Strain identifier

BacDive ID: 17118

Type strain: Yes

Species: Centipeda periodontii

Strain Designation: LL 2383

Strain history: CIP <- 1997, DSM <- P.A. Dougherty: strain LL 2383

NCBI tax ID(s): 888060 (strain), 82203 (species)

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General

@ref: 1220

BacDive-ID: 17118

DSM-Number: 2778

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

description: Centipeda periodontii LL 2383 is an anaerobe, mesophilic, motile bacterium that was isolated from human peridontal lesions.

NCBI tax id

NCBI tax idMatching level
82203species
888060strain

strain history

@refhistory
1220<- P.A. Dougherty, LL 2383
121680CIP <- 1997, DSM <- P.A. Dougherty: strain LL 2383

doi: 10.13145/bacdive17118.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Negativicutes
  • order: Selenomonadales
  • family: Selenomonadaceae
  • genus: Centipeda
  • species: Centipeda periodontii
  • full scientific name: Centipeda periodontii Lai et al. 1983

@ref: 1220

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Selenomonadaceae

genus: Centipeda

species: Centipeda periodontii

full scientific name: Centipeda periodontii Lai et al. 1983

strain designation: LL 2383

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes90.038
6948099.595negative
121680nonegativerod-shaped

colony morphology

@refincubation period
563933 days
121680

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1220PYG 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
1220CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
35179MEDIUM 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)
121680CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
1220positivegrowth37mesophilic
35179positivegrowth37mesophilic
56393positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1220anaerobe
56393anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no90
69480no99.975

antibiotic resistance

  • @ref: 121680
  • ChEBI: 6909
  • metabolite: metronidazole
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    56393C11:03.211
    56393C12:01.212
    56393C13:01413
    56393C14:01.514
    56393C15:020.515
    56393C16:01.516
    56393C17:02.717
    56393C18:01.318
    56393C12:0 ISO0.411.608
    56393C13:0 3OH/C15:1 i I/H10.714.469
    56393C14:0 3OH/C16:1 ISO I4.715.485
    56393C15:1 ω6c0.414.856
    56393C15:1 ω8c8.214.792
    56393C16:0 2OH3.917.233
    56393C16:1 ω11c3.115.757
    56393C17:1 ω8c3.416.792
    56393C17:1 ω9c3.316.773
    56393C18:1 DMA 17.2524.817.252
    56393C18:1 ISO H2.417.46
    56393C18:1 ω9c1.217.769
    56393C18:2 ω6,9c/C18:0 ANTE1.917.724
    56393C19:1 ω11c/19:1 ω9c0.818.762
    56393Unidentified0.312.778
    56393Unidentified0.412.941
    56393Unidentified0.913.49
    56393Unidentified113.935
    56393Unidentified0.414.177
    56393Unidentified0.515.259
    56393Unidentified0.515.957
    56393Unidentified0.616.237
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
1220human peridontal lesionsUSAUSANorth America
56393Human periodontal lesionsUSAUSANorth AmericaPennsylvania
121680Human, Periodontal lesionsUnited States of AmericaUSANorth AmericaPennsylvania

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Mouth
#Host Body-Site#Other#Wound

taxonmaps

  • @ref: 69479
  • File name: preview.99_18831.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_55;96_801;97_11570;98_14226;99_18831&stattab=map
  • Last taxonomy: Selenomonas
  • 16S sequence: AJ010963
  • Sequence Identity:
  • Total samples: 10
  • animal counts: 10

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
12202Risk group (German classification)
1216801Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Centipeda periodontii gene for 16S rRNA, partial sequenceD898831462ena888060
20218Centipeda periodontii DSM 2778(T), 16S rRNA geneAJ0109631494ena888060

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Centipeda periodontii DSM 2778GCA_000213975scaffoldncbi888060
66792Centipeda periodontii DSM 2778888060.3wgspatric888060
66792Centipeda periodontii DSM 2778651324021draftimg888060

GC content

  • @ref: 1220
  • GC-content: 53.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno90no
motileyes78.879no
flagellatedno83.279no
gram-positiveno98.454no
anaerobicyes99.577no
aerobicno98.869yes
halophileno91.041no
spore-formingno88.766no
thermophileno62.171yes
glucose-utilyes77.409no
glucose-fermentyes59.253no

External links

@ref: 1220

culture collection no.: DSM 2778, ATCC 35019, CIP 105322, CCUG 44586

straininfo link

  • @ref: 86118
  • straininfo: 40821

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny2087348Isolation and characterization of lipopolysaccharide from Centipeda periodontii ATCC 35019.Kokeguchi S, Tsutsui O, Kato K, Matsumura TOral Microbiol Immunol10.1111/j.1399-302x.1990.tb00237.x1990Endotoxins, Fatty Acids, *Gram-Negative Anaerobic Bacteria, Humans, Interleukin-1/biosynthesis, Limulus Test, Lipopolysaccharides/chemistry/*isolation & purification, Mitogens, Periodontitis/microbiology, Phenols, Polysaccharides, Bacterial/chemistry/isolation & purificationPathogenicity
Pathogenicity25037463Centipeda periodontii in human periodontitis.Rams TE, Hawley CE, Whitaker EJ, Degener JE, van Winkelhoff AJOdontology10.1007/s10266-014-0166-12014Adult, Amoxicillin/pharmacology, Anti-Bacterial Agents/pharmacology, Biofilms, Chronic Periodontitis/*microbiology, DNA, Bacterial/analysis, Doxycycline/pharmacology, Female, Gingivitis/*microbiology, Gram-Negative Anaerobic Bacteria/drug effects/isolation & purification/*pathogenicity, Humans, Male, Metronidazole/pharmacology, Microbial Sensitivity TestsEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1220Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2778)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2778
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
35179Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17329
56393Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 44586)https://www.ccug.se/strain?id=44586
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)
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
86118Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID40821.1StrainInfo: A central database for resolving microbial strain identifiers
121680Curators of the CIPCollection of Institut Pasteur (CIP 105322)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105322