Strain identifier
BacDive ID: 11323
Type strain:
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)
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 id | Matching level |
---|---|
47229 | species |
883126 | strain |
strain history
@ref | history |
---|---|
6634 | <- CIP <- B. La Scola; UR/MT95 |
36400 | 1997, B. La Scola, Med. Univ., Marseille, France: strain UR/MT95 |
123547 | CIP <- 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
@ref | incubation period |
---|---|
6634 | 1-2 days |
123547 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6634 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: 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 |
36400 | MEDIUM 45 - for Columbia agar with sheep blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml) | |
123547 | CIP Medium 45 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6634 | positive | growth | 30 | mesophilic |
36400 | positive | growth | 30 | mesophilic |
56924 | positive | growth | 30-37 | mesophilic |
123547 | positive | growth | 10-37 | |
123547 | no | growth | 41 | thermophilic |
123547 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
56924 | aerobe |
123547 | obligate aerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123547 | NaCl | positive | growth | 0-2 % |
123547 | NaCl | no | growth | 4 % |
123547 | NaCl | no | growth | 6 % |
123547 | NaCl | no | growth | 8 % |
123547 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | + | assimilation |
68369 | 24265 | gluconate | + | assimilation |
68369 | 17306 | maltose | + | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | - | assimilation |
68369 | 16024 | D-mannose | + | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | - | assimilation |
68369 | 5291 | gelatin | + | hydrolysis |
68369 | 4853 | esculin | + | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
123547 | 4853 | esculin | + | hydrolysis |
123547 | 17632 | nitrate | - | reduction |
123547 | 16301 | nitrite | - | reduction |
123547 | 17632 | nitrate | - | 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
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | no |
123547 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test | voges-proskauer-test | methylred-test |
---|---|---|---|---|---|
68369 | 35581 | indole | - | ||
123547 | 15688 | acetoin | - | ||
123547 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
6634 | catalase | + | 1.11.1.6 |
6634 | cytochrome-c oxidase | - | 1.9.3.1 |
68369 | gelatinase | + | |
68369 | beta-glucosidase | + | 3.2.1.21 |
123547 | oxidase | - | |
123547 | beta-galactosidase | - | 3.2.1.23 |
123547 | alcohol dehydrogenase | - | 1.1.1.1 |
123547 | gelatinase | + | |
123547 | amylase | + | |
123547 | DNase | + | |
123547 | caseinase | + | 3.4.21.50 |
123547 | catalase | + | 1.11.1.6 |
123547 | tween esterase | - | |
123547 | gamma-glutamyltransferase | - | 2.3.2.2 |
123547 | lecithinase | - | |
123547 | lipase | - | |
123547 | lysine decarboxylase | - | 4.1.1.18 |
123547 | ornithine decarboxylase | - | 4.1.1.17 |
123547 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
123547 | protease | - | |
123547 | tryptophan deaminase | - | |
123547 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | - | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123547 | - | + | + | - | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
6634 | - | - | - | + | + | + | + | + | - | + | + | - | - | + | + | + | - | + | + | + | - |
6634 | - | - | - | - | - | + | + | - | - | + | + | - | - | + | + | + | - | + | + | - | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123547 | + | - | + | - | + | - | - | - | - | + | + | - | - | - | - | + | + | - | + | - | + | + | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | + | + | + | + | + | - | - | + | + | + | - | - | + | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | + | + | + | - | + | - | - | - | + | - | + | - | + | - | - | + | - | + | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date | isolation date |
---|---|---|---|---|---|---|---|
6634 | human blood | Marseille | France | FRA | Europe | ||
56924 | Human blood | Marseille | France | FRA | Europe | 1995 | |
123547 | Human, Blood | Marseille | France | FRA | Europe | 1995 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body Product | #Fluids | #Blood |
Safety information
risk assessment
@ref | pathogenicity human | biosafety level | biosafety level comment |
---|---|---|---|
6634 | yes, in single cases | 1 | Risk group (German classification) |
123547 | 1 | Risk 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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Massilia timonae CCUG 45783 | GCA_000315425 | scaffold | ncbi | 883126 |
66792 | Massilia timonae CCUG 45783 | 883126.3 | wgs | patric | 883126 |
66792 | Massilia timonae CCUG 45783 | 2531839286 | draft | img | 883126 |
GC content
- @ref: 6634
- GC-content: 64.6
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 88.228 | no |
flagellated | yes | 74.249 | no |
gram-positive | no | 98.415 | no |
anaerobic | no | 97.929 | no |
aerobic | yes | 87.277 | no |
halophile | no | 93.389 | no |
spore-forming | no | 92.85 | no |
thermophile | no | 99.096 | no |
glucose-util | yes | 68.71 | yes |
glucose-ferment | no | 91.534 | yes |
External links
@ref: 6634
culture collection no.: DSM 16850, CCUG 45783, CIP 105350
straininfo link
- @ref: 80556
- straininfo: 69234
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 12517847 | Characteristics 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 W | J Clin Microbiol | 10.1128/JCM.41.1.192-196.2003 | 2003 | Betaproteobacteria/chemistry/genetics/*isolation & purification, Fatty Acids/*analysis, Humans, RNA, Ribosomal, 16S/*analysis/genetics, Sequence Analysis, DNA | Pathogenicity |
Phylogeny | 19783608 | Massilia jejuensis sp. nov. and Naxibacter suwonensis sp. nov., isolated from air samples. | Weon HY, Yoo SH, Kim SJ, Kim YS, Anandham R, Kwon SW | Int J Syst Evol Microbiol | 10.1099/ijs.0.015479-0 | 2009 | *Air Microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Oxalobacteraceae/*classification/genetics/*isolation & purification/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
Phylogeny | 21441374 | Massilia oculi sp. nov., isolated from a human clinical specimen. | Kampfer P, Lodders N, Martin K, Falsen E | Int J Syst Evol Microbiol | 10.1099/ijs.0.032441-0 | 2011 | Bacterial 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/analysis | Pathogenicity |
Phylogeny | 32559833 | Massilia 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 G | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004056 | 2020 | Bacterial 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/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6634 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16850) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16850 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
36400 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17360 | ||||
56924 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 45783) | https://www.ccug.se/strain?id=45783 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
68369 | Automatically annotated from API 20NE | |||||
68382 | Automatically annotated from API zym | |||||
80556 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID69234.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123547 | Curators of the CIP | Collection of Institut Pasteur (CIP 105350) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105350 |