Cite the latest
BacDive paper
×

Rate our new design

Thank you!
BacDive D3
Content
Advanced search Isolation sources API ® test finder TAXplorer Statistics Special collections Download selection Web services SPARQL
About us
About Team Contact Tutorials News Mailinglist
BacDive ID 138294
Type strain
Strain Designation ABU84
Culture col. no. CIP 106006 ECOR 71 ABU84
NCBI tax ID(s) 562
Links
For citation purpose refer to the digital object identifier (doi) of the current version.

Archive

version 10 (current version):
version 10 (current version)

General

@ref: 39429

BacDive-ID: 138294

keywords: genome sequence, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Escherichia coli ABU84 is a facultative anaerobe, mesophilic, Gram-negative prokaryote of the family Enterobacteriaceae.

NCBI tax id

  • NCBI tax id: 562
  • Matching level: species

strain history

  • @ref: 39429
  • history: CIP <- 1999, T.S. Whittam, Pennsylvania Ste Univ., PA, USA: strain ECOR 71 <- H. Ochman and R.K. Selander: strain ABU84

doi: 10.13145/bacdive138294.20251217.10

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: kingdom/pseudomonadati
  • keyword: phylum/pseudomonadota
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Escherichia
  • species: Escherichia coli
  • full scientific name: Escherichia coli (Migula 1895) Castellani and Chalmers 1919 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus coli

@ref: 39429

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacterales

family: Enterobacteriaceae

genus: Escherichia

species: Escherichia coli

strain designation: ABU84

type strain: no

Morphology

cell morphology

  • @ref: 39429
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 39429
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39429MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
39429CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
39429positivegrowth30
39429positivegrowth10-41
39429negativegrowth5

Physiology and metabolism

oxygen tolerance

  • @ref: 39429
  • oxygen tolerance: facultative anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3942929864mannitol+fermentation
3942916947citrate-carbon source
394294853esculin+hydrolysis
3942917234glucose+fermentation
3942917716lactose+fermentation
3942917632nitrate+reduction
3942916301nitrite+reduction
3942915792malonate-assimilation
39429132112sodium thiosulfate-builds gas from
3942917234glucose+degradation
68371Potassium 5-ketogluconate-builds acid from
6837116899D-mannitol+builds acid from
6837117924D-sorbitol+builds acid from
6837116813galactitol-builds acid from
6837117268myo-inositol-builds acid from
6837162345L-rhamnose+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
6837117151xylitol-builds acid from
6837128087glycogen-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
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-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
6837117113erythritol-builds acid from
6837117754glycerol+builds acid from

antibiotic resistance

  • @ref: 39429
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 39429
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
3942915688acetoin-
3942917234glucose+

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+
68382trypsin+3.4.21.4
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)-
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
39429oxidase-
39429beta-galactosidase+3.2.1.23
39429alcohol dehydrogenase-1.1.1.1
39429gelatinase-
39429catalase+1.11.1.6
39429lysine decarboxylase+4.1.1.18
39429ornithine decarboxylase+4.1.1.17
39429phenylalanine ammonia-lyase-4.3.1.24
39429tryptophan deaminase-
39429urease-3.5.1.5
68382lipase (C 14)-

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
39429-+---++-+-++-+++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
39429+-+/-+++---++++++--++--+-+/-+/-+/--+++++--++/---+/-----+--+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
39429+++++++++++++++-++++++-++-----++-+--+-+----++--+++----++-+-+++------++--++-++--+++++--+--++++++-+-+

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample type
39429SwedenSWEEurope
39429SwedenSWEEuropeHuman, Symptomatic urinary tract infection

Interaction and safety

risk assessment

  • @ref: 39429
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

  • @ref: 124043
  • description: PDT000619957.1 assembly for Escherichia coli ECOR-71
  • assembly level: contig
  • INSDC accession: GCA_012504355
  • NCBI tax ID: 562
  • score: 20.2

Literature

@ref: 39429

culture collection no.: CIP 106006, ECOR 71

straininfo link

  • @ref: 126262
  • straininfo: 126024

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny1699928Phylogenetic distribution of branched RNA-linked multicopy single-stranded DNA among natural isolates of Escherichia coli.Herzer PJ, Inouye S, Inouye M, Whittam TS.J Bacteriol10.1128/jb.172.11.6175-6181.19901990genetics, genetics, genetics, Phylogeny
1979037Molecular evolution of the Escherichia coli chromosome. III. Clonal frames.Milkman R, Bridges MM.Genetics10.1093/genetics/126.3.5051990Chromosomes, Bacterial, genetics, Biological Evolution
3058546Molecular evolution of the Escherichia coli chromosome. I. Analysis of structure and natural variation in a previously uncharacterized region between trp and tonB.Stoltzfus A, Leslie JF, Milkman R.Genetics10.1093/genetics/120.2.3451988Chromosomes, Bacterial, genetics, genetics, Genetic Variation, Biological Evolution
Enzymology3058547Molecular evolution of the Escherichia coli chromosome. II. Clonal segments.Milkman R, Stoltzfus A.Genetics10.1093/genetics/120.2.3591988Chromosomes, Bacterial, genetics, Cloning, Molecular, Biological Evolution
Genetics7592324Heterogeneity of genome sizes among natural isolates of Escherichia coli.Bergthorsson U, Ochman H.J Bacteriol10.1128/jb.177.20.5784-5789.19951995genetics, Genetic Heterogeneity, Genome, Bacterial
8095913Molecular evolution of the Escherichia coli chromosome. IV. Sequence comparisons.Milkman R, Bridges MM.Genetics10.1093/genetics/133.3.4551993genetics, genetics
8536964Correlation of Rhs elements with Escherichia coli population structure.Hill CW, Feulner G, Brody MS, Zhao S, Sadosky AB, Sandt CH.Genetics10.1093/genetics/141.1.151995genetics, Genes, Bacterial
Metabolism14702297Osmoregulatory systems of Escherichia coli: identification of betaine-carnitine-choline transporter family member BetU and distributions of betU and trkG among pathogenic and nonpathogenic isolates.Ly A, Henderson J, Lu A, Culham DE, Wood JM.J Bacteriol10.1128/jb.186.2.296-306.20042004metabolism, metabolism, metabolism, metabolism, analysis, analysis
15150243The ETT2 gene cluster, encoding a second type III secretion system from Escherichia coli, is present in the majority of strains but has undergone widespread mutational attrition.Ren CP, Chaudhuri RR, Fivian A, Bailey CM, Antonio M, Barnes WM, Pallen MJ.J Bacteriol10.1128/jb.186.11.3547-3560.20042004genetics, genetics, Mutation, physiology, Multigene Family
15557637Diversity and host range of Shiga toxin-encoding phage.Gamage SD, Patton AK, Hanson JF, Weiss AA.Infect Immun10.1128/iai.72.12.7131-7139.20042004virology, genetics, genetics
Metabolism16291689A degenerate type III secretion system from septicemic Escherichia coli contributes to pathogenesis.Ideses D, Gophna U, Paitan Y, Chaudhuri RR, Pallen MJ, Ron EZ.J Bacteriol10.1128/jb.187.23.8164-8171.20052005metabolism, metabolism, metabolism
17050815Phylogenetic comparisons reveal multiple acquisitions of the toxin genes by enterotoxigenic Escherichia coli strains of different evolutionary lineages.Turner SM, Chaudhuri RR, Jiang ZD, DuPont H, Gyles C, Penn CW, Pallen MJ, Henderson IR.J Clin Microbiol10.1128/jcm.01474-062006genetics, pathogenicity, genetics, genetics, Evolution, Molecular
Phylogeny17220264Autotransporter-encoding sequences are phylogenetically distributed among Escherichia coli clinical isolates and reference strains.Restieri C, Garriss G, Locas MC, Dozois CM.Appl Environ Microbiol10.1128/aem.01542-062007isolation & purification, microbiology, microbiology, microbiology, genetics, PhylogenyEnzymology
17905975A new O-antigen gene cluster has a key role in the virulence of the Escherichia coli meningitis clone O45:K1:H7.Plainvert C, Bidet P, Peigne C, Barbe V, Medigue C, Denamur E, Bingen E, Bonacorsi S.J Bacteriol10.1128/jb.01013-072007genetics, pathogenicity, microbiology, microbiology, genetics, genetics
Enzymology21784916Isolation of generalized transducing bacteriophages for uropathogenic strains of Escherichia coli.Battaglioli EJ, Baisa GA, Weeks AE, Schroll RA, Hryckowian AJ, Welch RA.Appl Environ Microbiol10.1128/aem.05307-112011genetics, isolation & purification, Transduction, Genetic, Water Microbiology, virologyPhylogeny
Enzymology22189125Molecular characterization of Escherichia coli strains that cause symptomatic and asymptomatic urinary tract infections.Abraham S, Chapman TA, Zhang R, Chin J, Mabbett AN, Totsika M, Schembri MA.J Clin Microbiol10.1128/jcm.06671-112012genetics, isolation & purification, microbiology, microbiologyPhylogeny
Pathogenicity30389772Physiological, Genetic, and Transcriptomic Analysis of Alcohol-Induced Delay of Escherichia coli Death.Ferraro CM, Finkel SE.Appl Environ Microbiol10.1128/aem.02113-182019Alcohol, Escherichia Coli, Death Phase, Delayed Bacterial Death, drug effects, pharmacology, metabolism, TranscriptomeMetabolism
34194667Structural and functional characterization of the receptor binding proteins of Escherichia coli O157 phages EP75 and EP335.Witte S, Zinsli LV, Gonzalez-Serrano R, Matter CI, Loessner MJ, van Mierlo JT, Dunne M.Comput Struct Biotechnol J10.1016/j.csbj.2021.06.0012021Lipopolysaccharide, Bacteriophage, Salmonella, O-antigen, Escherichia coli O157, Stec, Tailspike, Tail Fiber, Receptor Binding Protein
Pathogenicity35495085Enterobacteria Phage SV76 Host Range and Genomic Characterization.Carmody CM, Farquharson EL, Nugen SR.Phage (New Rochelle)10.1089/phage.2022.00052022Host range, Bacteriophage, Whole Genome Sequencing, T2, Ecor, Sv76Genetics
Pathogenicity36199530Enterobacteria Phage Ac3's Genome Annotation and Host Range Analysis Against the ECOR Reference Library.Farquharson EL, Nugen SR.Phage (New Rochelle)10.1089/phage.2022.00082022Host range, Ac3, Ecor, Phage GenomeGenetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
39429Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106006Collection of Institut Pasteur (CIP 106006)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
126262A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. ReimerStrainInfo—the central database for linked microbial strain identifiers10.1093/database/baaf059

BacDive

About Team News Mailinglist

Help

How to cite Tutorials Contact Help

Social Media

BlueskyBluesky linkedin de.NBI Survey
DSMZ Global core biodata resource deNBI Elixis core data resource DZIF NFDI4 Biodiversity NFDI4 Microbiota
© DSMZ 2026 Imprint Privacy Statement Copyright & License License