The unweighted pair group method was used to make the dendrogram of genetic distance
. Popgene 1.31 (39) and Power Stat software were used for calculations.
Keywords: RAPD marker, Polymorphism, Genetic distance
, Gene diversity, Hylocereus sp.
In order to discover a region suitable for genetic distance
analyses and population diagnostic single nucleotide polymorphisms (SNPs), we isolated regions of the alignment to produce a 48-bp fragment of COI that minimized missing data while optimizing taxonomic coverage.
The base composition, nucleotide differences, transformation and transversion, genetic distance
The genetic distance
value was used to make a dendrogram to illustrate the relationship among cattle populations using MEGA version 6.0 .
The diversity index of Shannon (H ') by the formula: H' = [[SIGMA].sup.s.sub.i=1] pi Ln pi where pi is the band frequency and n is the number of markers evaluated (Brown & Weir, 1983); the number observed and expected alleles as well as the mean and total of heterozygosity and the genetic distance
of Nei were also observed.
For the additional landscape genetic calculation the Mantel test (Mantel 1967) and the software "Alleles in Space" (Miller 2005) were used for checking whether the genetic distance
(Nei et al.
We used GATC Biotech AG (Konstanz, Germany) for sequencing, and performed sequence alignment, genetic distance
analyses, and construction of phylogenetic trees in MEGA5 (30,31).
The discriminatory indices (D) of BOX-PCR and ERIC-PCR at selected genetic distance
percentages were calculated based on Simpson's Index of Diversity using the formula described by Hunter and Gaston :
We also estimated the Cavalli-Sforza and Edwards genetic distance
for each pair of populations (Cavalli-Sforza & Edwards, 1967), with the ENA method (DC-ENA) and the INA method ([D.sub.C-INA]).
puelchana as indicated by their K2P genetic distance
of 0.13 in COI (Table 2).