Strain identifier

BacDive ID: 2829

Type strain: Yes

Species: Anaerocolumna jejuensis

Strain Designation: HY-35-12

Strain history: <- J Chun

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

@ref: 6190

BacDive-ID: 2829

DSM-Number: 15929

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped

description: Anaerocolumna jejuensis HY-35-12 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
259063species
1121322strain

strain history

@refhistory
6190<- J. Chun, Seoul Natl. Univ., Republic of Korea; HY-35-12 <- J. Chun {2003}
67771<- J Chun

doi: 10.13145/bacdive2829.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Lachnospiraceae
  • genus: Anaerocolumna
  • species: Anaerocolumna jejuensis
  • full scientific name: Anaerocolumna jejuensis (Jeong et al. 2004) Ueki et al. 2016
  • synonyms

    • @ref: 20215
    • synonym: Clostridium jejuense

@ref: 6190

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Lachnospiraceae

genus: Anaerocolumna

species: Anaerocolumna jejuensis

full scientific name: Anaerocolumna jejuensis (Jeong et al. 2004) Ueki et al. 2016

strain designation: HY-35-12

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
31249positive3.15 µm0.5 µmrod-shapedyes
67771rod-shapedyesperitrichous
67771curved-shaped
67771positive
69480yes92.655
69480positive100

pigmentation

  • @ref: 31249
  • production: no

Culture and growth conditions

culture medium

  • @ref: 6190
  • name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/339
  • composition: Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
6190positivegrowth30mesophilic
31249positivegrowth10-40
31249positiveoptimum30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
31249positivegrowth5.5-9.5alkaliphile
31249positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
6190anaerobe
31249anaerobe
67771anaerobe
69480anaerobe99.118

spore formation

@refspore formationtype of sporeconfidence
31249yes
67771yesendospore
69481yes99
69480yes99.676

halophily

@refsaltgrowthtested relationconcentration
31249NaClpositivegrowth0-1.5 %
31249NaClpositiveoptimum0.25 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3124922599arabinose+carbon source
3124917057cellobiose+carbon source
3124928757fructose+carbon source
3124928260galactose+carbon source
3124917234glucose+carbon source
3124917716lactose+carbon source
3124917306maltose+carbon source
3124937684mannose+carbon source
3124916634raffinose+carbon source
3124933942ribose+carbon source
3124917992sucrose+carbon source
3124927082trehalose+carbon source
3124918222xylose+carbon source
312494853esculin+hydrolysis

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6190soilJeju islandRepublic of KoreaKORAsia
67771From soilJeju islandRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_31168.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_33;96_1049;97_18627;98_23191;99_31168&stattab=map
  • Last taxonomy: Anaerocolumna jejuensis subclade
  • 16S sequence: AY494606
  • Sequence Identity:
  • Total samples: 1231
  • soil counts: 640
  • aquatic counts: 196
  • animal counts: 212
  • plant counts: 183

Safety information

risk assessment

  • @ref: 6190
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6190
  • description: Clostridium jejuense strain HY-35-12 16S ribosomal RNA gene, partial sequence
  • accession: AY494606
  • length: 1466
  • database: ena
  • NCBI tax ID: 1121322

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Anaerocolumna jejuensis DSM 15929GCA_900142215scaffoldncbi1121322
66792Anaerocolumna jejuensis DSM 159291121322.3wgspatric1121322
66792Anaerocolumna jejuensis DSM 159292585428173draftimg1121322

GC content

@refGC-contentmethod
619041high performance liquid chromatography (HPLC)
3124941
6777141.0high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes99no
motileyes85.339yes
flagellatedyes53.478no
gram-positiveyes81.718yes
anaerobicyes97.289no
aerobicno96.057no
halophileno96.469yes
spore-formingyes94.251yes
thermophileno98.387no
glucose-utilyes90.157yes
glucose-fermentyes69.587no

External links

@ref: 6190

culture collection no.: DSM 15929, IMSNU 40003, KCTC 5026

straininfo link

  • @ref: 72353
  • straininfo: 130900

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15388696Clostridium jejuense sp. nov., isolated from soil.Jeong H, Yi H, Sekiguchi Y, Muramatsu M, Kamagata Y, Chun JInt J Syst Evol Microbiol10.1099/ijs.0.63128-02004Acetic Acid/metabolism, Anaerobiosis, Anti-Bacterial Agents/pharmacology, Base Composition, Clostridium/*classification/cytology/*isolation & purification/physiology, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fermentation, Formates/metabolism, Genes, rRNA, Glucose/metabolism, Hydrogen/metabolism, Hydrogen-Ion Concentration, Korea, Lactic Acid/metabolism, Molecular Sequence Data, Movement, Phylogeny, Pyruvic Acid/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/pharmacology, *Soil Microbiology, Spores, Bacterial/cytology, TemperatureMetabolism
Phylogeny24827706Mobilitalea sibirica gen. nov., sp. nov., a halotolerant polysaccharide-degrading bacterium.Podosokorskaya OA, Bonch-Osmolovskaya EA, Beskorovaynyy AV, Toshchakov SV, Kolganova TV, Kublanov IVInt J Syst Evol Microbiol10.1099/ijs.0.057109-02014Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Gram-Positive Endospore-Forming Rods/*classification/genetics/isolation & purification, Hot Temperature, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, Polysaccharides/metabolism, RNA, Ribosomal, 16S/genetics, Russia, Salt Tolerance, Sequence Analysis, DNA, *Water Microbiology, Water Wells/*microbiologyEnzymology
Phylogeny27126251Descriptions of Anaerotaenia torta gen. nov., sp. nov. and Anaerocolumna cellulosilytica gen. nov., sp. nov. isolated from a methanogenic reactor of cattle waste and reclassification of Clostridium aminovalericum, Clostridium jejuense and Clostridium xylanovorans as Anaerocolumna species.Ueki A, Ohtaki Y, Kaku N, Ueki KInt J Syst Evol Microbiol10.1099/ijsem.0.0011232016Animals, Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Bioreactors/*microbiology, Cattle, Cellulose/metabolism, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Manure/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
6190Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15929)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15929
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
31249Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2757228776041
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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)
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
72353Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID130900.1StrainInfo: A central database for resolving microbial strain identifiers