming
description: Spongiibacter taiwanensis SPT1 is an aerobe, heterotroph, Gram-negative bacterium that forms circular colonies and was isolated from aged seawater sample.
NCBI tax id
- NCBI tax id: 1748242
- Matching level: species
strain history
- @ref: 67770
- history: W. Y. Shieh; Inst. of Oceanogr., Natl. Taiwan Univ., Taiwan; SPT1.
doi: 10.13145/bacdive133174.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Cellvibrionales
- family: Spongiibacteraceae
- genus: Spongiibacter
- species: Spongiibacter taiwanensis
- full scientific name: Spongiibacter taiwanensis Jean et al. 2016
@ref: 24950
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Cellvibrionales
family: Spongiibacteraceae
genus: Spongiibacter
species: Spongiibacter taiwanensis
strain designation: SPT1
type strain: yes
Morphology
cell morphology
- @ref: 24950
- gram stain: negative
- cell length: 1.2-1.6 µm
- cell width: 0.6-0.7 µm
- cell shape: rod-shaped
- motility: no
- flagellum arrangement: polar
colony morphology
- @ref: 24950
- colony size: 1.0-2.0 mm
- colony color: creamy
- colony shape: circular
- incubation period: 5 days
- medium used: PY broth medium
Culture and growth conditions
culture medium
- @ref: 24950
- name: PY broth medium
- growth: yes
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 24950 | positive | growth | 4-37 | |
| 24950 | positive | optimum | 30-35 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 24950 | positive | growth | 6.0-10.0 | alkaliphile |
| 24950 | positive | optimum | 7.0-8.0 |
Physiology and metabolism
oxygen tolerance
- @ref: 24950
- oxygen tolerance: aerobe
nutrition type
- @ref: 24950
- type: heterotroph
halophily
| @ref | salt | growth | tested relation | concentration | halophily level |
|---|---|---|---|---|---|
| 24950 | NaCl | positive | growth | 0.5-10.0 % | |
| 24950 | NaCl | positive | optimum | 1.0-3.0 % | halophilic |
| 24950 | NaCl | no | growth | 0 % | |
| 24950 | NaCl | no | growth | 12 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 24950 | 2509 | agar | - | hydrolysis |
| 24950 | casein | - | hydrolysis | |
| 24950 | 17057 | cellobiose | - | carbon source |
| 24950 | 62968 | cellulose | - | hydrolysis |
| 24950 | 17029 | chitin | - | hydrolysis |
| 24950 | 17108 | D-arabinose | - | carbon source |
| 24950 | 15824 | D-fructose | - | carbon source |
| 24950 | 16991 | dna | - | hydrolysis |
| 24950 | 4853 | esculin | - | hydrolysis |
| 24950 | 5291 | gelatin | - | hydrolysis |
| 24950 | 17716 | lactose | - | carbon source |
| 24950 | 17632 | nitrate | - | reduction |
| 24950 | 15361 | pyruvate | - | carbon source |
| 24950 | 27897 | tryptophan | - | energy source |
| 24950 | 53426 | tween 80 | - | hydrolysis |
| 24950 | 37166 | xylan | - | hydrolysis |
metabolite production
- @ref: 24950
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 24950
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 24950 | acid phosphatase | + | 3.1.3.2 |
| 24950 | alkaline phosphatase | + | 3.1.3.1 |
| 24950 | catalase | + | 1.11.1.6 |
| 24950 | cytochrome oxidase | + | 1.9.3.1 |
| 24950 | esterase (C 4) | + | |
| 24950 | esterase lipase (C 8) | + | |
| 24950 | leucine arylamidase | + | 3.4.11.1 |
| 24950 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
| 24950 | naphthol-AS-BI-phosphohydrolase | + | |
| 24950 | tryptophan deaminase | - | 4.1.99.1 |
| 24950 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 24950 | aged seawater sample | shallow coastal region of Nanya, Keelung | Taiwan | TWN | Asia |
| 67770 | Aged seawater from the shallow coastal region of Nanya | Keelung | Taiwan | TWN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_10377.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_305;96_2118;97_6196;98_7736;99_10377&stattab=map
- Last taxonomy: Spongiibacter taiwanensis subclade
- 16S sequence: KT966463
- Sequence Identity:
- Total samples: 825
- soil counts: 13
- aquatic counts: 757
- animal counts: 55
Sequence information
16S sequences
- @ref: 24950
- description: Spongiibacter sp. SPT1 16S ribosomal RNA gene, partial sequence
- accession: KT966463
- length: 1459
- database: nuccore
- NCBI tax ID: 1748242
Genome sequences
- @ref: 66792
- description: Spongiibacter taiwanensis SPT1
- accession: GCA_023702635
- assembly level: complete
- database: ncbi
- NCBI tax ID: 1748242
GC content
- @ref: 24950
- GC-content: 57.9
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | yes | 81.304 | no |
| gram-positive | no | 98.693 | yes |
| anaerobic | no | 97.892 | yes |
| aerobic | yes | 94.154 | yes |
| halophile | yes | 87.174 | yes |
| spore-forming | no | 95.591 | no |
| motile | yes | 83.702 | yes |
| glucose-ferment | no | 88.842 | no |
| thermophile | no | 96.971 | yes |
| glucose-util | yes | 60.436 | no |
External links
@ref: 24950
culture collection no.: JCM 31012, BCRC 80916
literature
- topic: Phylogeny
- Pubmed-ID: 27432363
- title: Spongiibacter taiwanensis sp. nov., a marine bacterium isolated from aged seawater.
- authors: Jean WD, Yeh YT, Huang SP, Chen JS, Shieh WY
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001316
- year: 2016
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistry
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | journal | 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 | ||
| 24950 | W. D. Y. Jean, Yu-Ting,Huang, Ssu-Po,Chen, Jwo-Sheng,Shieh, Wung Yang | Spongiibacter taiwanensis sp. nov., a marine bacterium isolated from aged seawater | 10.1099/ijsem.0.001316 | IJSEM 66: 4094-4098 2016 | 27432363 |
| 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 | ||
| 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/ |