Event Title

Developing Original Functional Microbial Genomics Projects for Undergraduate Courses

Presenter Information

Michael Pierce
Marvin Macharia

Presentation Type

Oral Presentation

Major

Biology

Category

Interdisciplinary

Session Number

09

Location

RM 208

Faculty Mentor

Dr. David Rhoads

Juror Names

Kenneth Shultz, Jacqueline Romano, Andrea Schoepfer

Start Date

5-16-2019 3:00 PM

End Date

5-16-2019 3:20 PM

Abstract

Genomics research provides both the DNA sequence of all the genes in an organism and the potential functions of the proteins encoded by the genes. However, this information does not provide definitive evidence about the functions of the proteins. Instead, functional genomics research is used to directly test the function of proteins that were predicted from deduced amino acid sequences. We have successfully employed functional genomics in undergraduate courses to identify for the first time the genes from three separate strains of Agrobacterium (A. radiobacter K84, A. tumefaciens C58, and A. vitis S4) that encode proteins that are actually involved in the biosynthesis of the amino acids proline and, in overlapping pathways, leucine, isoleucine and valine. We now seek to expand this research into the biosynthetic pathways of other amino acids. Towards this end, we are analyzing the published biosynthetic pathways of several amino acids in E. coli cells to identify appropriate candidate enzymes. The amino acid sequences of these previously identified proteins in E. coli are then used to identify potential proteins with the same functions in the three Agrobacterium strains. In future courses, the actual functions of these proteins will be tested. In addition to providing evidence for or against genome database predictions and valuable information on gene and protein evolution, this endeavor provides original research experiences to numerous undergraduates, many of whom could not otherwise participate in original research.

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May 16th, 3:00 PM May 16th, 3:20 PM

Developing Original Functional Microbial Genomics Projects for Undergraduate Courses

RM 208

Genomics research provides both the DNA sequence of all the genes in an organism and the potential functions of the proteins encoded by the genes. However, this information does not provide definitive evidence about the functions of the proteins. Instead, functional genomics research is used to directly test the function of proteins that were predicted from deduced amino acid sequences. We have successfully employed functional genomics in undergraduate courses to identify for the first time the genes from three separate strains of Agrobacterium (A. radiobacter K84, A. tumefaciens C58, and A. vitis S4) that encode proteins that are actually involved in the biosynthesis of the amino acids proline and, in overlapping pathways, leucine, isoleucine and valine. We now seek to expand this research into the biosynthetic pathways of other amino acids. Towards this end, we are analyzing the published biosynthetic pathways of several amino acids in E. coli cells to identify appropriate candidate enzymes. The amino acid sequences of these previously identified proteins in E. coli are then used to identify potential proteins with the same functions in the three Agrobacterium strains. In future courses, the actual functions of these proteins will be tested. In addition to providing evidence for or against genome database predictions and valuable information on gene and protein evolution, this endeavor provides original research experiences to numerous undergraduates, many of whom could not otherwise participate in original research.