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Strain identifier

BacDive ID: 3199

Type strain: Yes

Species: Corynebacterium aurimucosum

Strain history: DSM 44532 <-- A. F. Yassin IMMIB D-1488.

NCBI tax ID(s): 169292 (species)

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General

@ref: 11738

BacDive-ID: 3199

DSM-Number: 44532

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, pleomorphic-shaped, human pathogen

description: Corynebacterium aurimucosum DSM 44532 is a facultative anaerobe, mesophilic, Gram-positive human pathogen that was isolated from clinical material.

NCBI tax id

  • NCBI tax id: 169292
  • Matching level: species

strain history

doi: 10.13145/bacdive3199.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium aurimucosum
  • full scientific name: Corynebacterium aurimucosum Yassin et al. 2002

  • synonyms

    • @ref: 20215
    • synonym: Corynebacterium nigricans

@ref: 11738

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium aurimucosum

full scientific name: Corynebacterium aurimucosum Yassin et al. 2002 emend. Daneshvar et al. 2004

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
23188positivepleomorphic-shapedno
29952positivespiral-shaped
69480positive97.258

colony morphology

@refcolony colorincubation periodmedium used
20070Beige (1001)10-14 daysISP 2
20070Beige (1001)10-14 daysISP 3
20070Beige (1001)10-14 daysISP 4
20070Beige (1001)10-14 daysISP 5
20070Beige (1001)10-14 daysISP 6
20070Beige (1001)10-14 daysISP 7
23188slightly yellowColumbia blood agar supplemented with 5% sheep blood

multicellular morphology

@refforms multicellular complexmedium name
20070noISP 2
20070noISP 3
20070noISP 4
20070noISP 5
20070noISP 6
20070noISP 7

pigmentation

  • @ref: 29952
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11738TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
11738COLUMBIA 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
20070ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
20070ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
20070ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
20070ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
20070ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
20070ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
23188Columbia blood agar supplemented with 5% sheep bloodyes
40729MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)

culture temp

@refgrowthtypetemperaturerange
20070positiveoptimum37mesophilic
11738positivegrowth37mesophilic
40729positivegrowth37mesophilic
57696positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23188facultative anaerobe
29952aerobe
57696aerobe

spore formation

@refspore formationconfidence
23188no
29952yes
69480no99.259

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 70.808

observation

  • @ref: 29952
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2007017234glucose+
2007022599arabinose-
2007017992sucrose+
2007018222xylose-
2007017268myo-inositol+
2007029864mannitol+
2007028757fructose-
2007026546rhamnose-
2007016634raffinose-
2007062968cellulose-
2318815963ribitol-builds acid from
2318827613amygdalin-builds acid from
2318822599arabinose-builds acid from
2318817057cellobiose-builds acid from
2318817754glycerol-builds acid from
2318828087glycogen-builds acid from
2318815443inulin-builds acid from
2318817716lactose-builds acid from
2318829864mannitol-builds acid from
2318837684mannose-builds acid from
231886731melezitose-builds acid from
2318816634raffinose-builds acid from
2318826546rhamnose-builds acid from
2318833942ribose-builds acid from
2318817814salicin-builds acid from
2318830911sorbitol-builds acid from
2318827082trehalose-builds acid from
2318818222xylose-builds acid from
2318827897tryptophan-energy source
231884853esculin-hydrolysis
231885291gelatin-hydrolysis
2318828017starch-hydrolysis
2318828757fructose+builds acid from
2318817234glucose+builds acid from
2318817306maltose+builds acid from
2318817992sucrose+builds acid from
23188606565hippurate+hydrolysis
2995215963ribitol+carbon source
2995222599arabinose+carbon source
2995217057cellobiose+carbon source
2995228757fructose+carbon source
2995228260galactose+carbon source
299525291gelatin+carbon source
2995217754glycerol+carbon source
2995217716lactose+carbon source
2995217306maltose+carbon source
2995229864mannitol+carbon source
2995237684mannose+carbon source
2995228053melibiose+carbon source
2995237657methyl D-glucoside+carbon source
2995216634raffinose+carbon source
2995226546rhamnose+carbon source
2995233942ribose+carbon source
2995217814salicin+carbon source
2995227082trehalose+carbon source
2995253426tween 80+carbon source
2995218222xylose+carbon source
299524853esculin+hydrolysis
2995217632nitrate+reduction
6837928087glycogen-fermentation
6837917992sucrose+fermentation
6837917716lactose-fermentation
6837917306maltose+fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
6837916988D-ribose+fermentation
6837917634D-glucose+fermentation
683795291gelatin-hydrolysis
6837916199urea+hydrolysis
683794853esculin-hydrolysis
6837917632nitrate+reduction
6836925115malate+assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916024D-mannose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
2318835581indoleno
2995216136hydrogen sulfideyes
6836935581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
2318835581indole-
6836935581indole-

enzymes

@refvalueactivityec
23188acid phosphatase-3.1.3.2
23188alkaline phosphatase+3.1.3.1
23188alpha-fucosidase-3.2.1.51
23188alpha-galactosidase-3.2.1.22
23188alpha-glucosidase-3.2.1.20
23188alpha-mannosidase-3.2.1.24
23188arginine dihydrolase-3.5.3.6
23188beta-galactosidase-3.2.1.23
23188beta-glucosidase-3.2.1.21
23188beta-glucuronidase-3.2.1.31
23188catalase+1.11.1.6
23188chymotrypsin-3.4.4.5
23188cystine arylamidase-3.4.11.3
23188esterase (C 4)-
23188esterase lipase (C 8)-
23188leucine arylamidase+3.4.11.1
23188lipase (C 14)-
23188N-acetyl-beta-glucosaminidase-3.2.1.52
23188naphthol-AS-BI-phosphohydrolase-
23188nitrate reductase-1.7.99.4
23188pyrazinamidase+3.5.1.B15
23188pyrrolidonyl arylamidase-3.4.19.3
23188trypsin-3.4.21.4
23188tryptophan deaminase-4.1.99.1
23188urease-3.5.1.5
23188valine arylamidase-
29952catalase+1.11.1.6
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382esterase (C 4)+
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68369gelatinase-
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
20070+--+-----+-++--+-+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
20070+++++--+-++----+---
11738+/-++/--+--+/--+/-+/-----+/-----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
11738-----+/---++/-++/-+++-+/-++/-+/-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
11738clinical materialGermanyDEUEurope
57696Human clinical specimenGermanyDEUEurope
67770Clinical materialGermanyDEUEurope

isolation source categories

  • Cat1: #Infection
  • Cat2: #Medical environment
  • Cat3: #Clinic

taxonmaps

  • @ref: 69479
  • File name: preview.99_1226.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_322;97_835;98_971;99_1226&stattab=map
  • Last taxonomy: Corynebacterium
  • 16S sequence: AJ309207
  • Sequence Identity:
  • Total samples: 26558
  • soil counts: 1053
  • aquatic counts: 1398
  • animal counts: 23824
  • plant counts: 283

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
11738yes, in single cases1Risk group (German classification)
200702German classification

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium aurimucosum strain NRRL B-24143 16S ribosomal RNA gene, partial sequenceAY5364271476ena169292
11738Corynebacterium aurimucosum partial 16S rRNA gene, strain IMMIB D-1488TAJ3092071475ena169292

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium aurimucosum strain FDAARGOS_1109 strain Not applicable169292.149completepatric169292
66792Corynebacterium aurimucosum DSM 44532GCA_024138775chromosomencbi169292
66792Enterococcus hirae IGR4GCA_014000815scaffoldpatric1354
66792Sutterella wadsworthensis MTG222_bin.4.faGCA_934827775scaffoldpatric40545

GC content

  • @ref: 67770
  • GC-content: 63.4-64
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 11738

culture collection no.: DSM 44532, CCUG 47449, CIP 107897, JCM 11766, NRRL B-24143, IMMIB D-1488

straininfo link

@refpassport
20218http://www.straininfo.net/strains/302321
20218http://www.straininfo.net/strains/331921
20218http://www.straininfo.net/strains/340763
20218http://www.straininfo.net/strains/331922
20218http://www.straininfo.net/strains/302323

literature

  • topic: Phylogeny
  • Pubmed-ID: 12054216
  • title: Corynebacterium aurimucosum sp. nov. and emended description of Corynebacterium minutissimum Collins and Jones (1983).
  • authors: Yassin AF, Steiner U, Ludwig W
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-52-3-1001
  • year: 2002
  • mesh: Bacterial Typing Techniques, Blood/*microbiology, Bronchitis/*microbiology, Corynebacterium/chemistry/*classification/*genetics, Corynebacterium Infections/*microbiology, Culture Media, DNA, Ribosomal/analysis, Humans, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Cultivation

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
11738Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44532)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44532
20070Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44532.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
23188A F Yassin, U Steiner, W Ludwig10.1099/00207713-52-3-1001Corynebacterium aurimucosum sp. nov. and emended description of Corynebacterium minutissimum Collins and Jones (1983)IJSEM 52: 1001-1005 200212054216
2632110.1099/ijs.0.02738-015388706
29952Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604126321
40729Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5458
57696Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47449)https://www.ccug.se/strain?id=47449
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68379Automatically annotated from API Coryne
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)