Strain identifier
BacDive ID: 163836
Type strain: 
Species: Phaeocystidibacter marisrubri
Strain history: L. Huang; Inst. of Microbiol., CAS, China; G18.
NCBI tax ID(s): 1577780 (species)
version 8.1 (current version)
General
@ref: 67770
BacDive-ID: 163836
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Phaeocystidibacter marisrubri JCM 30614 is a mesophilic, Gram-negative bacterium that was isolated from Red Sea sediment.
NCBI tax id
- NCBI tax id: 1577780
- Matching level: species
strain history
- @ref: 67770
- history: L. Huang; Inst. of Microbiol., CAS, China; G18.
doi: 10.13145/bacdive163836.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Cryomorphaceae
- genus: Phaeocystidibacter
- species: Phaeocystidibacter marisrubri
- full scientific name: Phaeocystidibacter marisrubri Zheng et al. 2015
@ref: 67770
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Cryomorphaceae
genus: Phaeocystidibacter
species: Phaeocystidibacter marisrubri
full scientific name: Phaeocystidibacter marisrubri Zheng et al. 2015
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.994
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.997 |
| 69481 | no | 100 |
observation
- @ref: 67770
- observation: quinones: MK-6
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Red Sea sediment
Sequence information
16S sequences
- @ref: 67770
- description: Phaeocystidibacter marisrubri strain G18 16S ribosomal RNA gene, partial sequence
- accession: KM609933
- length: 1480
- database: ena
- NCBI tax ID: 1577780
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Phaeocystidibacter marisrubri CGMCC 1.14954 | GCA_014640415 | scaffold | ncbi | 1577780 |
| 66792 | Phaeocystidibacter marisrubri strain CGMCC 1.14954 | 1577780.4 | wgs | patric | 1577780 |
| 66792 | Phaeocystidibacter marisrubri strain JCM 30614 | 1577780.3 | wgs | patric | 1577780 |
| 66792 | Phaeocystidibacter marisrubri JCM 30614 | 2887169821 | draft | img | 1577780 |
| 67770 | Phaeocystidibacter marisrubri JCM 30614 | GCA_008933165 | contig | ncbi | 1577780 |
GC content
- @ref: 67770
- GC-content: 39
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 96.197 | no |
| gram-positive | no | 99.128 | no |
| anaerobic | no | 99.152 | no |
| aerobic | yes | 87.181 | no |
| halophile | no | 58.747 | no |
| spore-forming | no | 97.161 | no |
| thermophile | no | 96.546 | yes |
| glucose-util | yes | 85.147 | no |
| motile | no | 85.443 | no |
| glucose-ferment | no | 89.838 | no |
External links
@ref: 67770
culture collection no.: JCM 30614, CGMCC 1.14954
literature
- topic: Phylogeny
- Pubmed-ID: 25858241
- title: Phaeocystidibacter marisrubri sp. nov., a member of the family Cryomorphaceae isolated from Red Sea sediment.
- authors: Zheng X, Liu H, Song L, Zhang L, Wang H, Dai X, Huang L
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.000243
- year: 2015
- mesh: Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Indian Ocean, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, Pigmentation, 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/ | |
| 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 |