Strain identifier
BacDive ID: 17113
Type strain: 
Species: Allisonella histaminiformans
Strain Designation: MR2
Strain history: CIP <- 2004, J.B. Russell, Cornell Univ., Ithaca, NY, USA: strain MR2
NCBI tax ID(s): 209880 (species)
version 8.1 (current version)
General
@ref: 5770
BacDive-ID: 17113
DSM-Number: 15230
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-negative, animal pathogen
description: Allisonella histaminiformans MR2 is an anaerobe, spore-forming, mesophilic animal pathogen that was isolated from bovine rumen.
NCBI tax id
- NCBI tax id: 209880
- Matching level: species
strain history
| @ref | history |
|---|---|
| 5770 | <- J. B. Russell, Cornell University, Ithaca, NY, USA; MR2 <- M. R. Garner {2001} |
| 33929 | 2004, J.B. Russell, Cornell Univ., Ithaca, NY, USA: strain MR2 |
| 119923 | CIP <- 2004, J.B. Russell, Cornell Univ., Ithaca, NY, USA: strain MR2 |
doi: 10.13145/bacdive17113.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Negativicutes
- order: Veillonellales
- family: Veillonellaceae
- genus: Allisonella
- species: Allisonella histaminiformans
- full scientific name: Allisonella histaminiformans Garner et al. 2003
@ref: 5770
domain: Bacteria
phylum: Firmicutes
class: Negativicutes
order: Selenomonadales
family: Veillonellaceae
genus: Allisonella
species: Allisonella histaminiformans
full scientific name: Allisonella histaminiformans Garner et al. 2003
strain designation: MR2
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | cell shape | motility |
|---|---|---|---|---|
| 69480 | negative | 99.953 | ||
| 119923 | negative | oval-shaped | no |
colony morphology
- @ref: 58233
- incubation period: 3-5 days
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 5770 | ALLISONELLA MEDIUM (DSMZ Medium 1006) | yes | https://mediadive.dsmz.de/medium/1006 | Name: ALLISONELLA MEDIUM (DSMZ Medium 1006) Composition: DL-Histidine 7.76892 g/l Yeast extract 3.98406 g/l Na2CO3 3.98406 g/l Trypticase peptone 0.996016 g/l L-Cysteine HCl x H2O 0.498008 g/l NaCl 0.478088 g/l (NH4)2SO4 0.478088 g/l KH2PO4 0.288845 g/l K2HPO4 0.288845 g/l MgSO4 x 7 H2O 0.0996016 g/l CaCl2 x 2 H2O 0.063745 g/l Sodium resazurin 0.000498008 g/l iso-Valeric acid Acetic acid Propionic acid Butyric acid n-Valeric acid iso-Butyric acid DL-2-Methylbutyric acid Distilled water |
| 33929 | MEDIUM 574 - for Alisonella histaminiformis | yes | Sodium carbonate decahydrate (4.000 g);Distilled water make up to (1000.000ml);Sodium chloride (480.000 mg);Magnesium sulphate heptahydrate (100.000 mg);Calcium chloride dihydrate (64.000 mg);Yeast extract (4.000 g);Ammonium sulphate (480.000 mg);Potassiu | |
| 119923 | CIP Medium 574 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=574 |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 5770 | positive | growth | 37 | mesophilic |
| 33929 | positive | growth | 37 | mesophilic |
| 58233 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 5770 | anaerobe | |
| 58233 | anaerobe | |
| 69480 | anaerobe | 99.999 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 99 |
| 69480 | no | 99.994 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 5770 | bovine rumen | NY, Ithaca | USA | USA | North America |
| 58233 | Bovine rumen | USA | USA | North America | |
| 119923 | Animal, Cattle, rumen | New York | United States of America | USA | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body-Site | #Organ | #Rumen |
taxonmaps
- @ref: 69479
- File name: preview.99_65303.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_217;96_23075;97_28854;98_46134;99_65303&stattab=map
- Last taxonomy: Allisonella histaminiformans subclade
- 16S sequence: AF548373
- Sequence Identity:
- Total samples: 71394
- soil counts: 652
- aquatic counts: 1626
- animal counts: 68771
- plant counts: 345
Safety information
risk assessment
| @ref | pathogenicity animal | biosafety level | biosafety level comment |
|---|---|---|---|
| 5770 | yes, in single cases | 1 | Risk group (German classification) |
| 119923 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 5770
- description: Allisonella histaminiformans 16S ribosomal RNA gene, partial sequence
- accession: AF548373
- length: 1537
- database: ena
- NCBI tax ID: 209880
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Allisonella histaminiformans DSM 15230 | GCA_900103425 | scaffold | ncbi | 209880 |
| 66792 | Allisonella histaminiformans strain DSM 15230 | 209880.28 | wgs | patric | 209880 |
| 66792 | Allisonella histaminiformans DSM 15230 | 2595698240 | draft | img | 209880 |
GC content
- @ref: 5770
- GC-content: 46.8
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 99 | no |
| motile | no | 89.852 | no |
| flagellated | no | 96.899 | no |
| gram-positive | no | 91.066 | no |
| anaerobic | yes | 99.405 | no |
| aerobic | no | 98.445 | yes |
| halophile | no | 68.661 | no |
| spore-forming | no | 95.496 | no |
| glucose-ferment | no | 54.626 | no |
| thermophile | no | 96.733 | no |
| glucose-util | yes | 57.42 | no |
External links
@ref: 5770
culture collection no.: DSM 15230, ATCC BAA 610, CCUG 48567, CIP 108260
straininfo link
- @ref: 86113
- straininfo: 100495
literature
- topic: Phylogeny
- Pubmed-ID: 12583709
- title: Allisonella histaminiformans gen. nov., sp. nov. A novel bacterium that produces histamine, utilizes histidine as its sole energy source, and could play a role in bovine and equine laminitis.
- authors: Garner MR, Flint JF, Russell JB
- journal: Syst Appl Microbiol
- DOI: 10.1078/07232020260517625
- year: 2002
- mesh: Amino Acids/metabolism, Animals, Base Composition, Base Sequence, Cattle, Cattle Diseases/*microbiology, Fatty Acids/analysis/metabolism, Foot Diseases/microbiology/*veterinary, Gram-Positive Bacteria/*classification/isolation & purification/metabolism/pathogenicity, Gram-Positive Bacterial Infections/microbiology/pathology/*veterinary, Histamine/biosynthesis, Histidine/metabolism, Hoof and Claw/microbiology, Horse Diseases/*microbiology, Horses, Inflammation/microbiology/veterinary, Phylogeny, RNA, Ribosomal, 16S, Sequence Homology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5770 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15230) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15230 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 33929 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5863 | ||||
| 58233 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 48567) | https://www.ccug.se/strain?id=48567 | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 86113 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100495.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
| 119923 | Curators of the CIP | Collection of Institut Pasteur (CIP 108260) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108260 |