Strain identifier

BacDive ID: 2542

Type strain: Yes

Species: Anaerocolumna aminovalerica

Strain Designation: 10017

Strain history: CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10017 <- ATCC <- J.K. Hardman and T.C. Stadtman

NCBI tax ID(s): 1121297 (strain), 1527 (species)

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General

@ref: 603

BacDive-ID: 2542

DSM-Number: 1283

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

description: Anaerocolumna aminovalerica 10017 is an anaerobe, mesophilic bacterium that was isolated from swamp mud.

NCBI tax id

NCBI tax idMatching level
1527species
1121297strain

strain history

@refhistory
603<- ATCC <- J. K. Hardman and T. C. Stadtman, National Heart Institute, Bethesda, Maryland, USA {1957}
67770ATCC 13725 <-- J. K. Hardman and T. C. Stadtman.
116333CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10017 <- ATCC <- J.K. Hardman and T.C. Stadtman

doi: 10.13145/bacdive2542.20230509.8.1

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 aminovalerica
  • full scientific name: Anaerocolumna aminovalerica (Hardman and Stadtman 1960) Ueki et al. 2016

  • synonyms

    • @ref: 20215
    • synonym: Clostridium aminovalericum

@ref: 603

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Lachnospiraceae

genus: Anaerocolumna

species: Anaerocolumna aminovalerica

full scientific name: Anaerocolumna aminovalerica (Hardman and Stadtman 1960) Ueki et al. 2016

strain designation: 10017

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
603CHOPPED 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
41994MEDIUM 20 - for Anaerobic bacteriayesAgar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
116333CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
603positivegrowth37mesophilic
41994positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 603
  • oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
603swamp mudNorth CarolinaUSAUSANorth America
67770Sewage sludgeWashington, D.C.USAUSANorth America
116333Environment, Sewage sludgeWashingtonUnited States of AmericaUSANorth America

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Sewage sludge

taxonmaps

  • @ref: 69479
  • File name: preview.99_9972.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_33;96_4880;97_5911;98_7407;99_9972&stattab=map
  • Last taxonomy: Anaerocolumna aminovalerica subclade
  • 16S sequence: AB573069
  • Sequence Identity:
  • Total samples: 3320
  • soil counts: 1063
  • aquatic counts: 296
  • animal counts: 1750
  • plant counts: 211

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
6031Risk group (German classification)
1163332Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Clostridium aminovalericum gene for 16S ribosomal RNA, partial sequence, strain: JCM 11016AB5730691511ena1527
20218Clostridium aminovalericum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1421AB6270291511ena1527
603Clostridium aminovalericum 16S rRNA gene, strain DSM 1283X734361454ena1527

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Anaerocolumna aminovalerica strain DSM 12831527.7wgspatric1527
66792Anaerocolumna aminovalerica DSM 12832634166351draftimg1121297
67770Anaerocolumna aminovalerica DSM 1283GCA_900115365scaffoldncbi1527

GC content

@refGC-contentmethod
60333.0
6777033thermal denaturation, midpoint method (Tm)

External links

@ref: 603

culture collection no.: DSM 1283, ATCC 13725, JCM 11016, NCIB 10631, NCIMB 10631, JCM 1421, BCRC 14474, CIP 104304

straininfo link

  • @ref: 72076
  • straininfo: 35870

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26755447Mobilisporobacter senegalensis gen. nov., sp. nov., an anaerobic bacterium isolated from tropical shea cake.Mbengue M, Thioye A, Labat M, Casalot L, Joseph M, Samb A, Ben Ali Gam ZInt J Syst Evol Microbiol10.1099/ijsem.0.0008892016
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/urltitlejournalpubmed
603Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1283)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1283
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
41994Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16197
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/
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
72076Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID35870.1StrainInfo: A central database for resolving microbial strain identifiers
116333Curators of the CIPCollection of Institut Pasteur (CIP 104304)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104304