Strain identifier
BacDive ID: 134364
Type strain: 
Species: Sphingobacterium kitahiroshimense
Strain Designation: 10C
Strain history: H. Matsuyama 10C.
NCBI tax ID(s): 470446 (species)
version 8.1 (current version)
General
@ref: 32622
BacDive-ID: 134364
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Sphingobacterium kitahiroshimense 10C is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 470446
- Matching level: species
strain history
- @ref: 67770
- history: H. Matsuyama 10C.
doi: 10.13145/bacdive134364.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Sphingobacteriia
- order: Sphingobacteriales
- family: Sphingobacteriaceae
- genus: Sphingobacterium
- species: Sphingobacterium kitahiroshimense
- full scientific name: Sphingobacterium kitahiroshimense Matsuyama et al. 2008
@ref: 32622
domain: Bacteria
phylum: Bacteroidetes
class: Sphingobacteriia
order: Sphingobacteriales
family: Sphingobacteriaceae
genus: Sphingobacterium
species: Sphingobacterium kitahiroshimense
strain designation: 10C
type strain: yes
Morphology
cell morphology
- @ref: 32622
- gram stain: negative
- cell length: 0.6-0.8 µm
- cell width: 0.5-0.6 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 32622
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 32622 | positive | growth | 04-37 | |
| 32622 | positive | optimum | 37 | mesophilic |
| 67770 | positive | growth | 25 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 32622 | positive | growth | 7 |
| 32622 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 32622
- oxygen tolerance: aerobe
spore formation
- @ref: 32622
- spore formation: no
observation
- @ref: 32622
- observation: aggregates in chains
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32622 | 16449 | alanine | + | carbon source |
| 32622 | 17057 | cellobiose | + | carbon source |
| 32622 | 23652 | dextrin | + | carbon source |
| 32622 | 28757 | fructose | + | carbon source |
| 32622 | 28260 | galactose | + | carbon source |
| 32622 | 17234 | glucose | + | carbon source |
| 32622 | 29987 | glutamate | + | carbon source |
| 32622 | 17716 | lactose | + | carbon source |
| 32622 | 17306 | maltose | + | carbon source |
| 32622 | 37684 | mannose | + | carbon source |
| 32622 | 28053 | melibiose | + | carbon source |
| 32622 | 506227 | N-acetylglucosamine | + | carbon source |
| 32622 | 26271 | proline | + | carbon source |
| 32622 | 26546 | rhamnose | + | carbon source |
| 32622 | 17822 | serine | + | carbon source |
| 32622 | 17992 | sucrose | + | carbon source |
| 32622 | 26986 | threonine | + | carbon source |
| 32622 | 27082 | trehalose | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32622 | acid phosphatase | + | 3.1.3.2 |
| 32622 | alkaline phosphatase | + | 3.1.3.1 |
| 32622 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 32622 | soil | ||||
| 67770 | Soil from Kitahiroshima City | Hokkaido | Japan | JPN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_3649.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15366;96_218;97_237;98_2791;99_3649&stattab=map
- Last taxonomy: Sphingobacterium
- 16S sequence: AB361248
- Sequence Identity:
- Total samples: 16385
- soil counts: 3695
- aquatic counts: 2984
- animal counts: 6840
- plant counts: 2866
Sequence information
16S sequences
- @ref: 32622
- description: Sphingobacterium kitahiroshimense gene for 16S rRNA, partial sequence
- accession: AB361248
- length: 1490
- database: nuccore
- NCBI tax ID: 470446
GC content
| @ref | GC-content | method |
|---|---|---|
| 32622 | 36.9 | |
| 67770 | 36.9 | high performance liquid chromatography (HPLC) |
External links
@ref: 32622
culture collection no.: JCM 14970, NCIMB 14398
literature
- topic: Phylogeny
- Pubmed-ID: 18599698
- title: Sphingobacterium kitahiroshimense sp. nov., isolated from soil.
- authors: Matsuyama H, Katoh H, Ohkushi T, Satoh A, Kawahara K, Yumoto I
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65791-0
- year: 2008
- mesh: Japan, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Species Specificity, Sphingobacterium/chemistry/*classification/genetics/isolation & purification, Sphingosine/analogs & derivatives/chemistry
- 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 | ||
| 32622 | 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 | 28833 | 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/ |