Generating and Analyzing DNA Sequence Using Next-Generation Sequencing Technologies
Bovine Functional Genomics
2013 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 Beltsville Agricultural Research Center (BARC) 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 represented in the Bovine Genome Atlas. USDA ARS BARC will provide DNA sequencing services at cost.
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.
ARS scientists at BARC and other locations continued to access and use the Illumina miSeq next-generation sequencing instrument and cBOT cluster station previously purchased by MSU. The GAIIx sequencer owned by MSU, but operated by ARS, was de-commissioned. ARS scientists consulted in experimental design, generated sequence, and processed sequence data of MSU scientists and graduate students. ARS scientists co-authored one manuscript with MSU scientists and multiple student abstracts. MSU scientists continue to maintain the public availability of the Bovine Gene Atlas database through their AgBase website (http://bovineatlas.msstate.edu/). This research also supports one objective of the related in-house ARS project to develop biological resources and computational tools to enhance characterization of ruminant genomes (Objective 1).