Presentation Title

A Bioinformatics System for the Prediction of Genetic Events in Asian Carp Hybridization

Advisor Information

Guoqing Lu

Location

Dr. C.C. and Mabel L. Criss Library

Presentation Type

Poster

Start Date

6-3-2015 2:00 PM

End Date

6-3-2015 3:30 PM

Abstract

The advent of next generation sequencing technology has allowed for greater availability of genomic biological data. With this availability there is a greater need for effective bioinformatics tools for analyzing and deriving knowledge from such genomic data. In this project I developed an integrated bioinformatics system for detecting genomic hybridization events such as homoeologous recombination in genomic and transcriptomic sequences of two Asian carp species and their hybrid counterparts. Introduced to the United States in the early 1970s, silver and bighead carp have become extremely abundant in the Mississippi River Basin (MRB). Known to produce hybrid offspring, they outcompete indigenous species of the MRB and have now become dangerously invasive to the species of the natural system. There is still a critical gap as to why these Asian carp rampantly hybridize in the MRB, yet do not in their native ranges of China. The system I developed detects homoeologous recombination events in the hybrid Asian carp species as well as other species known to undergo hybridization events. The system pipeline, hosted on a web server, is made up of a user input, pairwise alignment function, computational algorithms, a centralized database, and a results output. Using this bioinformatics system, recombination events in hybrid Asian carp were identified, categorized, and analyzed for future study.

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COinS
 
Mar 6th, 2:00 PM Mar 6th, 3:30 PM

A Bioinformatics System for the Prediction of Genetic Events in Asian Carp Hybridization

Dr. C.C. and Mabel L. Criss Library

The advent of next generation sequencing technology has allowed for greater availability of genomic biological data. With this availability there is a greater need for effective bioinformatics tools for analyzing and deriving knowledge from such genomic data. In this project I developed an integrated bioinformatics system for detecting genomic hybridization events such as homoeologous recombination in genomic and transcriptomic sequences of two Asian carp species and their hybrid counterparts. Introduced to the United States in the early 1970s, silver and bighead carp have become extremely abundant in the Mississippi River Basin (MRB). Known to produce hybrid offspring, they outcompete indigenous species of the MRB and have now become dangerously invasive to the species of the natural system. There is still a critical gap as to why these Asian carp rampantly hybridize in the MRB, yet do not in their native ranges of China. The system I developed detects homoeologous recombination events in the hybrid Asian carp species as well as other species known to undergo hybridization events. The system pipeline, hosted on a web server, is made up of a user input, pairwise alignment function, computational algorithms, a centralized database, and a results output. Using this bioinformatics system, recombination events in hybrid Asian carp were identified, categorized, and analyzed for future study.