Livshultz, Tatyana , Straub, Shannon , Liston, Aaron .
Extending a model: phylogeny of Crown Clade Apocynaceae based on the coding portion of the plastome.
Phylogenetic analyses based on small numbers of chloroplast and nuclear genes have identified difficult-to-resolve radiations with short, poorly supported internal branches at multiple taxonomic levels. Crown Clade Apocynaceae are an example with 5 well-supported lineages whose relationships to each other have not been well-resolved with datasets of up to 6,594 aligned bases. We used Illumina next generation sequencing and reference-guided assembly against the plastomes of Asclepias syriaca and Nerium oleander to generate 11 new plastome sequences of Apocynaceae. The resulting 13 taxon dataset samples 10 species representing all 5 well-supported lineages of Crown Clade Apocynaceae and 3 closely related outgroup genera. Three (3) Crown Clade lineages are represented by 2 or 3 species each and 2 lineages by 1 species each. Alignment of the protein coding (exons and introns) and structural (excluding introns) plastid genes yielded a data matrix of 90,318 aligned bases (13.6 times larger than the previous largest matrix). The 3 lineages represented by multiple species each received 100% bootstrap support under both maximum likelihood and parsimony criteria. Relationships among the 5 previously supported lineages remain ambiguous,either receiving low bootstrap support or conflicting resolutions in parsimony and maximum likelihood analyses. Long-branch removal analyses indicate that the position of one lineage is affected by long branch attraction.
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1 - Academy Of Natural Sciences Of Drexel University, Botany Department, 1900 Benjamin Franklin Parkway, Philadelphia, PA, 19103, USA
2 - Oregon State University, Department of Botany & Plant Pathology, 2082 Cordley Hall, Corvallis, OR, 97331, USA
next generation sequencing
Presentation Type: Oral Paper:Papers for Sections
Location: Delaware C/Hyatt
Date: Wednesday, July 11th, 2012
Time: 4:45 PM