Plant & Animal Genomes XIV Conference

January 14-18, 2006
Town & Country Convention Center
San Diego, CA

Bovine Genome Sequencing Program: Full-Length cDNA Sequencing

Stephen S. Moore¹ , Le Luo Guan¹ , Savio Lobo¹ , Yan Meng¹ , Masaaki Taniguchi¹ , Zhiquan Wang¹ , Jeff Stott² , Johar Ali² , Roberta Kirkpatrick² , Asim Siddiqui² , Sarah Barber² , Ryan Babakaiff² , Jaclyn Beland² , Steve Chand² , Hye-Jung Elizabeth Chun² , Luis Del Rio² , Lisa Dreolini² , Ruth Featherstone² , Susan Gibson² , Jerry Liu² , Corey Matsuo² , Mike Mayo² , Diana Palmquist² , Jennifer Roger² , Miranda Tsai² , Dave Wong² , Brian Wynhoven² , Geogre Yang² , Kirsten Schreiber ³ , Christa Prange³ , Nicole Shapiro³ , Carolyn Shenmen⁴ , Lukas Wagner⁴ , Lee Alexander⁵ , Mike MacNeil⁵ , Michael J. Brownstein⁶ , Robert A. Holt² , Steven J. Jones ² , Marco A. Marra²

¹  Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, Canada T6G 2P5

²  Genome Sciences Centre, BC Cancer Agency, 675 West 10th Avenue, Vancouver, BC, Canada V5Z 1L3

³  Lawrence Livermore National Laboratory, 7000 East Avenue, Livermore, CA, USA 94550

⁴  National Library of Medicine, Building 38A, Bethesda, MD, USA 20894

⁵  USDA-ARS, Fort Keogh LARRL, 243 , Fort Keogh Road, Miles City, MT, USA 59301

⁶  Laboratory of Genetics, NIMH, National Institutes of Health, Building 36, Room 3D06, Bethesda, MD, USA 20892

Understanding functional genes of cattle is important to assist us to improve the health and quality of the animals and their products. This in turn will lead to benefits for cattle industries as well as consumers. Thus, as part of the Bovine Genome Sequencing Project we have set out to characterize the transcriptome of the bovine genome. In this study, over 100 tissues were collected from the Line 1 Hereford cow used for genome sequencing, her male fetus, her female calf and her father (the bull used for the CHORI 240 BAC library). Full-length cDNA libraries were constructed based on a cap-trapping technology (Carninci et al. 2000). Full-length cDNAs were ligated to pCMVSPORT6.0 vector and transformed to E.coli DH10B competent cells by electroporation. Clones containing cDNAs with full-open reading frames (ORFs) were selected based on the reads that significantly matched an existing full ORF in the Mammalian Gene Collection database. To date, twenty-three libraries have been successfully constructed from various tissues, and fifteen libraries have been entered the 5’-EST sequencing queue with 69,120 reads completed with each read assigned an IMAGE ID (Integrated Molecular Analysis of Genomes and their Expression). Sequence information of 65,000 ESTs has been deposited in the NCBI database. Sequences of 1,537 clones containing full ORF fragments were finished and the related information has been submitted to NCBI database (Genbank accession number BC102042-BC103476, BC104493-BC104631, BC105136-BC105272). In order to achieve our aim of 10,000 full ORF cDNAs an additional 7,752 clones will be selected and analyzed.