Jung, Jongduk , Choi, Hong-Keun .
A Preliminary Study for Phylogeny Inference within Cyperaceae Based on a Low Copy Sequence, Low Silicon Mutant Gene 2.
Phylogenetic relationship within Cyperaceae is not clear yet although molecular phylogenetic analyses based on the several kinds of sequences, such as nuclear ribosomal internal transcribed spacer (ITS), large subunit of ribulose bisphosphate carboxylase gene (rbcL), and chloroplast trnL intron and trnL-F intergenic spacer (trnL-F). The three sequences are reasonable to infer phylogenies of many vascular plants. In contrast, phylogenetic tree of Cyperaceae using rbcL has insufficient resolution and aligned sequences of non-coding regions (e.g. ITS or trnL-F) frequently have ambiguity due to large inserts/deletions. Rapid concerted evolution was reported from high copy sequences (e.g. ITS) and often generate misleading trees. To improve low resolution or to inhibit erroneous interpretation, nuclear single or low copy sequences (e.g. LEAFY) have been used in phylogenetic analyses of flowering plants and are very effective to investigate reticulate evolution or detail relationships. Suitable gene or region is strongly needed to infer phylogeny of Cyperaceae, which has unclear phylogenetic relationship, reported numerous polyploidy, and hybrid. Low silicon mutant gene 2 (Lsi2), related to transport of silica, was chosen as candidate of the suitable gene because silica accumulation is higher than other flowering plants and silica bodies are observed frequently in Cyperaceae. Primer pairs were designed based on rice Lsi2 and sequences of 48 types were determined from 23 Cyperaceae species. Sequences of Lsi2 first exon have small variance (852-861 bp) in length while length of ITS and trnL-F sequences varied from 538 bp to 658 bp and from 784 bp to1,050 bp respectively. Length of rbcL sequences from all species examined was constant (1,293 bp). Portion of parsimony informative characters in aligned sequences of Lsi2 first exon are 24.4% while 33.8%, 4.8%, and 25.1% of aligned ITS, rbcL and trnL-F are parsimony informative respectively. Low length variation (i.e. small inserts/deletions) and high proportion of parsimony informative characters shown in this study support that first exon of Lsi2 are suitable for phylogenetic analysis of Cyperaceae.
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1 - Ajou University, Department of Biological Science, San 5, Woncheon-dong, Suwon, Gyeonggi-do, 443-749, South Korea
low copy sequence.
Presentation Type: Poster:Posters for Sections
Location: Khorassan Ballroom/Chase Park Plaza
Date: Monday, July 11th, 2011
Time: 5:30 PM