Abstract
Background: The classification of diversity in germplasm collections is important for plant breeding. The repetitive element palindromic-polymerase chain reaction (rep-PCR) technique was used to investigate inter-specific diversity within 17 species from the Euphorbiaceae family using REP and BOX primers. Results: The agglomerative cluster analysis was used to evaluate the scoring data. BOX and REP gave amplification with polymorphism of 98.84% and 100% respectively. REP marker demarcated between the subgenus peltatae. Both markers confirmed Jatropha tanjorensis as a natural hybrid between Jatropha gossypifolia and Jatropha curcas . Five random sequences from the rep-PCR gels were chosen, cloned and sequenced. The blast results demonstrated that the amplified products were from the mitochondrial genomes. Conclusion: The rep-PCR molecular tool can be used to characterize diversity in plants as they are suitable for distinguishing eukaryotic genomes effectively.
Highlights
Establishing correct description and characterization of accessions is important for identification of individuals at the species or sub-species level or distinguishing different varieties or inbred lines for phylogenetic or breeding purposes [1].The genus Jatropha is morphologically diverse with up to 175 species [2] and is an economically important plant in more than 50 countries [3] and, Jatropha curcas in particular, has an enormous potential as a biodiesel plant [4]
Genetic diversity in the Jatropha germplasm has been investigated previously based on agromorphological traits [2,6,7], biochemical traits [6], molecular markers including isozymes [6], RAPDs [8,9,10,11], ISSRs [8], AFLPs [11,12,13], single primer amplification reaction (SPAR) [14], SSR [13] and nrDNA ITS [10]
The two sets of primer, REP and BOX, gave successful amplification with a total of 183 and 260 bands respectively with band sizes lying between 60 bp–2060 bp and 180 bp–2970 bp respectively. 183 bands from REP and 257 bands were polymorphic band with polymorphism of 100% and 98.84% respectively (Table 2)
Summary
Establishing correct description and characterization of accessions is important for identification of individuals at the species or sub-species level or distinguishing different varieties or inbred lines for phylogenetic or breeding purposes [1].The genus Jatropha is morphologically diverse with up to 175 species [2] and is an economically important plant in more than 50 countries [3] and, Jatropha curcas in particular, has an enormous potential as a biodiesel plant [4]. Organellar genomes — chloroplast DNA (cpDNA) and mitochondrial DNA (mtDNA) — have been increasingly used in recent years as markers to assess maternal/or paternal gene flow because of their uniparental mode of inheritance [15]. Molecular markers such as RFLP, and RAPD, PCR-RFLP, which assess genome-wide variability, have been employed to detect variations across mitochondrial genomes or to identify specific cytoplasms [16]. Conclusion: The rep-PCR molecular tool can be used to characterize diversity in plants as they are suitable for distinguishing eukaryotic genomes effectively
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