Abstract Detail

Molecular Ecology and Evolution

Yu, Wen-Bin [1], Wang, Hong [2], Jin, Jian-Jun [2], Ree, Richard [3], Li, De-Zhu [4], dePamphilis, Claude W. [5].

Evolutionary variations of chloroplast genome structure in Pedicularis (Orobanchaceae).

Chloroplast genomes shows striking variation in gene content and structure in non-photosynthetic plants. By contrast, hemiparasitic plants have almost complete chloroplast genomes in comparison to their autotrophic relatives. Pedicularis (Orobanchaceae) is a genus of hemiparasitic herbs with over 500 species. In this study, we sequenced total genomic DNA from 15 Pedicularis species. Genomic DNA was extracted using fresh leaves, then prepared for high-throughout sequencing. We first identified plastid DNA reads using reference based mapping. The filtered reads were used as targets to identify additional overlapping reads. Then, the total filtered readsset was assembled using SPAdes. The path for chloroplast genome were view and determined using Bandage. We found that chloroplast genomes of Pedicularis spp. did not lose genes. However, the inverted repeat (IR) and the short single-copy (SSC) regions showed high variations in length and gene content with large differences between species in how far into the SSC the IR extends. Phylogenomic analyses using the common conserved regions for the 15 species were well resolved, including eight recognized clades and one unplaced species (P. moupinensis) from a previous phylogeny of Pedicularis. Comparative phylogenetic analyses showed that variations of genome structure reflected phylogenetic relationship.

1 - Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Center for Integrative Conservation, Menglun, Mengla, Yunnan, 666303, China
2 - Kunming Institute of Botany, Chinese Academy of Sciences, Key Laboratory for Plant Diversity and Biogeography of East Asia, 132 Lanhei Road, Kunming, Yunnan, 650201, China
3 - Field Museum of Natural History, Department of Botany, 1400 South Lake Shore Drive, Chicago, IL, 60605, USA
4 - Kunming Institute of Botany, Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming, Yunnan, 650201, China
5 - The Pennsylvania State University, Department of Biology, University Park, State College

Keywords:
Pedicularis
Orobanchaceae
Chloroplast Genome
phylogeny
phylogenomics.

Presentation Type: Oral Paper
Session: 40, Molecular Ecology and Evolution
Location: 102/Savannah International Trade and Convention Center
Date: Wednesday, August 3rd, 2016
Time: 8:15 AM
Number: 40002
Abstract ID:584
Candidate for Awards:None