Strain identifier
BacDive ID: 17519
Type strain: 
Species: Rhodanobacter terrae
Strain Designation: GP18-1
Strain history: <- S.-W. Kwon, KACC, Suwon, South Korea
NCBI tax ID(s): 418647 (species)
version 8.1 (current version)
General
@ref: 7904
BacDive-ID: 17519
DSM-Number: 19241
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Rhodanobacter terrae GP18-1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil of ginseng field.
NCBI tax id
- NCBI tax id: 418647
- Matching level: species
strain history
- @ref: 7904
- history: <- S.-W. Kwon, KACC, Suwon, South Korea
doi: 10.13145/bacdive17519.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Lysobacterales
- family: Rhodanobacteraceae
- genus: Rhodanobacter
- species: Rhodanobacter terrae
- full scientific name: Rhodanobacter terrae Weon et al. 2007
@ref: 7904
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Rhodanobacteraceae
genus: Rhodanobacter
species: Rhodanobacter terrae
full scientific name: Rhodanobacter terrae Weon et al. 2007
strain designation: GP18-1
type strain: yes
Morphology
cell morphology
- @ref: 32132
- gram stain: negative
- cell length: 3.5 µm
- cell width: 0.5 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 32132
- production: yes
Culture and growth conditions
culture medium
- @ref: 7904
- name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 7904 | positive | growth | 28 | mesophilic |
| 32132 | positive | growth | 05-30 | |
| 32132 | positive | optimum | 26.5 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 32132 | positive | growth | 4.0-8.0 | acidophile |
| 32132 | positive | optimum | 6 |
Physiology and metabolism
oxygen tolerance
- @ref: 32132
- oxygen tolerance: aerobe
halophily
- @ref: 32132
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <2 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32132 | 37054 | 3-hydroxybutyrate | + | carbon source |
| 32132 | 30089 | acetate | + | carbon source |
| 32132 | 17234 | glucose | + | carbon source |
| 32132 | 17306 | maltose | + | carbon source |
| 32132 | 37684 | mannose | + | carbon source |
| 32132 | 506227 | N-acetylglucosamine | + | carbon source |
| 32132 | 26271 | proline | + | carbon source |
| 32132 | 53426 | tween 80 | + | carbon source |
| 32132 | 31011 | valerate | + | carbon source |
| 32132 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32132 | acid phosphatase | + | 3.1.3.2 |
| 32132 | alkaline phosphatase | + | 3.1.3.1 |
| 32132 | catalase | + | 1.11.1.6 |
| 32132 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 7904
- sample type: soil of ginseng field
- geographic location: Ansung province
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Field |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
Safety information
risk assessment
- @ref: 7904
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7904
- description: Rhodanobacter terrae strain GP18-1 16S ribosomal RNA gene, partial sequence
- accession: EF166076
- length: 1492
- database: ena
- NCBI tax ID: 418647
GC content
- @ref: 32132
- GC-content: 62.5
External links
@ref: 7904
culture collection no.: DSM 19241, KACC 11761
straininfo link
- @ref: 86516
- straininfo: 404466
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18048729 | Rhodanobacter ginsengisoli sp. nov. and Rhodanobacter terrae sp. nov., isolated from soil cultivated with Korean ginseng. | Weon HY, Kim BY, Hong SB, Jeon YA, Kwon SW, Go SJ, Koo BS | Int J Syst Evol Microbiol | 10.1099/ijs.0.65018-0 | 2007 | Base Composition, Catalase/analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/analysis, Panax, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, Xanthomonadaceae/chemistry/*classification/genetics/*isolation & purification | Genetics |
| Phylogeny | 21296929 | Rhodanobacter panaciterrae sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a ginseng field. | Wang L, An DS, Kim SG, Jin FX, Lee ST, Im WT | Int J Syst Evol Microbiol | 10.1099/ijs.0.025718-0 | 2011 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Ginsenosides/*metabolism, Molecular Sequence Data, Panax/growth & development/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Xanthomonadaceae/*classification/genetics/*isolation & purification/metabolism | Metabolism |
| Phylogeny | 24651305 | Rhodanobacter glycinis sp. nov., a yellow-pigmented gammaproteobacterium isolated from the rhizoplane of field-grown soybean. | Madhaiyan M, Poonguzhali S, Saravanan VS, Kwon SW | Int J Syst Evol Microbiol | 10.1099/ijs.0.055525-0 | 2014 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, India, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soybeans/*microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
| Phylogeny | 25604344 | Rhodanobacter koreensis sp. nov., a bacterium isolated from tomato rhizosphere. | Won K, Singh H, Ngo HTT, Son H, Kook M, Kim KY, Yi TH | Int J Syst Evol Microbiol | 10.1099/ijs.0.000077 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lycopersicon esculentum/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
| Phylogeny | 28073405 | Rhodanobacter humi sp. nov., an acid-tolerant and alkalitolerant gammaproteobacterium isolated from forest soil. | Dahal RH, Kim J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001786 | 2017 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purification | Transcriptome |
| Phylogeny | 28920848 | Dyella agri sp. nov., isolated from reclaimed grassland soil. | Chaudhary DK, Kim J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002291 | 2017 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Grassland, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purification | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 7904 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19241) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19241 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 32132 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28376 | 28776041 | |
| 86516 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404466.1 | StrainInfo: A central database for resolving microbial strain identifiers |