Strain identifier

BacDive ID: 12634

Type strain: No

Species: Acidipropionibacterium acidipropionici

Strain Designation: 4

Strain history: CIP <- 1953, ATCC, Bacterium acidi-propionici <- C.B. van Niel, Hopkins Marine Stat.: strain 4, Propionibacterium pentosaceum

NCBI tax ID(s): 1171373 (strain), 1748 (species)

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General

@ref: 8679

BacDive-ID: 12634

DSM-Number: 20272

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

description: Acidipropionibacterium acidipropionici 4 is an obligate anaerobe, mesophilic bacterium that was isolated from emmental cheese.

NCBI tax id

NCBI tax idMatching level
1171373strain
1748species

strain history

@refhistory
8679<- Weihenstephan, Germany <- ATCC <- C.B. van Niel, 4 (Propionibacterium pentosaceum)
67770T. Mitsuoka <-- ATCC 4875 <-- C. B. van Niel 4.
116014CIP <- 1953, ATCC, Bacterium acidi-propionici <- C.B. van Niel, Hopkins Marine Stat.: strain 4, Propionibacterium pentosaceum

doi: 10.13145/bacdive12634.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Acidipropionibacterium
  • species: Acidipropionibacterium acidipropionici
  • full scientific name: Acidipropionibacterium acidipropionici (Orla-Jensen 1909) Scholz and Kilian 2016

  • synonyms

    • @ref: 20215
    • synonym: Propionibacterium acidipropionici

@ref: 8679

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Acidipropionibacterium

species: Acidipropionibacterium acidipropionici

full scientific name: Acidipropionibacterium acidipropionici (Orla-Jensen 1909) Scholz and Kilian 2016 emend. Nouioui et al. 2018

strain designation: 4

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.607
69480100positive
116014nopositiverod-shaped

colony morphology

  • @ref: 116014

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8679PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
8679PROPIONIBACTERIUM AGAR (DSMZ Medium 91)yeshttps://mediadive.dsmz.de/medium/91Name: PROPIONIBACTERIUM AGAR (DSMZ Medium 91) Composition: Agar 15.0 g/l Na-lactate 10.0 g/l Casein peptone 10.0 g/l Yeast extract 5.0 g/l Distilled water
42208MEDIUM 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)
116014CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
8679positivegrowth30mesophilic
42208positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8679obligate anaerobe
116014facultative anaerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.95

murein

  • @ref: 8679
  • murein short key: A41.01
  • type: A3gamma LL-Dpm-Gly

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol+builds acid from18403
68371D-arabitol+builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371raffinose+builds acid from16634
68371inulin-builds acid from15443
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371esculin+builds acid from4853
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol+builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol+builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol+builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose+builds acid from17108
68371erythritol+builds acid from17113
68371glycerol+builds acid from17754
116014esculin+hydrolysis4853
116014nitrate+reduction17632
116014nitrite-reduction16301
116014tributyrin+hydrolysis35020
116014nitrate+respiration17632
68380urea-hydrolysis16199
68380arginine-hydrolysis29016
68380D-mannose+fermentation16024
68380raffinose+fermentation16634
68380L-glutamate-degradation29985
68380nitrate-reduction17632
68380tryptophan-energy source27897

metabolite production

@refChebi-IDmetaboliteproduction
11601435581indoleno
6838035581indoleno

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68380glutamyl-glutamate arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase+3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase+3.2.1.55
68380alpha-glucosidase+3.2.1.20
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
116014oxidase-
116014beta-galactosidase+3.2.1.23
116014gelatinase-
116014amylase+
116014DNase-
116014caseinase-3.4.21.50
116014catalase-1.11.1.6
116014tween esterase+
116014lecithinase-
116014lipase-
116014protease-
116014urease-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
116014-+---+-+--++++-+++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116014++++++-+-++++-+-+++-+/-++/-+/-++/-+/-+++++/--+/-++/-+/-+/-+/-+----+++--

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8679--++-+++--++----+++-+/-+/--++++-+
8679--++++++--++----+++-++-++/-+/-+-+
8679--++-++/-+--++----+++----------

Isolation, sampling and environmental information

isolation

@refsample type
8679emmental cheese
67770Emmenthaler cheese
116014Food, Cheese, Emmenthal

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Dairy product

taxonmaps

  • @ref: 69479
  • File name: preview.99_3995.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15360;96_2030;97_2446;98_3026;99_3995&stattab=map
  • Last taxonomy: Acidipropionibacterium acidipropionici
  • 16S sequence: AB536774
  • Sequence Identity:
  • Total samples: 22874
  • soil counts: 3020
  • aquatic counts: 3912
  • animal counts: 15402
  • plant counts: 540

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
86791Risk group (German classification)
1160141Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Propionibacterium acidi-propionici partial 16S rRNAX532211351ena1171373
67770Propionibacterium acidipropionici gene for 16S ribosomal RNA, partial sequence, strain: JCM 6432AB5367741495ena1171373

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acidipropionibacterium acidipropionici ATCC 4875GCA_000310065completencbi1171373
66792Propionibacterium acidipropionici ATCC 48751171373.8completepatric1171373
66792Acidipropionibacterium acidipropionici ATCC 48752521172602completeimg1171373
66792Acidipropionibacterium acidipropionici ATCC 48752518285597draftimg1171373

GC content

@refGC-contentmethod
867966.0
6777066thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno94.023no
flagellatedno98.503no
gram-positiveyes91.882no
anaerobicno52.689yes
aerobicno83.337no
halophileno95.985no
spore-formingno88.083no
glucose-utilyes90.943no
thermophileno94.691yes
glucose-fermentyes66.901no

External links

@ref: 8679

culture collection no.: DSM 20272, ATCC 4875, NCDO 570, NCIB 8070, JCM 6432, IFO 12425, NBRC 12425, NCIMB 8070, VPI 10402, CIP 53.164

straininfo link

  • @ref: 81847
  • straininfo: 8651

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology15977254Enhanced propionic acid fermentation by Propionibacterium acidipropionici mutant obtained by adaptation in a fibrous-bed bioreactor.Suwannakham S, Yang STBiotechnol Bioeng10.1002/bit.204732005Adenosine Triphosphatases/metabolism, *Bioreactors, Biotechnology/*methods, Cell Membrane/enzymology, Cells, Immobilized/enzymology, Fermentation, Mutation, Propionates/*metabolism, Propionibacterium/*enzymology/*geneticsMetabolism
Metabolism22481002Efficient utilization of hemicellulose hydrolysate for propionic acid production using Propionibacterium acidipropionici.Liu Z, Ma C, Gao C, Xu PBioresour Technol10.1016/j.biortech.2012.02.1182012Carbohydrate Metabolism/*physiology, Hydrolysis, Polysaccharides/*chemistry, Propionates/*isolation & purification/*metabolism, Propionibacterium/*metabolismBiotechnology
Metabolism23083487The genome sequence of Propionibacterium acidipropionici provides insights into its biotechnological and industrial potential.Parizzi LP, Grassi MC, Llerena LA, Carazzolle MF, Queiroz VL, Lunardi I, Zeidler AF, Teixeira PJ, Mieczkowski P, Rincones J, Pereira GABMC Genomics10.1186/1471-2164-13-5622012Acetate-CoA Ligase/genetics/metabolism, Bacterial Proteins/*genetics/metabolism, Base Composition, Base Sequence, Carbon Dioxide/metabolism, *Genome, Bacterial, *Industrial Microbiology, Metabolic Networks and Pathways, Molecular Sequence Data, Plasmids, Propionates/*metabolism, Propionibacterium/*genetics/*metabolism, Pyruvate Carboxylase/genetics/metabolism, beta-Fructofuranosidase/genetics/metabolismGenetics
Biotechnology24627047Development of an industrializable fermentation process for propionic acid production.Stowers CC, Cox BM, Rodriguez BAJ Ind Microbiol Biotechnol10.1007/s10295-014-1423-62014Bioreactors/microbiology, *Fermentation, Industrial Microbiology/economics, Propionates/*metabolism, Propionibacterium/*metabolismMetabolism
Metabolism25257628High cell density propionic acid fermentation with an acid tolerant strain of Propionibacterium acidipropionici.Wang Z, Jin Y, Yang STBiotechnol Bioeng10.1002/bit.254662014Batch Cell Culture Techniques, Bioreactors/*microbiology, Fermentation, Glucose/metabolism, Hydrogen-Ion Concentration, Kinetics, Propionates/*metabolism, Propionibacterium/*metabolism/*physiologyEnzymology
Biotechnology25852990Microbial production of Propionic and Succinic acid from Sorbitol using Propionibacterium acidipropionici.Duarte JC, Valenca GP, Moran PJ, Rodrigues JAAMB Express10.1186/s13568-015-0095-62015

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8679Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20272)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20272
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
42208Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17077
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/
68371Automatically annotated from API 50CH acid
68380Automatically annotated from API rID32A
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
81847Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID8651.1StrainInfo: A central database for resolving microbial strain identifiers
116014Curators of the CIPCollection of Institut Pasteur (CIP 53.164)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2053.164