Strain identifier

BacDive ID: 164352

Type strain: Yes

Species: Absicoccus porci

Strain Designation: YH-panp20

Strain history: Y.-H. Chang; KRIBB, South Korea; YH-panp20.

NCBI tax ID(s): 2486576 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 8.1 (current version)

General

@ref: 67770

BacDive-ID: 164352

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive

description: Absicoccus porci YH-panp20 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from Pig feces.

NCBI tax id

  • NCBI tax id: 2486576
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y.-H. Chang; KRIBB, South Korea; YH-panp20.

doi: 10.13145/bacdive164352.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Erysipelotrichia
  • order: Erysipelotrichales
  • family: Erysipelotrichaceae
  • genus: Absicoccus
  • species: Absicoccus porci
  • full scientific name: Absicoccus porci Shin et al. 2020

@ref: 67770

domain: Bacteria

phylum: Firmicutes

class: Erysipelotrichia

order: Erysipelotrichales

family: Erysipelotrichaceae

genus: Absicoccus

species: Absicoccus porci

full scientific name: Absicoccus porci Shin et al. 2020

strain designation: YH-panp20

type strain: yes

Morphology

cell morphology

@refgram stainconfidencemotilitycell lengthcell widthcell shape
69480positive100
6948092.329no
69552positiveno0.3-0.4 µm0.2-0.3 µmcoccus-shaped

colony morphology

  • @ref: 69552
  • medium used: brain heart infusion agar with blood

Culture and growth conditions

culture medium

  • @ref: 69552
  • name: brain heart infusion agar with blood
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
67770positivegrowth37mesophilic
69552positivegrowth30-40
69552positiveoptimum37mesophilic

culture pH

@refabilitytypepH
69552positivegrowth5.5-9
69552positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
69480anaerobe99.674
69552anaerobe

spore formation

@refspore formationconfidence
69480no100
69481no100
69552no

halophily

  • @ref: 69552
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 1-2 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
69552576065-oxoproline-assimilation
6955216449alanine-assimilation
6955229016arginine-assimilation
695524853esculin-assimilation
695525390glutamyl-glutamic acid-assimilation
6955215428glycine-assimilation
6955225017leucine-assimilation
6955274534leucylglycine-assimilation
6955228044phenylalanine-assimilation
6955226271proline-assimilation
6955217822serine-assimilation
6955218186tyrosine-assimilation
6955229864mannitol-fermentation
695526731melezitose-fermentation
6955217814salicin-fermentation
6955217992sucrose-fermentation
6955217632nitrate-reduction
6955222599arabinose+fermentation
6955217057cellobiose+fermentation
6955217234glucose+fermentation
6955217754glycerol+fermentation
6955217716lactose+fermentation
6955217306maltose+fermentation
6955237684mannose+fermentation
6955216634raffinose+fermentation
6955226546rhamnose+fermentation
6955227082trehalose+fermentation
695525291gelatin+hydrolysis
6955216136hydrogen sulfide+hydrolysis

metabolite tests

  • @ref: 69552
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
69552catalase-1.11.1.6
69552cytochrome oxidase-1.9.3.1
69552urease-3.5.1.5
69552arginine arylamidase+
69552histidine arylamidase+
69552alpha-galactosidase-3.2.1.22
69552beta-galactosidase-3.2.1.23
695526-phospho-beta-galactosidase-3.2.1.85
69552alpha-glucosidase-3.2.1.20
69552beta-glucosidase-3.2.1.21
69552alpha-arabinosidase-
69552beta-glucuronidase-3.2.1.31
69552N-acetyl-beta-glucosaminidase-3.2.1.52
69552glutamate decarboxylase-4.1.1.15
69552alpha-fucosidase-3.2.1.51
69552alkaline phosphatase-3.1.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    69552C14:01.2
    69552C16:012.2
    69552C16:0 ALDE1.1
    69552C16:0 DAM5.6
    69552C16:1 cis91
    69552C17:0 iso 3OH/ C18:2 DMA1.4
    69552C17:2@16.760/ C17:1 cis2.31
    69552C18:05.6
    69552C18:0 ALDE3.6
    69552C18:1 cis928.4
    69552C18:1 cis9 DAM7.9
    69552C18:1 DAM16.4
    69552C18:2 Cis9,126.8
    69552C20:08
  • type of FA analysis: whole cell analysis
  • incubation medium: blood Agar
  • incubation temperature: 37
  • incubation time: 2
  • library/peak naming table: BHIBLA
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
67770Pig fecesRepublic of KoreaKORAsia
69552pig faecesRepublic of KoreaKORAsia

Sequence information

16S sequences

  • @ref: 67770
  • description: Erysipelotrichaceae bacterium YH-PanP20 16S ribosomal RNA gene, partial sequence
  • accession: MG931004
  • length: 1477
  • database: ena
  • NCBI tax ID: 2486576

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
67770Absicoccus porci YH-panp20GCA_003725415scaffoldncbi2486576
69552genome sequenceRJQC00000000ncbi2486576

GC content

  • @ref: 67770
  • GC-content: 38.4
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.299no
flagellatedno96.96no
gram-positiveyes92.532no
anaerobicyes98.962no
aerobicno98.56no
halophileno57.62no
spore-formingno90.138no
glucose-utilyes84.873no
thermophileno99.702yes
glucose-fermentyes73.218no

External links

@ref: 67770

culture collection no.: JCM 32769, KCTC 15747, KCTC 1574

literature

  • topic: Phylogeny
  • Pubmed-ID: 31702538
  • title: Absicoccus porci gen. nov., sp. nov., a member of the family Erysipelotrichaceae isolated from pig faeces.
  • authors: Shin Y, Paek J, Kim H, Kook JK, Kim JS, Kim SH, Chang YH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003803
  • year: 2020
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Feces/microbiology, Fermentation, Firmicutes/*classification/isolation & purification, Gram-Positive Rods/genetics, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Swine/*microbiology
  • topic2: Transcriptome

Reference

@idauthorstitledoi/url
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
69552Yeseul Shin, Jayoung Paek, Hongik Kim, Joong-Ki Kook, Joong-Su Kim, Si Hyun Kim and Young-Hyo ChangAbsicoccus porci gen. nov., sp. nov., a member of the family Erysipelotrichaceae isolated from pig faeces10.1099/ijsem.0.003803