Presentation Title

Annotation and Identification of Genes in Contig 7 of the 3L Chromosome of Drosophila ficusphila Using Comparative Genomic Techniques with Drosophila melanogaster and Online Bioinformatics Tools

Format of Presentation

Poster to be presented Friday March 31, 2017

Abstract

Due to complexities in genomic sequences and gene variability, the annotation of genetic information must be manually completed for accuracy. This study involved the annotation of contig 7 on the 3L chromosome of the species Drosophila ficusphila, a fruit fly found in Southeast Asia. The annotation included 30,000 base pairs of raw DNA sequence. Bioinformatics tools, gene prediction algorithms, and RNA sequence data were used to help predict gene coordinates for annotation. Comparison was conducted with known genes located in the D. melanogaster genome. The NCBI Blast was used to compare nucleotide sequences and translated protein sequences to that of D. melanogaster. The homology of genes was investigated and it was determined which gene orthologs existed within contig 7. Isoforms of each gene were also examined in D. ficusphila. Annotated data included exact locations of protein coding exons, intron acceptor and donor sites, locations of the start and stop codons, and possible transcription start sites.

Nine genes with associated isoforms were annotated in contig 7 of D. ficusphila chromosome 3L. Gene orthologs identified were Chro, Ssl1, and Arf79F with protein alignment similarity scores of 92.6%, 95.7%, and 100.0% respectively. Six gene orthologs that were annotated currently have no formally described function.

The annotation of genetic sequences is a critical step to support further research in Drosophila. Data is submitted to the Genomics Education Partnership (www.gep.wustl.edu), and used towards examining larger questions such as comparing variation in genomes, phylogenetic analysis, and evolutionary studies within the genus.

Department

Biological Sciences

Faculty Advisor

James E.J. Bedard

This document is currently not available here.

Share

COinS
 

Annotation and Identification of Genes in Contig 7 of the 3L Chromosome of Drosophila ficusphila Using Comparative Genomic Techniques with Drosophila melanogaster and Online Bioinformatics Tools

Due to complexities in genomic sequences and gene variability, the annotation of genetic information must be manually completed for accuracy. This study involved the annotation of contig 7 on the 3L chromosome of the species Drosophila ficusphila, a fruit fly found in Southeast Asia. The annotation included 30,000 base pairs of raw DNA sequence. Bioinformatics tools, gene prediction algorithms, and RNA sequence data were used to help predict gene coordinates for annotation. Comparison was conducted with known genes located in the D. melanogaster genome. The NCBI Blast was used to compare nucleotide sequences and translated protein sequences to that of D. melanogaster. The homology of genes was investigated and it was determined which gene orthologs existed within contig 7. Isoforms of each gene were also examined in D. ficusphila. Annotated data included exact locations of protein coding exons, intron acceptor and donor sites, locations of the start and stop codons, and possible transcription start sites.

Nine genes with associated isoforms were annotated in contig 7 of D. ficusphila chromosome 3L. Gene orthologs identified were Chro, Ssl1, and Arf79F with protein alignment similarity scores of 92.6%, 95.7%, and 100.0% respectively. Six gene orthologs that were annotated currently have no formally described function.

The annotation of genetic sequences is a critical step to support further research in Drosophila. Data is submitted to the Genomics Education Partnership (www.gep.wustl.edu), and used towards examining larger questions such as comparing variation in genomes, phylogenetic analysis, and evolutionary studies within the genus.