Strain identifier

BacDive ID: 261

Type strain: Yes

Species: Aeromonas simiae

Strain history: CIP <- 2003, P. Riegel, Louis Pasteur Univ., Strasbourg, France: strain IBS S6874

NCBI tax ID(s): 218936 (species)

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General

@ref: 6510

BacDive-ID: 261

DSM-Number: 16559

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

description: Aeromonas simiae DSM 16559 is a facultative anaerobe, chemoorganotroph, mesophilic bacterium that was isolated from faeces of Macaca fascicularis .

NCBI tax id

  • NCBI tax id: 218936
  • Matching level: species

strain history

@refhistory
6510<- C. Harf-Monteil
407192003, P. Riegel, ULP, Strasbourg, France: strain IBS S6874
122613CIP <- 2003, P. Riegel, Louis Pasteur Univ., Strasbourg, France: strain IBS S6874

doi: 10.13145/bacdive261.20230509.8.1

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 simiae
  • full scientific name: Aeromonas simiae Harf-Monteil et al. 2004

@ref: 6510

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Aeromonas

species: Aeromonas simiae

full scientific name: Aeromonas simiae Harf-Monteil et al. 2004

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityflagellum arrangement
23256negativerod-shapedyesmonotrichous, polar
122613negativeyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6510COLUMBIA BLOOD AGAR (DSMZ Medium 429)yeshttps://mediadive.dsmz.de/medium/429Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base
6510CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
40719MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122613CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6510positivegrowth30mesophilic
23256positivegrowth42thermophilic
23256positiveoptimum30mesophilic
40719positivegrowth30mesophilic
122613positivegrowth30-41
122613nogrowth5psychrophilic
122613nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122613
  • oxygen tolerance: facultative anaerobe

nutrition type

  • @ref: 23256
  • type: chemoorganotroph

halophily

  • @ref: 23256
  • salt: NaCl
  • growth: no
  • tested relation: maximum
  • concentration: 6 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23256168082-dehydro-D-gluconate-builds acid from
23256174265-dehydro-D-gluconate-builds acid from
2325615963ribitol-builds acid from
2325627613amygdalin-builds acid from
2325617108D-arabinose-builds acid from
2325618333D-arabitol-builds acid from
2325628847D-fucose-builds acid from
2325662318D-lyxose-builds acid from
2325616443D-tagatose-builds acid from
2325665327D-xylose-builds acid from
2325616813galactitol-builds acid from
2325617113erythritol-builds acid from
2325628066gentiobiose-builds acid from
2325617268myo-inositol-builds acid from
2325615443inulin-builds acid from
2325630849L-arabinose-builds acid from
2325665328L-xylose-builds acid from
2325617716lactose-builds acid from
2325629864mannitol-builds acid from
232566731melezitose-builds acid from
2325628053melibiose-builds acid from
23256320061methyl alpha-D-glucopyranoside-builds acid from
2325643943methyl alpha-D-mannoside-builds acid from
2325674863methyl beta-D-xylopyranoside-builds acid from
2325616634raffinose-builds acid from
2325626546rhamnose-builds acid from
2325617814salicin-builds acid from
2325630911sorbitol-builds acid from
2325627922sorbose-builds acid from
2325632528turanose-builds acid from
2325617151xylitol-builds acid from
232564853esculin-hydrolysis
2325618305arbutin+builds acid from
2325617057cellobiose+builds acid from
2325615824D-fructose+builds acid from
2325617634D-glucose+builds acid from
2325617306maltose+builds acid from
2325616024D-mannose+builds acid from
2325616551D-trehalose+builds acid from
2325628260galactose+builds acid from
2325624265gluconate+builds acid from
2325617754glycerol+builds acid from
2325628087glycogen+builds acid from
23256506227N-acetylglucosamine+builds acid from
2325633942ribose+builds acid from
2325628017starch+builds acid from
2325617992sucrose+builds acid from
2325617632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate+builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen+builds acid from
6837128017starch+builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol+builds acid from
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose+fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose+fermentation
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
12261329864mannitol-fermentation
12261316947citrate+carbon source
12261317234glucose+fermentation
12261317716lactose+fermentation
12261317632nitrate+reduction
12261316301nitrite-reduction
12261315792malonate-assimilation
122613132112sodium thiosulfate-builds gas from

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitive
2325673908vibriostatyesyes150 µg
2325628971ampicillinyesyes
232563542cephalothinyesyes
1226130129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)yesyesno

metabolite production

@refChebi-IDmetaboliteproduction
2325615688acetoinno
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
12261335581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
2325615688acetoin-
6836815688acetoin+
6836835581indole-
12261315688acetoin-
12261317234glucose+

enzymes

@refvalueactivityec
23256arginine dihydrolase+3.5.3.6
23256catalase+1.11.1.6
23256cytochrome oxidase+1.9.3.1
23256lysine decarboxylase+4.1.1.18
23256ornithine decarboxylase-4.1.1.17
23256pyrazinamidase+3.5.1.B15
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
122613oxidase+
122613beta-galactosidase-3.2.1.23
122613alcohol dehydrogenase-1.1.1.1
122613gelatinase+
122613amylase+
122613DNase+
122613caseinase+3.4.21.50
122613catalase+1.11.1.6
122613tween esterase-
122613lecithinase-
122613lipase-
122613lysine decarboxylase-4.1.1.18
122613ornithine decarboxylase-4.1.1.17
122613phenylalanine ammonia-lyase+4.3.1.24
122613protease+
122613tryptophan deaminase-
122613urease-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
122613-+---+----+--+-+-+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
6510+++------+++----+---+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122613+---+----++++--------+----++-------++---------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122613+++++--+-++----+-+++-----------+-----------------+---------++--------------++--++-----+--++-+-+----

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentsampling dateisolation date
6510faeces of Macaca fascicularis (faeces)Macaca fascicularisStrasbourgFranceFRAEurope
23256faeces of a monkey (Macaca fascicularis) that was kept in the Centre for Primatology, Louis Pasteur University
57666Monkey fecesStrasbourgFranceFRAEurope1999
122613Animal, Monkey, fecesStrasbourgFranceFRAEurope1999

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Primates
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
65101Risk group (German classification)
1226131Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aeromonas simiae strain MDC 54 16S ribosomal RNA gene, partial sequenceGQ8609451503ena218936
6510Aeromonas simiae partial 16S rRNA gene, type strain IBS S6874TAJ5368211452ena218936

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromonas simiae CIP 107798GCA_000820125scaffoldncbi218936
66792Aeromonas simiae CIP 107798218936.3wgspatric218936
66792Aeromonas simiae CIP 1077982648501404draftimg218936

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes90.168yes
flagellatedyes90.513yes
gram-positiveno99.05yes
anaerobicno94.79no
aerobicyes73.645no
halophileno90.25no
spore-formingno96.288no
glucose-utilyes87.369no
glucose-fermentyes89.008yes
thermophileno98.536no

External links

@ref: 6510

culture collection no.: DSM 16559, CCUG 47378, CIP 107798, IBS S6874

straininfo link

  • @ref: 69943
  • straininfo: 131408

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15023964Aeromonas simiae sp. nov., isolated from monkey faeces.Harf-Monteil C, Fleche AL, Riegel P, Prevost G, Bermond D, Grimont PAD, Monteil HInt J Syst Evol Microbiol10.1099/ijs.0.02786-02004Aeromonas/classification/genetics/*isolation & purification, Animals, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Feces/*microbiology, Macaca fascicularis/*microbiology, Mauritius, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny19853388Phylogenetic identification of Aeromonas simiae from a pig, first isolate since species description.Fontes MC, Saavedra MJ, Monera A, Martins C, Martinez-Murcia AVet Microbiol10.1016/j.vetmic.2009.09.0332009Abattoirs, Aeromonas/*classification/genetics/*isolation & purification, Animals, DNA Gyrase/genetics, DNA-Directed RNA Polymerases/genetics, Feces/microbiology, Gram-Negative Bacterial Infections/microbiology/*veterinary, Molecular Sequence Data, *Phylogeny, Portugal, RNA, Ribosomal, 16S/genetics, Swine, Swine Diseases/*microbiologyGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6510Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16559)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16559
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
23256Colette Harf-Monteil, Anne Le Flèche, Philippe Riegel, Gilles Prévost, Delphine Bermond, Patrick A. D. Grimont, Henri Monteil10.1099/ijs.0.02786-0Aeromonas simiae sp. nov., isolated from monkey faecesIJSEM 54: 481-485 200415023964
40719Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5273
57666Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47378)https://www.ccug.se/strain?id=47378
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
69943Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID131408.1StrainInfo: A central database for resolving microbial strain identifiers
122613Curators of the CIPCollection of Institut Pasteur (CIP 107798)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107798