Network of haplotypes at the cpDNA and each low copy nuclear locus
In haplotype networks, haplotypes belonging to C. bifida were represented in white, while haplotypes belonging to C. micholitzii were represented in black (Figure 2). Based on cpDNA data and the three nuclear genes (PHYP , AC5 andPPRC ), haplotypes of C. bifida can be clustered together and haplotypes of C. micholitzii can be clustered together without mixing, except the nuclear gene PHYP had one haplotype (A5) shared by the two species. Due to the recombination, the haplotype networks of AAT and SAMS showed reticulated structures. It was difficult to identified ancestral haplotypes in C. bifida . For C. micholitzii , haplotypes cpH11, A5, B17, C8 and C9, D10 and E13 were located at the internal node of networks respectively and appeared frequently, so they may be ancestral haplotypes. The remaining haplotypes were linked to the central haplotype, which were deduced newly derived haplotypes.