Strain identifier

BacDive ID: 11334

Type strain: Yes

Species: Massilia niabensis

Strain Designation: 5420S-26

Strain history: CIP <- 2009, DSMZ <- S.-W. Kwon, KACC, Korea: strain 5420S-26

NCBI tax ID(s): 544910 (species)

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General

@ref: 15507

BacDive-ID: 11334

DSM-Number: 21312

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Massilia niabensis 5420S-26 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from air sample.

NCBI tax id

  • NCBI tax id: 544910
  • Matching level: species

strain history

@refhistory
15507<- S.-W. Kwon; 5420S-26 {2008}
121287CIP <- 2009, DSMZ <- S.-W. Kwon, KACC, Korea: strain 5420S-26

doi: 10.13145/bacdive11334.20230509.8.1

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 niabensis
  • full scientific name: Massilia niabensis Weon et al. 2009

  • synonyms

    • @ref: 20215
    • synonym: Telluria niabensis

@ref: 15507

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Massilia

species: Massilia niabensis

full scientific name: Massilia niabensis Weon et al. 2009

strain designation: 5420S-26

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29130negative2.7 µm0.75 µmrod-shapedyes
121287negativerod-shapedyes

pigmentation

  • @ref: 29130
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15507R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: 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
37914MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
121287CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
15507positivegrowth30mesophilic
29130positivegrowth05-35
29130positiveoptimum28mesophilic
37914positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29130positivegrowth07-09alkaliphile
29130positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 29130
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
29130NaClpositivegrowth0-1 %
29130NaClpositiveoptimum0.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2913053426tween 80+carbon source
2913017632nitrate+reduction
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
12128717632nitrate-reduction
12128716301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12128735581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
29130acid phosphatase+3.1.3.2
29130alkaline phosphatase+3.1.3.1
29130catalase+1.11.1.6
29130cytochrome 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
121287oxidase+
121287catalase+1.11.1.6
121287urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase+3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121287-+++-+----++-++-----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
15507--------------------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
15507air sampleSuwon region (37°16'46" N, 126°59'10" E)Republic of KoreaKORAsia37.2794126.986
121287Environment, Air sampleSuwonRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Air

taxonmaps

  • @ref: 69479
  • File name: preview.99_15690.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_429;97_5047;98_8442;99_15690&stattab=map
  • Last taxonomy: Oxalobacteraceae
  • 16S sequence: EU808006
  • Sequence Identity:
  • Total samples: 101
  • soil counts: 53
  • aquatic counts: 15
  • animal counts: 30
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
155071Risk group (German classification)
1212871Risk group (French classification)

Sequence information

16S sequences

  • @ref: 15507
  • description: Massilia niabensis strain 5420S-26 16S ribosomal RNA gene, partial sequence
  • accession: EU808006
  • length: 1398
  • database: ena
  • NCBI tax ID: 544910

GC content

@refGC-contentmethod
1550767.8high performance liquid chromatography (HPLC)
2913067.8

External links

@ref: 15507

culture collection no.: DSM 21312, CIP 110037, KACC 12632

straininfo link

  • @ref: 80567
  • straininfo: 363415

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19542125Massilia niabensis sp. nov. and Massilia niastensis sp. nov., isolated from air samples.Weon HY, Kim BY, Hong SB, Jeon YA, Koo BS, Kwon SW, Stackebrandt EInt J Syst Evol Microbiol10.1099/ijs.0.006908-02009*Air Microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification/physiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
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
Phylogeny27432318Massilia psychrophila sp. nov., isolated from an ice core.Guo B, Liu Y, Gu Z, Shen L, Liu K, Wang N, Xing T, Liu H, Zhou Y, Li JInt J Syst Evol Microbiol10.1099/ijsem.0.0013152016Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/*microbiology, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15507Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21312)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21312
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
29130Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2555628776041
37914Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7850
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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
80567Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID363415.1StrainInfo: A central database for resolving microbial strain identifiers
121287Curators of the CIPCollection of Institut Pasteur (CIP 110037)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110037