Strain identifier

BacDive ID: 132679

Type strain: Yes

Species: Acetivibrio saccincola

Strain Designation: GGR1

Culture col. no.: DSM 101079, CECT 9155

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General

@ref: 24468

BacDive-ID: 132679

DSM-Number: 101079

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

description: Acetivibrio saccincola GGR1 is an anaerobe, spore-forming, thermophilic bacterium that forms circular colonies and was isolated from thermophilic lab scale biogas plant.

strain history: <- D. Köck, TU Munich, Freising-Weihenstephan, Germany; GGR1 <- D. Köck {2015}

doi: 10.13145/bacdive132679.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/firmicutes
  • domain: Bacteria
  • phylum: Firmicutes
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Acetivibrio
  • species: Acetivibrio saccincola
  • full scientific name: Acetivibrio saccincola (Koeck et al. 2016) Tindall 2019
  • synonyms

    @refsynonym
    20215Herbivorax saccincola
    20215Hungateiclostridium saccincola

@ref: 24468

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Hungateiclostridiaceae

genus: Acetivibrio

species: Acetivibrio saccincola

full scientific name: Acetivibrio saccincola (Koeck et al. 2016) Tindall 2019

strain designation: GGR1

type strain: yes

Morphology

cell morphology

  • @ref: 25017
  • gram stain: positive
  • cell length: 5.0-10.0 µm
  • cell width: 0.2 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 25017
  • colony size: 1.0-2.0 mm
  • colony color: dark yellow
  • colony shape: circular
  • medium used: GS2 agar plates

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
25017GS2 agar platesyes6g yeast extract, 2.9g K2HPO4, 2.1g urea, 1.5g KH2PO4, 2.9g trisodium citrate dihydrate, 1.0g cysteine hydrochloride monohydrate, 10 g MOPS, 0.1g MgCl2.6H2O, 0.015g CaCl2.2H2O, 0.125mg FeSO4 .7H2O and 0.01 % resazurin
24468CLOSTRIDIUM (GS) MEDIUM (DSMZ Medium 255), with strain-specific modifications, anaerobicyeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium255.pdf

culture temp

@refgrowthtypetemperaturerange
25017positivegrowth45-65thermophilic
25017positiveoptimum60thermophilic
24468positivegrowth55thermophilic

culture pH

@refabilitytypepH
25017positivegrowth6.5-9.0
25017positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 25017
  • oxygen tolerance: anaerobe

spore formation

  • @ref: 25017
  • type of spore: endospore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
25017NaClpositivegrowth0-2.0 %(w/v)
25017NaCloptimum0.2 %(w/v)

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
25017casein-hydrolysis
25017citrate-degradation16947
25017galactitol-fermentation16813
25017L-phenylalanine-other17295
25017lysine-other25094
25017ornithine-other18257
25017sulfate-reduction16189
25017tryptophan-energy source27897
25017urea-hydrolysis16199
25017acetate+fermentation30089
25017arabinose+fermentation22599
25017cellobiose+carbon source17057
25017cellulose+carbon source62968
25017ethanol+fermentation16236
25017fructose+fermentation28757
25017galactose+carbon source28260
25017glucose+carbon source17234
25017lactose+fermentation17716
25017mannose+fermentation37684
25017sorbitol+carbon source30911
25017starch+fermentation28017
25017sucrose+fermentation17992
25017xylan+carbon source37166
25017xylose+carbon source18222

metabolite production

  • @ref: 25017
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 25017
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
25017catalase-1.11.1.6
25017tryptophan deaminase-4.1.99.1

Isolation, sampling and environmental information

isolation

  • @ref: 24468
  • sample type: thermophilic (55 °C) lab scale biogas plant
  • geographic location: Freising near Munich
  • country: Germany
  • origin.country: DEU
  • continent: Europe
  • latitude: 48.3996
  • longitude: 11.7297

isolation source categories

Cat1Cat2Cat3
#Engineered#Bioreactor
#Engineered#Industrial#Plant (Factory)
#Engineered#Laboratory
#Condition#Thermophilic (>45°C)

Safety information

risk assessment

  • @ref: 24468
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
25017Clostridium sp. GGR1 partial 16S rRNA gene, isolate GGR1LN868252.11421nuccore1677857
24468Clostridium sp. GGR1 partial 16S rRNA gene, isolate GGR1LN8682521421ena1677857

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hungateiclostridium saccincola GGR1GCA_002844395completencbi1677857
66792Hungateiclostridium saccincola A7GCA_002969215contigncbi1677857
66792Hungateiclostridium saccincola AS07pgkLD_172GCA_012728665contigncbi1677857
66792Herbivorax saccincola strain A71677857.4wgspatric1677857
66792Herbivorax saccincola strain GGR11677857.3completepatric1677857

GC content

@refGC-contentmethod
2501734.9genome sequence analysis
2446834.9sequence analysis

External links

@ref: 24468

culture collection no.: DSM 101079, CECT 9155

Reference

@idauthorstitledoi/urlcataloguejournal
20215D.Gleim, M.Kracht, N.Weiss et. al.Prokaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes sincehttp://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.html
24468Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101079Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101079)
25017D. E. M. Koeck, M.,Zverlov, V. V.,Liebl, W.,Schwarz, W. H.Herbivorax saccincola gen. nov., sp. nov., a cellulolytic, anaerobic, thermophilic bacterium isolated via in sacco enrichments from a lab-scale biogas reactor10.1099/ijsem.0.001374IJSEM 66: 4458-4463 2016
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