Strain identifier
BacDive ID: 164522
Type strain: 
Species: Patiriisocius marinistellae
Strain history: H. Itoh and K. Kawano; AIST, Japan; KK4.
NCBI tax ID(s): 2494560 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 164522
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Patiriisocius marinistellae JCM 33344 is a mesophilic bacterium that was isolated from Surface of a starfish, Patiria pectinifera.
NCBI tax id
- NCBI tax id: 2494560
- Matching level: species
strain history
- @ref: 67770
- history: H. Itoh and K. Kawano; AIST, Japan; KK4.
doi: 10.13145/bacdive164522.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Patiriisocius
- species: Patiriisocius marinistellae
- full scientific name: Patiriisocius marinistellae Kawano et al. 2020
@ref: 67770
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Patiriisocius
species: Patiriisocius marinistellae
full scientific name: Patiriisocius marinistellae Kawano et al. 2020
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 125438 | no | 92.5 | |
| 125438 | 98.825 | negative | |
| 125439 | 98.8 | negative |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 25
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 97.4
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125438 | no | 91.333 |
| 125439 | no | 92.1 |
observation
- @ref: 67770
- observation: quinones: MK-6
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Surface of a starfish, Patiria pectinifera
- host species: Patiria pectinifera
- geographic location: coast of Hokkaido
- country: Japan
- origin.country: JPN
- continent: Asia
Sequence information
16S sequences
- @ref: 67770
- description: Patiriisocius marinistellae gene for 16S ribosomal RNA, partial sequence
- accession: LC436787
- length: 1477
- database: nuccore
- NCBI tax ID: 2494560
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Ulvibacter sp. KK4 | 2494560.3 | wgs | patric | 2494560 |
| 67770 | Patiriisocius marinistellae KK4 | GCA_009014635 | contig | ncbi | 2494560 |
GC content
- @ref: 67770
- GC-content: 33.4
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98.825 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.502 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 91.333 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 86.762 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 95.524 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 92.5 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 92.1 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 54.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 98.8 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 97.4 |
External links
@ref: 67770
culture collection no.: JCM 33344, KCTC 72225
literature
- topic: Phylogeny
- Pubmed-ID: 32539909
- title: Patiriisocius marinistellae gen. nov., sp. nov., isolated from the starfish Patiria pectinifera, and reclassification of Ulvibacter marinus as a member of the genus Patiriisocius comb. nov.
- authors: Kawano K, Ushijima N, Kihara M, Itoh H
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.004254
- year: 2020
- mesh: Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, Japan, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Starfish/*microbiology, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
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/ | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |