Abstract Detail



Phylogenomics

Shivakumar, Vikram [1], Appelhans, Marc [2], Carlsen, Monica [3], Johnson, Gabriel [4], Zimmer, Elizabeth [5].

Analysis of whole chloroplast genomes from the genera of the Clauseneae, the Curry tribe (Rutaceae, Citrus family).

The Clauseneae (Aurantioideae, Rutaceae) is an economically important tribe in the Citrus family. Although this group contains the culinary and medicinally-useful curry tree (Bergera koenigii L.), it has been relatively understudied. Recent and dramatic taxonomic revisions of this tribe warranted this first genomic investigation. Whole chloroplast genome sequencing with Illumina MiSeq was performed for six species, representing each of the four genera (Bergera, Clausena, Glycosmis (2 species) and Micromelum) in the Clauseneae tribe plus one closely related outgroup (Merrillia). The published sequence of Citrus sinensis was used as a reference plastome. To identify regions of highest variability for future studies, single nucleotide polymorphism (SNP) data were analyzed among the seven species and variability frequencies were recorded for each region. Non-coding regions exhibited a higher percentage of variable characters as expected, and the phylogenetic markers ycf1, matK, trnG-trnR spacer, ndhF, and trnH-psbA spacer proved to be the most variable regions. Other markers frequently used in previous phylogenetic studies of the Rutaceae, e.g. rbcL, atpB-rbcL, and trnL-trnF, proved to be far less variable. Bayesian inference (BEAST) and Maximum Likelihood (RAxML) analyses of the alignment yielded a completely supported phylogeny.


1 - Thomas Jefferson High School for Science and Technology, 6560 Braddock Rd, Alexandria, VA, 22312, USA
2 - University of Göttingen, Albrecht-von-Haller Institute of Plant Scie, Department of Systematics, Biodiversity and Evolution of Plants, Untere Karspüle 2, Göttingen, 37073, Germany
3 - Smithsonian Institution, National Museum of Natural History, Department of Botany, PO Box 37012, Washington, DC, 20013-7012, YSA
4 - Smithsonian Institution, Botany, P.O. Box 7012, NMNH, MRC 166, Washington, D.C., 20013
5 - Smithsonian Institution, National Museum of Natural History, Department of Botany, PO Box 37012, Washington, DC, 20013-7012

Keywords:
Rutaceae
Clauseneae
Bergera koenigii
Chloroplast Genome
Single nucleotide polymorphism
Next generation sequencing.

Presentation Type: Poster
Session: P
Location: Exhibit Hall/Savannah International Trade and Convention Center
Date: Monday, August 1st, 2016
Time: 5:30 PM
Number: PPY003
Abstract ID:202
Candidate for Awards:Genetics Section Poster Award


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