Strain identifier

BacDive ID: 12670

Type strain: Yes

Species: Propionicicella superfundia

Strain Designation: BL-10

Strain history: LMG 23096 <-- W. M. Moe BL-10 <-- H.-S. Bae.

NCBI tax ID(s): 1122999 (strain), 348582 (species)

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General

@ref: 16278

BacDive-ID: 12670

DSM-Number: 22317

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

description: Propionicicella superfundia BL-10 is an anaerobe, mesophilic bacterium that was isolated from groundwater contaminated by chlorosolvents and petroleum hydrocarbons.

NCBI tax id

NCBI tax idMatching level
348582species
1122999strain

strain history

@refhistory
16278<- LMG; LMG 23096 <- H.-S. Bae, Louisiana State Univ., Baton Rouge, USA
67770LMG 23096 <-- W. M. Moe BL-10 <-- H.-S. Bae.

doi: 10.13145/bacdive12670.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Propionicicella
  • species: Propionicicella superfundia
  • full scientific name: Propionicicella superfundia Bae et al. 2006

@ref: 16278

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Propionicicella

species: Propionicicella superfundia

full scientific name: Propionicicella superfundia Bae et al. 2006

strain designation: BL-10

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.234
69480100positive

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_22317_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22317_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22317_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22317_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22317_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 16278
  • name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/104
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
16278positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 16278
  • oxygen tolerance: anaerobe

spore formation

@refspore formationconfidence
69481no93
69480no99.997

murein

  • @ref: 16278
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

observation

  • @ref: 67770
  • observation: quinones: MK-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase+
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase+
68380proline-arylamidase+3.4.11.5
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
68380beta-glucosidase+3.2.1.21
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

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
16278-----+/-+---++/------+/-++/-++--++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16278groundwater contaminated by chlorosolvents and petroleum hydrocarbonsLouisiana, Baton RougeUSAUSANorth America
67770Chlorosolvent-contaminated groundwaterBrooklawn site, Baton Rouge, LAUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Environmental#Aquatic#Groundwater

taxonmaps

  • @ref: 69479
  • File name: preview.99_5803.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_72;96_2781;97_3419;98_4317;99_5803&stattab=map
  • Last taxonomy: Propionicimonas
  • 16S sequence: DQ176646
  • Sequence Identity:
  • Total samples: 1405
  • soil counts: 221
  • aquatic counts: 588
  • animal counts: 528
  • plant counts: 68

Safety information

risk assessment

  • @ref: 16278
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16278
  • description: Propionicicella superfundia strain BL-10T 16S ribosomal RNA gene, partial sequence
  • accession: DQ176646
  • length: 1469
  • database: ena
  • NCBI tax ID: 348582

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Propionicicella superfundia DSM 223171122999.3wgspatric1122999
66792Propionicicella superfundia DSM 223172523231070draftimg1122999
67770Propionicicella superfundia DSM 22317GCA_000423465scaffoldncbi1122999

GC content

@refGC-contentmethod
1627869.9
6777069.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno93no
motileno93.948no
flagellatedno97.806no
gram-positiveyes80.498no
anaerobicno69.029yes
aerobicno78.802yes
halophileno94.563no
spore-formingno89.195no
glucose-utilyes83.606no
thermophileno95.177no
glucose-fermentno64.972no

External links

@ref: 16278

culture collection no.: DSM 22317, ATCC BAA 1218, LMG 23096, JCM 14922

straininfo link

  • @ref: 81881
  • straininfo: 139556

literature

  • topic: Phylogeny
  • Pubmed-ID: 16338112
  • title: Propionicicella superfundia gen. nov., sp. nov., a chlorosolvent-tolerant propionate-forming, facultative anaerobic bacterium isolated from contaminated groundwater.
  • authors: Bae HS, Moe WM, Yan J, Tiago I, da Costa MS, Rainey FA
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2005.11.004
  • year: 2005
  • mesh: Biodegradation, Environmental, Ethylene Dichlorides/metabolism, Geologic Sediments/microbiology, Gram-Negative Facultatively Anaerobic Rods/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/analysis, Trichloroethanes/metabolism, *Water Microbiology, Water Pollutants, Chemical/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16278Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22317)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22317
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
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68380Automatically annotated from API rID32A
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
81881Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID139556.1StrainInfo: A central database for resolving microbial strain identifiers