Cicero Ellis posted an update 1 week, 4 days ago
batatas haplotypes are distributed on two distinct branches inside the tree (Figure 3a and S2).and the genetic distinction involving Southern and Northern genepools is just not clearly identifiable with this representation. For the DAPC clustering evaluation (Figure 4), the acceptable variety of clusters was 5. This grouping also fairly properly reflects species boundaries: I. trifida L–or any subcellular element, like the nucleus–we accessions are represented by cluster K4 and I. triloba accessions by cluster K5. I. batatas accessions were connected to 3 distinct clusters, K1, K2 and K3. Some Ipomoea sp. have been attributed to I. trifida cluster (K4) and other individuals towards the I. batatas cluster (K1 and K3; Figure 4). The majority of the I. batatas accessions in the Southern area (48/56) were grouped in cluster K1 (with one particular Ipomoea sp. from Ecuador and also some I. batatas in the Northern region (5/83)). I. batatas accessions from the Northern region had been subdivided in two clusters, cluster K2 which includes a big part of these Northern accessions (50/83) and cluster K3 such as some accessions in the Northern area (19/83) and a few Ipomoea sp. (23/42). With the model-based clustering analysis (STRUCTURE, Figure S3), the optimal variety of clusters to describe the data was unclear. Consequently, clustering final results had been less informative (taxon boundaries weren’t clearly identifiable and many individuals had a mixed genetic constitution; Figure S2). The best Bayesian grouping to be compared with DAPC benefits was obtained for K = six, a clustering option which distinguished cultivated I. batatas accessions from wild relatives, and also separated varieties in the Northern and Southern area (Figure S3).Congruence between cpDNA haplotype groups and nuclear SSR genetic structureBoth kinds of markers identified diploid I. trifida and I. triloba as two distinct and uniform genetic groups (Figure 5 and Table two). Concerning I. batatas, we didn’t sequence all of the 139 varieties for the rpl32-trnL(UAG) marker. Therefore, we made use of cpDNA lineage information and facts from Roullier et al.  to complete our dataset. As described in Roullier et al. , i) nuclear markers reflect a stronger phylogeographic signal than chloroplast markers but ii) phylogeographic patterns revealed by each sets of data were globally congruent. Indeed, Southern varieties have been mostly linked to chloroplast lineage 1 and nuclear cluster 1 (39/54 in total). Within the Northern region, each signals had been also congruent since 43/84 sweet potato accessions have been associated to nuclear clusters K2 and K3 and chloroplast lineage two. Having said that, 23 Northern varieties had been linked to nuclear clusters K2 and K3, yet carried a chloroplast lineage1 haplotype. Ipomoea sp. specimens that grouped with the I. trifida cluster K2 harbored the Northern chloroplast haplotype (or the unclassified rare haplotype 1) and were all positioned in the Southern area (Ecuador and South Colombia). Those from the Northern area carried the Northern chloroplast haplotype and have been grouped with nuclear cluster K3 (Figure 5 and Table two).Interspecific relationships as inferred from SSR markersSSRs could possibly be amplified for all loci and all species, top to a total of 137 alleles. The number of alleles NA, rarefied allelic richness Ar, and anticipated heterozygosity He, had been equivalent in I. trifida, I. batatas and Ipomoea sp.