Presentation Title

Constructing a Genomic Data Comparison Between Drosophila ficusphila and Drosophila melanogaster in the 3L Chromosome

Format of Presentation

Poster to be presented Friday March 31, 2017

Abstract

The molecular aspects of fruit flies have been extensively studied for decades and the well-known species D. melanogaster was the first member of the genus to have had its entire genome fully sequenced and annotated. The genome of D. ficusphila, which is a close relative of D. melanogaster, has recently been DNA sequenced. In this study, a region containing over 21,000 bp of the D. ficusphila chromosome 3L was closely examined to determine the distinct isoforms and orthologs found in that region. Using comparative genomics and a number of various bioinformatics tools a total of 14 different putative gene orthologs were suggested by BLASTx alignments within this contig. We determined that only four of these were likely present in the regions and combined with a total of seven isoforms. Additional gene annotation tools such as a Genome Browser, Gene Record Finder, Small Exon Finder, FlyBase and Gene Model Checker were then used to identify the genetic variation of these orthologs and their respective isoforms between the two species. These bioinformatics tools provide the user with an ability to fully annotate raw genomic sequences and generate custom gene models. By understanding the reasons why some genes are better conserved over time while other genes diverge faster through mutation, scientists can further examine larger questions such the evolution of chromosomes and the divergence of species.

Department

Biological Sciences

Faculty Advisor

James Bedard

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Constructing a Genomic Data Comparison Between Drosophila ficusphila and Drosophila melanogaster in the 3L Chromosome

The molecular aspects of fruit flies have been extensively studied for decades and the well-known species D. melanogaster was the first member of the genus to have had its entire genome fully sequenced and annotated. The genome of D. ficusphila, which is a close relative of D. melanogaster, has recently been DNA sequenced. In this study, a region containing over 21,000 bp of the D. ficusphila chromosome 3L was closely examined to determine the distinct isoforms and orthologs found in that region. Using comparative genomics and a number of various bioinformatics tools a total of 14 different putative gene orthologs were suggested by BLASTx alignments within this contig. We determined that only four of these were likely present in the regions and combined with a total of seven isoforms. Additional gene annotation tools such as a Genome Browser, Gene Record Finder, Small Exon Finder, FlyBase and Gene Model Checker were then used to identify the genetic variation of these orthologs and their respective isoforms between the two species. These bioinformatics tools provide the user with an ability to fully annotate raw genomic sequences and generate custom gene models. By understanding the reasons why some genes are better conserved over time while other genes diverge faster through mutation, scientists can further examine larger questions such the evolution of chromosomes and the divergence of species.