Strain identifier

BacDive ID: 221

Type strain: Yes

Species: Aerococcus viridans

Strain Designation: M1

Strain history: CIP <- 1954, NCTC <- 1952, R.E.O. Williams: strain M1

NCBI tax ID(s): 655812 (strain), 1377 (species)

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General

@ref: 8745

BacDive-ID: 221

DSM-Number: 20340

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, coccus-shaped, human pathogen

description: Aerococcus viridans M1 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from air.

NCBI tax id

NCBI tax idMatching level
655812strain
1377species

strain history

@refhistory
8745<- NCDO; NCDO 1225 <- NCTC; NCTC 8251 <- R. E. O. Williams; M1
67770IAM 12302 <-- K. Sakaguchi <-- NCTC 8251 <-- R. E. O. Williams M1.
123858CIP <- 1954, NCTC <- 1952, R.E.O. Williams: strain M1

doi: 10.13145/bacdive221.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Aerococcaceae
  • genus: Aerococcus
  • species: Aerococcus viridans
  • full scientific name: Aerococcus viridans Williams et al. 1953 (Approved Lists 1980)

@ref: 8745

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Aerococcaceae

genus: Aerococcus

species: Aerococcus viridans

full scientific name: Aerococcus viridans Williams et al. 1953 emend. Tohno et al. 2014

strain designation: M1

type strain: yes

Morphology

cell morphology

  • @ref: 123858
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@refincubation periodhemolysis ability
447312 days
1238581

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
22982MRS mediumyes
36411MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
8745TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yesName: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/92
8745COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693
123858CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29
123858CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
36411positivegrowth30mesophilic
8745positivegrowth30mesophilic
44731nogrowth22psychrophilic
44731positivegrowth37mesophilic
44731positivegrowth30-42
67770positivegrowth30mesophilic
123858positivegrowth25-41
123858nogrowth10psychrophilic
123858nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44731microaerophile
123858facultative anaerobe

halophily

  • @ref: 123858
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 6.5 %

murein

  • @ref: 8745
  • murein short key: A11
  • type: A1alpha L-Lys-direct

observation

  • @ref: 67770
  • observation: Production of Lactic acid from glucose; Assay of Vitamin requirement

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
22982168082-dehydro-D-gluconate-builds acid from
22982174265-dehydro-D-gluconate-builds acid from
2298227613amygdalin-builds acid from
2298218305arbutin-builds acid from
2298215963ribitol-builds acid from
2298217108D-arabinose-builds acid from
2298218333D-arabitol-builds acid from
2298228847D-fucose-builds acid from
2298262318D-lyxose-builds acid from
2298217924D-sorbitol-builds acid from
2298216443D-tagatose-builds acid from
2298265327D-xylose-builds acid from
2298216813galactitol-builds acid from
2298217113erythritol-builds acid from
2298228066gentiobiose-builds acid from
2298224265gluconate-builds acid from
2298228087glycogen-builds acid from
2298217268myo-inositol-builds acid from
2298215443inulin-builds acid from
2298230849L-arabinose-builds acid from
2298218403L-arabitol-builds acid from
2298218287L-fucose-builds acid from
2298262345L-rhamnose-builds acid from
2298217266L-sorbose-builds acid from
2298265328L-xylose-builds acid from
229826731melezitose-builds acid from
2298228053melibiose-builds acid from
2298243943methyl alpha-D-mannoside-builds acid from
2298274863methyl beta-D-xylopyranoside-builds acid from
2298216634raffinose-builds acid from
2298217814salicin-builds acid from
2298228017starch-builds acid from
2298227082trehalose-builds acid from
2298217151xylitol-builds acid from
2298229016arginine-hydrolysis
2298217057cellobiose+builds acid from
2298215824D-fructose+builds acid from
2298212936D-galactose+builds acid from
2298217634D-glucose+builds acid from
2298216899D-mannitol+builds acid from
2298216024D-mannose+builds acid from
2298216988D-ribose+builds acid from
2298217754glycerol+builds acid from
2298217716lactose+builds acid from
2298217306maltose+builds acid from
22982320061methyl alpha-D-glucopyranoside+builds acid from
22982506227N-acetylglucosamine+builds acid from
2298217992sucrose+builds acid from
2298232528turanose+builds acid from
229824853esculin+hydrolysis
22982606565hippurate+hydrolysis
1238584853esculin-hydrolysis
123858606565hippurate+hydrolysis
12385817632nitrate-reduction
12385816301nitrite-reduction
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol+fermentation
6837917306maltose+fermentation
6837917716lactose+fermentation
6837917992sucrose+fermentation
6837928087glycogen-fermentation
6837516199urea-hydrolysis
6837529016arginine-hydrolysis
6837518257ornithine-degradation
6837515824D-fructose+fermentation
6837516024D-mannose+fermentation
6837517306maltose+fermentation
6837517716lactose+fermentation
6837516899D-mannitol+fermentation
6837516634raffinose-fermentation
6837517057cellobiose-fermentation
6837517992sucrose+fermentation
6837532528turanose-fermentation
6837522599arabinose-fermentation
6837817634D-glucose-builds acid from
6837815824D-fructose+builds acid from
6837816024D-mannose+builds acid from
6837817306maltose+builds acid from
6837817716lactose+builds acid from
6837827082trehalose+builds acid from
6837816899D-mannitol+builds acid from
6837817151xylitol+builds acid from
6837828053melibiose-builds acid from
6837817632nitrate-reduction
6837816634raffinose-builds acid from
6837865327D-xylose-builds acid from
6837817992sucrose+builds acid from
68378320061methyl alpha-D-glucopyranoside+builds acid from
6837859640N-acetylglucosamine+builds acid from
6837829016arginine+hydrolysis
6837816199urea-hydrolysis
6838129016arginine-hydrolysis
6838116988D-ribose+builds acid from
6838116899D-mannitol+builds acid from
6838130911sorbitol-builds acid from
6838117716lactose+builds acid from
6838127082trehalose-builds acid from
6838116634raffinose-builds acid from
6838117992sucrose+builds acid from
6838130849L-arabinose-builds acid from
6838118333D-arabitol-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate+hydrolysis
6838128087glycogen-builds acid from
6838127941pullulan-builds acid from
6838117306maltose+builds acid from
6838128053melibiose-builds acid from
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838116443D-tagatose-builds acid from
6838116199urea-hydrolysis

antibiotic resistance

  • @ref: 68378
  • metabolite: lysostaphin
  • is antibiotic: yes
  • is sensitive: yes

metabolite production

@refChebi-IDmetaboliteproduction
6837815688acetoinno
6837515688acetoinno
6777024996lactateyes
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin-
6837815688acetoin-
6837515688acetoin-
12385815688acetoin-

enzymes

@refvalueactivityec
22982acid phosphatase-3.1.3.2
22982alkaline phosphatase+3.1.3.1
22982alpha-fucosidase-3.2.1.51
22982alpha-galactosidase-3.2.1.22
22982alpha-glucosidase-3.2.1.20
22982alpha-mannosidase-3.2.1.24
22982beta-galactosidase-3.2.1.23
22982beta-glucosidase-3.2.1.21
22982beta-glucuronidase-3.2.1.31
22982beta-mannosidase-3.2.1.25
22982chymotrypsin-3.4.4.5
22982cystine arylamidase-3.4.11.3
22982esterase (C 4)+
22982esterase lipase (C 8)+
22982glycyl tryptophan arylamidase-
22982leucine arylamidase-3.4.11.1
22982lipase (C 14)-
22982N-acetyl-beta-glucosaminidase-3.2.1.52
22982naphthol-AS-BI-phosphohydrolase+
22982pyrrolidonyl arylamidase-3.4.19.3
22982tripeptide aminopeptidase-3.4.11.4
22982trypsin-3.4.21.4
22982urease-3.5.1.5
22982valine arylamidase-
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
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase-3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase-3.5.3.6
68378urease-3.5.1.5
68378arginine dihydrolase+3.5.3.6
68378alkaline phosphatase-3.1.3.1
68375beta-glucuronidase-3.2.1.31
68375pyrrolidonyl arylamidase-3.4.19.3
68375alkaline phosphatase-3.1.3.1
68375L-arginine arylamidase-
68375beta-galactosidase-3.2.1.23
68375ornithine decarboxylase-4.1.1.17
68375arginine dihydrolase-3.5.3.6
68375urease-3.5.1.5
68379catalase-1.11.1.6
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
123858oxidase-
123858beta-galactosidase+3.2.1.23
123858alcohol dehydrogenase-1.1.1.1
123858catalase-1.11.1.6
123858gamma-glutamyltransferase-2.3.2.2
123858lysine decarboxylase-4.1.1.18
123858ornithine decarboxylase-4.1.1.17

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44731C14:0714
    44731C16:031.816
    44731C18:011.418
    44731C16:1 ω9c16.515.774
    44731C18:1 ω9c25.417.769
    44731C18:2 ω6,9c/C18:0 ANTE5.117.724
    44731C20:1 ω9c2.819.77
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlRIBXYLMANMALLACSACGLYGCAT
44731---+----------++++--

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123858-+++------++---+----

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
8745-----++++-+-+/---------+----
44731---++++++++---+-----+++---

API STA

@refGLUFRUMNEMALLACTREMANXLTMELNITPALVPRAFXYLSACMDGNAGADHURELSTR
44731-+++++++------++++--

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
8745--+---++-+--+---------+--+------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123858+++-+--+-+++++-+------+--------+-+-------+---------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample type
8745air
44731Air
67770Air
123858Environment, Contaminating air

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Air

taxonmaps

  • @ref: 69479
  • File name: preview.99_1645.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_938;97_1091;98_1301;99_1645&stattab=map
  • Last taxonomy: Aerococcus
  • 16S sequence: LC258156
  • Sequence Identity:
  • Total samples: 116598
  • soil counts: 8338
  • aquatic counts: 13880
  • animal counts: 90338
  • plant counts: 4042

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
8745yesyes2Risk group (German classification)
1238581Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aerococcus viridans strain CCUG 4311 16S-23S ribosomal RNA intergenic spacer, partial sequenceJN977134231ena1377
20218Aerococcus viridans gene for 16S rRNA, partial sequence, strain: NBRC 12219AB6802621474ena1377
8745Aerococcus viridans strain ATCC 11563 16S ribosomal RNA gene, complete sequenceM587971552ena655812
67770Aerococcus viridans gene for 16S ribosomal RNA, partial sequence, strain: JCM 20461LC2581561488ena1377

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aerococcus viridans CCUG4311GCA_001543285completencbi1377
66792Aerococcus viridans ATCC 11563655812.3wgspatric655812
66792Aerococcus viridans strain CCUG43111377.3completepatric1377
66792Aerococcus viridans strain NCTC82511377.15wgspatric1377
66792Aerococcus viridans ATCC 11563647000207draftimg655812
66792Aerococcus viridans CCUG43112684623177completeimg1377
66792Aerococcus viridans NCTC 82512811995224draftimg1377
67770Aerococcus viridans ATCC 11563 = CCUG 4311GCA_000178435contigncbi655812
67770Aerococcus viridans NCTC8251GCA_900445095contigncbi1377

GC content

@refGC-contentmethod
874538.5
874540.2high performance liquid chromatography (HPLC)
6777039thermal denaturation, midpoint method (Tm)
6777038.5thermal denaturation, midpoint method (Tm)
6777042.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno96.896no
gram-positiveyes95.434no
anaerobicno94.286no
aerobicno93.281yes
halophileyes89.231no
spore-formingno95.236no
thermophileno99.414yes
glucose-utilyes85.718no
motileno97.111no
glucose-fermentyes80.134no

External links

@ref: 8745

culture collection no.: DSM 20340, ATCC 11563, CCM 1914, IAM 13649, JCM 20461, NCDO 1225, NCTC 8251, WDCM 00061, CCUG 4311, CIP 54.145, IAM 12302, IFO 12219, LMG 17931, NBRC 12219, NISL 7400, IMET 11154, NCIMB 11775, CECT 978

straininfo link

  • @ref: 69904
  • straininfo: 10487

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity1815334Urosepticemia and fatal endocarditis caused by aerococcus-like organisms.Christensen JJ, Gutschik E, Friis-Moller A, Korner BScand J Infect Dis10.3109/003655491090242991991Aged, Antibodies, Bacterial/blood, Antigens, Bacterial/immunology, Bacteremia/*microbiology, Bacteriuria/*microbiology, Endocarditis, Bacterial/*microbiology, Gram-Positive Bacterial Infections/*microbiology, Humans, Immunoelectrophoresis, Two-Dimensional, Male, Middle Aged, Streptococcaceae/immunology/*isolation & purificationEnzymology
Phylogeny2324269Phenotypic characterization, cellular fatty acid composition, and DNA relatedness of aerococci and comparison to related genera.Bosley GS, Wallace PL, Moss CW, Steigerwalt AG, Brenner DJ, Swenson JM, Hebert GA, Facklam RRJ Clin Microbiol10.1128/jcm.28.3.416-421.19901990Chloramphenicol O-Acetyltransferase/analysis, Chromatography, Gas, DNA, Bacterial/*analysis, Fatty Acids/*analysis, Humans, Microbial Sensitivity Tests, Nucleic Acid Hybridization, Pediococcus/analysis/classification, Phenotype, Streptococcaceae/analysis/*classification/genetics, Streptococcus/analysis/classificationPathogenicity
Genetics27103727Complete Genome Sequences of Aerococcus christensenii CCUG 28831T, Aerococcus sanguinicola CCUG 43001T, Aerococcus urinae CCUG 36881T, Aerococcus urinaeequi CCUG 28094T, Aerococcus urinaehominis CCUG 42038 BT, and Aerococcus viridans CCUG 4311T.Carkaci D, Dargis R, Nielsen XC, Skovgaard O, Fuursted K, Christensen JJGenome Announc10.1128/genomeA.00302-162016

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8745Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20340)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20340
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
22982Masanori Tohno,Maki Kitahara,Shuichi Matsuyama,Koji Kimura,Moriya Ohkuma,Kiyoshi Tajima10.1099/ijs.0.058081-0Aerococcus vaginalis sp. nov., isolated from the vaginal mucosa of a beef cow, and emended descriptions of Aerococcus suis, Aerococcus viridans, Aerococcus urinaeequi, Aerococcus urinaehominis, Aerococcus urinae, Aerococcus christensenii and Aerococcus sanguinicolaIJSEM 64: 1229-1236 201424421273
36411Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18978
44731Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 4311)https://www.ccug.se/strain?id=4311
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68375Automatically annotated from API ID32STA
68378Automatically annotated from API STA
68379Automatically annotated from API Coryne
68381Automatically annotated from API rID32STR
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
69904Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10487.1StrainInfo: A central database for resolving microbial strain identifiers
123858Curators of the CIPCollection of Institut Pasteur (CIP 54.145)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2054.145