Strain identifier
BacDive ID: 130254
Type strain:
Species: Comamonas jiangduensis
Strain Designation: YW1
Strain history: <- KACC <- L.-N. Sun et al., Key Lab. of Microbiological Engineering of Agricultural Environment, Nanjing Agricultural University; YW1
NCBI tax ID(s): 1194168 (species)
General
@ref: 21553
BacDive-ID: 130254
DSM-Number: 100319
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Comamonas jiangduensis YW1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil from rice field.
NCBI tax id
- NCBI tax id: 1194168
- Matching level: species
strain history
- @ref: 21553
- history: <- KACC <- L.-N. Sun et al., Key Lab. of Microbiological Engineering of Agricultural Environment, Nanjing Agricultural University; YW1
doi: 10.13145/bacdive130254.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Comamonas
- species: Comamonas jiangduensis
- full scientific name: Comamonas jiangduensis Sun et al. 2013
@ref: 21553
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Comamonas
species: Comamonas jiangduensis
full scientific name: Comamonas jiangduensis Sun et al. 2013
strain designation: YW1
type strain: yes
Morphology
cell morphology
- @ref: 30841
- gram stain: negative
- cell length: 1.35 µm
- cell width: 0.35 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 30841
- production: yes
Culture and growth conditions
culture medium
- @ref: 21553
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
21553 | positive | growth | 28 | mesophilic |
30841 | positive | optimum | 37 | mesophilic |
culture pH
- @ref: 30841
- ability: positive
- type: optimum
- pH: 7.25
Physiology and metabolism
oxygen tolerance
- @ref: 30841
- oxygen tolerance: aerobe
spore formation
- @ref: 30841
- spore formation: no
compound production
- @ref: 21553
- compound: surfactant
halophily
- @ref: 30841
- salt: NaCl
- growth: positive
- tested relation: optimum
- concentration: 1 %
observation
- @ref: 30841
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30841 | 30089 | acetate | + | carbon source |
30841 | 28644 | 2-oxopentanoate | + | carbon source |
30841 | 15740 | formate | + | carbon source |
30841 | 17754 | glycerol | + | carbon source |
30841 | 17240 | itaconate | + | carbon source |
30841 | 24996 | lactate | + | carbon source |
30841 | 25017 | leucine | + | carbon source |
30841 | 26271 | proline | + | carbon source |
30841 | 17272 | propionate | + | carbon source |
30841 | 51850 | methyl pyruvate | + | carbon source |
30841 | 30031 | succinate | + | carbon source |
30841 | 26986 | threonine | + | carbon source |
30841 | 53423 | tween 40 | + | carbon source |
30841 | 53426 | tween 80 | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30841 | catalase | + | 1.11.1.6 |
30841 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 21553
- sample type: soil from rice field
- geographic location: Jiangsu Province, Jiangdu City
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 31.3667
- longitude: 120.933
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Agriculture | #Field |
#Environmental | #Terrestrial | #Soil |
#Host | #Plants | #Herbaceous plants (Grass,Crops) |
Safety information
risk assessment
- @ref: 21553
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21553
- description: Comamonas jiangduensis strain YW1 16S ribosomal RNA gene, partial sequence
- accession: JQ941713
- length: 1455
- database: ena
- NCBI tax ID: 1194168
GC content
@ref | GC-content |
---|---|
30841 | 65.3 |
21553 | 63.3 |
External links
@ref: 21553
culture collection no.: DSM 100319, CCTCC AB 2012033, KACC 16697
straininfo link
- @ref: 88794
- straininfo: 398118
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 23125317 | Comamonas jiangduensis sp. nov., a biosurfactant-producing bacterium isolated from agricultural soil. | Sun LN, Zhang J, Chen Q, He J, Li QF, Li SP | Int J Syst Evol Microbiol | 10.1099/ijs.0.045716-0 | 2012 | Agriculture, Bacterial Typing Techniques, Base Composition, China, Comamonas/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/microbiology, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Surface-Active Agents/metabolism, Ubiquinone | Genetics |
Genetics | 33574105 | Draft Genome Sequence of Comamonas jiangduensis Strain YW1(T). | Kangale LJ, Levasseur A, Raoult D, Ghigo E, Fournier PE | Microbiol Resour Announc | 10.1128/MRA.00513-20 | 2021 |
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | 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 | |||
21553 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100319 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100319) | |||
30841 | 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 | 27171 | 28776041 | |
88794 | 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-ID398118.1 |