Table 5

Substitution patterns.

Gene length

Expression

Recombination


2761 genes


AT -> GC

n = 47762 conserved, 7014 changes

R2 = 0.038***

P(GL)***,P(Expr)**

P(dmc1)***,P(mre110)NS

+0.1082*

-0.1922***

Co:+0.0178NS

nCo:+0.0041NS

spo11:+0.0218NS

dmc1:+0.0290NS

mre110:+0.0252NS

mre116:+0.0287NS


GC -> AT

n = 26739 conserved, 5677 changes

R2 = 0. 068***

P(GL)***,P(exp)**

P(dmc1, mre110)***

+0.2193***

-0.2435***

Co:-0.1277***

nCo:-0.0338**

spo11:-0.1502***

dmc1:-0.1636***

mre0:-0.1193***

mre6:-0.1112***


GC -> GC

n = 26739 conserved, 842 changes

R2 = 0.349***

P(GL)***,P(expr)NS,

P(dmc1)***,P(mre110)**

+0.2048***

-0.1615***

Co:+0.0210NS

nCo: +0.0343NS

spo: +0.0027NS

dmc1:-0.0234NS

mre0:+0.0173NS

mre6:-0.0160NS


AT -> AT

n = 47762 conserved, 281 changes

R2 = 0.746***

P(GL)***,P(expr)***,

P(dmc1, mre110)NS

+0.1559***

-0.0454NS

Co:-0.0156NS

nCo:-0.0388*

spo:-0.0804**

dmc1:-0.0735***

mre110:-0.0208NS

mre116:-0.0063NS


AT->GC/(AT->GC+GC->AT)

-0.0752***

+0.0441*

Co:+0.0983***

nCo:+0.0211 NS

spo11: +0.1103***

dmc1:+0.1213***

mre110:+0.0947***

mre116:+0.0946***


1965 genes; controlling for effects of gene position


AT-> GC

n = 29013 conserved, 4126 changes

R2 = 0.011**

P(GL)NS,P(expr)NS,

P(dmc1, mre110)*

-0.0281NS

-0.1210***

Co:+0.0264NS

nCo:-0.0084NS

spo11:+0.0241NS

dmc1:+0.0418NS

mre110:+0.0077NS

mre116:+0.0416NS


GC-> AT

n = 18164 conserved, 3594 changes

R2 = 0.055***

P(GL)NS,P(Expr)* P(dmc1,

mre110)***

+0.0118NS

-0.1420***

Co:-0.1025***

nCo:-0.0765***

spo11:-0.0848***

dmc1:-0.1117***

mre110:-0.1004***

mre116:-0.0704***


GC-> GC

n = 18164 conserved, 509 changes

-0.0136NS

-0.0748***

Co:+0.0345NS

nCo:+0.0143NS

spo11:+0.0556*

dmc1:+0.0433NS

mre110:+0.0038NS

mre116:+0.0214NS


AT-> AT

n = 29013 conserved, 171 changes

-0.0460*

+0.0322NS

Co:-0.0151NS

nCo:-0.0644**

spo:-0.0648*

dmc1:-0.0377NS

mre110:+0.0031NS

mre116:+0.0285NS


AT->GC/(AT->GC+GC->AT)

-0.0329NS

+0.0131NS

CO:+0.0824**

nCo:+0.0642**

spo11:+0.0664**

dmc1:+0.0932***

mre110:+0.0609**

mre116:+0.757**


Spearman Rank Correlations of directed substitutions at four-fold degenerated sites (that to not change the non-optimal status) and of the proportion of AT->GC substitutions with gene length, expression, and various recombination measures, with and without controlling for an effect of gene position. Presented are also MR results of variables whose log-transformation did not grossly deviate from a normal distribution. *P < 0.05, **P < 0.01,***P < 0.001, NS = not significant.

Stoletzki BMC Evolutionary Biology 2011 11:93   doi:10.1186/1471-2148-11-93

Open Data