Strain identifier

BacDive ID: 533

Type strain: Yes

Species: Aureimonas ureilytica

Strain Designation: 5715S-12

Strain history: CIP <- 2008, DSMZ <- S.W. Kwon, KACC, Suwon, Korea: strain 5715S-12

NCBI tax ID(s): 1121028 (strain), 401562 (species)

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General

@ref: 7601

BacDive-ID: 533

DSM-Number: 18598

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

description: Aureimonas ureilytica 5715S-12 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from air sample.

NCBI tax id

NCBI tax idMatching level
1121028strain
401562species

strain history

@refhistory
7601<- S.-W. Kwon; 5715S-12
123742CIP <- 2008, DSMZ <- S.W. Kwon, KACC, Suwon, Korea: strain 5715S-12

doi: 10.13145/bacdive533.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Aurantimonadaceae
  • genus: Aureimonas
  • species: Aureimonas ureilytica
  • full scientific name: Aureimonas ureilytica (Weon et al. 2007) Rathsack et al. 2011

  • synonyms

    • @ref: 20215
    • synonym: Aurantimonas ureilytica

@ref: 7601

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Aurantimonadaceae

genus: Aureimonas

species: Aureimonas ureilytica

full scientific name: Aureimonas ureilytica (Weon et al. 2007) Rathsack et al. 2011

strain designation: 5715S-12

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
23135negative1.0-1.5 µm0.4-1.3 µmrod-shapedyes
69480negative99.962
123742negativeoval-shapedno

colony morphology

  • @ref: 23135
  • incubation period: 5 days
  • medium used: R2A medium

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7601R2A 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
23135R2A mediumyes
37853MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123742CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
123742CIP Medium 372yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=372

culture temp

@refgrowthtypetemperaturerange
7601positivegrowth28mesophilic
23135positivemaximum37mesophilic
23135positiveminimum4psychrophilic
23135positiveoptimum25-30mesophilic
37853positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
23135positiveminimum4.0acidophile
23135positivemaximum9.0alkaliphile
23135positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23135anaerobe
123742obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

halophily

@refsaltgrowthtested relationconcentration
23135NaClpositiveoptimum0-3 %
23135NaClnogrowth10 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23357645522-hydroxybutyrate-carbon source
23357167632-oxobutanoate-carbon source
23357286442-oxopentanoate-carbon source
2335716865gamma-aminobutyric acid-carbon source
23357167244-hydroxybutyrate-carbon source
2335740585alpha-cyclodextrin-carbon source
2335715570D-alanine-carbon source
2335730612D-glucarate-carbon source
2335717784D-glucosaminic acid-carbon source
2335717126DL-carnitine-carbon source
2335728066gentiobiose-carbon source
2335732323glucuronamide-carbon source
2335717754glycerol-carbon source
2335715978glycerol 3-phosphate-carbon source
2335728087glycogen-carbon source
2335773804glycyl L-aspartic acid-carbon source
2335717240itaconate-carbon source
2335721217L-alaninamide-carbon source
2335716977L-alanine-carbon source
2335729985L-glutamate-carbon source
2335715971L-histidine-carbon source
2335715603L-leucine-carbon source
2335715729L-ornithine-carbon source
2335717115L-serine-carbon source
2335716857L-threonine-carbon source
2335724996lactate-carbon source
2335728053melibiose-carbon source
23357320061methyl alpha-D-glucopyranoside-carbon source
2335775146monomethyl succinate-carbon source
2335728037N-acetylgalactosamine-carbon source
2335717272propionate-carbon source
2335717148putrescine-carbon source
2335715361pyruvate-carbon source
2335716634raffinose-carbon source
23357143136succinamate-carbon source
2335730031succinate-carbon source
2335717748thymidine-carbon source
2335732528turanose-carbon source
2335753423tween 40-carbon source
2335727248urocanic acid-carbon source
2313527897tryptophan-energy source
23135casein-hydrolysis
2313562968cellulose-hydrolysis
2313517029chitin-hydrolysis
2313516991dna-hydrolysis
231354853esculin-hydrolysis
231355291gelatin-hydrolysis
2313517309pectin-hydrolysis
2313518186tyrosine-hydrolysis
2313517632nitrate-reduction
2335717057cellobiose+carbon source
2313528017starch+hydrolysis
2313553426tween 80+hydrolysis
2313516199urea+hydrolysis
2335717521(-)-quinic acid+/-carbon source
23357370543-hydroxybutyrate+/-carbon source
23357167244-hydroxybutyrate+/-carbon source
2335730089acetate+/-carbon source
2335715963ribitol+/-carbon source
2335736219alpha-lactose+/-carbon source
2335773706bromosuccinate+/-carbon source
2335718333D-arabitol+/-carbon source
2335715824D-fructose+/-carbon source
2335715895D-galactonic acid lactone+/-carbon source
2335712936D-galactose+/-carbon source
233578391D-gluconate+/-carbon source
2335716899D-mannitol+/-carbon source
2335716024D-mannose+/-carbon source
2335717924D-sorbitol+/-carbon source
2335723652dextrin+/-carbon source
2335717113erythritol+/-carbon source
2335715740formate+/-carbon source
2335724741hydroxyproline+/-carbon source
2335717268myo-inositol+/-carbon source
2335773786L-alanylglycine+/-carbon source
2335730849L-arabinose+/-carbon source
2335717196L-asparagine+/-carbon source
2335729991L-aspartate+/-carbon source
2335718287L-fucose+/-carbon source
2335717203L-proline+/-carbon source
2335718183L-pyroglutamic acid+/-carbon source
2335762345L-rhamnose+/-carbon source
2335717306maltose+/-carbon source
2335773784glycyl-l-glutamate+/-carbon source
2335733951psicose+/-carbon source
2335730031succinate+/-carbon source
2335717992sucrose+/-carbon source
2335716704uridine+/-carbon source
2335717151xylitol+/-carbon source
12374217632nitrate-reduction
12374216301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
2313535581indoleno
12374235581indoleno

metabolite tests

  • @ref: 23135
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
23135arginine dihydrolase-3.5.3.6
23135catalase+1.11.1.6
23135cytochrome oxidase+1.9.3.1
23135tryptophan deaminase-4.1.99.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
123742oxidase+
123742catalase+1.11.1.6
123742urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123742-+++-+--+-++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7601air sampleSuwonRepublic of KoreaKORAsia
123742Environment, Air sampleSuwonRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Air

taxonmaps

  • @ref: 69479
  • File name: preview.99_3009.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1582;97_1888;98_2318;99_3009&stattab=map
  • Last taxonomy: Aureimonas ureilytica subclade
  • 16S sequence: DQ883810
  • Sequence Identity:
  • Total samples: 5284
  • soil counts: 984
  • aquatic counts: 526
  • animal counts: 2300
  • plant counts: 1474

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
76011Risk group (German classification)
1237421Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7601
  • description: Aurantimonas ureilytica strain 5715S-12 16S ribosomal RNA gene, partial sequence
  • accession: DQ883810
  • length: 1360
  • database: ena
  • NCBI tax ID: 1121028

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aureimonas ureilytica DSM 18598 = NBRC 106430GCA_001463945contigncbi1121028
66792Aureimonas ureilytica DSM 18598 = NBRC 106430GCA_000382705contigncbi1121028
66792Aureimonas ureilytica DSM 185981121028.3wgspatric1121028
66792Aureimonas ureilytica DSM 18598 = NBRC 1064301121028.4wgspatric1121028
66792Aureimonas ureilytica DSM 185982834202456draftimg1121028
66792Aureimonas ureilytica DSM 185982515154138draftimg1121028

GC content

  • @ref: 23135
  • GC-content: 67.0
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes77.2no
flagellatedno76.834no
gram-positiveno97.46yes
anaerobicno96.353yes
aerobicyes91.38no
halophileno88.299no
spore-formingno93.83no
thermophileno99.178no
glucose-utilyes91.797no
glucose-fermentno88.187no

External links

@ref: 7601

culture collection no.: DSM 18598, CIP 109815, KACC 11607

straininfo link

  • @ref: 70211
  • straininfo: 309430

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17684243Aurantimonas ureilytica sp. nov., isolated from an air sample.Weon HY, Kim BY, Yoo SH, Joa JH, Lee KH, Zhang YS, Kwon SW, Koo BSInt J Syst Evol Microbiol10.1099/ijs.0.65035-02007*Air Microbiology, Alphaproteobacteria/chemistry/*classification/genetics/*isolation & purification, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny21186293Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and Fulvimarina.Rathsack K, Reitner J, Stackebrandt E, Tindall BJInt J Syst Evol Microbiol10.1099/ijs.0.027029-02010Alphaproteobacteria/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny22922534Aureimonas jatrophae sp. nov. and Aureimonas phyllosphaerae sp. nov., leaf-associated bacteria isolated from Jatropha curcas L.Madhaiyan M, Hu CJ, Jegan Roy J, Kim SJ, Weon HY, Kwon SW, Ji LInt J Syst Evol Microbiol10.1099/ijs.0.041020-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification/ultrastructure, Jatropha/*microbiology, Microscopy, Electron, Transmission, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Singapore, Ubiquinone/analysisGenetics
Phylogeny23203620Aureimonas ferruginea sp. nov. and Aureimonas rubiginis sp. nov., two siderophore-producing bacteria isolated from rusty iron plates.Lin SY, Hameed A, Liu YC, Hsu YH, Lai WA, Shen FT, Young LS, Tsai CF, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.047431-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, *Iron, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Siderophores, Ubiquinone/analogs & derivatives/analysisGenetics
Genetics25354565Genomic characterization of a temperate phage of the psychrotolerant deep-sea bacterium Aurantimonas sp.Yoshida M, Yoshida-Takashima Y, Nunoura T, Takai KExtremophiles10.1007/s00792-014-0702-52014Bacteriophages/*genetics/physiology, Genes, Viral, Genome, Viral, Genomics, Microscopy, Electron, Transmission, *Phylogeny, Prophages, Rhizobium/*virology, Seawater/*microbiology, Temperature, Water MicrobiologyPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7601Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18598)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18598
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
23135Hang-Yeon Weon, Byung-Yong Kim, Seung-Hee Yoo, Jae-Ho Joa, Ki Hwan Lee, Yong-Seon Zhang, Soon-Wo Kwon, Bon-Sung Koo10.1099/ijs.0.65035-0Aurantimonas ureilytica sp. nov., isolated from an air sampleIJSEM 57: 1717-1720 200717684243
23357K. Rathsack, J. Reitner, E. Stackebrandt, B. J. Tindall10.1099/ijs.0.027029-0Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and FulvimarinaIJSEM 61: 2722-2728 201121186293
37853Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7600
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
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
70211Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID309430.1StrainInfo: A central database for resolving microbial strain identifiers
123742Curators of the CIPCollection of Institut Pasteur (CIP 109815)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109815