Nucleotide diversity in the mitochondrial and nuclear compartments of Chlamydomonas reinhardtii: investigating the origins of genome architecture

Table 3 McDonald-Kreitman test comparing the ratio of nonsynonymous to synonymous differences within Chlamydomonas reinhardtii to that found between C. reinhardtii and Chlamydomonas incerta.

			Polymorphisms within C. reinhardtii	Substitutions between C. reinhardtii and C. incerta	NI	G	P
mtDNA	Protein-coding^a	Nonsynonymous	3	61	0.653	0.533	0.465
		Synonymous	36	478
	rtl	Nonsynonymous	5	111	0.746	0.185	0.667
		Synonymous	4	119
Nuclear DNA	Exonic (overall)^b	Nonsynonymous	1	18	0.159	4.837	0.027
		Synonymous	21	60
	CBLP	Nonsynonymous	0	0	undef	undef	undef
		Synonymous	1	1
	PETC	Nonsynonymous	0	3	0.000	undef	undef
		Synonymous	2	4
	PDK	Nonsynonymous	0	2	0.000	undef	undef
		Synonymous	3	18
	MAT3	Nonsynonymous	1	9	0.677	1.081	0.298
		Synonymous	6	18
	SFA	Nonsynonymous	0	4	0.000	undef	undef
		Synonymous	9	19

Note--NI, neutrality index (ratio of nonsynonymous to synonymous polymorphisms within C. reinhardtii compared to the ratio of nonsynonymous to synonymous fixed differences between C. reinhardtii and C. incerta); G, G-test of independence (determines if the proportion of nonsynonymous substitutions is independent of whether the substitutions are fixed or polymorphic); P, probability of G-test; undef, undefined. C. incerta data came from [6] and [7]. Note: in no case was the McDonald-Kreitman test statistically significant.
^a Includes all protein coding genes excluding rtl.
^b Concatenated exons from all 5 nuclear genes.

ISSN: 2730-7182