Strain identifier

BacDive ID: 131294

Type strain: Yes

Species: Massilia kyonggiensis

Strain history: J. Kim TSA1.

NCBI tax ID(s): 1303090 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 22521

BacDive-ID: 131294

DSM-Number: 101532

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Massilia kyonggiensis DSM 101532 is a mesophilic bacterium that was isolated from surface soil sample.

NCBI tax id

  • NCBI tax id: 1303090
  • Matching level: species

strain history

@refhistory
22521<- JCM <- J. Kim, Kyonggi University; TSA1
67770J. Kim TSA1.

doi: 10.13145/bacdive131294.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Oxalobacteraceae
  • genus: Massilia
  • species: Massilia kyonggiensis
  • full scientific name: Massilia kyonggiensis Kim 2014

  • synonyms

    • @ref: 20215
    • synonym: Telluria kyonggiensis

@ref: 22521

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Massilia

species: Massilia kyonggiensis

full scientific name: Massilia kyonggiensis Kim 2014

type strain: yes

Morphology

colony morphology

  • @ref: 22521
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 22521
  • 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

@refgrowthtypetemperaturerange
22521positivegrowth30mesophilic
67770positivegrowth28mesophilic

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
22521catalase+1.11.1.6
22521cytochrome-c oxidase+1.9.3.1
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
22521+----++++++--++-++--+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
22521surface soil sampleforest at Kyonggi University, SuwonRepublic of KoreaKORAsia37.301127.035
67770Surface soil of a forest in SuwonKyonggi-doRepublic of KoreaKORAsia

isolation source categories

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

Safety information

risk assessment

  • @ref: 22521
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
22521Massilia kyonggiensis strain TSA1 16S ribosomal RNA, partial sequenceNR_1262731402nuccore1303090
67770Massilia kyonggiensis 16S ribosomal RNA gene, partial sequenceKC5743831402ena1303090

Genome sequences

  • @ref: 66792
  • description: Massilia kyonggiensis JCM 19189
  • accession: GCA_024756235
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1303090

GC content

  • @ref: 22521
  • GC-content: 66.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes89.424no
flagellatedyes78.329no
gram-positiveno98.548no
anaerobicno99.286no
aerobicyes93.013no
halophileno94.025no
spore-formingno93.169no
glucose-fermentno89.728no
thermophileno99.397yes
glucose-utilyes91.563yes

External links

@ref: 22521

culture collection no.: DSM 101532, JCM 19189, KACC 17471, KEMB 9005-031, TSA 1

straininfo link

  • @ref: 89736
  • straininfo: 402853

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24810317Massilia kyonggiensis sp. nov., isolated from forest soil in Korea.Kim JJ Microbiol10.1007/s12275-014-4010-72014Bacterial Typing Techniques, Base Composition, Cluster Analysis, Culture Media/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Forests, Hydrogen-Ion Concentration, Korea, Molecular Sequence Data, Oxalobacteraceae/*classification/genetics/*isolation & purification/physiology, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, TemperatureGenetics
Phylogeny26220552Massilia arvi sp. nov., isolated from fallow-land soil previously cultivated with Brassica oleracea, and emended description of the genus Massilia.Singh H, Du J, Won K, Yang JE, Yin C, Kook M, Yi THInt J Syst Evol Microbiol10.1099/ijsem.0.0004772015Agriculture, Bacterial Typing Techniques, Base Composition, Brassica, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phosphatidylethanolamines, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics
Phylogeny26449383Massilia putida sp. nov., a dimethyl disulfide-producing bacterium isolated from wolfram mine tailing.Feng GD, Yang SZ, Li HP, Zhu HHInt J Syst Evol Microbiol10.1099/ijsem.0.0006702015Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Disulfides/metabolism, Fatty Acids/chemistry, *Mining, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tungsten, Ubiquinone/chemistryGenetics
Phylogeny27334790Massiliapinisoli sp. nov., isolated from forest soil.Altankhuu K, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0012492016Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
Phylogeny28809142Massilia agri sp. nov., isolated from reclaimed grassland soil.Chaudhary DK, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0020022017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Grassland, Nepal, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
Phylogeny28853679Massilia phosphatilytica sp. nov., a phosphate solubilizing bacteria isolated from a long-term fertilized soil.Zheng BX, Bi QF, Hao XL, Zhou GW, Yang XRInt J Syst Evol Microbiol10.1099/ijsem.0.0019162017Agriculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fertilizers, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phosphates/metabolism, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
Phylogeny34520338Massilia rhizosphaerae sp. nov., a rice-associated rhizobacterium with antibacterial activity against Ralstonia solanacearum.Li C, Cao P, Du C, Zhang X, Bing H, Li L, Sun P, Xiang W, Zhao J, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0050092021*Antibiosis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Oryza/microbiology, Oxalobacteraceae/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Ralstonia solanacearum/pathogenicity, Sequence Analysis, DNA, *Soil Microbiology, UbiquinoneTranscriptome

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
22521Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101532Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101532)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
89736Reimer, 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-ID402853.1