Table 1 Open in new tab Selection and...

Locus fragment	ω^a	Tajima's D^b,c	Fu and Li's D^c,^d	Fu and Li's F^c,^d	Fu's Fs^c,^d	R₂^e
recA	0.0122 (0.0020, 0.0376)	−0.744	−0.860	−1.475	−1.201	−1.311	−3.578	0.083
mdh	0.0115 (0.0036, 0.0268)	0.828	0.308	−0.955	0.219	0.561	−1.156	0.137
ainS	0.1799 (0.1488, 0.2152)	2.423 (0.005)	1.736 (0.044)	2.021	0.755	1.781 (0.022)	−0.317	0.186
katA	0.0402 (0.0221, 0.0661)	0.701	0.410	0.530	0.021	0.363	−0.244	0.131
pyrC	0.0263 (0.0136, 0.0450)	0.004	−0.221	−1.476	0.267	0.228	−3.094	0.109
luxA	0.0642 (0.0525, 0.0776)	3.034 (<0.001)	1.706 (0.020)	2.890 (<0.001)	1.964 (<0.001)	2.979 (<0.001)	19.610 (<0.001)	0.207 (<0.001)

Locus fragment

ω^a

Tajima's D^b,c

Fu and Li's D^c,^d

Fu and Li's F^c,^d

Fu's Fs^c,^d

R₂^e

AA^f

recA

0.0122 (0.0020, 0.0376)

−0.744

−0.860

−1.475

−1.201

−1.311

−3.578

0.083

mdh

0.0115 (0.0036, 0.0268)

0.828

0.308

−0.955

0.219

0.561

−1.156

0.137

ainS

0.1799 (0.1488, 0.2152)

2.423 (0.005)

1.736 (0.044)

2.021

0.755

1.781 (0.022)

−0.317

0.186

katA

0.0402 (0.0221, 0.0661)

0.701

0.410

0.530

0.021

0.363

−0.244

0.131

pyrC

0.0263 (0.0136, 0.0450)

0.004

−0.221

−1.476

0.267

0.228

−3.094

0.109

luxA

0.0642 (0.0525, 0.0776)

3.034 (<0.001)

1.706 (0.020)

2.890 (<0.001)

1.964 (<0.001)

2.979 (<0.001)

19.610 (<0.001)

0.207 (<0.001)

Locus fragment	ω^a	Tajima's D^b,c	Fu and Li's D^c,^d	Fu and Li's F^c,^d	Fu's Fs^c,^d	R₂^e
recA	0.0122 (0.0020, 0.0376)	−0.744	−0.860	−1.475	−1.201	−1.311	−3.578	0.083
mdh	0.0115 (0.0036, 0.0268)	0.828	0.308	−0.955	0.219	0.561	−1.156	0.137
ainS	0.1799 (0.1488, 0.2152)	2.423 (0.005)	1.736 (0.044)	2.021	0.755	1.781 (0.022)	−0.317	0.186
katA	0.0402 (0.0221, 0.0661)	0.701	0.410	0.530	0.021	0.363	−0.244	0.131
pyrC	0.0263 (0.0136, 0.0450)	0.004	−0.221	−1.476	0.267	0.228	−3.094	0.109
luxA	0.0642 (0.0525, 0.0776)	3.034 (<0.001)	1.706 (0.020)	2.890 (<0.001)	1.964 (<0.001)	2.979 (<0.001)	19.610 (<0.001)	0.207 (<0.001)

Table 1

Open in new tab

Selection and population growth test statistics from six loci of 45 different V. fischeri strains

Locus fragment	ω^a	Tajima's D^b,c			Fu and Li's D^c,^d	Fu and Li's F^c,^d	Fu's Fs^c,^d	R₂^e
		S	η	AA^f
recA	0.0122 (0.0020, 0.0376)	−0.744	−0.860	−1.475	−1.201	−1.311	−3.578	0.083
mdh	0.0115 (0.0036, 0.0268)	0.828	0.308	−0.955	0.219	0.561	−1.156	0.137
ainS	0.1799 (0.1488, 0.2152)	2.423 (0.005)	1.736 (0.044)	2.021	0.755	1.781 (0.022)	−0.317	0.186
katA	0.0402 (0.0221, 0.0661)	0.701	0.410	0.530	0.021	0.363	−0.244	0.131
pyrC	0.0263 (0.0136, 0.0450)	0.004	−0.221	−1.476	0.267	0.228	−3.094	0.109
luxA	0.0642 (0.0525, 0.0776)	3.034 (<0.001)	1.706 (0.020)	2.890 (<0.001)	1.964 (<0.001)	2.979 (<0.001)	19.610 (<0.001)	0.207 (<0.001)

Locus fragment	ω^a	Tajima's D^b,c			Fu and Li's D^c,^d	Fu and Li's F^c,^d	Fu's Fs^c,^d	R₂^e
		S	η	AA^f
recA	0.0122 (0.0020, 0.0376)	−0.744	−0.860	−1.475	−1.201	−1.311	−3.578	0.083
mdh	0.0115 (0.0036, 0.0268)	0.828	0.308	−0.955	0.219	0.561	−1.156	0.137
ainS	0.1799 (0.1488, 0.2152)	2.423 (0.005)	1.736 (0.044)	2.021	0.755	1.781 (0.022)	−0.317	0.186
katA	0.0402 (0.0221, 0.0661)	0.701	0.410	0.530	0.021	0.363	−0.244	0.131
pyrC	0.0263 (0.0136, 0.0450)	0.004	−0.221	−1.476	0.267	0.228	−3.094	0.109
luxA	0.0642 (0.0525, 0.0776)	3.034 (<0.001)	1.706 (0.020)	2.890 (<0.001)	1.964 (<0.001)	2.979 (<0.001)	19.610 (<0.001)	0.207 (<0.001)

K_a/K_s or d_N/d_S: Ratio of the number of non-synonymous substitutions per non-synonymous site to the number of synonymous substitutions per synonymous site, calculated using the SLAC method (95% confidence interval in parentheses).

Tajima's D test statistic calculated using the nucleotide sequence and the total number of segregating sites (S), total mutations (η) or the amino-acid sequence and the total number of segregating sites (AA).

Statistical significance of test statistic (given in parentheses if P<0.05) was calculated from 10³ neutral coalescence simulations by using segregating sites with an intermediate level of recombination.

Fu and Li's D and F, and Fu's Fs test statistics were calculated by using total segregating sites.

Population growth test statistic of Ramos-Onsis and Rozas (Ramos-Onsins and Rozas, 2002); the test statistic distribution and statistical significance were calculated from 10³ neutral coalescence simulations by using segregating sites with an intermediate level of recombination. For the luxA fragment, the test statistic is significantly larger than the distribution calculated by the coalescent at a level of P<0.001.

Statistical significance of test statistic was estimated from the β distribution.

This Feature Is Available To Subscribers Only