Strain identifier

BacDive ID: 242

Type strain: Yes

Species: Aeromonas media

Strain Designation: RM

Strain history: CIP <- 1988, NCIMB <- ATCC <- B. Austin: strain RM <- D.A. Allen

NCBI tax ID(s): 651 (species)

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General

@ref: 1862

BacDive-ID: 242

DSM-Number: 4881

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, chemoorganotroph, psychrophilic, Gram-negative, rod-shaped, colony-forming, human pathogen

description: Aeromonas media RM is a facultative anaerobe, chemoorganotroph, psychrophilic human pathogen that forms circular colonies and was isolated from fish farm effluent.

NCBI tax id

  • NCBI tax id: 651
  • Matching level: species

strain history

@refhistory
1862<- ATCC <- B. Austin
67770Y. Kosako <-- CCM 3653 <-- B. Austin RM.
120867CIP <- 1988, NCIMB <- ATCC <- B. Austin: strain RM <- D.A. Allen

doi: 10.13145/bacdive242.20230509.8.1

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 media
  • full scientific name: Aeromonas media Allen et al. 1983

@ref: 1862

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Aeromonas

species: Aeromonas media

full scientific name: Aeromonas media Allen et al. 1983

strain designation: RM

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotility
23254negative1-2 µmrod-shapedno
120867negativerod-shapedyes

colony morphology

  • @ref: 23254
  • type of hemolysis: alpha/beta
  • hemolysis ability: 1
  • colony size: 2 mm
  • colony color: cream, shiny
  • colony shape: circular
  • incubation period: 2 days
  • medium used: TSA

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
23254Trypticase Soy Agar (TSA)yes
34124MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
1862REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)yesName: REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a) Composition: Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled waterhttps://mediadive.dsmz.de/medium/220a
120867CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
23254positivegrowth4psychrophilic
23254positivegrowth37mesophilic
23254nogrowth42thermophilic
34124positivegrowth25mesophilic
1862positivegrowth30mesophilic
46105positivegrowth22psychrophilic
67770positivegrowth30mesophilic
120867positivegrowth5-37
120867nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120867
  • oxygen tolerance: facultative anaerobe

nutrition type

  • @ref: 23254
  • type: chemoorganotroph

halophily

  • @ref: 23254
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2325465327D-xylose-carbon source
23254178794-hydroxybenzoate-carbon source
2325415963ribitol-carbon source
2325417057cellobiose-carbon source
2325415824D-fructose-carbon source
232546731melezitose-carbon source
2325416634raffinose-carbon source
2325417924D-sorbitol-carbon source
2325416551D-trehalose-carbon source
2325417113erythritol-carbon source
2325416236ethanol-carbon source
2325415740formate-carbon source
2325417268myo-inositol-carbon source
2325415443inulin-carbon source
2325415603L-leucine-carbon source
2325416414L-valine-carbon source
2325415792malonate-carbon source
2325417992sucrose-carbon source
23254trimethoxybenzoate-carbon source
2325462968cellulose-degradation
2325416991dna-degradation
232544767elastin-degradation
232544853esculin-degradation
2325461995lecithin-degradation
2325425094lysine-degradation
2325418257ornithine-degradation
2325418186tyrosine-degradation
2325416199urea-degradation
2325415318xanthine-degradation
2325417968butyrate-growth
2325416947citrate-growth
2325412936D-galactose-growth
2325416024D-mannose-growth
2325416988D-ribose-growth
2325416449dl-alanine-growth
2325424996lactate-growth
2325417716lactose-growth
2325417306maltose-growth
2325424265gluconate-oxidation
2325430089acetate+carbon source
2325429987glutamate+carbon source
2325417754glycerol+carbon source
2325430849L-arabinose+carbon source
2325417203L-proline+carbon source
2325417115L-serine+carbon source
2325429864mannitol+carbon source
2325415361pyruvate+carbon source
2325430031succinate+carbon source
2325417029chitin+degradation
232545291gelatin+degradation
2325433697rna+degradation
2325428017starch+degradation
2325453424tween 20+degradation
2325453423tween 40+degradation
2325453425tween 60+degradation
2325453426tween 80+degradation
2325417234glucose+fermentation
2325425115malate+growth
2325417632nitrate+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
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
12086729864mannitol+fermentation
12086716947citrate+carbon source
12086717234glucose+fermentation
12086717716lactose+fermentation
12086717632nitrate+reduction
12086716301nitrite+reduction
12086715792malonate-assimilation
120867132112sodium thiosulfate-builds gas from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitiveis resistant
2325428971ampicillinyesno
2325449566cloxacillinyesno
2325428368novobiocinyesno
2325418208penicillin gyesno
23254102484sulfisoxazoleyesno
2325473908vibriostatyesno
2325417698chloramphenicolyesyes
2325427644chlortetracyclinyesyes
2325437943colistinyesyes
2325448923erythromycinyesyes
232545195furazolidoneyesyes
2325417833gentamicinyesyes
232546104kanamycinyesyes
232547507neomycinyesyes
2325471415nitrofurantoinyesyes
2325427701oxytetracyclineyesyes
2325417076streptomycinyesyes
2325427902tetracyclineyesyes
1208670129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)yesnoyes

metabolite production

@refChebi-IDmetaboliteproduction
2325416136hydrogen sulfideno
2325415688acetoinno
2325435581indoleyes
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno
12086735581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-testindole test
2325415688acetoin-
2325417234glucose+
6836815688acetoin-
6836835581indole+
12086715688acetoin-
12086717234glucose+

enzymes

@refvalueactivityec
23254alkaline phosphatase-3.1.3.1
23254arginine dihydrolase+3.5.3.6
23254beta-galactosidase+3.2.1.23
23254catalase+1.11.1.6
23254cytochrome oxidase+1.9.3.1
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
120867oxidase+
120867beta-galactosidase+3.2.1.23
120867alcohol dehydrogenase+1.1.1.1
120867gelatinase+/-
120867amylase+
120867DNase+
120867caseinase+3.4.21.50
120867catalase+1.11.1.6
120867tween esterase+
120867lecithinase-
120867lipase-
120867lysine decarboxylase-4.1.1.18
120867ornithine decarboxylase-4.1.1.17
120867phenylalanine ammonia-lyase+4.3.1.24
120867protease+
120867tryptophan deaminase-
120867urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46105C12:07.212
    46105C14:05.914
    46105C16:030.716
    46105C18:00.718
    46105C14:0 3OH/C16:1 ISO I5.815.485
    46105C15:0 ISO 3OH1.216.135
    46105C16:1 ω7c36.515.819
    46105C18:1 ω7c /12t/9t817.824
    46105C18:1 ω9c1.117.769
    46105Unidentified1.312.269
    46105Unidentified116.299
    46105unknown 14.5030.514.503
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120867-+++-+-+--+--+-+-+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1862++------+--++---+-++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120867+--++----++++----+---+-++/-+/-+++-++---++---------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120867+++++--+-+++++-+-++++----------+-+---------------+---+-----++--------------+--+++-+---+--+++--+----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
1862fish farm effluent
46105River water,fish farmUnited KingdomGBREurope
67770Fish farm effluent
120867Environment, Fish farm effluentUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Aquaculture
#Engineered#Waste
#Host#Fishes

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: X60410
  • Sequence Identity:
  • Total samples: 5774
  • soil counts: 541
  • aquatic counts: 3538
  • animal counts: 1487
  • plant counts: 208

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
1862yes, in single casesyes, in single cases1Risk group (German classification)
1208671Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Aeromonas media 16S rRNA gene, strain ATCC 33907X604101503ena651
20218A.media (ATCC 33907T) gene for 16S ribosomal RNAX746791460ena651
20218Aeromonas media 16S rRNAD11174197ena651
20218Aeromonas media 16S rRNAD11223207ena651
20218Aeromonas media 16S rRNAD11272200ena651

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromonas media ATCC 33907GCA_018359985contigncbi651
66792Aeromonas media strain ATCC 33907651.66wgspatric651
66792Aeromonas media strain CECT 4232651.7wgspatric651
66792Aeromonas media strain CIP 103208651.65wgspatric651
66792Aeromonas media CECT 42322645727928draftimg651
67770Aeromonas media CECT 4232GCA_000819985scaffoldncbi651

GC content

@refGC-contentmethod
2325462.3Thermal denaturation, fluorometry
6777062.1-62.5thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.759no
anaerobicno97.355no
halophileno91.334no
spore-formingno95.821no
glucose-utilyes90.155no
thermophileno99.754no
flagellatedyes92.152no
aerobicyes86.953no
motileyes90.38yes
glucose-fermentyes87.253yes

External links

@ref: 1862

culture collection no.: CCUG 14453, CCM 3653, JCM 2385, LMG 9073, DSM 4881, ATCC 33907, BCRC 12211, BCRC 14129, CECT 4232, CIP 103208, LMG 7907, NCIMB 2237

straininfo link

  • @ref: 69924
  • straininfo: 382

literature

  • topic: Phylogeny
  • Pubmed-ID: 26630331
  • title: Aeromonas rivipollensis sp. nov., a novel species isolated from aquatic samples.
  • authors: Marti E, Balcazar JL
  • journal: J Basic Microbiol
  • DOI: 10.1002/jobm.201500264
  • year: 2015
  • mesh: Aeromonas/*classification/genetics/*isolation & purification, Aeromonas hydrophila/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics/isolation & purification, Genes, Bacterial, Genotyping Techniques, Multilocus Sequence Typing, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics/isolation & purification, Rivers/microbiology, Spain, Species Specificity, *Water Microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1862Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4881)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4881
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
23254D. A. ALLEN, B. AUSTIN, R. R. COLWELL10.1099/00207713-33-3-599Aeromonas media, a New Species Isolated from River WaterIJSEM 33: 599-604 1983
34124Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14981
46105Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 14453)https://www.ccug.se/strain?id=14453
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/
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
69924Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID382.1StrainInfo: A central database for resolving microbial strain identifiers
120867Curators of the CIPCollection of Institut Pasteur (CIP 103208)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103208