Location: Bovine Functional Genomics
Project Number: 1245-31000-104-08
Start Date: Oct 01, 2010
End Date: Mar 31, 2013
The project will be managed jointly between ARS and the COOPERATOR. The COOPERATOR will evaluate the Nelore herdbook and mtDNA sequence to guide collection of appropriate tissues and/or DNA material for sequencing. ARS will analyze the heterozygosity indices of candidate animals using BovineSNP50 data. This analysis will aid final selection by the COOPERATOR of the appropriate animal for genome sequencing. The COOPERATOR will then provide genomic DNA templates from this animal and 10 additional Nelore animals (for 1X coverage sequencing/animal) along with funding to purchase reagents that will generate a 40X genome equivalent of DNA sequence. ARS will generate the DNA libraries, and provide next-generation DNA sequencing services to generate 50X genome coverage of sequence at cost. ARS will analyze, store, and distribute sequence information (as agreed upon with the COOPERATOR) that will be used for both genome assembly and SNP discovery. Identification of SNP for marker development will be done by ARS. Both ARS and the COOPERATOR will jointly aid development of the genome assembly led by outside parties that possess the necessary advanced expertise for this process. The COOPERATOR will provide some annotation expertise to help prepare the data for publication. 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.