Strain identifier

BacDive ID: 343

Type strain: Yes

Species: Brackiella oedipodis

Strain Designation: LGM 19451

Strain history: CIP <- 2002, NCIMB <- R. Reissbrodt: strain RKI 99-01984 <- German Primate Centre, Göttingen, Germany

NCBI tax ID(s): 1121118 (strain), 124225 (species)

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General

@ref: 5141

BacDive-ID: 343

DSM-Number: 13743

keywords: genome sequence, 16S sequence, Bacteria, aerobe, chemoorganotroph, mesophilic, Gram-negative, coccus-shaped, animal pathogen

description: Brackiella oedipodis LGM 19451 is an aerobe, chemoorganotroph, mesophilic animal pathogen that was isolated from heart of a Cotton Topped Tamarin .

NCBI tax id

NCBI tax idMatching level
124225species
1121118strain

strain history

@refhistory
5141<- R. Reissbrodt; RKI 99-01984 <- German Primate Centre, Göttingen
121398CIP <- 2002, NCIMB <- R. Reissbrodt: strain RKI 99-01984 <- German Primate Centre, Göttingen, Germany

doi: 10.13145/bacdive343.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Alcaligenaceae
  • genus: Brackiella
  • species: Brackiella oedipodis
  • full scientific name: Brackiella oedipodis Willems et al. 2002

@ref: 5141

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Brackiella

species: Brackiella oedipodis

full scientific name: Brackiella oedipodis Willems et al. 2002

strain designation: LGM 19451

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
23267negative0.9-1.1 µmcoccus-shapedno
69480negative99.993
121398negativerod-shapedno

colony morphology

@refcolony sizeincubation periodcolony colortype of hemolysishemolysis ability
232670.5 mm1 day
232671 mm1 day
232671-2 mm2 daysgreyish white
23267gamma
575103 days
1213981

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5141COLUMBIA BLOOD AGAR (DSMZ Medium 429)yeshttps://mediadive.dsmz.de/medium/429Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base
5141CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
23267bile-chrysoidin-glycerol agaryes
23267blood agaryestryptic soy agar with 5% sheep blood
23267CDM-H agaryes
23267Gelatinase agaryes
23267King A agaryes
23267nutrient brothyes
23267tryptic soy agaryes
23267Tween 80 agaryes
33792MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121398CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5141positivegrowth37mesophilic
23267positivegrowth30-37mesophilic
23267nogrowth4psychrophilic
23267nogrowth20psychrophilic
23267nogrowth42thermophilic
33792positivegrowth37mesophilic
57510positivegrowth30-42
121398positivegrowth25-41
121398nogrowth15psychrophilic
121398nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23267aerobe
23267microaerophile
57510aerobe
121398obligate aerobe

nutrition type

  • @ref: 23267
  • type: chemoorganotroph

spore formation

@refspore formationconfidence
69481no100
69480no99.999

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2326715963ribitol-builds acid from
2326735389altrarate-builds acid from
2326717057cellobiose-builds acid from
2326717924D-sorbitol-builds acid from
2326765327D-xylose-builds acid from
2326716813galactitol-builds acid from
2326717113erythritol-builds acid from
2326717234glucose-builds acid from
2326717754glycerol-builds acid from
2326730849L-arabinose-builds acid from
2326762345L-rhamnose-builds acid from
2326717716lactose-builds acid from
2326729864mannitol-builds acid from
2326728053melibiose-builds acid from
23267320061methyl alpha-D-glucopyranoside-builds acid from
2326717268myo-inositol-builds acid from
2326716634raffinose-builds acid from
2326717992sucrose-builds acid from
2326717814salicin-builds acid from
2326727082trehalose-builds acid from
2326717234glucose-builds gas from
2326716947citrate-carbon source
2326727897tryptophan-energy source
2326730089acetate-growth
2326715792malonate-growth
2326730928meso-tartrate-growth
232674853esculin-hydrolysis
2326753426tween 80-hydrolysis
2326716024D-mannose+builds acid from
2326717306maltose+builds acid from
23267167632-oxobutanoate+carbon source
23267309162-oxoglutarate+carbon source
23267286442-oxopentanoate+carbon source
23267645522-hydroxybutyrate+carbon source
232678295beta-hydroxybutyrate+carbon source
2326773706bromosuccinate+carbon source
2326716383cis-aconitate+carbon source
2326715570D-alanine+carbon source
2326715740formate+carbon source
23267167244-hydroxybutyrate+carbon source
2326729985L-glutamate+carbon source
2326717115L-serine+carbon source
2326724996lactate+carbon source
2326773784glycyl-l-glutamate+carbon source
2326715361pyruvate+carbon source
2326741865sebacic acid+carbon source
23267143136succinamate+carbon source
2326730031succinate+carbon source
2326753423tween 40+carbon source
2326753426tween 80+carbon source
2326717234glucose+fermentation
2326728017starch+hydrolysis
2326717632nitrate+reduction
1213984853esculin-hydrolysis
121398606565hippurate+hydrolysis
12139817632nitrate+reduction
12139816301nitrite+reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivegroup IDis resistant
232672637amikacinyesyes
2326728971ampicillinyesyes
23267355510cefotiamyesyes
23267209807cefoxitinyesyes
232673508ceftazidimeyesyes
23267204928cefotaximeyesyes
2326717698chloramphenicolyesyes
23267100241ciprofloxacinyesyes
2326717833gentamicinyesyes
232676104kanamycinyesyes
232676919mezlocillinyesyes
232676919mezlocillinyesyes15
23267100147nalidixic acidyesyes
2326717076streptomycinyesyes
23267102130sulfamerazineyesyes
2326727902tetracyclineyesyes
2326745924trimethoprimyesyes19
232679321sulbactamyesyes15
23267102130sulfamerazineyesyes19
1213980129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)yesnoyes

metabolite production

@refChebi-IDmetaboliteproduction
2326735581indoleno
2326716136hydrogen sulfideno
2326715688acetoinno
12139835581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-testindole testcitrate test
2326715688acetoin-
2326717234glucose+
2326735581indole-
2326716947citrate-

enzymes

@refvalueactivityec
23267alanine aminopeptidase+
23267arginine dihydrolase-3.5.3.6
23267beta-galactosidase-3.2.1.23
23267beta-glucuronidase-3.2.1.31
23267catalase+1.11.1.6
23267cytochrome oxidase+1.9.3.1
23267DNase-
23267gelatinase-
23267lysine decarboxylase-4.1.1.18
23267ornithine decarboxylase+4.1.1.17
23267phenylalanine deaminase-4.3.1.5
23267pyrrolidonyl arylamidase-3.4.19.3
23267tryptophan deaminase-4.1.99.1
23267urease-3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
121398oxidase+
121398beta-galactosidase+3.2.1.23
121398alcohol dehydrogenase-1.1.1.1
121398catalase+1.11.1.6
121398gamma-glutamyltransferase+2.3.2.2
121398lysine decarboxylase-4.1.1.18
121398ornithine decarboxylase-4.1.1.17
121398urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121398-+++-------+--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121398+------------------------------------------------+------------+--+---------++--++-------+-+++++--++

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
5141heart of a Cotton Topped Tamarin (Saguinus oedipus)Saguinus oedipusLower Saxonia CountryGermanyDEUEurope
57510Cotton-topped tamarin (Saguinus oedipus),heartGöttingenGermanyDEUEurope
121398Heart of a cotton-topped tamarindGermanyDEUEurope1999

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Primates
#Host Body-Site#Organ#Heart

taxonmaps

  • @ref: 69479
  • File name: preview.99_6318.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_7;96_3007;97_3694;98_4679;99_6318&stattab=map
  • Last taxonomy: Brackiella oedipodis subclade
  • 16S sequence: AJ277742
  • Sequence Identity:
  • Total samples: 2457
  • soil counts: 133
  • aquatic counts: 179
  • animal counts: 2114
  • plant counts: 31

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
5141yes2Risk group (German classification)
1213981Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5141
  • description: Brackiella oedipodis 16S rRNA gene for 16S ribosomal RNA, strain LMG 19451, R8846
  • accession: AJ277742
  • length: 1473
  • database: ena
  • NCBI tax ID: 124225

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brackiella oedipodis DSM 13743GCA_000621025scaffoldncbi1121118
66792Brackiella oedipodis DSM 137431121118.3wgspatric1121118
66792Brackiella oedipodis DSM 137432556921113draftimg1121118

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.036yes
flagellatedno94.309yes
gram-positiveno98.13no
anaerobicno99.062no
halophileno59.959no
spore-formingno96.903no
thermophileno97.787no
glucose-utilno85.578no
aerobicno50.526no
glucose-fermentno90.867no

External links

@ref: 5141

culture collection no.: DSM 13743, LMG 19451, NCIMB 13739, CCUG 47103, RKI 99-01984, CIP 107426

straininfo link

  • @ref: 70023
  • straininfo: 131530

literature

  • topic: Phylogeny
  • Pubmed-ID: 11837301
  • title: Brackiella oedipodis gen. nov., sp. nov., gram-negative, oxidase-positive rods that cause endocarditis of cotton-topped tamarin (Saguinus oedipus).
  • authors: Willems A, Gilhaus H, Beer W, Mietke H, Gelderblom HR, Burghardt B, Voigt W, Reissbrodt R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-52-1-179
  • year: 2002
  • mesh: Animals, Bacterial Proteins/analysis, Betaproteobacteria/*classification/*enzymology/isolation & purification, DNA, Ribosomal/analysis, Endocarditis, Bacterial/microbiology/pathology/*veterinary, Fatty Acids/analysis, Gram-Negative Bacterial Infections/microbiology/veterinary, Lipopolysaccharides/analysis, Molecular Sequence Data, Monkey Diseases/*microbiology, Myocardium/pathology, Oxidoreductases/*metabolism, Phenotype, RNA, Ribosomal, 16S/genetics, *Saguinus, Sequence Analysis, DNA, Siderophores/metabolism, Spectroscopy, Fourier Transform Infrared
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5141Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13743)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13743
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
23267Anne Willems, Helga Gilhaus, W Beer, Henriette Mietke, H R Gelderblom, Bärbel Burghardt, W Voigt, R Reissbrodt10.1099/00207713-52-1-179Brackiella oedipodis gen. nov., sp. nov., gram-negative, oxidase-positive rods that cause endocarditis of cotton-topped tamarin (Saguinus oedipus).IJSEM 52: 179-186 200211837301
33792Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4860
57510Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47103)https://www.ccug.se/strain?id=47103
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)
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
70023Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID131530.1StrainInfo: A central database for resolving microbial strain identifiers
121398Curators of the CIPCollection of Institut Pasteur (CIP 107426)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107426