Abstract
The usefulness of IRAP (inter-retrotransposon amplified polymorphism) and ITS-RFLP (restriction of PCR-amplified internal transcribed spacers of the rDNA) markers in the analysis of 39 Pyrenophora graminea isolates was determined. Each marker system could discriminate between all of the isolates in detecting polymorphism, albeit with variable efficiency. IRAP and ITS-RFLP produced 85% and 77% polymorphic bands, respectively, with a corresponding mean polymorphic information content (PIC) of 0.38 and 0.36. The IRAP marker index ratio (2.41) was higher than ITS-RFLP (1.50). On one hand, the quality nature of data (QND) was higher for ITS-RFLP (0.169) than IRAP (0.093). However, correlation between both marker similarity matrices was significant (r = 0.34, p < 0.05). These findings suggest their combined use in phylogenetic analysis. To our knowledge, this is the first report of a comparison involving these two advanced DNA marker systems.
Highlights
It would be of interest to determine whether inter-retrotransposon amplified polymorphism (IRAP) and internal transcribed spacer (ITS)-restriction fragment length polymorphisms (RFLP) markers are efficient at detecting genetic patterns existent among P. graminea isolates
The present study aimed to evaluate the usefulness of both markers in assessing and analyzing the nature and extent of genetic diversity among isolates of P. graminea collected from various regions in Syria
The unweighted pair-group method with arithmetic averages (UPGMA) dendrogram generated from IRAP and ITS-RFLP data demonstrated that isolates clustered into five groups for both markers by a similarity index of 0.341 for IRAP and 0.460 for ITS-RFLP (Figure 2)
Summary
Two classes of molecular markers which have received much attention in recent studies on genetic diversity in natural populations, are inter-retrotransposon amplified polymorphism (IRAP) (Kalendar et al, 1999; Pasquali et al, 2007), and restriction fragment length polymorphisms (RFLP) of PCR amplified internal transcribed spacer (ITS) regions (ITS-RFLP) (Hsiang and Wu 2000; Nilsson et al, 2008). It would be of interest to determine whether IRAP and ITS-RFLP markers are efficient at detecting genetic patterns existent among P. graminea isolates. The present study aimed to evaluate the usefulness of both markers in assessing and analyzing the nature and extent of genetic diversity among isolates of P. graminea collected from various regions in Syria.
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