Strain identifier
BacDive ID: 11329
Type strain:
Species: Massilia aurea
Strain Designation: AP13
Strain history: CIP <- 2006, CECT <- A. Ventosa: strain AP13
NCBI tax ID(s): 373040 (species)
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
@ref | history |
---|---|
7274 | <- A. Ventosa; AP13 <- V. Gallego |
67770 | A. Ventosa AP13. |
116568 | CIP <- 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
@ref | name | growth | link | composition |
---|---|---|---|---|
7274 | 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 |
37541 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
116568 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7274 | positive | growth | 28 | mesophilic |
37541 | positive | growth | 25 | mesophilic |
60401 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
60401 | aerobe |
116568 | facultative anaerobe |
observation
- @ref: 67770
- observation: quinones: Q-8
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | - | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | maltose | - | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | - | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | - | builds acid from | 16024 |
68371 | D-fructose | - | builds acid from | 15824 |
68371 | D-glucose | - | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
68369 | decanoate | - | assimilation | 27689 |
68369 | gluconate | - | assimilation | 24265 |
68369 | maltose | + | assimilation | 17306 |
68369 | D-mannitol | - | assimilation | 16899 |
68369 | D-mannose | + | assimilation | 16024 |
68369 | L-arabinose | - | assimilation | 30849 |
68369 | esculin | + | hydrolysis | 4853 |
68369 | urea | - | hydrolysis | 16199 |
68369 | arginine | - | hydrolysis | 29016 |
68369 | D-glucose | - | fermentation | 17634 |
68369 | tryptophan | - | energy source | 27897 |
116568 | nitrate | - | reduction | 17632 |
116568 | nitrite | - | reduction | 16301 |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | no |
116568 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
7274 | catalase | + | 1.11.1.6 |
7274 | cytochrome-c oxidase | + | 1.9.3.1 |
68369 | cytochrome oxidase | + | 1.9.3.1 |
68369 | beta-glucosidase | + | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
116568 | oxidase | - | |
116568 | catalase | + | 1.11.1.6 |
116568 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116568 | - | + | + | + | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7274 | - | - | - | - | - | + | + | + | - | - | + | - | + | + | - | - | + | + | + | + | + |
7274 | + | - | - | - | - | + | + | + | +/- | - | + | - | + | + | - | - | + | + | + | - | + |
7274 | - | - | - | - | - | + | +/- | +/- | +/- | - | + | - | +/- | + | - | - | +/- | +/- | - | - | + |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116568 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
7274 | drinking water | Seville | Spain | ESP | Europe | |
60401 | Water,drinking | Sevilla | Spain | ESP | Europe | 2003-04-01 |
67770 | Drinking water | |||||
116568 | Environment, Drinking water | Sevilla | Spain | ESP | Europe |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Freshwater
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7274 | 1 | Risk group (German classification) |
116568 | 1 | Risk 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
@ref | GC-content | method |
---|---|---|
7274 | 66 | |
67770 | 66 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 84.732 | no |
flagellated | yes | 71.548 | no |
gram-positive | no | 98.515 | no |
anaerobic | no | 98.771 | yes |
aerobic | yes | 90.336 | yes |
halophile | no | 88.301 | no |
spore-forming | no | 92.785 | no |
glucose-ferment | no | 88.848 | yes |
thermophile | no | 99.179 | no |
glucose-util | yes | 78.096 | no |
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
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17012578 | Massilia aurea sp. nov., isolated from drinking water. | Gallego V, Sanchez-Porro C, Garcia MT, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijs.0.64389-0 | 2006 | Bacterial 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 Supply | Genetics |
Phylogeny | 18450722 | Massilia brevitalea sp. nov., a novel betaproteobacterium isolated from lysimeter soil. | Zul D, Wanner G, Overmann J | Int J Syst Evol Microbiol | 10.1099/ijs.0.65473-0 | 2008 | Bacterial 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, *Water | Genetics |
Phylogeny | 18523189 | Massilia aerilata sp. nov., isolated from an air sample. | Weon HY, Kim BY, Son JA, Jang HB, Hong SK, Go SJ, Kwon SW | Int J Syst Evol Microbiol | 10.1099/ijs.0.65419-0 | 2008 | *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 Specificity | Genetics |
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 |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
7274 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18055) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18055 | |
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 | |
37541 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7129 | ||
60401 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 54941) | https://www.ccug.se/strain?id=54941 | |
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) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
68369 | Automatically annotated from API 20NE | |||
68371 | Automatically annotated from API 50CH acid | |||
68382 | Automatically annotated from API zym | |||
80562 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID297233.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
116568 | Curators of the CIP | Collection of Institut Pasteur (CIP 109392) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109392 |