Strain identifier

BacDive ID: 270

Type strain: Yes

Species: Aeromonas hydrophila subsp. ranae

Strain Designation: Au-1D12

Strain history: CIP <- 2003, CCUG <- 2002, D. Janssens, LMG, Gent, Belgium <- G. Huys, Gent, Belgium: strain Au-1D12

NCBI tax ID(s): 208958 (subspecies)

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General

@ref: 6979

BacDive-ID: 270

DSM-Number: 17695

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

description: Aeromonas hydrophila subsp. ranae Au-1D12 is an aerobe, mesophilic, motile animal pathogen that was isolated from liver of farmed frog Rana rugulosa with septicaemia.

NCBI tax id

  • NCBI tax id: 208958
  • Matching level: subspecies

strain history

@refhistory
6979<- CCUG <- LMG <- G. Huys; Au-1D12
120006CIP <- 2003, CCUG <- 2002, D. Janssens, LMG, Gent, Belgium <- G. Huys, Gent, Belgium: strain Au-1D12

doi: 10.13145/bacdive270.20230509.8.1

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 hydrophila subsp. ranae
  • full scientific name: Aeromonas hydrophila subsp. ranae Huys et al. 2003

@ref: 6979

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Aeromonas

species: Aeromonas hydrophila subsp. ranae

full scientific name: Aeromonas hydrophila subsp. ranae Huys et al. 2003

strain designation: Au-1D12

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes99.249
6948099.995negative
120006yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6979TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
40482MEDIUM 328- for nutrient agaryesDistilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
120006CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328

culture temp

@refgrowthtypetemperaturerange
6979positivegrowth28mesophilic
40482positivegrowth30mesophilic
57111positivegrowth30-37mesophilic
120006positivegrowth10-37
120006nogrowth5psychrophilic
120006nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6979aerobe
57111aerobe
120006facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.926

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
68368ornithine-degradation18257
68368arginine+hydrolysis29016
120006mannitol+fermentation29864
120006citrate-carbon source16947
120006esculin+hydrolysis4853
120006glucose+fermentation17234
120006lactose-fermentation17716
120006nitrate+reduction17632
120006nitrite-reduction16301
120006malonate-assimilation15792
120006sodium thiosulfate-builds gas from132112

antibiotic resistance

  • @ref: 120006
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno
12000635581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole+
12000615688acetoin-
12000617234glucose+

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
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23
120006oxidase+
120006beta-galactosidase+3.2.1.23
120006alcohol dehydrogenase+1.1.1.1
120006gelatinase+
120006amylase+
120006DNase+
120006caseinase+3.4.21.50
120006catalase+1.11.1.6
120006tween esterase+
120006lecithinase+
120006lipase+
120006lysine decarboxylase+4.1.1.18
120006ornithine decarboxylase-4.1.1.17
120006phenylalanine ammonia-lyase+4.3.1.24
120006protease+
120006tryptophan deaminase-
120006urease-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
120006-+++++----++-+-+-+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
6979+++/--+---+-+++-------+
6979+++-----+-+++-------+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120006+---+----++++----+---+-++--+---+---++---------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120006+++++----++-------++-----------+-+---------------+---------++--------------++--++-+---+--+++-++----

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentgeographic location
6979liver of farmed frog Rana rugulosa with septicaemiaRana rugulosaThailandTHAAsia
57111Frog,liver of farmed Rana rugulosa,septicaemiaThailandTHAAsiaKamphaeng Phet
120006Animal, FrogThailandTHAAsia

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host#Amphibia
#Host Body-Site#Organ#Liver

taxonmaps

  • @ref: 69479
  • File name: preview.99_49.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_11;96_15;97_15;98_18;99_49&stattab=map
  • Last taxonomy: Aeromonas
  • 16S sequence: AM262151
  • Sequence Identity:
  • Total samples: 5774
  • soil counts: 541
  • aquatic counts: 3538
  • animal counts: 1487
  • plant counts: 208

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
6979yes2Risk group (German classification)
1200061Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aeromonas hydrophila subsp. ranae partial 16S rRNA gene, type strain CIP 107985TAM2621511350ena208958
20218Aeromonas hydrophila subsp. ranae strain CIP 107985 16S ribosomal RNA gene, partial sequenceJX014440151ena208958
6979Aeromonas hydrophila subsp. ranae 16S rRNA gene, type strain LMG 19707TAJ5087661497ena208958

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromonas hydrophila subsp. ranae CIP 107985GCA_000820325scaffoldncbi208958
66792Aeromonas hydrophila subsp. ranae CIP 107985208958.3wgspatric208958
66792Aeromonas hydrophila ranae CIP 1079852645728022draftimg208958

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.961no
flagellatedyes92.012no
gram-positiveno98.82no
anaerobicno97.098no
aerobicyes85.253no
halophileno90.515no
spore-formingno95.54no
glucose-utilyes90.751no
thermophileno99.401no
glucose-fermentyes86.973no

External links

@ref: 6979

culture collection no.: DSM 17695, CCM 7147, CCUG 46211, CIP 107985, LMG 19707

straininfo link

  • @ref: 69952
  • straininfo: 13454

literature

  • topic: Phylogeny
  • Pubmed-ID: 12807217
  • title: Aeromonas hydrophila subsp. ranae subsp. nov., isolated from septicaemic farmed frogs in Thailand.
  • authors: Huys G, Pearson M, Kampfer P, Denys R, Cnockaert M, Inglis V, Swings J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02357-0
  • year: 2003
  • mesh: Aeromonas hydrophila/*classification/*genetics/isolation & purification, Animals, *Aquaculture, Bacteremia/*microbiology, Bacterial Typing Techniques, DNA, Ribosomal/analysis, Gram-Negative Bacterial Infections/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Polymerase Chain Reaction/methods, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, *Ranidae, Sequence Analysis, DNA, Thailand
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6979Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17695)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17695
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
40482Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5556
57111Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 46211)https://www.ccug.se/strain?id=46211
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
69952Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13454.1StrainInfo: A central database for resolving microbial strain identifiers
120006Curators of the CIPCollection of Institut Pasteur (CIP 107985)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107985