Strain identifier

BacDive ID: 141147

Type strain: Yes

Species: Aurantimonas aggregata

Strain Designation: R14M6

Strain history: <- Anzhang Li, Guangdong institute of Microbiology

NCBI tax ID(s): 2047720 (species)

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General

@ref: 44068

BacDive-ID: 141147

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, halophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Aurantimonas aggregata R14M6 is an obligate aerobe, halophilic, Gram-negative bacterium that forms circular colonies and builds aggregate-forming.

NCBI tax id

  • NCBI tax id: 2047720
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Anzhang Li, Guangdong institute of Microbiology

doi: 10.13145/bacdive141147.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Aurantimonadaceae
  • genus: Aurantimonas
  • species: Aurantimonas aggregata
  • full scientific name: Aurantimonas aggregata Li et al. 2017

@ref: 44068

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Aurantimonadaceae

genus: Aurantimonas

species: Aurantimonas aggregata

strain designation: R14M6

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
44068negative1.1-1.5 µm0.7-1.0 µmrod-shapedyespolar
69480negative99.992

colony morphology

  • @ref: 44068
  • colony size: 1 mm
  • colony color: pale yellow
  • colony shape: circular
  • incubation period: 5-6 days
  • medium used: MA agar

multicellular morphology

  • @ref: 44068
  • forms multicellular complex: yes
  • complex name: aggregate-forming

Culture and growth conditions

culture medium

@refnamegrowthcomposition
44068216L mediumyessodium acetate 1g, NH4NO3 0,2g sodium citrate 0.5g, nutrient broh medium 0.5g, peptone 10g, yeast extract 2g, seawater 1L, pH7.5)
44068Marine agar (MA)yes

culture temp

@refgrowthtypetemperaturerange
44068positivegrowth4-36
44068positiveoptimum25-30mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepH
44068positivegrowth6.0-8.3
44068positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44068obligate aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.996

halophily

@refhalophily levelsaltgrowthtested relationconcentration
44068halophilicNaClpositivegrowth1-15 %(w/v)
44068NaClpositiveoptimum3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4406827689decanoate-assimilation
4406817306maltose-assimilation
4406818401phenylacetate-assimilation
4406853258sodium citrate-assimilation
4406827613amygdalin-builds acid from
4406829864mannitol-builds acid from
4406830911sorbitol-builds acid from
4406817992sucrose-builds acid from
44068casein-hydrolysis
4406862968cellulose-hydrolysis
440685291gelatin-hydrolysis
4406817895L-tyrosine-hydrolysis
4406828017starch-hydrolysis
4406853424tween 20-hydrolysis
4406853426tween 80-hydrolysis
4406837166xylan-hydrolysis
4406817632nitrate-reduction
4406817634D-glucose+assimilation
4406816899D-mannitol+assimilation
4406816024D-mannose+assimilation
4406830849L-arabinose+assimilation
4406825115malate+assimilation
4406832032potassium gluconate+assimilation
4406822599arabinose+builds acid from
4406817234glucose+builds acid from
4406817268myo-inositol+builds acid from
4406828053melibiose+builds acid from
4406826546rhamnose+builds acid from
440684853esculin+hydrolysis
4406830089acetate+respiration
4406813705acetoacetate+respiration
4406817925alpha-D-glucose+respiration
44068645522-hydroxybutyrate+respiration
4406873706bromosuccinate+respiration
4406817057cellobiose+respiration
4406812936D-galactose+respiration
4406818024D-galacturonic acid+respiration
440688391D-gluconate+respiration
4406815748D-glucuronate+respiration
4406815588D-malate+respiration
4406816899D-mannitol+respiration
4406816024D-mannose+respiration
4406817924D-sorbitol+respiration
4406815740formate+respiration
4406828066gentiobiose+respiration
4406817596inosine+respiration
4406829991L-aspartate+respiration
4406817464L-galactonic acid gamma-lactone+respiration
4406815971L-histidine+respiration
4406815589L-malate+respiration
4406818183L-pyroglutamic acid+respiration
4406817115L-serine+respiration
4406824996lactate+respiration
4406874611methyl (R)-lactate+respiration
4406851850methyl pyruvate+respiration
4406817268myo-inositol+respiration
4406817128adipate+/-assimilation
44068506227N-acetylglucosamine+/-assimilation
44068167632-oxobutanoate+/-respiration
44068309162-oxoglutarate+/-respiration
4406818333D-arabitol+/-respiration
4406815824D-fructose+/-respiration
4406816523D-serine+/-respiration
4406823652dextrin+/-respiration
4406832323glucuronamide+/-respiration
4406828037N-acetylgalactosamine+/-respiration
4406832528turanose+/-respiration
4406853423tween 40+/-respiration

metabolite production

@refChebi-IDmetaboliteproduction
4406816136hydrogen sulfideno
4406835581indoleno
4406815688acetoinyes

metabolite tests

  • @ref: 44068
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
44068cytochrome oxidase+1.9.3.1
44068catalase+1.11.1.6
44068alkaline phosphatase+3.1.3.1
44068esterase (C 4)+
44068esterase Lipase (C 8)+
44068leucine arylamidase+3.4.11.1
44068acid phosphatase+3.1.3.2
44068naphthol-AS-BI-phosphohydrolase+
44068valine arylamidase+/-
44068arginine dihydrolase+3.5.3.6
44068urease+3.5.1.5
44068beta-glucosidase+3.2.1.21
44068beta-galactosidase-3.2.1.23
44068lysine decarboxylase-4.1.1.18
44068ornithine decarboxylase-4.1.1.17
44068tryptophan deaminase-4.1.99.1
44068gelatinase-

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    44068C16:02
    44068C18:02.2
    44068C18:1ω7c90.2
    44068cyclo-C19:0ω8c3.7
  • type of FA analysis: whole cell analysis
  • incubation medium: MA2216
  • incubation temperature: 25
  • library/peak naming table: TSBA6.1
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
67771From marine sedimentRoss sea, AntarcticaAntarcticaATAAustralia and Oceania
44068deep-sea sedimentRoss SeaAntarcticaATAAustralia and Oceania-74.935164.805low-carbon agar plateglucose 6.9 mg, fructose 6.9 mg, galactose 6.9 mg, sodium acetate 9.5 mg, 90 % lactic acid 6.4 µl, yeast extract 10 mg, succinic acid hexahydrate 13.5 mg, mannitol 7 mg, 95 % ethanol 7 µl, glycerol 6.3 µl, sodium benzoate 4.8 mg, salicylic acid 4.6 mg, casein acid hydrolysate 76.5 mg, peptone 29.7 mg, morpholinopropanesulfonic acid 300 mg, NH4NO3 1 g, KH2 PO4 0.1 g, FeSO4 0.4 mg, agar 17 g, seawater 1 L, pH 7.525 days4routinely cultivated on MA2216 or MB2216 at 25 °C for 4-6 days

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Sequence information

16S sequences

  • @ref: 44068
  • description: 16S rRNA gene sequence
  • accession: KY984095
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aurantimonas aggregata KCTC 52919GCA_010500835scaffoldncbi2047720
66792Aurantimonas aggregata strain KCTC 529192047720.3wgspatric2047720
66792Aurantimonas aggregata KCTC 529192891025999draftimg2047720

GC content

  • @ref: 44068
  • GC-content: 67.4
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes82.35yes
flagellatedno61.828yes
gram-positiveno97.187no
anaerobicno98.796yes
aerobicyes93.481yes
halophileno52.646yes
spore-formingno96.068no
glucose-utilyes86.426no
thermophileno97.943no
glucose-fermentno91.794no

External links

@ref: 44068

culture collection no.: GDMCC 1.1202, KCTC 52919

literature

  • topic: Phylogeny
  • Pubmed-ID: 29034847
  • title: Aurantimonas aggregata sp. nov., isolated from deep-sea sediment.
  • authors: Li AZ, Lin LZ, Zhang MX, Zhu HH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002413
  • year: 2017
  • mesh: Alphaproteobacteria/*classification/genetics/isolation & purification, Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
44068An-Zhang Li, Long-Zhen Lin, Ming-Xia Zhang and Hong-Hui ZhuAurantimonas aggregata sp. nov., isolated from deep-sea sediment10.1099/ijsem.0.002413IJSEM 67: 5056-5061 201729034847
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1