Strain identifier

BacDive ID: 12653

Type strain: Yes

Species: Arachnia propionica

Strain Designation: 699

Strain history: CIP <- 1985, ATCC <- L. Pine: strain 699, Actinomyces propionicus <- S.S. Roberts

NCBI tax ID(s): 1218109 (strain), 1750 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 10945

BacDive-ID: 12653

DSM-Number: 43307

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

description: Arachnia propionica 699 is an anaerobe, mesophilic bacterium that was isolated from lacrimal canaliculitis.

NCBI tax id

NCBI tax idMatching level
1750species
1218109strain

strain history

@refhistory
10945<- P. Hirsch <- ATCC <- L. Pine, 699
67770ATCC 14157 <-- L. Pine 699.
121965CIP <- 1985, ATCC <- L. Pine: strain 699, Actinomyces propionicus <- S.S. Roberts

doi: 10.13145/bacdive12653.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Arachnia
  • species: Arachnia propionica
  • full scientific name: Arachnia propionica (Buchanan and Pine 1962) Pine and Georg 1969 (Approved Lists 1980)
  • synonyms

    @refsynonym
    20215Actinomyces propionicus
    20215Propionibacterium propionicus
    20215Pseudopropionibacterium propionicum
    20215Propionibacterium propionicum

@ref: 10945

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Arachnia

species: Arachnia propionica

full scientific name: Arachnia propionica (Buchanan and Pine 1962) Pine and Georg 1969

strain designation: 699

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no94.98
69480100positive
121965nopositiverod-shaped

colony morphology

  • @ref: 121965

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10945BHI/1 MEDIUM (DSMZ Medium 216)yeshttps://mediadive.dsmz.de/medium/216Name: BHI/1 MEDIUM (DSMZ Medium 216) Composition: Brain heart infusion 37.0 g/l Yeast extract 2.0 g/l Distilled water
42209MEDIUM 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)
121965CIP Medium 66yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=66
121965CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
10945positivegrowth37mesophilic
42209positivegrowth37mesophilic
44809positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
10945anaerobe
44809anaerobe
44809microaerophile
121965facultative anaerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.868

murein

  • @ref: 10945
  • murein short key: A42.01
  • type: A3gamma' LL-Dpm-Gly

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
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
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371sucrose+builds acid from17992
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
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
121965D-arabinose+degradation17108
121965D-fructose-degradation15824
121965D-glucose-degradation17634
121965D-xylose+degradation65327
121965cellobiose-degradation17057
121965lactose-degradation17716
121965maltose+degradation17306
121965salicin-degradation17814
121965sucrose-degradation17992
121965esculin-hydrolysis4853
121965nitrate+reduction17632
121965nitrite-reduction16301
121965nitrate+respiration17632
68380urea-hydrolysis16199
68380arginine-hydrolysis29016
68380D-mannose-fermentation16024
68380raffinose-fermentation16634
68380L-glutamate-degradation29985
68380nitrate-reduction17632
68380tryptophan-energy source27897

metabolite production

@refChebi-IDmetaboliteproduction
12196535581indoleno
6838035581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
68380serine arylamidase+
68380glutamyl-glutamate arylamidase-
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase+
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase+
68380leucyl glycin arylamidase-3.4.11.1
68380L-arginine arylamidase+
68380alkaline phosphatase-3.1.3.1
68380tryptophan deaminase-4.1.99.1
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
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
121965oxidase-
121965beta-galactosidase-3.2.1.23
121965gelatinase-
121965amylase+
121965DNase-
121965caseinase-3.4.21.50
121965catalase-1.11.1.6
121965tween esterase-
121965lecithinase-
121965lipase-
121965protease-
121965urease-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
121965--++-+----++++-+---+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121965----------+++/-----+/----------+++/-++/---+----+/---+++---+/-

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
10945--++-+-------+/----++/--++-+++/-+/--+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10945lacrimal canaliculitis
44809Human lacrimal duct,small concretionsNC,DurhamUSAUSANorth America
67770Lacrimal canaliculitis
121965Human, Small concretions from human lacrimal ductDurhamUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host Body-Site#Organ#Eye

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
109452Risk group (German classification)
1219651Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Propionibacterium propionicum strain CCUG 4939 clone 1 16S-23S ribosomal RNA intergenic spacer, partial sequenceGQ496478315ena1750
20218Propionibacterium propionicus 16S ribosomal RNA gene, partial sequenceAF2851171447ena1750
20218Propionibacterium propionicus DSM 43307 16S rRNA geneAJ0030581506ena1750
20218Propionibacterium propionicus 16S rRNA gene, strain DSM 43307TAJ3159531503ena1750
20218Propionibacterium propionicus partial 16S rRNAX532161179ena1750
10945Pseudopropionibacterium propionicum strain DSM 43307 16S ribosomal RNA, partial sequenceNR_1148031503nuccore1750
67770Propionibacterium propionicum gene for 16S ribosomal RNA, partial sequence, strain: JCM 5830AB9718021488ena1750

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arachnia propionica NCTC12967GCA_900637725completencbi1750
66792Propionibacterium propionicum NBRC 145871218109.3wgspatric1218109
66792Pseudopropionibacterium propionicum strain NCTC129671750.7completepatric1750
66792Pseudopropionibacterium propionicum NBRC 145872731957689draftimg1218109
67770Arachnia propionica NBRC 14587GCA_001592325contigncbi1218109

GC content

  • @ref: 67770
  • GC-content: 65

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno89no
flagellatedno98.03no
gram-positiveyes90.779no
anaerobicno80.988no
aerobicno77.004no
halophileno91.798no
spore-formingno87.513no
thermophileno96.795yes
glucose-utilyes85.845no
motileno93.354no
glucose-fermentyes73.934no

External links

@ref: 10945

culture collection no.: DSM 43307, ATCC 14157, CIP 110010, CCUG 4939, LMG 16729, ATCC 13682, JCM 5830, CIP 101941, IFO 14587, IMET 10974, LMG 19873, NBRC 14587, NCTC 12967, PCM 2431, VKM Ac-1449, VPI 0026, NBRC 4587

straininfo link

  • @ref: 81866
  • straininfo: 13971

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism12427753Novel bacterial polar lipids containing ether-linked alkyl chains, the structures and biological properties of the four major glycolipids from Propionibacterium propionicum PCM 2431 (ATCC 14157T).Pasciak M, Holst O, Lindner B, Mordarska H, Gamian AJ Biol Chem10.1074/jbc.M2060132002002Carbohydrate Sequence, Chromatography, Thin Layer, Ethers/*chemistry, Gas Chromatography-Mass Spectrometry, Glycolipids/chemistry/*metabolism, Magnetic Resonance Spectroscopy, Methylation, Molecular Structure, Propionibacterium/*metabolism, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
Phylogeny16400987[Isolation and comparative analysis of glycolipid fractions in bifidobacteria].Novik GI, Astapovich NI, Grzegorzewicz A, Gamian AMikrobiologiia2005Bifidobacterium/*chemistry, Chromatography, Thin Layer, Glycolipids/*analysis/isolation & purificationEnzymology
Phylogeny20971831Propioniciclava tarda gen. nov., sp. nov., isolated from a methanogenic reactor treating waste from cattle farms.Sugawara Y, Ueki A, Abe K, Kaku N, Watanabe K, Ueki KInt J Syst Evol Microbiol10.1099/ijs.0.027482-02010Aerobiosis, Anaerobiosis, Animals, Bacterial Typing Techniques, Base Composition, Bioreactors/*microbiology, Carbohydrate Metabolism, Catalase/metabolism, Cattle, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hydrogen-Ion Concentration, *Industrial Waste, Japan, Molecular Sequence Data, Nitrates/metabolism, Oxidation-Reduction, Phylogeny, Propionibacteriaceae/*classification/genetics/*isolation & purification/physiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature, Vitamin B 12/metabolismMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10945Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43307)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43307
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
42209Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/13572
44809Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 4939)https://www.ccug.se/strain?id=4939
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)
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
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)
81866Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13971.1StrainInfo: A central database for resolving microbial strain identifiers
121965Curators of the CIPCollection of Institut Pasteur (CIP 101941)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20101941