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Abstract Detail



Species tree reconstruction in polyploid complexes

Petri, Anna [1], Pfeil, Bernard [2], Yann, Bertrand [1], Tooming-Klunderud, Ave [2], Pirani, Atefeh  [3], Oxelman, Bengt [1].

The Potential of 454 Amplicon Sequencing for Studying a Polyploid Species Complex.

The potential for next generation sequencing (NGS) methods to resolve complex phylogenetic questions is receiving increased attention. NGS simplify separation of co-amplified sequence variants (e.g., homoeologues) within an individual, and the possibility of multiplexing data from several individuals and loci in targeted sequencing is promising. 454 sequencing generates reads that are long enough to potentially contain phylogenetic information. It may thus be an efficient method to obtain sequence data from many unlinked genetic regions, necessary to resolve a species phylogeny of recently diverged taxa. In the present study, we use transcriptome data from three distantly related Silene taxa to design PCR primers for a large number of low copy nuclear regions, not previously sequenced in Silene. We employ a two-step PCR approach to amplify and barcode 34 loci from 43 specimens of Silene section Physolychnis. These comprise a parent-hybrid species complex, and our aim is to investigate the number of hybridization events leading to the current diversity of allopolyploid taxa. 454 amplicon sequencing is performed on half a picotiter plate using the GS FLX+ systems. Although recombination levels during the second round of PCR remain to be empirically investigated, detection of chimeric sequences and true sequence variants present true challenges. The acquired sequence data can be analyzed in a multispecies coalescent framework, using newly developed tools for analysis of species networks.

Broader Impacts:


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1 - University of Gothenburg, Department of Biological and Environmental Sciences, Sweden
2 - University of Oslo, Norway, Department of Biology, Centre for Ecological and Evolutionary Synthesis (CEES), Norway
3 - University of Tehran, Department of Plant Science , School of Biology, College of Science, Tehran, Iran

Keywords:
none specified

Presentation Type: Symposium or Colloquium Presentation
Session: SY09
Location: Grand Ballroom A/Riverside Hilton
Date: Wednesday, July 31st, 2013
Time: 11:15 AM
Number: SY09009
Abstract ID:983
Candidate for Awards:None


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