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Abstract Detail

Systematics Section / ASPT

Bacon, Christine D. [1], Feltus, F. Alex [2], Paterson, Andrew H. [2], Bailey, C. Donovan [1].

Novel nuclear encoded intron-spanning primer sets for phylogeny reconstruction in the palms (Arecaceae).

INTRON sequences derived from low-copy nuclear genes have received attention in the recent literature for their potential resolving power among closely related species, biparental inheritance, and because markers derived from different chromosome have the potential to track independent histories. The development of such markers for the study of palms is especially important because of the slowly evolving nature of palm organellar DNA. Previously, low-copy number nuclear encoded exon-anchored intron-spanning primer sets (aka ‘Conserved-intron scanning primers’ (CISPs)) were developed for potential use across monocotyledonous plants by the alignment of onion and banana EST libraries to rice BACs. In this study, 96 of these primer sets were screened from representative accessions of palms from each tribe, with a greater intra-tribal sampling in Chamaedoreeae. The identification of potentially useful primer sets was based on the ability of each to amplify via PCR, the number of bands amplified per accession, the product size, the quality of sequences obtained, alignability of sequences, and assessments of variability based on pairwise and tree-based approaches. Sixteen primer pairs generated single PCR amplicons in most accessions, and alignable data across a number of accessions was obtained. Of these, four recovered sequences showed sufficient variability to suggest potential utility for phylogeny reconstruction at the inter-tribal level. However, relatively little variation was observed among representatives of Chamaedoreeae, including Guassia and three closely related species of Chamaedorea. Other promising primer sets were evaluated independently from the direct comparisons due to taxon amplification differences. These results may ultimately provide additional support for the growing body of evidence that suggests that palm genomes have low rates of mutation. Alternatively, the use of exon-anchored intron-spanning regions derived from the comparison of highly divergent genomes may have sampled less variable intron-spanning segments than may be available in less conserved genomic regions.

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1 - New Mexico State University, Department of Biology, Po Box 30001, Department 3Af, Las Cruces, New Mexico, 88003-8001, USA
2 - University of Georgia, Center for Applied Genetic Technologies, Plant Genome Mapping Laboratory, 111 Riverbend Rd., Athens, Georgia, 30606, USA

Nuclear gene

Presentation Type: Oral Paper:Papers for Sections
Session: 31-14
Location: 144/Performing Arts Center
Date: Tuesday, August 1st, 2006
Time: 11:45 AM
Abstract ID:608

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