Strain identifier

BacDive ID: 34

Type strain: Yes

Species: Asaia siamensis

Strain Designation: S60-1

Strain history: CIP <- 2001, IFO <- NRIC <- Y. Yamada

NCBI tax ID(s): 1307927 (strain), 110479 (species)

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General

@ref: 6211

BacDive-ID: 34

DSM-Number: 15972

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

description: Asaia siamensis S60-1 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from Flower of crown flower .

NCBI tax id

NCBI tax idMatching level
1307927strain
110479species

strain history

@refhistory
6211<- JCM/RIKEN <- Y. Yamada, Dept. Applied Biology and Chemistry, Tokyo Univ. Agriculture, Setagaya-ku, Japan; S60-1
67770Y. Yamada S60-1.
122593CIP <- 2001, IFO <- NRIC <- Y. Yamada

doi: 10.13145/bacdive34.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Asaia
  • species: Asaia siamensis
  • full scientific name: Asaia siamensis Katsura et al. 2001

@ref: 6211

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Acetobacteraceae

genus: Asaia

species: Asaia siamensis

full scientific name: Asaia siamensis Katsura et al. 2001

strain designation: S60-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23240negative1.0-4.5 µm0.6-1.0 µmrod-shapedyesperitrichous
69480yes92.209
69480negative99.995
122593negativerod-shapedyes

colony morphology

  • @ref: 23240
  • colony color: pink
  • medium used: AG agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6211GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105)yeshttps://mediadive.dsmz.de/medium/105Name: GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105; with strain-specific modifications) Composition: Glucose 100.0 g/l CaCO3 30.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l Distilled water
23240AG agaryes0.1% D-Glucose, 1.5% Glycerol, 0.5% Peptone, 0.5%, Yeast Extract, 0.2% Malt Extract, 0.7% CaCO3 and 1.5% agar (w/v)
33731MEDIUM 314 - for Gluconacetobacter xylinus subsp. sucrofermentansyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (100.000 g);Yeast extract (10.000 g);Calcium carbonate (30.000 g)
122593CIP Medium 314yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=314

culture temp

@refgrowthtypetemperaturerange
6211positivegrowth30mesophilic
23240positivegrowth30mesophilic
33731positivegrowth30mesophilic
67770positivegrowth30mesophilic
122593positivegrowth22-37
122593nogrowth10psychrophilic
122593nogrowth41thermophilic
122593nogrowth45thermophilic

culture pH

@refabilitytypepHPH range
23240positivegrowth3acidophile
23240positivegrowth3.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23240obligate aerobe
122593obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
122593NaClpositivegrowth0 %
122593NaClnogrowth2 %
122593NaClnogrowth4 %
122593NaClnogrowth6 %
122593NaClnogrowth8 %
122593NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2324016813galactitol-builds acid from
2324017716lactose-builds acid from
2324017790methanol-growth
2324018333D-arabitol+builds acid from
2324015824D-fructose+builds acid from
2324017634D-glucose+builds acid from
2324016899D-mannitol+builds acid from
2324016024D-mannose+builds acid from
2324016988D-ribose+builds acid from
2324017924D-sorbitol+builds acid from
2324065327D-xylose+builds acid from
2324017113erythritol+builds acid from
2324017754glycerol+builds acid from
2324030849L-arabinose+builds acid from
2324017266L-sorbose+builds acid from
2324028053melibiose+builds acid from
2324017268myo-inositol+builds acid from
2324015963ribitol+builds acid from
2324017992sucrose+builds acid from
2324017151xylitol+builds acid from
2324017234glucose+carbon source
2324029864mannitol+carbon source
2324016813galactitol+growth
2324062946ammonium sulfate+nitrogen source
2324030089acetate+oxidation
2324024996lactate+oxidation
2324016236ethanol+/-builds acid from
122593606565hippurate-hydrolysis
12259317632nitrate-reduction
12259316301nitrite-reduction

antibiotic resistance

  • @ref: 122593
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
23240114492,5-didehydro-D-gluconateno
2324016016dihydroxyacetoneyes
23240174265-dehydro-D-gluconateyes
23240168082-dehydro-D-gluconateyes
12259335581indoleno

enzymes

@refvalueactivityec
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
122593oxidase-
122593beta-galactosidase-3.2.1.23
122593gelatinase-
122593catalase+1.11.1.6
122593gamma-glutamyltransferase+2.3.2.2
122593urease-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
122593-++-------++----+---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122593+++-++--------------++----+++-++++--++--+---------------+---+--------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
23240Flower of crown flower (Calotropis gigantea)BangkokThailandTHAAsia
6211Flower of crown flower Calotropis giganteaBangkokThailandTHAAsia
67770Flower of crown flower (dok rak, Calotropis gigantea)BangkokThailandTHAAsia
122593Crown flower, Calotropis giganteaBangkokThailandTHAAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Shrub (Scrub)
#Host Body-Site#Plant#Flower

taxonmaps

  • @ref: 69479
  • File name: preview.99_4348.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_661;97_765;98_3270;99_4348&stattab=map
  • Last taxonomy: Asaia
  • 16S sequence: AB035416
  • Sequence Identity:
  • Total samples: 21825
  • soil counts: 6137
  • aquatic counts: 4167
  • animal counts: 6615
  • plant counts: 4906

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
62111Risk group (German classification)
1225931Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6211
  • description: Asaia siamensis gene for 16S rRNA, partial sequence
  • accession: AB035416
  • length: 1411
  • database: ena
  • NCBI tax ID: 110479

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Asaia siamensis CCM 7132GCA_014635085scaffoldncbi110479
66792Asaia siamensis strain CCM 7132110479.3wgspatric110479

GC content

@refGC-contentmethod
621159.3high performance liquid chromatography (HPLC)
2324059.30high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno70.589yes
gram-positiveno96.996yes
anaerobicno99.15yes
aerobicyes90.535yes
halophileno94.448no
spore-formingno93.846no
thermophileno97.323yes
glucose-utilyes93.7yes
motileyes74.807no
glucose-fermentno86.928no

External links

@ref: 6211

culture collection no.: DSM 15972, CCM 7132, IFO (now NBRC) 16457, JCM 10715, KCTC 12914, MTCC 4042, NRIC 0323, IFO 16457, NBRC 16457, CIP 107278

straininfo link

  • @ref: 69719
  • straininfo: 100513

literature

  • topic: Phylogeny
  • Pubmed-ID: 11321102
  • title: Asaia siamensis sp. nov., an acetic acid bacterium in the alpha-proteobacteria.
  • authors: Katsura K, Kawasaki H, Potacharoen W, Saono S, Seki T, Yamada Y, Uchimura T, Komagata K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-2-559
  • year: 2001
  • mesh: Acetobacteraceae/*classification, Alphaproteobacteria/*classification, Bacterial Typing Techniques, Base Composition, Environmental Microbiology, Indonesia, Molecular Sequence Data, Plant Shoots/microbiology, RNA, Ribosomal, 16S/*genetics, Terminology as Topic, Thailand, Ubiquinone/analysis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6211Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15972)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15972
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
23240K Katsura, H Kawasaki, W Potacharoen, S Saono, T Seki, Y Yamada, T Uchimura, K Komagata10.1099/00207713-51-2-559Asaia siamensis sp. nov., an acetic acid bacterium in the alpha-proteobacteria.IJSEM 51: 559-563 200111321102
33731Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4696
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
69719Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100513.1StrainInfo: A central database for resolving microbial strain identifiers
122593Curators of the CIPCollection of Institut Pasteur (CIP 107278)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107278