Strain identifier
BacDive ID: 133898
Type strain: 
Species: Dehalogenimonas alkenigignens
Strain Designation: IP3-3
NCBI tax ID(s): 1217799 (species)
version 8.1 (current version)
General
@ref: 30811
BacDive-ID: 133898
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-negative, coccus-shaped
description: Dehalogenimonas alkenigignens IP3-3 is an anaerobe, Gram-negative, coccus-shaped bacterium that was isolated from contaminated groundwater.
NCBI tax id
- NCBI tax id: 1217799
- Matching level: species
doi: 10.13145/bacdive133898.20230509.8.1
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 alkenigignens
- full scientific name: Dehalogenimonas alkenigignens Bowman et al. 2013
@ref: 30811
domain: Bacteria
phylum: Chloroflexi
class: Dehalococcoidia
order: Dehalococcoidales
family: Dehalococcoidaceae
genus: Dehalogenimonas
species: Dehalogenimonas alkenigignens
strain designation: IP3-3
type strain: yes
Morphology
cell morphology
- @ref: 30811
- gram stain: negative
- cell length: 0.75 µm
- cell width: 0.75 µm
- cell shape: coccus-shaped
- motility: no
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30811 | positive | growth | 18-42 | |
| 30811 | positive | optimum | 32 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30811 | positive | growth | 06-08 |
| 30811 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 30811
- oxygen tolerance: anaerobe
spore formation
- @ref: 30811
- spore formation: no
halophily
- @ref: 30811
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-2 %
Isolation, sampling and environmental information
isolation
- @ref: 30811
- sample type: contaminated groundwater
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | |
| #Environmental | #Aquatic | #Groundwater |
taxonmaps
- @ref: 69479
- File name: preview.99_7861.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_427;96_2098;97_2528;98_5743;99_7861&stattab=map
- Last taxonomy: Dehalogenimonas alkenigignens subclade
- 16S sequence: JQ994266
- Sequence Identity:
- Total samples: 900
- soil counts: 188
- aquatic counts: 679
- animal counts: 18
- plant counts: 15
Sequence information
16S sequences
- @ref: 30811
- description: Dehalogenimonas alkenigignens strain IP3-3 16S ribosomal RNA gene, partial sequence
- accession: JQ994266
- length: 1433
- database: nuccore
- NCBI tax ID: 1217799
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Dehalogenimonas alkenigignens IP3-3 | GCA_001466665 | scaffold | ncbi | 1217799 |
| 66792 | Dehalogenimonas alkenigignens IP3-3 | 2802429288 | complete | img | 1217799 |
GC content
- @ref: 30811
- GC-content: 55.5
External links
@ref: 30811
culture collection no.: JCM 17062, NRRL B-59545
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22888191 | Dehalogenimonas alkenigignens sp. nov., a chlorinated-alkane-dehalogenating bacterium isolated from groundwater. | Bowman KS, Nobre MF, da Costa MS, Rainey FA, Moe WM | Int J Syst Evol Microbiol | 10.1099/ijs.0.045054-0 | 2012 | Alkanes/*metabolism, Bacterial Typing Techniques, Base Composition, Chloroflexi/*classification/genetics/isolation & purification/metabolism, DNA, Bacterial/genetics, Groundwater/*microbiology, Hydrocarbons, Chlorinated/*metabolism, Louisiana, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Metabolism |
| 23046725 | Dehalogenimonas 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 WM | AMB Express | 10.1186/2191-0855-2-54 | 2012 | |||
| Metabolism | 26111261 | Stable Carbon Isotope Fractionation During 1,2-Dichloropropane-to-Propene Transformation by an Enrichment Culture Containing Dehalogenimonas Strains and a dcpA Gene. | Martin-Gonzalez L, Mortan SH, Rosell M, Parlade E, Martinez-Alonso M, Gaju N, Caminal G, Adrian L, Marco-Urrea E | Environ Sci Technol | 10.1021/acs.est.5b00929 | 2015 | Alkanes/chemistry/metabolism, Alkenes/chemistry/*metabolism, Carbon Isotopes/*analysis/chemistry, Chemical Fractionation, Chloroflexi/drug effects/genetics/isolation & purification/*metabolism, Geologic Sediments/microbiology, Halogenation, Molecular Sequence Data, Propane/*analogs & derivatives/chemistry/metabolism, RNA, Ribosomal, 16S/genetics, Spain, Vancomycin/pharmacology | Phylogeny |
| Genetics | 27340512 | Genome sequence of the organohalide-respiring Dehalogenimonas alkenigignens type strain (IP3-3(T)). | Key TA, Richmond DP, Bowman KS, Cho YJ, Chun J, da Costa MS, Rainey FA, Moe WM | Stand Genomic Sci | 10.1186/s40793-016-0165-7 | 2016 |
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
| 30811 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27142 | 28776041 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | |
| 69479 | João 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 beta | https://microbeatlas.org/ |