Strain identifier

BacDive ID: 17469

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refgrowthtypetemperaturerange
16135positivegrowth28mesophilic
32556positivegrowth15-37
32556positiveoptimum25mesophilic

culture pH

@refabilitytypepH
32556positivegrowth07-08
32556positiveoptimum7

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

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3255630089acetate+carbon source
3255616449alanine+carbon source
3255635391aspartate+carbon source
3255623652dextrin+carbon source
3255615740formate+carbon source
3255628757fructose+carbon source
3255617234glucose+carbon source
3255629987glutamate+carbon source
3255628087glycogen+carbon source
3255617716lactose+carbon source
3255615792malonate+carbon source
3255617306maltose+carbon source
3255637684mannose+carbon source
32556506227N-acetylglucosamine+carbon source
3255618257ornithine+carbon source
3255626271proline+carbon source
3255651850methyl pyruvate+carbon source
3255617822serine+carbon source
3255630911sorbitol+carbon source
3255617992sucrose+carbon source
3255626986threonine+carbon source
3255627082trehalose+carbon source
3255653423tween 40+carbon source
3255653426tween 80+carbon source

enzymes

@refvalueactivityec
32556catalase+1.11.1.6
32556cytochrome 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

Cat1Cat2Cat3
#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

traitpredictionconfidencetraining_data
flagellatedno96.455no
gram-positiveno98.55no
anaerobicno99.262no
aerobicyes91.564yes
halophileno95.933no
spore-formingno95.692yes
motileno78.193yes
glucose-fermentno90.982no
thermophileno98.442yes
glucose-utilyes89.592no

External links

@ref: 16135

culture collection no.: DSM 22088, BCRC 17731, LMG 24212

straininfo link

  • @ref: 86465
  • straininfo: 308901

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18768603Luteimonas aquatica sp. nov., isolated from fresh water from Southern Taiwan.Chou JH, Cho NT, Arun AB, Young CC, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.65684-02008Bacterial 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/physiologyGenetics
Phylogeny22268071Luteimonas cucumeris sp. nov., isolated a from cucumber leaf.Sun ZB, Zhang H, Yuan XF, Wang YX, Feng DM, Wang YH, Feng YJInt J Syst Evol Microbiol10.1099/ijs.0.037549-02012Bacterial 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 & purificationGenetics
Phylogeny22771684Luteimonas vadosa sp. nov., isolated from seashore sediment.Romanenko LA, Tanaka N, Svetashev VI, Kurilenko VV, Mikhailov VVInt J Syst Evol Microbiol10.1099/ijs.0.043273-02012Bacterial 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 & purificationGenetics
Phylogeny23504969Luteimonas 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 TInt J Syst Evol Microbiol10.1099/ijs.0.049718-02013Bacterial 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 & purificationGenetics
Phylogeny26437920Luteimonas 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 QInt J Syst Evol Microbiol10.1099/ijsem.0.0006522015*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 & purificationGenetics
Phylogeny32511086Lysobacter 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 LInt J Syst Evol Microbiol10.1099/ijsem.0.0042532020Base 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/chemistryEnzymology
Phylogeny33258058Luteimonas 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 MCurr Microbiol10.1007/s00284-020-02293-92020Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids, *Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, Waste Disposal Facilities, XanthomonadaceaeTranscriptome
Phylogeny35391590Description 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 JAntonie Van Leeuwenhoek10.1007/s10482-022-01730-y2022Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Helianthus, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, Soil MicrobiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16135Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22088)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22088
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
32556Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877428776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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
86465Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID308901.1StrainInfo: A central database for resolving microbial strain identifiers