Strain identifier

BacDive ID: 18011

Type strain: Yes

Species: Sporanaerobacter acetigenes

Strain history: CIP <- 2000, J.L. Garcia, IRD-Lab. Microbiol., Univ. Prov., Marseille, France : strain Lup 33

NCBI tax ID(s): 1123281 (strain), 165813 (species)

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General

@ref: 4907

BacDive-ID: 18011

DSM-Number: 13106

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, motile

description: Sporanaerobacter acetigenes DSM 13106 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from upflow anaerobic sludge blanket reactor.

NCBI tax id

NCBI tax idMatching level
1123281strain
165813species

strain history

@refhistory
4907<- J. L. Garcia, Universités de Provence et de la Méditerranée, ESIL, Marseille, France; Lup33 <- G. Hernandez-Eugenio {1998}
115990CIP <- 2000, J.L. Garcia, IRD-Lab. Microbiol., Univ. Prov., Marseille, France : strain Lup 33

doi: 10.13145/bacdive18011.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Tissierellales
  • family: Tissierellaceae
  • genus: Sporanaerobacter
  • species: Sporanaerobacter acetigenes
  • full scientific name: Sporanaerobacter acetigenes Hernandez-Eugenio et al. 2002

@ref: 4907

domain: Bacteria

phylum: Firmicutes

class: Tissierellia

order: Clostridiales

family: Tissierellaceae

genus: Sporanaerobacter

species: Sporanaerobacter acetigenes

full scientific name: Sporanaerobacter acetigenes Hernandez-Eugenio et al. 2002

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.666
69480100positive
115990yespositive

colony morphology

  • @ref: 115990

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4907ANAEROCOLUMNA MEDIUM (DSMZ Medium 860)yeshttps://mediadive.dsmz.de/medium/860Name: ANAEROCOLUMNA MEDIUM (DSMZ Medium 860; with strain-specific modifications) Composition: D-Glucose 1.99601 g/l Na2CO3 1.49701 g/l Yeast extract 0.998004 g/l NH4Cl 0.998004 g/l NaCl 0.598802 g/l L-Cysteine HCl x H2O 0.499002 g/l K2HPO4 0.299401 g/l KH2PO4 0.299401 g/l Na2S x 9 H2O 0.299401 g/l MgCl2 x 6 H2O 0.199601 g/l KCl 0.0998004 g/l CaCl2 x 2 H2O 0.0998004 g/l HCl 0.00374251 g/l FeCl2 x 4 H2O 0.00224551 g/l Sodium resazurin 0.000499002 g/l CoCl2 x 6 H2O 0.000284431 g/l MnCl2 x 4 H2O 0.000149701 g/l ZnCl2 0.00010479 g/l Na2MoO4 x 2 H2O 5.38922e-05 g/l NiCl2 x 6 H2O 3.59281e-05 g/l H3BO3 8.98204e-06 g/l CuCl2 x 2 H2O 2.99401e-06 g/l Distilled water
39562MEDIUM 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)
115990CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
4907positivegrowth37mesophilic
39562positivegrowth37mesophilic
115990positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
4907anaerobe
69480anaerobe100
115990anaerobe

spore formation

@refspore formationconfidence
69481yes95
69480yes99.447
115990yes

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1159904853esculin+hydrolysis
11599017632nitrate-reduction
11599016301nitrite-reduction

metabolite production

  • @ref: 115990
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
115990oxidase-
115990gelatinase-
115990catalase-1.11.1.6
115990urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
115990----------------+---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentisolation date
4907upflow anaerobic sludge blanket reactorMexicoMEXNorth America
115990Environment, Waste water digestor, cheesedairyMexicoMEXNorth America1998

isolation source categories

Cat1Cat2Cat3
#Engineered#Biodegradation#Anaerobic digestor
#Condition#Anoxic (anaerobic)

taxonmaps

  • @ref: 69479
  • File name: preview.99_28239.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_207;96_13939;97_16990;98_21108;99_28239&stattab=map
  • Last taxonomy: Sporanaerobacter acetigenes subclade
  • 16S sequence: GQ461827
  • Sequence Identity:
  • Total samples: 363
  • soil counts: 39
  • aquatic counts: 130
  • animal counts: 144
  • plant counts: 50

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
49071Risk group (German classification)
1159901Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Sporanaerobacter acetigenes strain DSM 13106 16S ribosomal RNA gene, partial sequenceGQ4618271414ena165813
4907Sporanaerobacter acetigenes strain Lup33 16S ribosomal RNA gene, partial sequenceAF3581141523ena165813

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sporanaerobacter acetigenes DSM 13106GCA_900130025scaffoldncbi1123281
66792Sporanaerobacter acetigenes DSM 131061123281.6wgspatric1123281
66792Sporanaerobacter acetigenes DSM 131062585428081draftimg1123281

GC content

  • @ref: 4907
  • GC-content: 32.2
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes95no
motileyes81.714no
flagellatedno77.5no
gram-positiveyes80.294no
anaerobicyes99.179yes
aerobicno98.232no
halophileno86.389no
spore-formingyes85.415no
thermophileno81.599yes
glucose-utilyes85.525no
glucose-fermentyes59.856no

External links

@ref: 4907

culture collection no.: DSM 13106, CIP 106730, Lup 33

straininfo link

  • @ref: 86998
  • straininfo: 87965

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12148631Sporanaerobacter acetigenes gen. nov., sp. nov., a novel acetogenic, facultatively sulfur-reducing bacterium.Hernandez-Eugenio G, Fardeau ML, Cayol JL, Patel BK, Thomas P, Macarie H, Garcia JL, Ollivier BInt J Syst Evol Microbiol10.1099/00207713-52-4-12172002Acetates/*metabolism, Anaerobiosis, Base Composition, Bioreactors, DNA, Ribosomal, Genotype, Mexico, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Sewage/*microbiology, Spores, Bacterial/physiology, Sulfur-Reducing Bacteria/*classification/genetics/physiologyGenetics
Phylogeny22140152Anaerosalibacter bizertensis gen. nov., sp. nov., a halotolerant bacterium isolated from sludge.Rezgui R, Maaroufi A, Fardeau ML, Ben Ali Gam Z, Cayol JL, Ben Hamed S, Labat MInt J Syst Evol Microbiol10.1099/ijs.0.036566-02011Bacteria, Anaerobic/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Gram-Positive Bacteria/classification/genetics/isolation & purification, Molecular Sequence Data, Petroleum/microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, TunisiaEnzymology
Phylogeny36375421Description of a moderately acidotolerant and aerotolerant anaerobic bacterium Acidilutibacter cellobiosedens gen. nov., sp. nov. within the family Acidilutibacteraceae fam. nov., and proposal of Sporanaerobacteraceae fam. nov. and Tepidimicrobiaceae fam. nov.Fan H, Li J, Wu W, Chen R, Yang M, Zhang Y, Cong L, Dai L, Deng Y, Cheng L, Ma SSyst Appl Microbiol10.1016/j.syapm.2022.1263762022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4907Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13106)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13106
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
39562Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18893
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
68382Automatically annotated from API zym
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
86998Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID87965.1StrainInfo: A central database for resolving microbial strain identifiers
115990Curators of the CIPCollection of Institut Pasteur (CIP 106730)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106730