Table 3

Linkage disequilibrium analysis of B. cenocepacia IIIB and BCC6 populations according to their geographic origin.

Group selection

Mean genetic

diversity (Hmean)a

Observed

variance (VD)

Expected variance

(Ve)

<a onClick="popup('http://www.biomedcentral.com/1471-2180/11/228/mathml/M1','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2180/11/228/mathml/M1">View MathML</a>

P valueb

Linkage disequilibrium


B. cenocepacia IIIB population

All isolates

0.6576 ± 0.0680

1.1538

1.0332

0.0292

0.0187

Yes

RTs only

0.6675 ± 0.0671

1.0982

1.0196

0.0193

0.127

No

Italian isolates

0.6462 ± 0.0533

1.0629

1.0865

-0.0054

1.000

No

RTs only

0.6462 ± 0.0533

1.0629

1.0865

-0.0054

1.000

No

Mexican isolates

0.6235 ± 0.0776

1.3282

1.0534

0.0652

0.0041

Yes

RTs only

0.6250 ± 0.0760

1.2806

1.0565

0.0530

0.0323

Yes


BCC6 population

All isolates

0.4918 ± 0.1427

0.9421

0.8423

0.0296

0.0025

Yes

RTs only

0.5447 ± 0.1499

0.7382

0.7906

-0.0165

1.000

No

Italian isolates

0.4518 ± 0.1425

0.9750

0.8324

0.0428

0.0002

Yes

RTs only

0.5195 ± 0.1477

0.7664

0.8118

-0.0140

1.000

No

Mexican isolates

0.5424 ± 0.1483

0.9159

0.8014

0.0357

0.164

No

RTs only

0.5778 ± 0.1573

0.6465

0.7249

-0.0271

1.000

No


a Mean genetic diversity per locus ± standard deviation.

b The measure of linkage disequilibrium is performed by testing the null hypothesis (HO):VD = Ve, where VD is the variance calculated from the distribution of mismatch values of variance and Ve is the variance expected for linkage equilibrium. P values are derived from parametric method [57] and indicate the significance of linkage disequilibrium. If the <a onClick="popup('http://www.biomedcentral.com/1471-2180/11/228/mathml/M1','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2180/11/228/mathml/M1">View MathML</a> (P < 0.05) value differs significantly from zero, the null hypothesis of linkage equilibrium is rejected.

Bevivino et al. BMC Microbiology 2011 11:228   doi:10.1186/1471-2180-11-228

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