Strain identifier

BacDive ID: 269

Type strain: Yes

Species: Aeromonas dhakensis

Strain Designation: P21

Strain history: CIP <- 2002, CCUG <- 2001, C.Vereecke & D. Janssens, LMG, Ghent, Belgium <- G. Huys, Ghent, Belgium <- I. Kühn, Stockhlom, Sweden

NCBI tax ID(s): 196024 (species)

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General

@ref: 7130

BacDive-ID: 269

DSM-Number: 17689

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Aeromonas dhakensis P21 is an aerobe, mesophilic, motile bacterium that was isolated from faeces of child with diarrhoea.

NCBI tax id

  • NCBI tax id: 196024
  • Matching level: species

strain history

@refhistory
7130<- CCUG; CCUG 45377 <- LMG; LMG 19562 <- G. Huys; <- I. Kühn; P21
120005CIP <- 2002, CCUG <- 2001, C.Vereecke & D. Janssens, LMG, Ghent, Belgium <- G. Huys, Ghent, Belgium <- I. Kühn, Stockhlom, Sweden

doi: 10.13145/bacdive269.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Aeromonadales
  • family: Aeromonadaceae
  • genus: Aeromonas
  • species: Aeromonas dhakensis
  • full scientific name: Aeromonas dhakensis (Huys et al. 2002) Beaz-Hidalgo et al. 2015

  • synonyms

    @refsynonym
    20215Aeromonas dhakensis
    20215Aeromonas aquariorum
    20215Aeromonas hydrophila subsp. dhakensis

@ref: 7130

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Aeromonas

species: Aeromonas dhakensis

full scientific name: Aeromonas dhakensis (Huys et al. 2002) Beaz-Hidalgo et al. 2015

strain designation: P21

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.773
6948099.989negative
120005yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7130TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
7130COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf
33807MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120005CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7130positivegrowth30mesophilic
33807positivegrowth30mesophilic
56751positivegrowth28-37mesophilic
120005positivegrowth30-41
120005nogrowth5psychrophilic
120005nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
56751aerobe
120005facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.757

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
68368L-arabinose-fermentation30849
68368amygdalin+fermentation27613
68368melibiose-fermentation28053
68368sucrose+fermentation17992
68368L-rhamnose-fermentation62345
68368sorbitol-fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol+fermentation16899
68368D-glucose+fermentation17634
68368gelatin+hydrolysis5291
68368tryptophan+energy source27897
68368urea-hydrolysis16199
68368citrate-assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine+hydrolysis29016
120005mannitol+fermentation29864
120005citrate+carbon source16947
120005glucose+fermentation17234
120005lactose-fermentation17716
120005nitrate+reduction17632
120005nitrite+reduction16301
120005malonate-assimilation15792
120005sodium thiosulfate-builds gas from132112
120005glucose+degradation17234

antibiotic resistance

  • @ref: 120005
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleyes
6836816136hydrogen sulfideno
12000535581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole+
12000515688acetoin+
12000517234glucose-

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
68368cytochrome oxidase+1.9.3.1
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23
120005oxidase+
120005beta-galactosidase+3.2.1.23
120005alcohol dehydrogenase+1.1.1.1
120005gelatinase+
120005amylase+
120005DNase+
120005caseinase+3.4.21.50
120005catalase+1.11.1.6
120005tween esterase+
120005lecithinase+
120005lipase+
120005lysine decarboxylase+4.1.1.18
120005ornithine decarboxylase-4.1.1.17
120005phenylalanine ammonia-lyase+4.3.1.24
120005protease+
120005tryptophan deaminase-
120005urease-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
120005-++++++-+-++-+-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
7130++------+++++---+-+-+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120005+---+----++++----+--++-+++-+--++---++---------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120005+++++--+-++--+---+++--+--------+-+-------+-------+---+-----++-----------+--++--++-+---+--++++++--+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
7130faeces of child with diarrhoeaDhakaBangladeshBGDAsia23.710490.4074
56751Human feces,child with diarrheaBangladeshBGDAsia
120005Human, FecesBangladeshBGDAsia

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host Body Product#Gastrointestinal tract#Feces (Stool)
#Host#Human#Child

taxonmaps

  • @ref: 69479
  • File name: preview.99_19.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_11;96_15;97_15;98_18;99_19&stattab=map
  • Last taxonomy: Aeromonas
  • 16S sequence: AM262157
  • Sequence Identity:
  • Total samples: 1087
  • soil counts: 45
  • aquatic counts: 400
  • animal counts: 595
  • plant counts: 47

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
71302Risk group (German classification)
1200051Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aeromonas hydrophila subsp. dhakensis partial 16S rRNA gene, type strain CIP 107500TAM2621571350ena196024
7130Aeromonas hydrophila subsp. dhakensis 16S rRNA gene, type strain LMG 19562TAJ5087651498ena196024

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromonas dhakensis CIP 107500GCA_000820305scaffoldncbi196024
66792Aeromonas dhakensis strain CIP 107500196024.6wgspatric196024
66792Aeromonas dhakensis CIP 1075002648501391draftimg196024

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.636no
flagellatedyes92.636no
gram-positiveno98.895no
anaerobicno97.162yes
aerobicyes83.622yes
halophileno90.604no
spore-formingno96.18no
glucose-utilyes89.657no
thermophileno99.232yes
glucose-fermentyes87.883no

External links

@ref: 7130

culture collection no.: DSM 17689, CCM 7146, CCUG 45377, CIP 107500, LMG 19562

straininfo link

  • @ref: 69951
  • straininfo: 13448

literature

  • topic: Phylogeny
  • Pubmed-ID: 24055254
  • title: AQU-1, a chromosomal class C beta-lactamase, among clinical Aeromonas dhakensis isolates: distribution and clinical significance.
  • authors: Wu CJ, Wang HC, Chen PL, Chang MC, Sunny Sun H, Chou PH, Ko WC
  • journal: Int J Antimicrob Agents
  • DOI: 10.1016/j.ijantimicag.2013.08.002
  • year: 2013
  • mesh: Aeromonas/*drug effects/*enzymology/genetics/isolation & purification, Cephalosporinase/genetics/*metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, Gram-Negative Bacterial Infections/*microbiology, Humans, Molecular Sequence Data, Open Reading Frames, Phylogeny, Polymerase Chain Reaction, Sequence Analysis, DNA, Sequence Homology
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7130Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17689)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17689
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
33807Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4942
56751Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45377)https://www.ccug.se/strain?id=45377
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)
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
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
69951Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13448.1StrainInfo: A central database for resolving microbial strain identifiers
120005Curators of the CIPCollection of Institut Pasteur (CIP 107500)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107500