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Genetics and Molecular Biology

Rapid and Simple Determination of theEscherichia coli Phylogenetic Group

Olivier Clermont, Stéphane Bonacorsi, Edouard Bingen
Olivier Clermont
Laboratoire d'études de génétique bactérienne dans les infections de l'enfant (EA3105), Université Denis Diderot-Paris 7, Hôpital Robert Debré, Paris, France
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Stéphane Bonacorsi
Laboratoire d'études de génétique bactérienne dans les infections de l'enfant (EA3105), Université Denis Diderot-Paris 7, Hôpital Robert Debré, Paris, France
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Edouard Bingen
Laboratoire d'études de génétique bactérienne dans les infections de l'enfant (EA3105), Université Denis Diderot-Paris 7, Hôpital Robert Debré, Paris, France
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DOI: 10.1128/AEM.66.10.4555-4558.2000
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    Fig. 1.

    Dichotomous decision tree to determine the phylogenetic group of an E. coli strain by using the results of PCR amplification of the chuA and yjaA genes and DNA fragment TSPE4.C2.

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    Fig. 2.

    Triplex PCR profiles specific for E. coliphylogenetic groups. Each combination of chuA andyjaA gene and DNA fragment TSPE4.C2 amplification allowed phylogenetic group determination of a strain. Lanes 1 and 2, group A; lane 3, group B1; lanes 4 and 5, group D; lanes 6 and 7, group B2. Lane M contained markers.

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    PCR amplification of the chuA andyjaA genes and DNA fragment TSPE4.C2 in E. colistrains from various collections according to phylogenetic group

    Strain collection or isolates (no. of strains) ReferenceGroup as determined by reference methods (no. of strains)aNo. (%) of strains positive for amplification of:
    chuAyjaATSPE4.C2
    ECOR (68)10A (25)018 (72)b0
    B1 (16)01 (6)c15 (94)c
    D (12)12 (100)02 (17)d
    B2 (15)15 (100)15 (100)12 (80)e
    Neonatal meningitis (86)4A (5)05 (100)0
    B1 (3)01 (33)2 (66)
    D (18)18 (100)02 (11)
    B2 (60)60 (100)60 (100)59 (98)
    Verotoxin-producing E. coli O157:H7 (10)This studyD (10)10 (100)00
    Other clinical strains (64)This studyA (12)09 (75)0
    B1 (4)004 (100)
    D (11)11 (100)01 (9)
    B2 (37)37 (100)37 (100)34 (92)
    E. coliK-1210A (1)010
    E. coli J96This studyB2 (1)110
    All strains (230)A (43)033 (77)0
    B1 (23)02 (9)21 (91)
    D (51)51 (100)05 (10)
    B2 (113)113 (100)113 (100)105 (93)
    • ↵a Phylogenetic groups were determined by multilocus enzyme electrophoresis or ribotyping.

    • ↵b The strains negative for amplification ofyjaA were ECOR 4, ECOR 15, ECOR 16, ECOR 17, ECOR 22, ECOR 23, and ECOR 24.

    • ↵c The strain negative for amplification ofyjaA and positive for amplification of TSPE4.C2 was ECOR 70.

    • ↵d The strains positive for amplification of TSPE4.C2 were ECOR 49 and ECOR 50.

    • ↵e The strains negative for amplification of TSPE4.C2 were ECOR 53, ECOR 59, and ECOR 60.

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Rapid and Simple Determination of theEscherichia coli Phylogenetic Group
Olivier Clermont, Stéphane Bonacorsi, Edouard Bingen
Applied and Environmental Microbiology Oct 2000, 66 (10) 4555-4558; DOI: 10.1128/AEM.66.10.4555-4558.2000

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Rapid and Simple Determination of theEscherichia coli Phylogenetic Group
Olivier Clermont, Stéphane Bonacorsi, Edouard Bingen
Applied and Environmental Microbiology Oct 2000, 66 (10) 4555-4558; DOI: 10.1128/AEM.66.10.4555-4558.2000
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KEYWORDS

Escherichia coli
phylogeny

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