In Silico Mining of Microsatellites in Coding Sequences of the Date Palm (Arecaceae) Genome, Characterization, and Transferability
2014
Frédérique Aberlenc-Bertossi | Karina Castillo | Christine Tranchant-Dubreuil | Emira Chérif | Marco Ballardini | Sabira Abdoulkader | Muriel Gros-Balthazard | Nathalie Chabrillange | Sylvain Santoni | Antonio Mercuri | Jean-Christophe Pintaud
Premise of the study: To complement existing sets of primarily dinucleotide microsatellite loci from noncoding sequences of date palm, we developed primers for tri- and hexanucleotide microsatellite loci identified within genes. Due to their conserved genomic locations, the primers should be useful in other palm taxa, and their utility was tested in seven other <i>Phoenix</i> species and in <i>Chamaerops</i>, <i>Livistona</i>, and <i>Hyphaene</i>. Methods and Results: Tandem repeat motifs of 3–6 bp were searched using a simple sequence repeat (SSR)–pipeline package in coding portions of the date palm draft genome sequence. Fifteen loci produced highly consistent amplification, intraspecific polymorphisms, and stepwise mutation patterns. Conclusions: These microsatellite loci showed sufficient levels of variability and transferability to make them useful for population genetic, selection signature, and interspecific gene flow studies in <i>Phoenix</i> and other Coryphoideae genera.
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