Strain identifier

BacDive ID: 157972

Type strain: Yes

Species: Acetivibrio mesophilus

Strain Designation: N2K1

Strain history: <- R. Rettenmaier, TU Munich, Chair of Microbiology, Freising-Weihenstephan, Germany; N2K1 <- R. Rettenmaier; {2018}

NCBI tax ID(s): 2487273 (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 5:
version 4.1:
version 8.1 (current version)

General

@ref: 64545

BacDive-ID: 157972

DSM-Number: 107956

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

description: Acetivibrio mesophilus N2K1 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from lab scale biogas plant fed with maize silage.

NCBI tax id

  • NCBI tax id: 2487273
  • Matching level: species

strain history

  • @ref: 64545
  • history: <- R. Rettenmaier, TU Munich, Chair of Microbiology, Freising-Weihenstephan, Germany; N2K1 <- R. Rettenmaier; {2018}

doi: 10.13145/bacdive157972.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Acetivibrio
  • species: Acetivibrio mesophilus
  • full scientific name: Acetivibrio mesophilus (Rettenmaier et al. 2019) Tindall 2019

  • synonyms

    • @ref: 20215
    • synonym: Hungateiclostridium mesophilum

@ref: 64545

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Oscillospiraceae

genus: Acetivibrio

species: Acetivibrio mesophilus

full scientific name: Acetivibrio mesophilus (Rettenmaier et al. 2019) Tindall 2019

strain designation: N2K1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
68222positive0.66-1.33rod-shapedno
69480positive100

Culture and growth conditions

culture medium

  • @ref: 64545
  • name: ACETIVIBRIO MEDIUM (DSMZ Medium 122)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/122
  • composition: Name: ACETIVIBRIO MEDIUM (DSMZ Medium 122) Composition: Cellulose 10.0 g/l (optional) Na2-ß-glycerophosphate x 5 H2O 6.0 g/l K2HPO4 5.5 g/l Cellobiose 5.0 g/l Yeast extract 4.5 g/l MgCl2 x 6 H2O 2.6 g/l KH2PO4 1.43 g/l (NH4)2SO4 1.3 g/l L-Glutathione 0.25 g/l CaCl2 x 2 H2O 0.13 g/l FeSO4 x 7 H2O 0.0011 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
64545positivegrowth45thermophilic
68222positiveoptimum45thermophilic
68222positivegrowth30-50

culture pH

@refabilitytypepH
68222positiveoptimum7.5
68222positivegrowth6-8

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
68222anaerobe
69480anaerobe100

spore formation

@reftype of sporespore formationconfidence
68222endosporeyes
69480yes100

halophily

  • @ref: 68222
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 1.8 %(w/v)

observation

@refobservation
68222can adhere directly to cellulose fibre
68222occur single or in pairs

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6822262968cellulose+growth
6822217057cellobiose+growth
6822222599arabinose-growth
6822228757fructose-growth
6822217234glucose-growth
6822217716lactose-growth
6822229864mannitol-growth
6822237684mannose-growth
6822233942ribose-growth
6822228017starch-growth
6822217992sucrose-growth
6822227082trehalose-growth
6822237166xylan-growth
6822218222xylose-growth

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture temperature
64545lab scale biogas plant fed with maize silageFreisingGermanyDEUEurope
68222lab-scale biogas fermenterFreisingGermanyDEUEurope48.35811.7175GR2037

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Engineered#Industrial#Plant (Factory)
#Engineered#Bioreactor
#Engineered#Laboratory

taxonmaps

  • @ref: 69479
  • File name: preview.99_6275.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_196;96_2987;97_3672;98_4648;99_6275&stattab=map
  • Last taxonomy: Acetivibrio
  • 16S sequence: MK138666
  • Sequence Identity:
  • Total samples: 831
  • soil counts: 255
  • aquatic counts: 246
  • animal counts: 227
  • plant counts: 103

Sequence information

16S sequences

  • @ref: 64545
  • description: Hungateiclostridium mesophilum strain N2K1 16S ribosomal RNA gene, partial sequence
  • accession: MK138666
  • length: 1412
  • database: ena
  • NCBI tax ID: 2487273

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hungateiclostridium sp. N2K12487273.3wgspatric2487273
66792Acetivibrio mesophilus N2K12880951795draftimg2487273
68222Acetivibrio mesophilus N2K1GCA_004102745contigncbi2487273

GC content

@refGC-contentmethod
6454538.36sequence analysis
6822238.36genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes51no
motileno51.242yes
gram-positiveyes58.398yes
anaerobicyes99.726yes
aerobicno98.886yes
halophileno97.854no
spore-formingyes95.981no
glucose-utilyes84.521no
flagellatedno75.055yes
thermophileyes94.614yes
glucose-fermentyes57.722no

External links

@ref: 64545

culture collection no.: DSM 107956, CECT 9704

straininfo link

  • @ref: 110821
  • straininfo: 402063

literature

  • topic: Phylogeny
  • Pubmed-ID: 31429816
  • title: Hungateiclostridium mesophilum sp. nov., a mesophilic, cellulolytic and spore-forming bacterium isolated from a biogas fermenter fed with maize silage.
  • authors: Rettenmaier R, Gerbaulet M, Liebl W, Zverlov VV
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003663
  • year: 2019
  • mesh: Bacterial Typing Techniques, Base Composition, *Biofuels, Bioreactors/*microbiology, Cellulose/metabolism, Clostridiales/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Germany, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Silage/*microbiology, *Zea mays
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournal
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
64545Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-107956Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 107956)
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
68222Regina Rettenmaier, Martin Gerbaulet, Wolfgang Liebl and Vladimir V. ZverlovHungateiclostridium mesophilum sp. nov., a mesophilic, cellulolytic and spore-forming bacterium isolated from a biogas fermenter fed with maize silage10.1099/ijsem.0.003663IJSEM 69: 3567-3573 2019
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
110821Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID402063.1