Strain identifier
BacDive ID: 155796
Type strain:
Species: Phocaeicola sartorii
Strain history: M. Kitahara ST170.
NCBI tax ID(s): 671267 (species)
version 8.1 (current version)
General
@ref: 61918
BacDive-ID: 155796
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Phocaeicola sartorii CCUG 59335 is an anaerobe, mesophilic bacterium that was isolated from Chinchilla feces .
NCBI tax id
- NCBI tax id: 671267
- Matching level: species
strain history
- @ref: 67770
- history: M. Kitahara ST170.
doi: 10.13145/bacdive155796.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Bacteroidaceae
- genus: Phocaeicola
- species: Phocaeicola sartorii
- full scientific name: Phocaeicola sartorii (Clavel et al. 2010) García-López et al. 2020
synonyms
@ref synonym 20215 Bacteroides chinchillae 20215 Phocaeicola chinchillae 20215 Bacteroides sartorii
@ref: 61918
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Bacteroidaceae
genus: Bacteroides
species: Bacteroides sartorii
type strain: no
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 90.096 | |
69480 | 99.996 | negative |
colony morphology
- @ref: 61918
- incubation period: 2 days
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
61918 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
61918 | anaerobe | |
69480 | anaerobe | 99.578 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69480 | no | 99.998 |
69481 | no | 100 |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
61918 | Chinchilla feces (Chinchilla lanigera) | Japan | JPN | Asia |
67770 | Chinchilla feces |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Rodentia (Other) |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_7372.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_3450;97_4233;98_5406;99_7372&stattab=map
- Last taxonomy: Phocaeicola sartorii subclade
- 16S sequence: AB531490
- Sequence Identity:
- Total samples: 121989
- soil counts: 1570
- aquatic counts: 3072
- animal counts: 116898
- plant counts: 449
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
67770 | Bacteroides chinchillae gene for 16S rRNA, partial sequence, strain: JCM 16497 | AB531490 | 1490 | ena | 1236538 |
67770 | Bacteroides chinchillae gene for 16S ribosomal RNA, partial sequence | AB547636 | 1490 | ena | 1236538 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Bacteroides sartorii JCM 16497 | 1236538.3 | wgs | patric | 1236538 |
66792 | Bacteroides sartorii JCM 16497 | 2565956596 | draft | img | 1236538 |
67770 | Phocaeicola sartorii JCM 16497 | GCA_000615645 | contig | ncbi | 1236538 |
GC content
@ref | GC-content | method |
---|---|---|
67770 | 45.2 | high performance liquid chromatography (HPLC) |
67770 | 44.1 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 91.744 | no |
gram-positive | no | 96.997 | no |
anaerobic | yes | 97.953 | yes |
aerobic | no | 97.274 | no |
halophile | no | 87.477 | no |
spore-forming | no | 95.088 | no |
thermophile | no | 99.296 | no |
glucose-util | yes | 88.471 | no |
flagellated | no | 96.738 | no |
glucose-ferment | yes | 77.016 | no |
External links
@ref: 61918
culture collection no.: CCUG 59335, JCM 16497
straininfo link
- @ref: 109171
- straininfo: 411010
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 20495039 | Bacteroides chinchillae sp. nov. and Bacteroides rodentium sp. nov., isolated from chinchilla (Chinchilla lanigera) faeces. | Kitahara M, Tsuchida S, Kawasumi K, Amao H, Sakamoto M, Benno Y, Ohkuma M | Int J Syst Evol Microbiol | 10.1099/ijs.0.024026-0 | 2010 | Anaerobiosis, Animals, Bacterial Typing Techniques, Bacteroides/*classification/genetics/*isolation & purification/physiology, Base Composition, Chinchilla/*microbiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Feces/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
Phylogeny | 21764984 | Bacteroides sartorii is an earlier heterotypic synonym of Bacteroides chinchillae and has priority. | Sakamoto M, Ohkuma M | Int J Syst Evol Microbiol | 10.1099/ijs.0.035659-0 | 2011 | Bacterial Proteins/genetics, Bacteroides/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | |
61918 | Curators of the CCUG | https://www.ccug.se/strain?id=59335 | Culture Collection University of Gothenburg (CCUG) (CCUG 59335) | |
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 | |
109171 | 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-ID411010.1 |