Strain identifier
BacDive ID: 134024
Type strain: 
Species: Endozoicomonas gorgoniicola
Strain Designation: PS125
NCBI tax ID(s): 1234144 (species)
version 8.1 (current version)
General
@ref: 31077
BacDive-ID: 134024
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-negative, motile, rod-shaped
description: Endozoicomonas gorgoniicola PS125 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from octocoral.
NCBI tax id
- NCBI tax id: 1234144
- Matching level: species
doi: 10.13145/bacdive134024.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Endozoicomonadaceae
- genus: Endozoicomonas
- species: Endozoicomonas gorgoniicola
- full scientific name: Endozoicomonas gorgoniicola Pike et al. 2013
@ref: 31077
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Endozoicomonadaceae
genus: Endozoicomonas
species: Endozoicomonas gorgoniicola
strain designation: PS125
type strain: yes
Morphology
cell morphology
- @ref: 31077
- gram stain: negative
- cell length: 2 µm
- cell width: 0.7 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 31077
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 31077 | positive | growth | 15-30 | |
| 31077 | positive | optimum | 26 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 31077 | positive | growth | 7.0-9.0 | alkaliphile |
| 31077 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
- @ref: 31077
- oxygen tolerance: facultative anaerobe
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31077 | NaCl | positive | growth | 01-04 % |
| 31077 | NaCl | positive | optimum | 2.5 % |
observation
- @ref: 31077
- observation: aggregates in clumps
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31077 | 16000 | ethanolamine | + | carbon source |
| 31077 | 62064 | 2,3-butanediol | + | carbon source |
| 31077 | 30089 | acetate | + | carbon source |
| 31077 | 21217 | L-alaninamide | + | carbon source |
| 31077 | 16449 | alanine | + | carbon source |
| 31077 | 40585 | alpha-cyclodextrin | + | carbon source |
| 31077 | 18403 | L-arabitol | + | carbon source |
| 31077 | 22653 | asparagine | + | carbon source |
| 31077 | 35391 | aspartate | + | carbon source |
| 31077 | 16947 | citrate | + | carbon source |
| 31077 | 24265 | gluconate | + | carbon source |
| 31077 | 5417 | glucosamine | + | carbon source |
| 31077 | 17234 | glucose | + | carbon source |
| 31077 | 29987 | glutamate | + | carbon source |
| 31077 | 17754 | glycerol | + | carbon source |
| 31077 | 28087 | glycogen | + | carbon source |
| 31077 | 27570 | histidine | + | carbon source |
| 31077 | 17596 | inosine | + | carbon source |
| 31077 | 24996 | lactate | + | carbon source |
| 31077 | 17716 | lactose | + | carbon source |
| 31077 | 15792 | malonate | + | carbon source |
| 31077 | 17306 | maltose | + | carbon source |
| 31077 | 29864 | mannitol | + | carbon source |
| 31077 | 37684 | mannose | + | carbon source |
| 31077 | 28053 | melibiose | + | carbon source |
| 31077 | 17268 | myo-inositol | + | carbon source |
| 31077 | 506227 | N-acetylglucosamine | + | carbon source |
| 31077 | 18257 | ornithine | + | carbon source |
| 31077 | 26271 | proline | + | carbon source |
| 31077 | 17148 | putrescine | + | carbon source |
| 31077 | 26490 | quinate | + | carbon source |
| 31077 | 16634 | raffinose | + | carbon source |
| 31077 | 26546 | rhamnose | + | carbon source |
| 31077 | 30911 | sorbitol | + | carbon source |
| 31077 | 30031 | succinate | + | carbon source |
| 31077 | 27082 | trehalose | + | carbon source |
| 31077 | 53423 | tween 40 | + | carbon source |
| 31077 | 53426 | tween 80 | + | carbon source |
| 31077 | 16704 | uridine | + | carbon source |
| 31077 | 17151 | xylitol | + | carbon source |
| 31077 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 31077 | acid phosphatase | + | 3.1.3.2 |
| 31077 | alkaline phosphatase | + | 3.1.3.1 |
| 31077 | catalase | + | 1.11.1.6 |
| 31077 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 31077
- sample type: octocoral
isolation source categories
- Cat1: #Host
- Cat2: #Invertebrates (Other)
- Cat3: #Cnidaria (Corals)
Sequence information
16S sequences
- @ref: 31077
- description: Endozoicomonas gorgoniicola strain PS125 16S ribosomal RNA gene, partial sequence
- accession: JX488685
- length: 1556
- database: nuccore
- NCBI tax ID: 1234144
Genome sequences
- @ref: 66792
- description: Endozoicomonas gorgoniicola PS125
- accession: GCA_025562715
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1234144
GC content
- @ref: 31077
- GC-content: 47.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 64.962 | no |
| motile | yes | 64.962 | no |
| flagellated | yes | 61.638 | no |
| flagellated | yes | 61.638 | no |
| gram-positive | no | 98.446 | yes |
| gram-positive | no | 98.446 | yes |
| anaerobic | no | 97.087 | yes |
| anaerobic | no | 97.087 | yes |
| aerobic | no | 56.716 | yes |
| aerobic | no | 56.716 | yes |
| halophile | yes | 75.786 | no |
| halophile | yes | 75.786 | no |
| spore-forming | no | 94.063 | no |
| spore-forming | no | 94.063 | no |
| glucose-ferment | no | 54.717 | no |
| glucose-ferment | no | 54.717 | no |
| thermophile | no | 98.084 | yes |
| thermophile | no | 98.084 | yes |
| glucose-util | yes | 92.483 | no |
| glucose-util | yes | 92.483 | no |
External links
@ref: 31077
culture collection no.: NCCB 100438, CECT 8353
straininfo link
- @ref: 91676
- straininfo: 391334
literature
- topic: Phylogeny
- Pubmed-ID: 23832969
- title: Description of Endozoicomonas euniceicola sp. nov. and Endozoicomonas gorgoniicola sp. nov., bacteria isolated from the octocorals Eunicea fusca and Plexaura sp., and an emended description of the genus Endozoicomonas.
- authors: Pike RE, Haltli B, Kerr RG
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.051490-0
- year: 2013
- mesh: Animals, Anthozoa/*microbiology, Bacterial Typing Techniques, Bahamas, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Florida, Gammaproteobacteria/*classification/genetics/isolation & purification, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/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 | ||
| 31077 | 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 | 27406 | 28776041 |
| 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 | ||
| 91676 | 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-ID391334.1 |