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Abstract Detail

Systematics Section/ASPT

Mandel, Jennifer [1], Dikow, Rebecca [2], Rieseberg, Loren [3], Burke, John [4], Funk, Vicki [5].

Genomics and the base tree of the Compositae: phylogenetic information from hundreds of loci.

The Compositae are a large (25,000-33,000 species) and important family of plants that include critical members of many threatened ecosystems and important invasives. They occur throughout the world, but are most abundant in geologically recent habitats like areas of Mediterranean climate, deserts and forest margins, open prairies, steppes, and mountains. The most comprehensive phylogeny to date is a metatree based on a "base tree" of 10 chloroplast loci. However, this phylogeny has unresolved areas so hypotheses of character evolution cannot be developed. NextGen sequencing methods are providing a method to resolve the base tree and facilitate research by providing a framework for micro-evolutionary and systematic studies, and clearly delineating areas for which molecular and morphological studies are desirable. We have developed the tools necessary for phylogenomic analyses of understudied species within the Compositae. The goal is to enable the rapid sequencing of large numbers of orthologous genes from a variety of taxa from across the family, thereby facilitating efficient phylogenomic analyses and, ultimately, the testing of hypotheses regarding species relationships and patterns of phenotypic evolution across the family. This work has involved the identification of conserved orthologous sequences from existing sunflower, lettuce, and safflower genomic resources and the design of sequence capture probes for ca. 1300 such genes. We performed sequence capture using this probe set on 10 species from diverse clades of the Compositae. Success of enrichment for genes was measured by next-generation sequencing of enriched/sequence captured samples and comparing to whole-genome shotgun sequence of the same DNA sample. We then performed bioinformatic and phylogenetic analyses to construct gene and species trees from this data set. Future plans call for scaling up to 150 species and sharing the methods with synantherologists so that they can be applied broadly in the family.

Broader Impacts:

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1 - University of Georgia, Department of Plant Biology, Miller Plant Sciences, Athens, GA, 30602, USA
2 - Smithsonian Institution, Department of Vertebrate Zoology, National Museum of Natural History & National Zoo, Washington , DC, 20560, USA
3 - University of British Columbia, Department of Botany, 3529-6270 University Blvd, Vancouver, BC, V6T 1Z4, Canada
4 - University of Georgia, Miller Plant Sciences, Athens, GA, 30602, United States
5 - Smithsonian Institution, DEPT OF BOTANY-NHB 166, P.O. Box 37012, Washington, DC, 20013-7012, USA

Next-generation sequencing
Base Tree.

Presentation Type: Oral Paper:Papers for Sections
Session: 35
Location: Versailles Ballroom/Riverside Hilton
Date: Tuesday, July 30th, 2013
Time: 3:00 PM
Number: 35007
Abstract ID:961
Candidate for Awards:None

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