Strain identifier

BacDive ID: 163898

Type strain: No

Species: Amedibacterium intestinale

Strain history: Y.-H. Chang; KCTC, South Korea; N6H1-5.

NCBI tax ID(s): 2583452 (species)

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For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 67770

BacDive-ID: 163898

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

description: Amedibacterium intestinale JCM 30884 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from Fecal samples of old dog.

NCBI tax id

  • NCBI tax id: 2583452
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y.-H. Chang; KCTC, South Korea; N6H1-5.

doi: 10.13145/bacdive163898.20230509.8.1

Name and taxonomic classification

LPSN

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

  • synonyms

    • @ref: 20215
    • synonym: Absiella argi

@ref: 67770

domain: Bacteria

phylum: Firmicutes

class: Erysipelotrichia

order: Erysipelotrichales

family: Erysipelotrichaceae

genus: Amedibacterium

species: Amedibacterium intestinale

full scientific name: Amedibacterium intestinale Ikeyama et al. 2020

type strain: no

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

Culture and growth conditions

culture temp

  • @ref: 67770
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 69480
  • oxygen tolerance: anaerobe
  • confidence: 98.653

spore formation

@refspore formationconfidence
69480no99.604
69481yes98

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Fecal samples of old dog

taxonmaps

  • @ref: 69479
  • File name: preview.99_20056.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_135;96_10226;97_12338;98_15167;99_20056&stattab=map
  • Last taxonomy: Erysipelotrichaceae
  • 16S sequence: KR185326
  • Sequence Identity:
  • Total samples: 22890
  • soil counts: 211
  • aquatic counts: 1282
  • animal counts: 21280
  • plant counts: 117

Sequence information

16S sequences

  • @ref: 67770
  • description: Eubacterium sp. 1-5 16S ribosomal RNA gene, partial sequence
  • accession: KR185326
  • length: 1423
  • database: ena
  • NCBI tax ID: 1671597

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Amedibacterium intestinale N6H1-5GCA_010537155completencbi2583452
66792Absiella argi strain JCM 30884 strain N6H1-51671597.3wgspatric1671597

GC content

@refGC-contentmethod
6777034.5genome sequence analysis
6777035.8high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes98no
motileno91.601no
flagellatedno96.259no
gram-positiveyes94.907no
anaerobicyes97.686no
aerobicno98.416no
halophileno70.551no
spore-formingno80.142no
thermophileno98.621no
glucose-utilyes90.076no
glucose-fermentyes50.721no

External links

@ref: 67770

culture collection no.: JCM 30884, KCTC 15422

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28754474Description of Absiella argi gen. nov., sp. nov., and transfer of Eubacterium dolichum and Eubacterium tortuosum to the genus Absiella as Absiella dolichum comb. nov. and Absiella tortuosum comb. nov.Paek J, Shin Y, Kim JS, Kim H, Kook JK, Paek WK, Chang YHAnaerobe10.1016/j.anaerobe.2017.07.0062017Animals, Bacterial Typing Techniques/*veterinary, Base Composition/genetics, Clostridium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Dogs, Eubacterium/*classification/genetics/isolation & purification, Fatty Acids/analysis, Firmicutes/*classification/genetics/isolation & purification, Intestines/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAEnzymology
Phylogeny32416738Amedibacterium intestinale gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium dolichum Moore et al. 1976 (Approved Lists 1980) as Amedibacillus dolichus gen. nov., comb. nov.Ikeyama N, Toyoda A, Morohoshi S, Kunihiro T, Murakami T, Mori H, Iino T, Ohkuma M, Sakamoto MInt J Syst Evol Microbiol10.1099/ijsem.0.0042152020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Eubacterium/classification, Fatty Acids/chemistry, Feces/*microbiology, Firmicutes/*classification/isolation & purification, Humans, Japan, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity

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
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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