Strain identifier

BacDive ID: 132653

Type strain: Yes

Species: Lysobacter cavernae

Strain history: <- W. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM C01544 <- J. Cheng, YIM

NCBI tax ID(s): 1685901 (species)

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General

@ref: 24442

BacDive-ID: 132653

DSM-Number: 101561

keywords: 16S sequence, Bacteria

description: Lysobacter cavernae DSM 101561 is a bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 1685901
  • Matching level: species

strain history

  • @ref: 24442
  • history: <- W. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; YIM C01544 <- J. Cheng, YIM

doi: 10.13145/bacdive132653.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Lysobacter
  • species: Lysobacter cavernae
  • full scientific name: Lysobacter cavernae Chen et al. 2016

@ref: 24442

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Lysobacteraceae

genus: Lysobacter

species: Lysobacter cavernae

full scientific name: Lysobacter cavernae Chen et al. 2016

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 24442
  • 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: 24442
  • growth: positive
  • type: growth
  • temperature: 28

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
24442+----+-+------------+

Isolation, sampling and environmental information

isolation

  • @ref: 24442
  • sample type: soil
  • geographic location: Yunnan province, Licang city, Sigangli Cave (E 103° 22.791', N 25° 04.270')
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 25.0712
  • longitude: 103.38

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 24442
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24442
  • description: Lysobacter cavernae strain YIM C01544 16S ribosomal RNA gene, partial sequence
  • accession: KT306825
  • length: 1530
  • database: nuccore
  • NCBI tax ID: 1685901

GC content

  • @ref: 24442
  • GC-content: 64.9
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 24442

culture collection no.: DSM 101561, CPCC 100816, KCTC 42875, YIM C01544

straininfo link

  • @ref: 90966
  • straininfo: 401505

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27180096Lysobacter cavernae sp. nov., a novel bacterium isolated from a cave sample.Chen W, Zhao YL, Cheng J, Zhou XK, Salam N, Fang BZ, Li QQ, Hozzein WN, Li WJAntonie Van Leeuwenhoek10.1007/s10482-016-0704-72016Base Composition, Caves/*microbiology, China, DNA, Bacterial, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Lysobacter/*classification/genetics/*isolation & purification/metabolism, Nucleic Acid Hybridization, Phenotype, Phospholipids/metabolism, Phylogeny, Quinones, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil MicrobiologyMetabolism
Phylogeny29858826Lysobacter pedocola sp. nov., a novel species isolated from Korean soil.Jang JH, Lee D, Seo TJ Microbiol10.1007/s12275-018-8046-y2018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Lysobacter/*classification/genetics/*isolation & purification/physiology, Nucleic Acid Hybridization, Phenotype, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Sodium Chloride, Soil, *Soil Microbiology, Species Specificity, Temperature, Ubiquinone/analysisPhenotype
Phylogeny30540245Lysobacter tabacisoli sp. nov., isolated from rhizosphere soil of Nicotiana tabacum L.Xiao M, Zhou XK, Chen X, Duan YQ, Alkhalifah DHM, Im WT, Hozzein WN, Chen W, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0031642018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lysobacter/*classification/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Tobacco/*microbiology, Ubiquinone/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
24442Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101561Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101561)
68369Automatically annotated from API 20NE
90966Reimer, 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 identifiers10.60712/SI-ID401505.1