Strain identifier
BacDive ID: 11751
Type strain:
Species: Histophilus somni
Strain Designation: 8025
Strain history: CIP <- 2003, CCUG <- W. Mannheim, Philipps-Univ., Marburg, Germany <- L. Corboz: strain 8025
NCBI tax ID(s): 731 (species)
General
@ref: 17404
BacDive-ID: 11751
DSM-Number: 23850
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative, rod-shaped, animal pathogen
description: Histophilus somni 8025 is a microaerophile, mesophilic, Gram-negative animal pathogen that was isolated from bovine brain with TME lesions.
NCBI tax id
- NCBI tax id: 731
- Matching level: species
strain history
@ref | history |
---|---|
17404 | <- CCUG; CCUG 36157 <- W. Mannheim, Univ. Marburg; <- L. Corboz, Univ. Zurich; <- R. M. Schultz; 8025 |
122676 | CIP <- 2003, CCUG <- W. Mannheim, Philipps-Univ., Marburg, Germany <- L. Corboz: strain 8025 |
doi: 10.13145/bacdive11751.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pasteurellales
- family: Pasteurellaceae
- genus: Histophilus
- species: Histophilus somni
- full scientific name: Histophilus somni Angen et al. 2003
@ref: 17404
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pasteurellales
family: Pasteurellaceae
genus: Histophilus
species: Histophilus somni
full scientific name: Histophilus somni Angen et al. 2003
strain designation: 8025
type strain: yes
Morphology
cell morphology
- @ref: 122676
- gram stain: negative
- cell shape: rod-shaped
- motility: no
colony morphology
@ref | type of hemolysis | hemolysis ability |
---|---|---|
17404 | alpha | 1 |
122676 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
17404 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
32889 | MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and Neisseria | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml);PolyVitex mischung (10.000 ml) | |
122676 | CIP Medium 10 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
17404 | positive | growth | 37 | mesophilic |
32889 | positive | growth | 37 | mesophilic |
122676 | positive | growth | 25-37 | mesophilic |
122676 | no | growth | 41 | thermophilic |
122676 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
17404 | microaerophile |
53176 | microaerophile |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | - | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | - | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | - | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-fructose | - | builds acid from | 15824 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
122676 | esculin | - | hydrolysis | 4853 |
122676 | hippurate | + | hydrolysis | 606565 |
122676 | nitrate | + | reduction | 17632 |
122676 | nitrite | - | reduction | 16301 |
68377 | D-glucose | + | builds acid from | 17634 |
68377 | urea | - | hydrolysis | 16199 |
metabolite production
- @ref: 122676
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
17404 | catalase | - | 1.11.1.6 |
17404 | cytochrome-c oxidase | + | 1.9.3.1 |
68377 | beta-galactosidase | - | 3.2.1.23 |
68377 | urease | - | 3.5.1.5 |
122676 | oxidase | - | |
122676 | beta-galactosidase | + | 3.2.1.23 |
122676 | alcohol dehydrogenase | - | 1.1.1.1 |
122676 | catalase | - | 1.11.1.6 |
122676 | gamma-glutamyltransferase | - | 2.3.2.2 |
122676 | lysine decarboxylase | + | 4.1.1.18 |
122676 | ornithine decarboxylase | + | 4.1.1.17 |
122676 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | - | 3.1.3.1 |
68382 | esterase (C 4) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | - | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | + | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122676 | - | - | - | - | - | + | - | - | - | - | - | - | - | - | + | - | - | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122676 | - | - | - | - | - | - | - | - | - | - | +/- | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | +/- | - | - | - | - | - | - | +/- |
API NH
@ref | PEN | GLU | FRU | MAL | SAC | ODC | URE | LIP | PAL | beta GAL | ProA | GGT | IND |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17404 | + | + | +/- | +/- | + | - | - | + | - | - | + | + | - |
17404 | - | + | - | - | - | + | - | - | - | - | - | - | - |
17404 | - | + | + | +/- | +/- | + | - | - | + | - | - | + | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122676 | - | - | - | - | - | - | - | - | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
17404 | bovine brain with TME lesions | Wisconsin | USA | USA | North America |
53176 | Bovine brain | ||||
122676 | Animal, Bovine brain | Zurich | Switzerland | CHE | Europe |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Bovinae (Cow, Cattle) |
#Host Body-Site | #Organ | #Brain |
taxonmaps
- @ref: 69479
- File name: preview.99_200.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18;96_142;97_153;98_171;99_200&stattab=map
- Last taxonomy: Histophilus somni subclade
- 16S sequence: AF549387
- Sequence Identity:
- Total samples: 7878
- soil counts: 129
- aquatic counts: 313
- animal counts: 7347
- plant counts: 89
Safety information
risk assessment
@ref | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|
17404 | yes | 2 | Risk group (German classification) |
122676 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 17404
- description: Histophilus somni 8025 16S ribosomal RNA (rrn) gene, partial sequence
- accession: AF549387
- length: 1361
- database: ena
- NCBI tax ID: 731
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Histophilus somni DSM 23850 | GCA_014202395 | scaffold | ncbi | 731 |
66792 | Histophilus somni strain DSM 23850 | 731.218 | wgs | patric | 731 |
66792 | Histophilus somni DSM 23850 | 2861509796 | draft | img | 731 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 96.792 | no |
gram-positive | no | 98.697 | no |
anaerobic | no | 97.388 | yes |
aerobic | no | 93.901 | yes |
halophile | yes | 64.597 | no |
spore-forming | no | 98.668 | no |
glucose-util | yes | 56.501 | no |
thermophile | no | 96.444 | yes |
motile | no | 90.446 | no |
glucose-ferment | yes | 56.54 | no |
External links
@ref: 17404
culture collection no.: DSM 23850, ATCC 43625, CCUG 36157, MCCM 00728, CIP 108133, HIM 736-6
straininfo link
- @ref: 80969
- straininfo: 41945
literature
- topic: Phylogeny
- Pubmed-ID: 13130032
- title: Proposal of Histophilus somni gen. nov., sp. nov. for the three species incertae sedis 'Haemophilus somnus', 'Haemophilus agni' and 'Histophilus ovis'.
- authors: Angen O, Ahrens P, Kuhnert P, Christensen H, Mutters R
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02637-0
- year: 2003
- mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, DNA-Directed RNA Polymerases/genetics, Genes, Bacterial, Haemophilus/*classification/genetics/metabolism, Molecular Sequence Data, Pasteurellaceae/*classification/genetics/metabolism, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species Specificity
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
17404 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23850) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23850 | |
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 | |
32889 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5722 | ||
53176 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 36157) | https://www.ccug.se/strain?id=36157 | |
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) | |
68371 | Automatically annotated from API 50CH acid | |||
68377 | Automatically annotated from API NH | |||
68382 | Automatically annotated from API zym | |||
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 | |
80969 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID41945.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
122676 | Curators of the CIP | Collection of Institut Pasteur (CIP 108133) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108133 |