Strain identifier
BacDive ID: 132456
Type strain: 
Species: Lampropedia cohaerens
Strain Designation: CT6
Strain history: <- R. Lal, Univ. Delhi, Dept. Zoology, India; CT6 <- C. Tripathi, Univ. Delhi, Dept. Zoology, India
NCBI tax ID(s): 1610491 (species)
version 8.1 (current version)
General
@ref: 24245
BacDive-ID: 132456
DSM-Number: 100029
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, coccus-shaped, colony-forming
description: Lampropedia cohaerens CT6 is an aerobe, Gram-negative, coccus-shaped bacterium that forms circular colonies and was isolated from arsenic-rich microbial mat which covered the surface of stones surrounding a hot water spring.
NCBI tax id
- NCBI tax id: 1610491
- Matching level: species
strain history
- @ref: 24245
- history: <- R. Lal, Univ. Delhi, Dept. Zoology, India; CT6 <- C. Tripathi, Univ. Delhi, Dept. Zoology, India
doi: 10.13145/bacdive132456.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Lampropedia
- species: Lampropedia cohaerens
- full scientific name: Lampropedia cohaerens Tripathi et al. 2016
@ref: 24245
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Lampropedia
species: Lampropedia cohaerens
full scientific name: Lampropedia cohaerens Tripathi et al. 2016
strain designation: CT6
type strain: yes
Morphology
cell morphology
- @ref: 43722
- gram stain: negative
- cell length: 0.48-0.62 µm
- cell width: 0.32-0.39 µm
- cell shape: coccus-shaped
colony morphology
- @ref: 43722
- colony color: White
- colony shape: circular
- incubation period: 1 day
- medium used: Luria Bertani agar
Culture and growth conditions
culture medium
| @ref | name | growth |
|---|---|---|
| 43722 | BHI agar | yes |
| 43722 | Green top agar | yes |
| 43722 | LB (Luria-Bertani) MEDIUM | yes |
| 43722 | Polypeptone yeast extract agar | yes |
| 43722 | Simmons citrate agar | yes |
| 43722 | Trypticase Soy Agar (TSA) | yes |
culture temp
- @ref: 43722
- growth: positive
- type: growth
- temperature: 20-55
culture pH
- @ref: 43722
- ability: positive
- type: growth
- pH: 6-9
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 43722
- oxygen tolerance: aerobe
halophily
- @ref: 43722
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 1-3 %(w/v)
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 43722 | 17128 | adipate | - | assimilation |
| 43722 | 16899 | D-mannitol | - | assimilation |
| 43722 | 16024 | D-mannose | - | assimilation |
| 43722 | 30849 | L-arabinose | - | assimilation |
| 43722 | 17306 | maltose | - | assimilation |
| 43722 | 506227 | N-acetylglucosamine | - | assimilation |
| 43722 | 18401 | phenylacetate | - | assimilation |
| 43722 | 32032 | potassium gluconate | - | assimilation |
| 43722 | 4853 | esculin | - | hydrolysis |
| 43722 | 5291 | gelatin | - | hydrolysis |
| 43722 | 17632 | nitrate | - | hydrolysis |
| 43722 | 16199 | urea | - | hydrolysis |
| 43722 | 27689 | decanoate | + | assimilation |
| 43722 | 16947 | citrate | + | assimilation |
| 43722 | 17368 | hypoxanthine | + | assimilation |
| 43722 | 25115 | malate | + | assimilation |
| 43722 | 53258 | sodium citrate | + | assimilation |
| 43722 | 15318 | xanthine | + | assimilation |
| 43722 | 17234 | glucose | + | builds acid from |
| 43722 | 17234 | glucose | + | fermentation |
| 43722 | 28017 | starch | + | hydrolysis |
| 43722 | 53424 | tween 20 | + | hydrolysis |
| 43722 | 53426 | tween 80 | + | hydrolysis |
metabolite production
- @ref: 43722
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 43722 | catalase | + | 1.11.1.6 |
| 43722 | cytochrome oxidase | - | 1.9.3.1 |
| 43722 | beta-galactosidase | - | 3.2.1.23 |
| 43722 | arginine dihydrolase | - | 3.5.3.6 |
fatty acid profile
fatty acids
@ref fatty acid percentage 43722 C15:0 anteiso 4.7 43722 C15:0 1.1 43722 C16:1ω7c / C15:0 iso 2OH 10.2 43722 C17:0 2OH 3 43722 C15:0 iso 26.5 43722 C15:0 iso 3OH 2.4 43722 C15:1 iso 10.4 43722 C16:0 iso 3OH 1.2 43722 C17:0 iso 1.7 43722 C17:0 iso 3OH 13.9 43722 C17:1 iso ω9c 5.9 - type of FA analysis: whole cell analysis
- incubation medium: LB
- agar/liquid: agar
- incubation temperature: 28
- incubation_oxygen: aerobic
- software version: Sherlock 6.0B
- library/peak naming table: TSBA60
- system: MIS MIDI
- instrument: Agilent 6890
- cutoff value:
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 24245 | arsenic-rich microbial mat which covered the surface of stones surrounding a hot water spring | Manikaran | India | IND | Asia | 32.0263 | 77.3473 |
| 43722 | The arsenic-rich microbial mats of a hot water spring | Himalayan ranges at Manikaran, Himachal Pradesh | India | IND | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | |
| #Condition | #Thermophilic (>45°C) | |
| #Environmental | #Aquatic | #Spring |
| #Environmental | #Microbial community | #Microbial mat |
taxonmaps
- @ref: 69479
- File name: preview.99_2728.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_1450;97_1730;98_2115;99_2728&stattab=map
- Last taxonomy: Lampropedia cohaerens subclade
- 16S sequence: KP265299
- Sequence Identity:
- Total samples: 4284
- soil counts: 423
- aquatic counts: 2853
- animal counts: 902
- plant counts: 106
Sequence information
16S sequences
- @ref: 24245
- description: Lampropedia cohaerens strain CT6 16S ribosomal RNA gene, partial sequence
- accession: KP265299
- length: 1430
- database: ena
- NCBI tax ID: 1610491
Genome sequences
- @ref: 66792
- description: Lampropedia cohaerens CT6
- accession: GCA_001005215
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1610491
GC content
| @ref | GC-content | method |
|---|---|---|
| 43722 | 63.5 | Thermal denaturation, fluorometry |
| 24245 | 63.5 | sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 83.337 | no |
| flagellated | no | 93.28 | no |
| gram-positive | no | 97.125 | no |
| anaerobic | no | 98.84 | no |
| aerobic | yes | 90.29 | no |
| halophile | no | 83.472 | no |
| spore-forming | no | 95.557 | no |
| thermophile | no | 96.564 | no |
| glucose-util | no | 78.137 | no |
| glucose-ferment | no | 80.857 | yes |
External links
@ref: 24245
culture collection no.: DSM 100029, KCTC 42939, MCC 2711
literature
- topic: Phylogeny
- Pubmed-ID: 26675173
- title: Lampropedia cohaerens sp. nov., a biofilm-forming bacterium isolated from microbial mats of a hot water spring, and emended description of the genus Lampropedia.
- authors: Tripathi C, Mahato NK, Singh AK, Kamra K, Korpole S, Lal R
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000853
- year: 2015
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 24245 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100029 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100029) | |||
| 43722 | C. Tripathi, N. K. Mahato, A. K. Singh, K. Kamra, S. Korpole, R. Lal | Lampropedia cohaerens sp. nov., a biofilm-forming bacterium isolated from microbial mats of a hot water spring, and emended description of the genus Lampropedia | 10.1099/ijsem.0.000853 | IJSEM 66: 1156-1162 2016 | 26675173 | |
| 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 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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/ |