Generating and Analyzing DNA Sequence Using Next-Generation Sequencing Technologies
Genomics and Bioinformatics Research Unit
2012 Annual Report
1a.Objectives (from AD-416):
The objective of this proposal is to optimally utilize the DNA sequencing and data analysis resources at USDA ARS Genomics and Bioinformatics Research Unit (GBRU) and Mississippi State University (MSU) through collaboration and utilization of complementary resources.
1b.Approach (from AD-416):
MSU researchers will provide DNA templates and reagents as required to generate DNA sequence data and perform down-stream computational analysis. MSU will provide computational resources to annotate and display genomic data sequencing.
USDA ARS GBRU will provide DNA sequencing services at cost with projects being approved on a case-by-case basis on species of interest to both parties.
All of these activities will be considered true collaborations and thus, by definition, each party will be considered to have provided a true intellectual contribution consistent with authorship.
This project has leveraged the DNA sequencing capacity of the ARS station at Stoneville, MS, with the computational capabilities of Mississippi State University (MS State). The agreement has enabled the Catfish Genetics Research Unit (Stoneville, MS) to access MS State supercomputers which they have used to assemble genomic DNA sequences of catfish. Also, cotton DNA samples from the MS State contingent have been sequenced by the USDA ARS Genomics and Bioinformatics Research Unit (GBRU). The data generated from the sequencing has been analyzed by MS State and GBRU scientists and is being used in preparation of joint manuscripts to be submitted for publication in peer-reviewed journals.