The data sets supporting the results of this article are available in the GenBank database (Accession numbers XaG1_02: KJ736838 – KJ736944; XaG1_29: KJ736945 – KJ737053; XaG2_52: KJ737163 – KJ737268; XaG1_67: KJ737269 – KJ737369; XaG1_73: KJ737054 – KJ737162) and in the Dryad Digital Repository: http://doi.org/10.5061/dryad.t173v.
Table 1 Characteristics Selleck LY2603618 of VNTR loci evaluated in Xam isolates from the Colombian Eastern Plains VNTR locus Repeat Number of different alleles Range of allele repetitions Dominant alleles HGDI index G1_02 TCCCCAT 7 1 – 9 4 8 0.7019 G1_29 ATCCCGA 17 1 – 23 5 0.858 G1_52 CCGCCACAACGCA 7 4 – 10 6 0.5873 G1_67 CGACAC 14 10 – 26 16 26 0.8428 G1_73 GGTCAT 8 5 – 12 6 7 9 0.797 VNTR loci were selected according to MK-0457 discriminant index reported by Arrieta and collaborators [36]. Xampopulations presented a genetic differentiation among locations in the Eastern Plains In order to confirm if there
was genetic differentiation among sampled locations, an AMOVA was conducted. ΦPT values showed a statistically significant genetic differentiation between each pair of locations (Table 2). The differentiation was evidenced using both types of molecular markers. Similar proportions of genetic variation were obtained when comparisons between locations and within locations were performed using AFLPs. However, 80% of the genetic variation was distributed within the sampled locations when isolates were characterized by VNTRs. Furthermore, PCoA analysis showed that AFLPs allowed the detection of a more contrasting differentiation among isolates INCB28060 in vivo with different geographical origins (Figure
2). VNTRs also permitted an evident differentiation, but a partial overlapping of isolates from La Libertad and Orocué was observed. However, approximately 75% of the variation among isolates was explained with the first three coordinates of the analysis for both markers (Figure 2). Table 2 Genetic variance among sampled locations in the Eastern Plains using AFLP and VNTR markers Location pair Number of isolates Molecular marker AFLP VNTR Loc. 1 Loc. 2 Loc. 1 Loc. 2 Φ PT LinΦ PT p-value Φ PT LinΦ PT p-value La Libertad Granada 47 3 0.393 0.649 0.001* 0.245 0.324 0.003* La Libertad Orocué 47 50 0.520 1.082 0.001* Thymidylate synthase 0.192 0.238 0.001* Granada Orocué 3 50 0.623 1.649 0.001* 0.196 0.244 0.021* * Statistically significant (p > 0.05). (ΦPT): genetic differentiation among population. (LinΦPT): Linearized genetic differentiation among population. Figure 2 Discrimination of sampled locations in the Colombian Eastern Plains by AFLP and VNTR markers. Disimilarities among Xam isolates were calculated by a Principal Coordinates Analysis (PCoA). Isolates are represented in the PCoA according to their geographical origin. Triangle: La Libertad; square: Granada; rhombus: Orocué. In addition, genetic distances among sampled locations were calculated using the Euclidean distance. A) PCoA was estimated using AFLP data.