Strain identifier

BacDive ID: 11329

Type strain: Yes

Species: Massilia aurea

Strain Designation: AP13

Strain history: CIP <- 2006, CECT <- A. Ventosa: strain AP13

NCBI tax ID(s): 373040 (species)

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: 7274

BacDive-ID: 11329

DSM-Number: 18055

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

description: Massilia aurea AP13 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from drinking water.

NCBI tax id

  • NCBI tax id: 373040
  • Matching level: species

strain history

@refhistory
7274<- A. Ventosa; AP13 <- V. Gallego
67770A. Ventosa AP13.
116568CIP <- 2006, CECT <- A. Ventosa: strain AP13

doi: 10.13145/bacdive11329.20230509.8.1

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 aurea
  • full scientific name: Massilia aurea Gallego et al. 2006
  • synonyms

    • @ref: 20215
    • synonym: Telluria aurea

@ref: 7274

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Massilia

species: Massilia aurea

full scientific name: Massilia aurea Gallego et al. 2006

strain designation: AP13

type strain: yes

Morphology

cell morphology

  • @ref: 116568
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 7274
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7274R2A 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
37541MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116568CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7274positivegrowth28mesophilic
37541positivegrowth25mesophilic
60401positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
60401aerobe
116568facultative anaerobe

observation

  • @ref: 67770
  • observation: quinones: Q-8

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
68369decanoate-assimilation27689
68369gluconate-assimilation24265
68369maltose+assimilation17306
68369D-mannitol-assimilation16899
68369D-mannose+assimilation16024
68369L-arabinose-assimilation30849
68369esculin+hydrolysis4853
68369urea-hydrolysis16199
68369arginine-hydrolysis29016
68369D-glucose-fermentation17634
68369tryptophan-energy source27897
116568nitrate-reduction17632
116568nitrite-reduction16301

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11656835581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
7274catalase+1.11.1.6
7274cytochrome-c oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
116568oxidase-
116568catalase+1.11.1.6
116568urease-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
116568-+++-++---++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
7274-----+++--+-++--+++++
7274+----++++/--+-++--+++-+
7274-----++/-+/-+/--+-+/-+--+/-+/---+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116568----------------------------+/---------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
7274drinking waterSevilleSpainESPEurope
60401Water,drinkingSevillaSpainESPEurope2003-04-01
67770Drinking water
116568Environment, Drinking waterSevillaSpainESPEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Freshwater

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
72741Risk group (German classification)
1165681Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7274
  • description: Massilia aurea partial 16S rRNA gene, type strain AP13T
  • accession: AM231588
  • length: 1463
  • database: ena
  • NCBI tax ID: 373040

Genome sequences

  • @ref: 66792
  • description: Massilia aurea JCM 13879
  • accession: GCA_024753205
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 373040

GC content

@refGC-contentmethod
727466
6777066thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes84.732no
flagellatedyes71.548no
gram-positiveno98.515no
anaerobicno98.771yes
aerobicyes90.336yes
halophileno88.301no
spore-formingno92.785no
glucose-fermentno88.848yes
thermophileno99.179no
glucose-utilyes78.096no

External links

@ref: 7274

culture collection no.: CCUG 54941, DSM 18055, CCM 7363, CECT 7142, JCM 13879, CGMCC 1.10742, CIP 109392

straininfo link

  • @ref: 80562
  • straininfo: 297233

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17012578Massilia aurea sp. nov., isolated from drinking water.Gallego V, Sanchez-Porro C, Garcia MT, Ventosa AInt J Syst Evol Microbiol10.1099/ijs.0.64389-02006Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/chemistry/*classification/genetics/*isolation & purification, Phenotype, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Water SupplyGenetics
Phylogeny18450722Massilia brevitalea sp. nov., a novel betaproteobacterium isolated from lysimeter soil.Zul D, Wanner G, Overmann JInt J Syst Evol Microbiol10.1099/ijs.0.65473-02008Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification/physiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil/*analysis, *Soil Microbiology, Species Specificity, *WaterGenetics
Phylogeny18523189Massilia aerilata sp. nov., isolated from an air sample.Weon HY, Kim BY, Son JA, Jang HB, Hong SK, Go SJ, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.65419-02008*Air Microbiology, Bacterial Proteins/genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/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
Phylogeny19783608Massilia jejuensis sp. nov. and Naxibacter suwonensis sp. nov., isolated from air samples.Weon HY, Yoo SH, Kim SJ, Kim YS, Anandham R, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.015479-02009*Air Microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Oxalobacteraceae/*classification/genetics/*isolation & purification/metabolism, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism

Reference

@idauthorscataloguedoi/urltitle
7274Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18055)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18055
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
37541Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7129
60401Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54941)https://www.ccug.se/strain?id=54941
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
80562Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297233.1StrainInfo: A central database for resolving microbial strain identifiers
116568Curators of the CIPCollection of Institut Pasteur (CIP 109392)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109392