Strain identifier
BacDive ID: 133802
Type strain: 
Species: Cecembia lonarensis
Strain Designation: LW9
NCBI tax ID(s): 1225176 (strain), 645110 (species)
version 8.1 (current version)
General
@ref: 30554
BacDive-ID: 133802
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Cecembia lonarensis LW9 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from freshwater .
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1225176 | strain |
| 645110 | species |
doi: 10.13145/bacdive133802.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Cyclobacteriaceae
- genus: Cecembia
- species: Cecembia lonarensis
- full scientific name: Cecembia lonarensis Anil Kumar et al. 2012
@ref: 30554
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Cyclobacteriaceae
genus: Cecembia
species: Cecembia lonarensis
strain designation: LW9
type strain: yes
Morphology
cell morphology
- @ref: 30554
- gram stain: negative
- cell length: 2.25 µm
- cell width: 0.55 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 61659
- incubation period: 2 days
pigmentation
- @ref: 30554
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30554 | positive | growth | 10-40 | |
| 30554 | positive | optimum | 33.5 | mesophilic |
| 61659 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30554 | positive | growth | 7.5-10 | alkaliphile |
| 30554 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 30554 | aerobe |
| 61659 | aerobe |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30554 | NaCl | positive | growth | 0-4 % |
| 30554 | NaCl | positive | optimum | 2 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30554 | 15963 | ribitol | + | carbon source |
| 30554 | 22599 | arabinose | + | carbon source |
| 30554 | 17057 | cellobiose | + | carbon source |
| 30554 | 16947 | citrate | + | carbon source |
| 30554 | 28757 | fructose | + | carbon source |
| 30554 | 17234 | glucose | + | carbon source |
| 30554 | 17716 | lactose | + | carbon source |
| 30554 | 15792 | malonate | + | carbon source |
| 30554 | 17306 | maltose | + | carbon source |
| 30554 | 37684 | mannose | + | carbon source |
| 30554 | 28053 | melibiose | + | carbon source |
| 30554 | 16634 | raffinose | + | carbon source |
| 30554 | 26546 | rhamnose | + | carbon source |
| 30554 | 17992 | sucrose | + | carbon source |
| 30554 | 18222 | xylose | + | carbon source |
enzymes
- @ref: 30554
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type | sampling date | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|---|
| 30554 | freshwater (river, lake, pond) | |||||
| 61659 | Water | 2009-01-01 | Bulhana District,Lonar Lake | India | IND | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Aquatic | #River (Creek) |
taxonmaps
- @ref: 69479
- File name: preview.99_7016.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15774;96_3292;97_4038;98_5155;99_7016&stattab=map
- Last taxonomy: Cecembia
- 16S sequence: FN393747
- Sequence Identity:
- Total samples: 253
- soil counts: 23
- aquatic counts: 135
- animal counts: 84
- plant counts: 11
Sequence information
16S sequences
- @ref: 30554
- description: Cecembia lonarensis partial 16S rRNA gene, type strain LW9T
- accession: FN393747
- length: 1513
- database: nuccore
- NCBI tax ID: 645110
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Cecembia lonarensis LW9 | GCA_000298295 | contig | ncbi | 1225176 |
| 66792 | Cecembia lonarensis LW9 | 1225176.3 | wgs | patric | 1225176 |
| 66792 | Cecembia lonarensis LW9 | 2519899594 | draft | img | 1225176 |
GC content
- @ref: 30554
- GC-content: 40.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 93.528 | no |
| gram-positive | no | 97.576 | yes |
| anaerobic | no | 95.762 | no |
| aerobic | yes | 89.453 | yes |
| halophile | no | 84.834 | no |
| spore-forming | no | 95.049 | no |
| glucose-util | yes | 86.709 | no |
| flagellated | no | 97.928 | no |
| thermophile | no | 92.88 | yes |
| glucose-ferment | no | 92.056 | no |
External links
@ref: 30554
culture collection no.: CCUG 58316, KCTC 22772
straininfo link
- @ref: 91599
- straininfo: 409085
literature
- topic: Phylogeny
- Pubmed-ID: 22081718
- title: Cecembia lonarensis gen. nov., sp. nov., a haloalkalitolerant bacterium of the family Cyclobacteriaceae, isolated from a haloalkaline lake and emended descriptions of the genera Indibacter, Nitritalea and Belliella.
- authors: Anil Kumar P, Srinivas TNR, Madhu S, Sravan R, Singh S, Naqvi SWA, Mayilraj S, Shivaji S
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.038604-0
- year: 2011
- mesh: Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, India, Lakes/*microbiology, Molecular Sequence Data, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Water Microbiology
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed | catalogue | 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 | ||||
| 30554 | 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 | 26885 | 28776041 | ||
| 61659 | Curators of the CCUG | https://www.ccug.se/strain?id=58316 | Culture Collection University of Gothenburg (CCUG) (CCUG 58316) | ||||
| 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/ | ||||
| 91599 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID409085.1 |