Table 1.

Haplotype structure in Silene acaulis and comparison with two caryophyllid outgroup sequences

Haplotype	Nucleotide at polymorphic position																								n
	10	102	241	244	246	499	510	591	592	593	735	858	861	894	909	966	981	987	997	1002	1005	1033	1034	1039
CO-2	A	T	T	T	T	C	C	T	T	C	G	A	A	G	C	G	T	A	G	T	A	C	C	C	15
AK-1	.	.	.	.	.	.	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	2
EU-2	.	.	.	.	.	.	.	.	.	.	.	.	.	T	.	A	.	C	T	.	.	.	.	.	6
CO-1	.	.	.	.	.	.	.	G	G	.	.	.	.	.	A	.	.	C	T	.	T	.	.	.	17
AK-3	.	.	.	.	.	.	A	.	.	.	.	T	.	.	.	.	.	C	T	.	.	.	.	.	2
AK-4	C	C	.	.	.	.	.	.	.	.	.	T	.	.	.	.	.	.	.	G	.	G	G	A	1
AK-2	C	.	.	.	.	.	A	.	.	A	.	.	.	.	.	.	G	C	T	.	.	.	.	.	2
EU-3	C	.	.	.	.	.	A	.	.	T	T	T	.	.	.	.	G	C	T	.	.	.	.	.	1
EU-1	C	.	C	G	G	.	.	.	.	.	T	T	.	.	.	.	.	C	T	.	.	.	.	.	13
S. latifolia	.	.	C	G	G	.	.	.	.	.	T	T	G	.	.	.	.	C	T	.	.	.	.	.	1
Stellaria sp.	.	.	C	G	G	G	.	.	G	.	T	T	.	.	A	.	.	C	T	.	T	.	.	.	1
Substit. type	r	s	r*	r	s	r	s	r	r	r,r	s	r	s	s	s	s	s	s	r	s	r	r	r	r

The first nine haplotypes represent the diversity found in S. acaulis, while the last two represent single individuals of the congeneric S. latifolia and Stellaria sp., respectively. S. acaulis haplotypes are named after the three geographic regions (CO, Colorado; AK, Alaska; EU, northern Europe). Dots indicate identity with the reference sequence CO-2, which was found both in Colorado (Colorado minority haplotype) and Alaska (n = 13 of 20 plants); all other haplotypes are exclusive to one of the three regions. To achieve equal representation of all geographic regions for statistical tests, the Colorado sample was considered to consist of 17 individuals with haplotype CO-1 and two individuals with haplotype CO-2; these proportions reflect the larger RFLP sample (see text). On the last line, nucleotide substitutions are categorized as either synonymous (s) or replacement (r). Only the polymorphism at position 241 is likely to be affected by RNA editing (28, 29), thus converting a replacement into a synonymous substitution (asterisk). Note that there is but a single fixed difference to each of the two outgroup sequences [positions 499 (Stellaria) and 861 (S. latifolia)]; the remaining 22 variable sites are polymorphic within S. acaulis.