Strain identifier
BacDive ID: 133838
Type strain: 
Species: Pseudogulbenkiania gefcensis
Strain Designation: yH16
Strain history: D.-G. Lee yH16.
NCBI tax ID(s): 1037320 (species)
version 8.1 (current version)
General
@ref: 30638
BacDive-ID: 133838
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Pseudogulbenkiania gefcensis yH16 is an aerobe, Gram-negative, motile bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1037320
- Matching level: species
strain history
- @ref: 67770
- history: D.-G. Lee yH16.
doi: 10.13145/bacdive133838.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Neisseriales
- family: Chromobacteriaceae
- genus: Pseudogulbenkiania
- species: Pseudogulbenkiania gefcensis
- full scientific name: Pseudogulbenkiania gefcensis Lee et al. 2013
@ref: 30638
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Neisseriales
family: Chromobacteriaceae
genus: Pseudogulbenkiania
species: Pseudogulbenkiania gefcensis
strain designation: yH16
type strain: yes
Morphology
cell morphology
- @ref: 30638
- gram stain: negative
- cell length: 0.7 µm
- cell width: 0.4 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 30638
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30638 | positive | growth | 25-40 | |
| 30638 | positive | optimum | 32 | mesophilic |
| 67770 | positive | growth | 32 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30638 | positive | growth | 06-08 |
| 30638 | positive | optimum | 6 |
Physiology and metabolism
oxygen tolerance
- @ref: 30638
- oxygen tolerance: aerobe
spore formation
- @ref: 30638
- spore formation: no
halophily
- @ref: 30638
- salt: NaCl
- growth: positive
- tested relation: optimum
- concentration: 0.7 %
observation
- @ref: 67770
- observation: quinones: Q-8
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30638 | 37054 | 3-hydroxybutyrate | + | carbon source |
| 30638 | 16449 | alanine | + | carbon source |
| 30638 | 22653 | asparagine | + | carbon source |
| 30638 | 35391 | aspartate | + | carbon source |
| 30638 | 23652 | dextrin | + | carbon source |
| 30638 | 28757 | fructose | + | carbon source |
| 30638 | 29987 | glutamate | + | carbon source |
| 30638 | 28087 | glycogen | + | carbon source |
| 30638 | 27570 | histidine | + | carbon source |
| 30638 | 18240 | 4-hydroxy-L-proline | + | carbon source |
| 30638 | 24996 | lactate | + | carbon source |
| 30638 | 18257 | ornithine | + | carbon source |
| 30638 | 28044 | phenylalanine | + | carbon source |
| 30638 | 26271 | proline | + | carbon source |
| 30638 | 26490 | quinate | + | carbon source |
| 30638 | 30031 | succinate | + | carbon source |
| 30638 | 53426 | tween 80 | + | carbon source |
| 30638 | 27248 | urocanic acid | + | carbon source |
| 30638 | 17632 | nitrate | + | reduction |
enzymes
- @ref: 30638
- value: cytochrome oxidase
- activity: +
- ec: 1.9.3.1
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 30638 | soil | ||||
| 67770 | Soil at Kyung Hee University | Suwon City | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Sequence information
16S sequences
- @ref: 30638
- description: Pseudogulbenkiania gefcensis strain yH16 16S ribosomal RNA gene, partial sequence
- accession: JF728876
- length: 1460
- database: nuccore
- NCBI tax ID: 1037320
GC content
| @ref | GC-content | method |
|---|---|---|
| 30638 | 65.9 | |
| 67770 | 65.9 | high performance liquid chromatography (HPLC) |
External links
@ref: 30638
culture collection no.: KCCM 90100, JCM 17850
literature
- topic: Phylogeny
- Pubmed-ID: 22389280
- title: Pseudogulbenkiania gefcensis sp. nov., isolated from soil.
- authors: Lee DG, Im DM, Kang H, Yun P, Park SK, Hyun SS, Hwang DY
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.040873-0
- year: 2012
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Neisseriaceae/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analysis
- 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 | ||
| 30638 | 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 | 26969 | 28776041 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ |