Strain identifier

BacDive ID: 280

Type strain: Yes

Species: Aeromonas bivalvium

Strain Designation: 868E

Strain history: CIP <- 2007, CECT <- 2005, D. Minana Galbis, Barcelona Univ. Barcelona, Spain: strain 868E

NCBI tax ID(s): 440079 (species)

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General

@ref: 7898

BacDive-ID: 280

DSM-Number: 19111

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, coccus-shaped

description: Aeromonas bivalvium 868E is a facultative anaerobe, mesophilic, coccus-shaped bacterium that was isolated from cockles .

NCBI tax id

  • NCBI tax id: 440079
  • Matching level: species

strain history

@refhistory
7898<- D. Miñana-Galbis; 868E
116824CIP <- 2007, CECT <- 2005, D. Minana Galbis, Barcelona Univ. Barcelona, Spain: strain 868E

doi: 10.13145/bacdive280.20230509.8.1

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 bivalvium
  • full scientific name: Aeromonas bivalvium Miñana-Galbis et al. 2007

@ref: 7898

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Aeromonas

species: Aeromonas bivalvium

full scientific name: Aeromonas bivalvium Miñana-Galbis et al. 2007

strain designation: 868E

type strain: yes

Morphology

cell morphology

@refcell shapegram staincell lengthcell widthmotilityflagellum arrangement
23260coccus-shaped
23260rod-shapednegative0.5-2.0 µm0.3-1.0 µmyesmonotrichous, polar
116824rod-shapednegativeyes

colony morphology

  • @ref: 23260
  • type of hemolysis: gamma
  • colony size: 3-4 mm
  • incubation period: 2 days
  • medium used: TSA

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7898NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
23260MacConkey Agaryes
23260Trypticase Soy Agar (TSA)yes
39979MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116824CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7898positivegrowth28mesophilic
23260positivegrowth25mesophilic
23260positivegrowth4psychrophilic
23260positivegrowth37mesophilic
23260positivegrowth40.5thermophilic
23260positiveoptimum30-37mesophilic
39979positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
23260positivegrowth9.0alkaliphile
23260nogrowth4.5

Physiology and metabolism

oxygen tolerance

  • @ref: 116824
  • oxygen tolerance: facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
23260NaClpositivegrowth3 %
23260NaClinconsistentgrowth6 %
23260NaClnogrowth7 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2326016024D-mannose-builds acid from
2326028053melibiose-builds acid from
2326016634raffinose-builds acid from
2326065327D-xylose-builds acid from
2326062345L-rhamnose-builds acid from
2326017716lactose-builds acid from
2326030911sorbitol-builds acid from
2326015356cysteine-builds gas from
2326017634D-glucose-builds gas from
2326016094thiosulfate-builds gas from
2326015963ribitol-carbon source
2326016024D-mannose-carbon source
232606731melezitose-carbon source
2326028053melibiose-carbon source
2326016634raffinose-carbon source
2326065327D-xylose-carbon source
2326016813galactitol-carbon source
2326017268myo-inositol-carbon source
2326062345L-rhamnose-carbon source
2326017266L-sorbose-carbon source
2326017716lactose-carbon source
2326030911sorbitol-carbon source
232604767elastin-hydrolysis
2326016199urea-hydrolysis
2326015318xanthine-hydrolysis
2326018305arbutin+builds acid from
2326012936D-galactose+builds acid from
2326016899D-mannitol+builds acid from
2326016551D-trehalose+builds acid from
2326023652dextrin+builds acid from
2326017754glycerol+builds acid from
2326030849L-arabinose+builds acid from
2326017814salicin+builds acid from
2326017992sucrose+builds acid from
2326030089acetate+carbon source
2326018305arbutin+carbon source
2326016947citrate+carbon source
2326017057cellobiose+carbon source
2326015824D-fructose+carbon source
2326012936D-galactose+carbon source
2326017634D-glucose+carbon source
2326016899D-mannitol+carbon source
2326016551D-trehalose+carbon source
232604853esculin+carbon source
2326017754glycerol+carbon source
2326030849L-arabinose+carbon source
2326016467L-arginine+carbon source
2326015971L-histidine+carbon source
2326024996lactate+carbon source
2326017306maltose+carbon source
23260506227N-acetylglucosamine+carbon source
2326017814salicin+carbon source
2326028017starch+carbon source
2326017992sucrose+carbon source
2326027897tryptophan+energy source
2326017234glucose+fermentation
2326018305arbutin+hydrolysis
2326016991dna+hydrolysis
232604853esculin+hydrolysis
232605291gelatin+hydrolysis
23260O-nitrophenyl-beta-D-galactopyranosid+hydrolysis
2326028017starch+hydrolysis
2326017234glucose+oxidation
2326017632nitrate+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
11682417632nitrate+reduction
11682416301nitrite+reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.group IDis intermediateintermediate conc.is sensitivesensitivity conc.
2326028971ampicillinyesyes10 µg
2326018208penicillin gyesyes10 µg
2326048923erythromycinyesyes15 µg
2326073908vibriostatyesyes150 µg
232602676amoxicillinyesyes30 µg10
232603515cefuroximeyesyes30 µg
2326017076streptomycinyesyes10 µg
232608309polymyxin byesyes300 Unit
2326017833gentamicinyesyes10 µg
23260471744imipenemyesyes10 µg
2326028864tobramycinyesyes10 µg
232602637amikacinyesyes30 µg
23260209807cefoxitinyesyes30 µg
2326029007ceftriaxoneyesyes30 µg
2326027902tetracyclineyesyes30 µg
23260100241ciprofloxacinyesyes5 µg
2326037943colistinyesyes50 µg
232609587ticarcillinyesyes75 µg
2326048947clavulanic acidyesyes30 µg10

metabolite production

@refChebi-IDmetaboliteproduction
2326016136hydrogen sulfideno
2326015688acetoinno
2326035581indoleyes
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno
11682435581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-testindole test
2326015688acetoin-
2326017234glucose+
2326035581indole+
6836815688acetoin-
6836835581indole+

enzymes

@refvalueactivityec
23260arginine dihydrolase-3.5.3.6
23260beta-galactosidase+3.2.1.23
23260catalase+1.11.1.6
23260cytochrome oxidase+1.9.3.1
23260lysine decarboxylase+4.1.1.18
23260ornithine decarboxylase-4.1.1.17
23260tryptophan deaminase+4.1.99.1
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
116824oxidase+
116824catalase+1.11.1.6
116824urease-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
116824-++++++-+-+--+-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
7898+++-----+-+++---+--++

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116824+--++----+++-----+---+-+++-+--++---++---------+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
7898cockles (Cardium sp.)CardiumBarcelona, retail marketSpainESPEurope
116824Molluscs, bivalveBarcelonaSpainESPEurope

isolation source categories

  • Cat1: #Host
  • Cat2: #Invertebrates (Other)
  • Cat3: #Mollusca

taxonmaps

  • @ref: 69479
  • File name: preview.99_3322.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_11;96_15;97_15;98_18;99_3322&stattab=map
  • Last taxonomy: Aeromonas
  • 16S sequence: DQ504429
  • Sequence Identity:
  • Total samples: 39
  • aquatic counts: 24
  • animal counts: 12
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
78981Risk group (German classification)
1168241Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aeromonas bivalvium strain CECT7113 isolate TTGE gel band 36 16S ribosomal RNA gene, partial sequenceJX453444151ena440079
7898Aeromonas bivalvium strain 868E 16S ribosomal RNA gene, partial sequenceDQ5044291506ena440079

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromonas bivalvium CECT 7113GCA_000819765scaffoldncbi440079
66792Aeromonas bivalvium CECT 7113440079.3wgspatric440079
66792Aeromonas bivalvium CECT 71132639762879draftimg440079

GC content

  • @ref: 23260
  • GC-content: 62.6
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes90.092yes
flagellatedyes93.56yes
gram-positiveno98.904yes
anaerobicno98.101no
aerobicyes92.927no
halophileno84.607no
spore-formingno95.552no
glucose-utilyes88.413no
thermophileno99.576no
glucose-fermentyes89.287yes

External links

@ref: 7898

culture collection no.: DSM 19111, CECT 7113, LMG 23376, CIP 109539

straininfo link

  • @ref: 69962
  • straininfo: 297116

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17329789Aeromonas bivalvium sp. nov., isolated from bivalve molluscs.Minana-Galbis D, Farfan M, Fuste MC, Loren JGInt J Syst Evol Microbiol10.1099/ijs.0.64497-02007Aeromonas/*classification/genetics/isolation & purification, Animals, Base Composition, Bivalvia/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/geneticsGenetics
Metabolism35163128Complete Characterization of the O-Antigen from the LPS of Aeromonas bivalvium.Di Guida R, Casillo A, Tomas JM, Merino S, Corsaro MMInt J Mol Sci10.3390/ijms230312042022Aeromonas/*metabolism, Carbohydrate Sequence, Hydrolysis, Lipid A/*chemistry, Lipopolysaccharides/*chemistry/*metabolism, O Antigens/*chemistry, Polymers/*chemistry

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7898Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19111)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19111
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
23260David Minana-Galbis, Maribel Farfán, M. Carme Fusté, J. Gaspar Lor10.1099/ijs.0.64497-0Aeromonas bivalvium sp. nov., isolated from bivalve molluscsIJSEM 57: 582-587 200717329789
39979Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7294
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
69962Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297116.1StrainInfo: A central database for resolving microbial strain identifiers
116824Curators of the CIPCollection of Institut Pasteur (CIP 109539)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109539