| Abstract Detail
Phylogenomics Nicolas, Antoine [1], Earl, Victoria [2], Hughes, Emily [2], Molina, Giselle [2], Scollan, Brianna [2], Zandel, Stephanie [2], Plunkett, Gregory [3]. Comparative Genomics and Phylogenetic Utility of the Mitochondrial Genome in Apiales. The mitochondrial genome of angiosperms has been rarely used for large-scale phylogenetic purposes, mostly due to the high variability in gene order. This variability is mostly caused by the presence of multiple repeat regions that recombine, break, and reattach, leading to a very high diversity of genomic rearrangements. This causes variation of gene order in different cells, among mitochondria within the same cell, and among genomes within the same mitochondria. Such events make it very unlikely for the angiosperm mitochondrial genome to exist in one closed chromosome with a consistent order of genes and a canonical order of genes becomes very difficult to predict. With the current advances in whole genome sequencing technology, the mitochondrial genome is being more utilized, but there is still more to achieve. For example, in Apiales, an order of c. 5000 species, there is less than a handful of published mitochondrial genomes that have been verified. Hence, this presentation aims to provide more detailed descriptions of the mitochondrial genomes across the major groups of Apiales and explore the phylogenetic/phylogenomic utility of the genome at different evolutionary levels. To accomplish this, we used shotgun sequencing of over 150 samples, representing all major clades in Apiales, with expanded sampling from the genus Hydrocotyle. De novo assemblies of a subsample were generated in Geneious Prime to produce reliable references to retrieve coding regions, cis-introns, and any conserved regions for use as a reference sequence for the expanded sample. To test the utility of intergenic spacers for closely-related species of Hydrocotyle, the whole mitochondria genome was assembled de novo for ten species from the Andean clade and a consensus reference was used to extract the full genome from an expanded sample. The presentation will focus on the following: (1) variation in size of the mitochondrial genome across Apiales; (2) variation in gene order and the detection of any pattern in genome arrangement; (3) loss and gain of genes; (4) variation in repeats across Apiales; (5) phylogenetic signal at different evolutionary levels; and (6) comparison of the mitochondrial, plastid, and nuclear phylogenies in Apiales and Hydrocotyle.
1 - Manhattan College, Biology, Leo Building - Room 317D, 4513 Manhattan College Parkway, Riverdale, NY, 10471, United States
2 - Manhattan College, Biology
3 - The New York Botanical Garden
Keywords:
mitogenome
Apiales
Hydrocotyle
Shotgun Sequencing.
Presentation Type: Oral Paper
Number: PHYLO II005
Abstract ID:676
Candidate for Awards:None |
