Strain identifier

BacDive ID: 133531

Type strain: Yes

Species: Dehalogenimonas lykanthroporepellens

Strain Designation: BL-DC-9

NCBI tax ID(s): 552810 (species)

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

@ref: 29357

BacDive-ID: 133531

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-negative, coccus-shaped

description: Dehalogenimonas lykanthroporepellens BL-DC-9 is an anaerobe, Gram-negative, coccus-shaped bacterium that was isolated from freshwater .

NCBI tax id

  • NCBI tax id: 552810
  • Matching level: species

doi: 10.13145/bacdive133531.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/chloroflexota
  • domain: Bacteria
  • phylum: Chloroflexota
  • class: Dehalococcoidia
  • order: Dehalococcoidales
  • family: Dehalococcoidaceae
  • genus: Dehalogenimonas
  • species: Dehalogenimonas lykanthroporepellens
  • full scientific name: Dehalogenimonas lykanthroporepellens Moe et al. 2009

@ref: 29357

domain: Bacteria

phylum: Chloroflexi

class: Dehalococcoidia

order: Dehalococcoidales

family: Dehalococcoidaceae

genus: Dehalogenimonas

species: Dehalogenimonas lykanthroporepellens

strain designation: BL-DC-9

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
29357negativecoccus-shapedno
69480negative94.15
69480no93.165

Culture and growth conditions

culture temp

@refgrowthtypetemperature
29357positivegrowth20-34
29357positiveoptimum31

culture pH

@refabilitytypepH
29357positivegrowth06-08
29357positiveoptimum7-7.5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
29357anaerobe
69480anaerobe98.893

spore formation

@refspore formationconfidence
29357no
69480no93.724

Isolation, sampling and environmental information

isolation

  • @ref: 29357
  • sample type: freshwater (river, lake, pond)

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Pond (small)
#Environmental#Aquatic#River (Creek)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3846.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_427;96_1975;97_2374;98_2930;99_3846&stattab=map
  • Last taxonomy: Dehalogenimonas lykanthroporepellens subclade
  • 16S sequence: EU679419
  • Sequence Identity:
  • Total samples: 2037
  • soil counts: 502
  • aquatic counts: 1481
  • animal counts: 29
  • plant counts: 25

Sequence information

16S sequences

  • @ref: 29357
  • description: Chloroflexi bacterium BL-DC-9 16S ribosomal RNA gene, partial sequence
  • accession: EU679419
  • length: 1421
  • database: nuccore
  • NCBI tax ID: 552811

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Dehalogenimonas lykanthroporepellens BL-DC-9GCA_000143165completencbi552811
66792Dehalogenimonas lykanthroporepellens BL-DC-9552811.9completepatric552811
66792Dehalogenimonas lykanthroporepellens BL-DC-9648028022completeimg552811

GC content

  • @ref: 29357
  • GC-content: 53.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.165yes
flagellatedno98.775yes
gram-positiveno94.15yes
anaerobicyes98.893no
aerobicno97.818yes
halophileno85.828no
spore-formingno93.724no
thermophileyes50.859yes
glucose-utilyes77.478no
glucose-fermentno63.954no

External links

@ref: 29357

culture collection no.: ATCC BAA-1523, JCM 15061

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19625421Dehalogenimonas lykanthroporepellens gen. nov., sp. nov., a reductively dehalogenating bacterium isolated from chlorinated solvent-contaminated groundwater.Moe WM, Yan J, Nobre MF, da Costa MS, Rainey FAInt J Syst Evol Microbiol10.1099/ijs.0.011502-02009Chloroflexi/classification/genetics/*isolation & purification/*metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Fresh Water/*microbiology, Hydrocarbons, Chlorinated/*metabolism, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Water Pollutants, Chemical/metabolismMetabolism
Genetics22768368Complete genome sequence of Dehalogenimonas lykanthroporepellens type strain (BL-DC-9(T)) and comparison to "Dehalococcoides" strains.Siddaramappa S, Challacombe JF, Delano SF, Green LD, Daligault H, Bruce D, Detter C, Tapia R, Han S, Goodwin L, Han J, Woyke T, Pitluck S, Pennacchio L, Nolan M, Land M, Chang YJ, Kyrpides NC, Ovchinnikova G, Hauser L, Lapidus A, Yan J, Bowman KS, da Costa MS, Rainey FA, Moe WMStand Genomic Sci10.4056/sigs.28060972012
23046725Dehalogenimonas spp. can Reductively Dehalogenate High Concentrations of 1,2-Dichloroethane, 1,2-Dichloropropane, and 1,1,2-Trichloroethane.Maness AD, Bowman KS, Yan J, Rainey FA, Moe WMAMB Express10.1186/2191-0855-2-542012
Metabolism24673292Dehalogenimonas lykanthroporepellens BL-DC-9T simultaneously transcribes many rdhA genes during organohalide respiration with 1,2-DCA, 1,2-DCP, and 1,2,3-TCP as electron acceptors.Mukherjee K, Bowman KS, Rainey FA, Siddaramappa S, Challacombe JF, Moe WMFEMS Microbiol Lett10.1111/1574-6968.124342014Bacterial Proteins/*genetics/metabolism, Biotransformation, Chloroflexi/*enzymology/genetics/metabolism, Electron Transport, *Gene Expression Regulation, Bacterial, Hydrocarbons, Chlorinated/chemistry/*metabolism, Molecular Structure, Multigene Family, Oxidoreductases/*genetics/metabolismEnzymology

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
29357Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172576928776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes