Strain identifier

BacDive ID: 12504

Type strain: Yes

Species: Porphyromonas macacae

Strain Designation: 7728-L6C

Strain history: CCUG 47703 <-- NCTC 13100 <-- ATCC 33141 <-- J. Slots 7728-L6C.

NCBI tax ID(s): 1122974 (strain), 28115 (species)

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General

@ref: 9021

BacDive-ID: 12504

DSM-Number: 20710

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, human pathogen

description: Porphyromonas macacae 7728-L6C is an anaerobe, mesophilic human pathogen that was isolated from periodontal pocket of stumptailed macaque .

NCBI tax id

NCBI tax idMatching level
1122974strain
28115species

strain history

@refhistory
9021<- ATCC; ATCC 33141 <- J. Slots; 7728-L6C
67770CCUG 47703 <-- NCTC 13100 <-- ATCC 33141 <-- J. Slots 7728-L6C.

doi: 10.13145/bacdive12504.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Porphyromonadaceae
  • genus: Porphyromonas
  • species: Porphyromonas macacae
  • full scientific name: Porphyromonas macacae (Slots and Genco 1980) Love 1995

  • synonyms

    @refsynonym
    20215Porphyromonas salivosa
    20215Bacteroides salivosus
    20215Bacteroides melaninogenicus subsp. macacae
    20215Bacteroides macacae

@ref: 9021

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Porphyromonadaceae

genus: Porphyromonas

species: Porphyromonas macacae

full scientific name: Porphyromonas macacae (Slots and Genco 1980) Love 1995

strain designation: 7728-L6C

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no91.153
6948099.996negative

colony morphology

  • @ref: 57827
  • incubation period: 2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9021CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
9021COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf

culture temp

@refgrowthtypetemperaturerange
9021positivegrowth37mesophilic
57827positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
9021anaerobe
57827anaerobe
69480anaerobe98.935

spore formation

@refspore formationconfidence
69481no100
69480no99.999

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan+energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase+
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase+4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
9021--++-----+-----++--+----+--+-

Isolation, sampling and environmental information

isolation

@refsample typehost species
9021periodontal pocket of stumptailed macaque (Macaca arctoides)Macaca arctoides
57827Macaque,periodontal pocket (Macaca arctoides)
67770Monkey subgingival plaque

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Primates
#Host Body-Site#Oral cavity and airways#Periodontal pocket

Safety information

risk assessment

  • @ref: 9021
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Porphyromonas macacae strain ATCC 33141 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY546487875ena28115
20218Porphyromonas macacae ATCC 33141 16S ribosomal RNA gene, complete sequenceL164941473ena28115
20218Porphyromonas macacae gene for 16S ribosomal RNA, partial sequence, strain: JCM 13914AB5476651493ena28115

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Porphyromonas macacae DSM 207101122974.3wgspatric1122974
66792Porphyromonas macacae JCM 139141236519.3wgspatric1122974
66792Porphyromonas macacae strain NCTC1310028115.13wgspatric28115
66792Porphyromonas macacae DSM 207102517093006draftimg1122974
66792Porphyromonas macacae NCTC 131002814123385draftimg28115
66792Porphyromonas macacae JCM 139142585427889draftimg1122974
67770Porphyromonas macacae DSM 20710 = JCM 13914GCA_000379945scaffoldncbi1122974
67770Porphyromonas macacae DSM 20710 = JCM 13914GCA_000614325contigncbi1122974
67770Porphyromonas macacae NCTC13100GCA_900454825contigncbi28115

GC content

@refGC-contentmethod
902143.7
6777043.7thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.582no
flagellatedno96.134no
gram-positiveno96.037no
anaerobicyes99.229yes
aerobicno97.939yes
halophileno84.482no
spore-formingno95.457no
thermophileno98.346no
glucose-utilyes80.312no
glucose-fermentno60.078no

External links

@ref: 9021

culture collection no.: DSM 20710, ATCC 33141, CCUG 47703, NCTC 13100, JCM 13914

straininfo link

  • @ref: 81723
  • straininfo: 362866

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9021Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20710)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20710
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
57827Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47703)https://www.ccug.se/strain?id=47703
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/
68380Automatically annotated from API rID32A
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
81723Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID362866.1StrainInfo: A central database for resolving microbial strain identifiers