Genetic diversity analysis of some Egyptian Origanum and Thymus species using AFLP markers

Abstract

BackgroundIn the present investigation, two genera of family Labiatae (genus Origanum and genus Thymus including their available species in Egypt) were analyzed genetically on DNA level using amplified fragment length polymorphism (AFLP) markers. Four selective primer combinations (E-AGC/M-CAA, E-AGC/M-CAC, E-AGG/M-CTC, and E-ACC/M-CAT) were used to detect genetic variations (polymorphisms) within and between the studied plant species of each genus and with their cultivated relatives.ResultsA total of 193 amplified fragments were obtained overall primer combinations with a disparity in the number of bands for each primer combination. The primer combination E-AGG/M-CTC exhibited a large number of amplicons (67) compared to the other primers with polymorphism percentage 69%. The polymorphism information content (PIC) was calculated for the four primer combinations showing a very high values ranging between 0.98 and 0.99. On the other hand, Thymus species (Thymus vulgaris, Thymus capitatus L., and Thymus decassatus Benth.) exhibited a total number of 171 amplicons for all primer combinations with an average of 42 bands. The primer combination E-AGG/M-CTC produced the largest number of bands (62 bands) with polymorphism percentage 35%, even though the primer combination AGC/M-CAA was more efficient to give high polymorphisms within Thymus species where it resulted in a total of 35 bands with polymorphism percentage 63%. The PIC values were calculated ranging from 0.96 to 0.99.ConclusionOne can conclude that AFLP technique was informative and efficient technique to give a good coverage of Origanum and Thymus genomes. Furthermore, it was helpful to elucidate the genetic variations and phylogenetic relationships within the studied species as a basis for further studies on these genera and related species.

Efficiency of RAPD and SCoT Markers in the Genetic Diversity Assessment of the Common Bean

“…The values of polymorphic information content represent the level of marker effectivity in the determination of polymorphism in the set of genotypes. The value of PIC depends not only on the number of produced fragments but also on their relative frequency [50,51]. On average, we detected higher average values of PIC in the SCoT markers (0.795) in comparison to the RAPD markers (0.760).…”

Analysis of population structure and genetic diversity of Iranian Wild Salicornia (Salicornia iranica Akhani) population

“…Molecular markers have become increasingly important in evaluating species diversity and evolutionary relationships [15]. For researchers, the genetic analysis of plants is a foundation for characterizing natural plant genetic resource, detecting genetic diversity or genetic homogeneity, and selecting plants with specific traits such as the synthesis of desired chemicals and stress tolerance mechanisms [8]. Salicornia consists of approximately 15 genus and 68 species [29].…”

Genetic diversity of Libyan date palms cultivars using amplified fragment length polymorphism and biochemical analysis

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