Strain identifier

BacDive ID: 11323

Type strain: Yes

Species: Massilia timonae

Strain Designation: UR/MT95

Strain history: CIP <- 1997, B. La Scola, Timone Hosp., Marseille, France: strain UR/MT95

NCBI tax ID(s): 883126 (strain), 47229 (species)

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

@ref: 6634

BacDive-ID: 11323

DSM-Number: 16850

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

description: Massilia timonae UR/MT95 is an aerobe, mesophilic, Gram-negative human pathogen that was isolated from human blood.

NCBI tax id

NCBI tax idMatching level
47229species
883126strain

strain history

@refhistory
6634<- CIP <- B. La Scola; UR/MT95
364001997, B. La Scola, Med. Univ., Marseille, France: strain UR/MT95
123547CIP <- 1997, B. La Scola, Timone Hosp., Marseille, France: strain UR/MT95

doi: 10.13145/bacdive11323.20230509.8.1

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 timonae
  • full scientific name: Massilia timonae La Scola et al. 2000
  • synonyms

    • @ref: 20215
    • synonym: Telluria timonae

@ref: 6634

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Massilia

species: Massilia timonae

full scientific name: Massilia timonae La Scola et al. 2000 emend. Lindquist et al. 2003

strain designation: UR/MT95

type strain: yes

Morphology

cell morphology

  • @ref: 123547
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

colony morphology

@refincubation period
66341-2 days
123547

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6634R2A 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
36400MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
123547CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperaturerange
6634positivegrowth30mesophilic
36400positivegrowth30mesophilic
56924positivegrowth30-37mesophilic
123547positivegrowth10-37
123547nogrowth41thermophilic
123547nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
56924aerobe
123547obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
123547NaClpositivegrowth0-2 %
123547NaClnogrowth4 %
123547NaClnogrowth6 %
123547NaClnogrowth8 %
123547NaClnogrowth10 %

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
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
1235474853esculin+hydrolysis
12354717632nitrate-reduction
12354716301nitrite-reduction
12354717632nitrate-respiration

antibiotic resistance

  • @ref: 123547
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12354735581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
12354715688acetoin-
12354717234glucose-

enzymes

@refvalueactivityec
6634catalase+1.11.1.6
6634cytochrome-c oxidase-1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
123547oxidase-
123547beta-galactosidase-3.2.1.23
123547alcohol dehydrogenase-1.1.1.1
123547gelatinase+
123547amylase+
123547DNase+
123547caseinase+3.4.21.50
123547catalase+1.11.1.6
123547tween esterase-
123547gamma-glutamyltransferase-2.3.2.2
123547lecithinase-
123547lipase-
123547lysine decarboxylase-4.1.1.18
123547ornithine decarboxylase-4.1.1.17
123547phenylalanine ammonia-lyase-4.3.1.24
123547protease-
123547tryptophan deaminase-
123547urease-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
123547-++--++---++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6634---+++++-++--+++-+++-
6634-----++--++--+++-++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123547+-+-+----++----++-+-++-+--------------+-------+++++--+++--+-++-------------+--+++-+---+-+-+--+-++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
6634human bloodMarseilleFranceFRAEurope
56924Human bloodMarseilleFranceFRAEurope1995
123547Human, BloodMarseilleFranceFRAEurope1995

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Fluids#Blood

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
6634yes, in single cases1Risk group (German classification)
1235471Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6634
  • description: Massilia timonae strain UR/MT95 16S ribosomal RNA gene, partial sequence
  • accession: U54470
  • length: 1494
  • database: ena
  • NCBI tax ID: 47229

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Massilia timonae CCUG 45783GCA_000315425scaffoldncbi883126
66792Massilia timonae CCUG 45783883126.3wgspatric883126
66792Massilia timonae CCUG 457832531839286draftimg883126

GC content

  • @ref: 6634
  • GC-content: 64.6
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes88.228no
flagellatedyes74.249no
gram-positiveno98.415no
anaerobicno97.929no
aerobicyes87.277no
halophileno93.389no
spore-formingno92.85no
thermophileno99.096no
glucose-utilyes68.71yes
glucose-fermentno91.534yes

External links

@ref: 6634

culture collection no.: DSM 16850, CCUG 45783, CIP 105350

straininfo link

  • @ref: 80556
  • straininfo: 69234

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12517847Characteristics of Massilia timonae and Massilia timonae-like isolates from human patients, with an emended description of the species.Lindquist D, Murrill D, Burran WP, Winans G, Janda JM, Probert WJ Clin Microbiol10.1128/JCM.41.1.192-196.20032003Betaproteobacteria/chemistry/genetics/*isolation & purification, Fatty Acids/*analysis, Humans, RNA, Ribosomal, 16S/*analysis/genetics, Sequence Analysis, DNAPathogenicity
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
Phylogeny21441374Massilia oculi sp. nov., isolated from a human clinical specimen.Kampfer P, Lodders N, Martin K, Falsen EInt J Syst Evol Microbiol10.1099/ijs.0.032441-02011Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Endophthalmitis/*microbiology, Fatty Acids/analysis, Genes, rRNA, Gram-Negative Bacterial Infections/*microbiology, Humans, Lipids/analysis, Molecular Sequence Data, Oxalobacteraceae/chemistry/*classification/genetics/*isolation & purification, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Vitamin K 2/analysisPathogenicity
Phylogeny32559833Massilia arenae sp. nov., isolated from sand soil in the Qinghai-Tibetan Plateau.Zhang B, Yang R, Zhang G, Zhang D, Zhang W, Chen T, Liu GInt J Syst Evol Microbiol10.1099/ijsem.0.0040562020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sand/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Tibet, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6634Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16850)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16850
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
36400Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17360
56924Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45783)https://www.ccug.se/strain?id=45783
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
80556Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID69234.1StrainInfo: A central database for resolving microbial strain identifiers
123547Curators of the CIPCollection of Institut Pasteur (CIP 105350)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105350