Strain identifier
BacDive ID: 132424
Type strain: 
Species: Faecalibaculum rodentium
Strain history: <- BC Kim, KRIBB
NCBI tax ID(s): 1702221 (species)
version 8.1 (current version)
General
@ref: 24213
BacDive-ID: 132424
DSM-Number: 103405
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, rod-shaped
description: Faecalibaculum rodentium DSM 103405 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from faeces, female C57BL/6 J mouse.
NCBI tax id
- NCBI tax id: 1702221
- Matching level: species
strain history
| @ref | history |
|---|---|
| 24213 | <- JCM, Riken BioResource Center, Tsukuba, Japan; JCM 30274 <-B.C. Kim, KCTC, South Korea; ALO17 |
| 67770 | B.-C. Kim; KCTC, South Korea; ALO17. |
| 67771 | <- BC Kim, KRIBB |
doi: 10.13145/bacdive132424.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Erysipelotrichia
- order: Erysipelotrichales
- family: Erysipelotrichaceae
- genus: Faecalibaculum
- species: Faecalibaculum rodentium
- full scientific name: Faecalibaculum rodentium Chang et al. 2016
@ref: 24213
domain: Bacteria
phylum: Firmicutes
class: Erysipelotrichia
order: Erysipelotrichales
family: Erysipelotrichaceae
genus: Faecalibaculum
species: Faecalibaculum rodentium
full scientific name: Faecalibaculum rodentium Chang et al. 2016 emend. Cox et al. 2017
type strain: yes
Morphology
cell morphology
| @ref | cell shape | motility | gram stain |
|---|---|---|---|
| 67771 | rod-shaped | no | |
| 67771 | positive |
Culture and growth conditions
culture medium
- @ref: 24213
- name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104
- composition: Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 24213 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
| 67771 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: anaerobe
spore formation
- @ref: 67771
- spore formation: no
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 24213 | faeces, female C57BL/6 J mouse | Republic of Korea | KOR | Asia |
| 67770 | Mouse faeces | |||
| 67771 | From mouse faeces, 36-weeks(=9 month)-old female C57BL/6 J mouse | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Infection | #Patient | |
| #Host | #Mammals | #Muridae (Mouse/Rat) |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
| #Host | #Human | #Female |
taxonmaps
- @ref: 69479
- File name: preview.99_1231.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_204;96_716;97_838;98_974;99_1231&stattab=map
- Last taxonomy: Faecalibaculum rodentium subclade
- 16S sequence: KP881689
- Sequence Identity:
- Total samples: 73746
- soil counts: 1546
- aquatic counts: 1524
- animal counts: 70176
- plant counts: 500
Safety information
risk assessment
- @ref: 24213
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24213
- description: Faecalibaculum rodentium strain ALO17 16S ribosomal RNA gene, partial sequence
- accession: KP881689
- length: 1487
- database: ena
- NCBI tax ID: 1702221
Genome sequences
- @ref: 67770
- description: Faecalibaculum rodentium ALO17
- accession: GCA_001564455
- assembly level: complete
- database: ncbi
- NCBI tax ID: 1702221
GC content
| @ref | GC-content | method |
|---|---|---|
| 24213 | 52.3 | high performance liquid chromatography (HPLC) |
| 67771 | 52.3 |
External links
@ref: 24213
culture collection no.: DSM 103405, JCM 30274, KCTC 15484, ALO 17
straininfo link
- @ref: 90764
- straininfo: 402765
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 26349481 | Faecalibaculum rodentium gen. nov., sp. nov., isolated from the faeces of a laboratory mouse. | Chang DH, Rhee MS, Ahn S, Bang BH, Oh JE, Lee HK, Kim BC | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0583-3 | 2015 | Anaerobiosis, Animals, Base Composition, Carbohydrates/analysis, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Feces/*microbiology, Firmicutes/*classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Lactic Acid/metabolism, Mice, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature | Metabolism |
| Genetics | 26877770 | Whole genome sequencing of "Faecalibaculum rodentium" ALO17, isolated from C57BL/6J laboratory mouse feces. | Lim S, Chang DH, Ahn S, Kim BC | Gut Pathog | 10.1186/s13099-016-0087-3 | 2016 |
Reference
| @id | authors | title | doi/url | catalogue | journal | 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 | |||
| 24213 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103405 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103405) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 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/ | |||
| 90764 | 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-ID402765.1 |