Strain identifier
BacDive ID: 17469
Type strain:
Species: Luteimonas aquatica
Strain Designation: RIB1-20
Strain history: <- LMG <- J.-H. Chou and et al., Department of soil and Environmental Sciences, Taichung, Taiwan
NCBI tax ID(s): 450364 (species)
General
@ref: 16135
BacDive-ID: 17469
DSM-Number: 22088
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Luteimonas aquatica RIB1-20 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sample from freshwater spring.
NCBI tax id
- NCBI tax id: 450364
- Matching level: species
strain history
- @ref: 16135
- history: <- LMG <- J.-H. Chou and et al., Department of soil and Environmental Sciences, Taichung, Taiwan
doi: 10.13145/bacdive17469.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Lysobacterales
- family: Lysobacteraceae
- genus: Luteimonas
- species: Luteimonas aquatica
- full scientific name: Luteimonas aquatica Chou et al. 2008
@ref: 16135
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Lysobacteraceae
genus: Luteimonas
species: Luteimonas aquatica
full scientific name: Luteimonas aquatica Chou et al. 2008 emend. Lin et al. 2016
strain designation: RIB1-20
type strain: yes
Morphology
cell morphology
- @ref: 32556
- gram stain: negative
- cell length: 0.8-1 µm
- cell width: 0.5 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 32556
- production: yes
Culture and growth conditions
culture medium
- @ref: 16135
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 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 |
---|---|---|---|---|
16135 | positive | growth | 28 | mesophilic |
32556 | positive | growth | 15-37 | |
32556 | positive | optimum | 25 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
32556 | positive | growth | 07-08 |
32556 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 32556
- oxygen tolerance: aerobe
spore formation
- @ref: 32556
- spore formation: no
halophily
- @ref: 32556
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-3 %
observation
- @ref: 32556
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32556 | 30089 | acetate | + | carbon source |
32556 | 16449 | alanine | + | carbon source |
32556 | 35391 | aspartate | + | carbon source |
32556 | 23652 | dextrin | + | carbon source |
32556 | 15740 | formate | + | carbon source |
32556 | 28757 | fructose | + | carbon source |
32556 | 17234 | glucose | + | carbon source |
32556 | 29987 | glutamate | + | carbon source |
32556 | 28087 | glycogen | + | carbon source |
32556 | 17716 | lactose | + | carbon source |
32556 | 15792 | malonate | + | carbon source |
32556 | 17306 | maltose | + | carbon source |
32556 | 37684 | mannose | + | carbon source |
32556 | 506227 | N-acetylglucosamine | + | carbon source |
32556 | 18257 | ornithine | + | carbon source |
32556 | 26271 | proline | + | carbon source |
32556 | 51850 | methyl pyruvate | + | carbon source |
32556 | 17822 | serine | + | carbon source |
32556 | 30911 | sorbitol | + | carbon source |
32556 | 17992 | sucrose | + | carbon source |
32556 | 26986 | threonine | + | carbon source |
32556 | 27082 | trehalose | + | carbon source |
32556 | 53423 | tween 40 | + | carbon source |
32556 | 53426 | tween 80 | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32556 | catalase | + | 1.11.1.6 |
32556 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 16135
- sample type: sample from freshwater spring
- geographic location: southern Taiwan, Kaohsiung County
- country: Taiwan
- origin.country: TWN
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Freshwater |
#Environmental | #Aquatic | #Spring |
taxonmaps
- @ref: 69479
- File name: preview.99_40412.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_3881;97_23340;98_29483;99_40412&stattab=map
- Last taxonomy: Lysobacter
- 16S sequence: EF626688
- Sequence Identity:
- Total samples: 230
- soil counts: 57
- aquatic counts: 91
- animal counts: 21
- plant counts: 61
Safety information
risk assessment
- @ref: 16135
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16135
- description: Luteimonas aquatica strain RIB1-20 16S ribosomal RNA gene, partial sequence
- accession: EF626688
- length: 1481
- database: ena
- NCBI tax ID: 450364
Genome sequences
- @ref: 66792
- description: Luteimonas aquatica RIB1-20
- accession: GCA_022662575
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 450364
GC content
- @ref: 16135
- GC-content: 70.3
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 96.455 | no |
gram-positive | no | 98.55 | no |
anaerobic | no | 99.262 | no |
aerobic | yes | 91.564 | yes |
halophile | no | 95.933 | no |
spore-forming | no | 95.692 | yes |
motile | no | 78.193 | yes |
glucose-ferment | no | 90.982 | no |
thermophile | no | 98.442 | yes |
glucose-util | yes | 89.592 | no |
External links
@ref: 16135
culture collection no.: DSM 22088, BCRC 17731, LMG 24212
straininfo link
- @ref: 86465
- straininfo: 308901
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 18768603 | Luteimonas aquatica sp. nov., isolated from fresh water from Southern Taiwan. | Chou JH, Cho NT, Arun AB, Young CC, Chen WM | Int J Syst Evol Microbiol | 10.1099/ijs.0.65684-0 | 2008 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Microbial Sensitivity Tests, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Spores, Bacterial/cytology, Taiwan, Xanthomonadaceae/*classification/genetics/*isolation & purification/physiology | Genetics |
Phylogeny | 22268071 | Luteimonas cucumeris sp. nov., isolated a from cucumber leaf. | Sun ZB, Zhang H, Yuan XF, Wang YX, Feng DM, Wang YH, Feng YJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.037549-0 | 2012 | Bacterial Typing Techniques, Base Composition, China, Cucumis sativus/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analysis, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Phylogeny | 22771684 | Luteimonas vadosa sp. nov., isolated from seashore sediment. | Romanenko LA, Tanaka N, Svetashev VI, Kurilenko VV, Mikhailov VV | Int J Syst Evol Microbiol | 10.1099/ijs.0.043273-0 | 2012 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Oceans and Seas, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analysis, Water Microbiology, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Phylogeny | 23504969 | Luteimonas huabeiensis sp. nov., isolated from stratum water. | Wu G, Liu Y, Li Q, Du H, You J, Li H, Ke C, Zhang X, Yu J, Zhao T | Int J Syst Evol Microbiol | 10.1099/ijs.0.049718-0 | 2013 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Oil and Gas Fields/microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Ubiquinone/analysis, *Water Microbiology, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Phylogeny | 26437920 | Luteimonas soli sp. nov., isolated from farmland soil. | Wang X, Yang HX, Zhang YK, Zhu SJ, Liu XW, Zhang H, Zhang CF, Zhao CR, Hu G, Hong Q | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000652 | 2015 | *Agriculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Phylogeny | 32511086 | Lysobacter profundi sp. nov., isolated from freshwater sediment and reclassification of Lysobacter panaciterrae as Luteimonas panaciterrae comb. nov. | Jin CZ, Song X, Sung YJ, Jin FJ, Li T, Oh HM, Lee HG, Jin L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004253 | 2020 | Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fresh Water/*microbiology, Geologic Sediments/*microbiology, Lysobacter/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Ubiquinone/chemistry | Enzymology |
Phylogeny | 33258058 | Luteimonas wenzhouensis Sp. Nov., A Chitinolytic Bacterium Isolated from a Landfill Soil. | Zhou J, Chen J, Ma J, Xu N, Xin F, Zhang W, Zhang H, Dong W, Jiang M | Curr Microbiol | 10.1007/s00284-020-02293-9 | 2020 | Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids, *Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, Waste Disposal Facilities, Xanthomonadaceae | Transcriptome |
Phylogeny | 35391590 | Description and genome analysis of Luteimonas viscosa sp. nov., a novel bacterium isolated from soil of a sunflower field. | Chen Y, Zhang Y, Xin D, Luo X, Pang H, Li Y, Zhang J | Antonie Van Leeuwenhoek | 10.1007/s10482-022-01730-y | 2022 | Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Helianthus, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, Soil Microbiology | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
16135 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22088) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22088 | |||
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 | |||
32556 | 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 | 28774 | 28776041 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
86465 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID308901.1 | StrainInfo: A central database for resolving microbial strain identifiers |