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Abstract Detail



Systematics Section/ASPT

Fisher, Amanda Elizabeth [1], Hasenstab, Kristen M. [2], Bell, Hester [2], Ingram, Amanda [3], Columbus, J. Travis [2].

Nuclear phylogeny of chloridoid grasses with >100 targeted loci.

Chloridoideae is a large subfamily of grasses whose species are most diverse in arid habitats. Their phylogeny has largely been estimated from chloroplast sequence data, but our understanding of a lineage's evolutionary history can be improved when chloroplast phylogeny estimates are compared to nuclear estimates. Recent developments in next-generation sequencing (NGS) technologies allow us to efficiently recover large amounts of nuclear sequence data. We sought to test our chloroplast-based hypotheses of relationships in the Chloridoideae with 122 nuclear loci generated through Hyb-Seq targeted-enrichment NGS. The targeted loci include putative single-copy housekeeping genes, as well as genes that have been implicated in traits characteristic of, or particularly labile in, chloridoids: e.g., drought and salt tolerance, floral sexuality, and inflorescence branching. We recovered 70% of the targeted loci (122 of 177 loci) using Hyb-Seq NGS and analyzed alignments of 122 loci in Bayesian and coalescent frameworks. Our phylogeny estimation corroborates the presence of four tribes within Chloridoideae, but relationships in the Cynodonteae tribe are quite different from chloroplast estimates. We tested for conflict between data partitions, conflict when using BI and coalescent methods, and the effect of loci concatenation to assess our confidence in this new, nuclear estimate of evolutionary relationships. Our results represent progress towards a robust classification of this important subfamily of grasses, as well as proof-of-concept for hyb-seq targeted-enrichment NGS as a method to generate sequences for phylogenetics.


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1 - Rancho Santa Ana Botanic Garden, 1500 N. College Ave., Claremont, CA, 91711, USA
2 - Rancho Santa Ana Botanic Garden, 1500 North College Avenue, Claremont, CA, 91711, USA
3 - Wabash College, Biology, Hays Hall 117, Crawfordsville, IN, 47933, USA

Keywords:
Chloridoideae
Grass phylogeny
targeted enrichment
phylogenomics
poaceae.

Presentation Type: Oral Paper:Papers for Sections
Session: 50
Location: Salon 10/The Shaw Conference Centre
Date: Tuesday, July 28th, 2015
Time: 4:30 PM
Number: 50012
Abstract ID:1228
Candidate for Awards:None


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