Strain identifier
BacDive ID: 11725
Type strain:
Species: Mannheimia varigena
Strain Designation: 177
Strain history: CIP <- 1999, CCUG <- Ö. Angen, SVS, Copenhagen, Denmark: strain 177
NCBI tax ID(s): 85404 (species)
General
@ref: 7946
BacDive-ID: 11725
DSM-Number: 19166
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, rod-shaped, animal pathogen
description: Mannheimia varigena 177 is an obligate aerobe, mesophilic, Gram-negative animal pathogen that was isolated from cattle.
NCBI tax id
- NCBI tax id: 85404
- Matching level: species
strain history
@ref | history |
---|---|
7946 | <- CIP <- CCUG <- Ö. Angen; 177 |
123802 | CIP <- 1999, CCUG <- Ö. Angen, SVS, Copenhagen, Denmark: strain 177 |
doi: 10.13145/bacdive11725.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pasteurellales
- family: Pasteurellaceae
- genus: Mannheimia
- species: Mannheimia varigena
- full scientific name: Mannheimia varigena Angen et al. 1999
@ref: 7946
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pasteurellales
family: Pasteurellaceae
genus: Mannheimia
species: Mannheimia varigena
full scientific name: Mannheimia varigena Angen et al. 1999
strain designation: 177
type strain: yes
Morphology
cell morphology
- @ref: 123802
- gram stain: negative
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 123802
- hemolysis ability: 1
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7946 | 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 |
7946 | BHI MEDIUM (DSMZ Medium 215) | yes | https://mediadive.dsmz.de/medium/215 | Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water |
40150 | MEDIUM 118 - for Pasteurella, Actinobacillus and Psychrobacter frigidicola | yes | Distilled water make up to (1000.000 ml);Yeast extract (1.000 g);Tryptocasein soy agar (40.000 g) | |
123802 | CIP Medium 118-b | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=118-b |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7946 | positive | growth | 37 | mesophilic |
40150 | positive | growth | 37 | mesophilic |
123802 | positive | growth | 30-41 | |
123802 | no | growth | 15 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 123802
- oxygen tolerance: obligate aerobe
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
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-tagatose | - | builds acid from | 16443 |
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-mannose | - | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
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 |
123802 | citrate | - | carbon source | 16947 |
123802 | esculin | - | hydrolysis | 4853 |
123802 | glucose | + | fermentation | 17234 |
123802 | hippurate | + | hydrolysis | 606565 |
123802 | lactose | - | fermentation | 17716 |
123802 | nitrate | + | reduction | 17632 |
123802 | nitrite | - | reduction | 16301 |
123802 | sodium thiosulfate | - | builds gas from | 132112 |
123802 | glucose | + | degradation | 17234 |
68377 | D-glucose | + | builds acid from | 17634 |
68377 | ornithine | - | degradation | 18257 |
68377 | urea | - | hydrolysis | 16199 |
68377 | tryptophan | - | energy source | 27897 |
antibiotic resistance
- @ref: 123802
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68377 | 35581 | indole | no |
123802 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test | voges-proskauer-test | methylred-test |
---|---|---|---|---|---|
68377 | 35581 | indole | - | ||
123802 | 15688 | acetoin | - | ||
123802 | 17234 | glucose | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68377 | tryptophan deaminase | - | 4.1.99.1 |
68377 | gamma-glutamyltransferase | - | 2.3.2.2 |
68377 | proline-arylamidase | - | 3.4.11.5 |
68377 | alkaline phosphatase | + | 3.1.3.1 |
68377 | urease | - | 3.5.1.5 |
68377 | ornithine decarboxylase | - | 4.1.1.17 |
123802 | oxidase | + | |
123802 | beta-galactosidase | + | 3.2.1.23 |
123802 | alcohol dehydrogenase | - | 1.1.1.1 |
123802 | catalase | + | 1.11.1.6 |
123802 | lysine decarboxylase | - | 4.1.1.18 |
123802 | ornithine decarboxylase | + | 4.1.1.17 |
123802 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
123802 | tryptophan deaminase | - | |
123802 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123802 | - | + | - | - | - | + | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123802 | + | - | - | + | + | + | - | - | - | + | + | + | - | - | + | - | + | + | - | - | - | + | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | + | - | - |
API NH
@ref | PEN | GLU | FRU | MAL | SAC | ODC | URE | LIP | PAL | beta GAL | ProA | GGT | IND |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7946 | + | + | - | + | - | - | - | + | + | - | - | - | - |
7946 | - | + | + | - | + | - | - | - | + | + | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
7946 | cattle | Germany | DEU | Europe | |
54269 | Bovine pneumonia | Germany | DEU | Europe | West |
123802 | Animal, Bovine, pneumonia | Germany | DEU | Europe | West |
isolation source categories
- Cat1: #Host
- Cat2: #Mammals
- Cat3: #Bovinae (Cow, Cattle)
taxonmaps
- @ref: 69479
- File name: preview.99_4027.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18;96_125;97_2470;98_3052;99_4027&stattab=map
- Last taxonomy: Mannheimia varigena subclade
- 16S sequence: AF053893
- Sequence Identity:
- Total samples: 1771
- soil counts: 19
- aquatic counts: 55
- animal counts: 1694
- plant counts: 3
Safety information
risk assessment
@ref | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|
7946 | yes | 2 | Risk group (German classification) |
123802 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 7946
- description: Mannheimia varigena strain 177; CCUG 38462 16S ribosomal RNA gene, partial sequence
- accession: AF053893
- length: 1504
- database: ena
- NCBI tax ID: 85404
Genome sequences
- @ref: 66792
- description: Mannheimia varigena 177
- accession: GCA_013377235
- assembly level: complete
- database: ncbi
- NCBI tax ID: 85404
GC content
- @ref: 7946
- GC-content: 41.7
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 89.358 | no |
flagellated | no | 95.672 | no |
gram-positive | no | 98.07 | no |
anaerobic | no | 98.1 | no |
aerobic | no | 90.506 | no |
halophile | no | 59.68 | no |
spore-forming | no | 98.759 | no |
thermophile | no | 98.198 | yes |
glucose-util | no | 58.797 | no |
glucose-ferment | no | 56.4 | no |
External links
@ref: 7946
culture collection no.: DSM 19166, CCUG 38462, CIP 106064
straininfo link
- @ref: 80944
- straininfo: 69232
literature
- topic: Phylogeny
- Pubmed-ID: 10028248
- title: Taxonomic relationships of the [Pasteurella] haemolytica complex as evaluated by DNA-DNA hybridizations and 16S rRNA sequencing with proposal of Mannheimia haemolytica gen. nov., comb. nov., Mannheimia granulomatis comb. nov., Mannheimia glucosida sp. nov., Mannheimia ruminalis sp. nov. and Mannheimia varigena sp. nov.
- authors: Angen O, Mutters R, Caugant DA, Olsen JE, Bisgaard M
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-49-1-67
- year: 1999
- mesh: Base Composition, Base Sequence, DNA, Bacterial/*analysis, Mannheimia haemolytica/*classification/genetics, *Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/*chemistry
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
7946 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19166) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19166 | |
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 | |
40150 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18152 | ||
54269 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 38462) | https://www.ccug.se/strain?id=38462 | |
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 | |
80944 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID69232.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
123802 | Curators of the CIP | Collection of Institut Pasteur (CIP 106064) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106064 |