Table 6

Calculation of the MRCA of Ugandan type II and III isolates and reference strains based on their relationship to the divergence between Me49 and VEG

Chromosome

Length* (bp)

Minor SNPs

Major SNPs

MRCA Me49/UgII (years)

MRCA VEG/UgIII (years)

Type II

II

2,302,931

125

4,370

4,291

IV

2,576,468

236

4,731

7,483

VI > 2.6 Mb

1,000,655

70

1,913

5,489

VIIa

4,502,211

135

8,663

2,338

IX 0.5-4 Mb

3,500,000

205

6,349

4,843

X

7,418,475

445

13,459

4,960

Total II

21,300,740

1,216

39,845

4,578

Type III

Ib > 1.2 Mb

756,324

6

1,375

655

III < 1.9 Mb

1,900,000

33

3,953

1,252

V

3,147,601

80

5,725

2,096

VIIb < 2.5 Mb

2,500,000

43

5,069

1,272

VIII > 4 Mb

2,923,375

49

6,268

1,173

XII < 1.5 Mb

1,500,000

69

3,259

3,176

Total III

12,727,300

280

25,648

1,638

The divergence between Ugandan and reference strains were calculated based on their relationship to the divergence between Me49 and VEG, with the MRCA estimated to be at 150,000 years ago [27]. A more comprehensive version is provided in Additional data file 4. *Length of regions with a major SNP type. MRCA, most recent common ancestor.

Bontell et al. Genome Biology 2009 10:R53   doi:10.1186/gb-2009-10-5-r53