Strain identifier
BacDive ID: 162223
Type strain: 
Species: Carboxylicivirga mesophila
Strain history: K. K. Kwon MEBiC07026.
NCBI tax ID(s): 1166478 (species)
version 9.1 (current version)
General
@ref: 67770
BacDive-ID: 162223
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Carboxylicivirga mesophila JCM 18290 is a Gram-negative bacterium that was isolated from Tidal flat sediment at Daebudo-Island in the Yellow Sea.
NCBI tax id
- NCBI tax id: 1166478
- Matching level: species
strain history
- @ref: 67770
- history: K. K. Kwon MEBiC07026.
doi: 10.13145/bacdive162223.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Marinilabiliaceae
- genus: Carboxylicivirga
- species: Carboxylicivirga mesophila
- full scientific name: Carboxylicivirga mesophila Yang et al. 2014
@ref: 67770
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Marinilabiliaceae
genus: Carboxylicivirga
species: Carboxylicivirga mesophila
full scientific name: Carboxylicivirga mesophila Yang et al. 2014
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 91.499
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 32
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Tidal flat sediment at Daebudo-Island in the Yellow Sea
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
taxonmaps
- @ref: 69479
- File name: preview.99_81561.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1652;96_7002;97_8398;98_56702;99_81561&stattab=map
- Last taxonomy: Carboxylicivirga mesophila subclade
- 16S sequence: JQ672625
- Sequence Identity:
- Total samples: 347
- soil counts: 13
- aquatic counts: 190
- animal counts: 144
Sequence information
16S sequences
- @ref: 67770
- description: Carboxylicivirga mesophila strain MEBiC 07026 16S ribosomal RNA gene, partial sequence
- accession: JQ672625
- length: 1445
- database: nuccore
- NCBI tax ID: 1166478
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Carboxylicivirga mesophila JCM 18290 | GCA_018271975 | contig | ncbi | 1166478 |
| 66792 | Carboxylicivirga mesophila strain JCM 18290 | 1166478.3 | wgs | patric | 1166478 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 91.499 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 73.471 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 83.982 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 66.659 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.633 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 82.47 | no |
External links
@ref: 67770
culture collection no.: JCM 18290, KCCM 42978
literature
- topic: Phylogeny
- Pubmed-ID: 24436065
- title: Carboxylicivirga gen. nov. in the family Marinilabiliaceae with two novel species, Carboxylicivirga mesophila sp. nov. and Carboxylicivirga taeanensis sp. nov., and reclassification of Cytophaga fermentans as Saccharicrinis fermentans gen. nov., comb. nov.
- authors: Yang SH, Seo HS, Woo JH, Oh HM, Jang H, Lee JH, Kim SJ, Kwon KK
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.053462-0
- year: 2014
- mesh: Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, Cytophaga/*classification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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/ |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |