Table 1 The conventional subtyping of 121 E. coli O157:H7 isolates from various sources.

From: Genomic analysis of Shiga toxin-producing Escherichia coli O157:H7 from cattle and pork-production related environments

Isolates

Manning clade

Lineage

MLST type

Clermont phylo-group

Pasteur Institute’s eight-gene scheme

Achtman’s seven-gene scheme

All pig isolates

2

I

822

11

E

Env01-Env05, Env07-Env30

2

I

822

11

E

Env06

2

I

Uncertainc

11

E

Cat01, Cat05-Cat11, Cat14-Cat19, Cat21-Cat23, Cat25-Cat45, Cat47-Cat50

2

I

822

11

E

Cat02-Cat04, Cat13

4/5/6/7/9a

I/II

628

11

E

Cat12

2

I

Uncertainc

11

E

Cat20

3

I

822

11

E

Cat24

2

Uncertainb

822

11

E

Cat46

4/5/6/7/9a

II

628

11

E

O157:H7 EDL933 (Reference)

3

I

822

11

E

O157:H7 Sakai (Reference)

1

I

296

11

E

  1. aThe isolates belonged to one of clades 4, 5, 6, 7, and 9. The subtyping scheme described by Riordan et al. (2008) cannot differentiate strains of clade 4, 5, 6, 7, and 9.
  2. bThe amplicon for the marker gene, rbsB (Yang et al., 2004) was not predictable using in silico PCR and the draft genome of Cat24 and hence no lineage was assigned for this isolate.
  3. cThe isolates did not match any MLST type in Pasteur Institute’s eight-gene scheme although the closest MLST type of both isolates was 822.
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