Strain identifier
BacDive ID: 140655
Type strain: 
Species: Butyrivibrio proteoclasticus
Strain Designation: B316
NCBI tax ID(s): 43305 (species)
version 9.3 (current version)
General
@ref: 43412
BacDive-ID: 140655
keywords: genome sequence, Bacteria, anaerobe
description: Butyrivibrio proteoclasticus B316 is an anaerobe bacterium of the family Lachnospiraceae.
NCBI tax id
- NCBI tax id: 43305
- Matching level: species
doi: 10.13145/bacdive140655.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Lachnospiraceae
- genus: Butyrivibrio
- species: Butyrivibrio proteoclasticus
- full scientific name: Butyrivibrio proteoclasticus (Attwood et al. 1996) Moon et al. 2008
synonyms
- @ref: 20215
- synonym: Clostridium proteoclasticum
@ref: 43412
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Eubacteriales
family: Lachnospiraceae
genus: Butyrivibrio
species: Butyrivibrio proteoclasticus
strain designation: B316
type strain: yes
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 125438 | anaerobe | 94.548 |
| 125439 | anaerobe | 98.9 |
observation
- @ref: 43412
- observation: Utilization of the Methylglyoxal shunt pathway as part of the carbohydrate metabolism
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 43412 | 62968 | cellulose | - | degradation |
| 43412 | 17108 | D-arabinose | + | assimilation |
| 43412 | 12936 | D-galactose | + | assimilation |
| 43412 | 18024 | D-galacturonic acid | + | assimilation |
| 43412 | 17634 | D-glucose | + | assimilation |
| 43412 | 15748 | D-glucuronate | + | assimilation |
| 43412 | 16024 | D-mannose | + | assimilation |
| 43412 | 65327 | D-xylose | + | assimilation |
| 43412 | 15443 | inulin | + | degradation |
| 43412 | 30849 | L-arabinose | + | assimilation |
| 43412 | 62345 | L-rhamnose | + | assimilation |
| 43412 | 17309 | pectin | + | degradation |
| 43412 | 28017 | starch | + | degradation |
| 43412 | 37166 | xylan | + | degradation |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Butyrivibrio proteoclasticus B316 | GCA_000145035 | complete | ncbi | 515622 |
| 66792 | Butyrivibrio proteoclasticus B316 | 515622.3 | complete | patric | 515622 |
| 66792 | Butyrivibrio proteoclasticus B316 | 515622.20 | plasmid | patric | 515622 |
| 66792 | Butyrivibrio proteoclasticus B316 | 515622.19 | plasmid | patric | 515622 |
| 66792 | Butyrivibrio proteoclasticus B316 | 648028012 | complete | img | 515622 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 62.872 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 94.548 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 97.955 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 53.124 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 89.298 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 65.5 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 76.2 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 73.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 67.8 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | anaerobe | 98.9 |
External links
@ref: 43412
culture collection no.: ATCC 51982
straininfo link
- @ref: 96768
- straininfo: 43274
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 8782685 | Clostridium proteoclasticum sp. nov., a novel proteolytic bacterium from the bovine rumen. | Attwood GT, Reilly K, Patel BK | Int J Syst Bacteriol | 10.1099/00207713-46-3-753 | 1996 | Animals, Base Sequence, Cattle, Clostridium/*classification/isolation & purification/physiology/ultrastructure, DNA, Bacterial, Endopeptidases/metabolism, Molecular Sequence Data, Phylogeny, Protease Inhibitors/pharmacology, Rumen/*microbiology, Substrate Specificity | Genetics |
| Metabolism | 18768601 | Reclassification of Clostridium proteoclasticum as Butyrivibrio proteoclasticus comb. nov., a butyrate-producing ruminal bacterium. | Moon CD, Pacheco DM, Kelly WJ, Leahy SC, Li D, Kopecny J, Attwood GT | Int J Syst Evol Microbiol | 10.1099/ijs.0.65845-0 | 2008 | Bacterial Typing Techniques, Base Composition, Butyrates/*metabolism, Butyrivibrio/*classification/genetics/*metabolism, Carbon/metabolism, Clostridium/*classification/genetics/*metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids, Volatile/metabolism, Genes, rRNA, Linoleic Acid/metabolism, Molecular Sequence Data, Peptide Hydrolases/metabolism, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Stearic Acids/metabolism | Phylogeny |
Reference
| @id | authors | title | doi/url | 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 | ||
| 43412 | William J. Kelly, Sinead C. Leahy, Eric Altermann, Carl J. Yeoman, Jonathan C. Dunne, Zhanhao Kong, Diana M. Pacheco, Dong Li, Samantha J. Noel, Christina D. Moon, Adrian L. Cookson, Graeme T. Attwood | The Glycobiome of the Rumen Bacterium Butyrivibrio proteoclasticus B316 Highlights Adaptation to a Polysaccharide-Rich Environment | 10.1371/journal.pone.0011942 | PLoS ONE 5(8): - 2010 | 20689770 |
| 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 | ||
| 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 |
| 96768 | 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-ID43274.1 | ||
| 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 |