Strain identifier

BacDive ID: 11725

Type strain: Yes

Species: Mannheimia varigena

Strain Designation: 177

Strain history: CIP <- 1999, CCUG <- Ö. Angen, SVS, Copenhagen, Denmark: strain 177

NCBI tax ID(s): 85404 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refhistory
7946<- CIP <- CCUG <- Ö. Angen; 177
123802CIP <- 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

@refnamegrowthlinkcomposition
7946COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
7946BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
40150MEDIUM 118 - for Pasteurella, Actinobacillus and Psychrobacter frigidicolayesDistilled water make up to (1000.000 ml);Yeast extract (1.000 g);Tryptocasein soy agar (40.000 g)
123802CIP Medium 118-byeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=118-b

culture temp

@refgrowthtypetemperaturerange
7946positivegrowth37mesophilic
40150positivegrowth37mesophilic
123802positivegrowth30-41
123802nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123802
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose+builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol+builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
123802citrate-carbon source16947
123802esculin-hydrolysis4853
123802glucose+fermentation17234
123802hippurate+hydrolysis606565
123802lactose-fermentation17716
123802nitrate+reduction17632
123802nitrite-reduction16301
123802sodium thiosulfate-builds gas from132112
123802glucose+degradation17234
68377D-glucose+builds acid from17634
68377ornithine-degradation18257
68377urea-hydrolysis16199
68377tryptophan-energy source27897

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

@refChebi-IDmetaboliteproduction
6837735581indoleno
12380235581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6837735581indole-
12380215688acetoin-
12380217234glucose+

enzymes

@refvalueactivityec
68377tryptophan deaminase-4.1.99.1
68377gamma-glutamyltransferase-2.3.2.2
68377proline-arylamidase-3.4.11.5
68377alkaline phosphatase+3.1.3.1
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
123802oxidase+
123802beta-galactosidase+3.2.1.23
123802alcohol dehydrogenase-1.1.1.1
123802catalase+1.11.1.6
123802lysine decarboxylase-4.1.1.18
123802ornithine decarboxylase+4.1.1.17
123802phenylalanine ammonia-lyase-4.3.1.24
123802tryptophan deaminase-
123802urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123802-+---+----++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123802+--+++---+++--+-++---+--------+------------+--+--

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
7946++-+---++----
7946-++-+---++---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
7946cattleGermanyDEUEurope
54269Bovine pneumoniaGermanyDEUEuropeWest
123802Animal, Bovine, pneumoniaGermanyDEUEuropeWest

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

@refpathogenicity animalbiosafety levelbiosafety level comment
7946yes2Risk group (German classification)
1238021Risk 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

traitpredictionconfidencetraining_data
motileno89.358no
flagellatedno95.672no
gram-positiveno98.07no
anaerobicno98.1no
aerobicno90.506no
halophileno59.68no
spore-formingno98.759no
thermophileno98.198yes
glucose-utilno58.797no
glucose-fermentno56.4no

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

@idauthorscataloguedoi/urltitle
7946Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19166)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19166
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
40150Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18152
54269Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 38462)https://www.ccug.se/strain?id=38462
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68371Automatically annotated from API 50CH acid
68377Automatically annotated from API NH
68382Automatically annotated from API zym
69479João 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
80944Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID69232.1StrainInfo: A central database for resolving microbial strain identifiers
123802Curators of the CIPCollection of Institut Pasteur (CIP 106064)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106064