U.S. flagAn official website of the United States government
                    Here's how you know **Official websites use .gov**
                            
                            A **.gov** website belongs to an official government organization in the United States.
 **Secure .gov websites use HTTPS**
                            
                            A **lock** (                            
                              A locked padlock                                                      
                            
                            ) or **https://** means you’ve safely connected to the .gov website. Share sensitive information only on official, secure websites.


Menu Agricultural Research Service
						
                    U.S. DEPARTMENT OF AGRICULTURE
 close



Research
                Research Home
                            National Programs
                            Research Projects
                            Scientific Manuscripts
                            International Engagement
                            Scientific Software/Models
                            Databases and Datasets
                            Office of Scientific Quality Review
            Media
                News & Features
                            Multimedia
                            Briefing Room
                            Down on the Farm
                            Press Room
                            Science in Your Shopping Cart
                            Scientific Discoveries
                            Tellus
                            Under the Microscope
            About ARS
                About ARS Home
                            Staff Directory
                            Labs and Research Centers (Map)
                            Headquarter Offices
                            Organizational Chart
                            Employee Services (REE Employees Only)
                            Office of Outreach, Diversity, and Equal Opportunity
            Work With Us
                Work With Us Home
                            ARS Vacancies at USAJOBS
                            Careers at ARS Information
                            Scientific Collaborations
                            Extramural Agreements
                            1890 Faculty Research Sabbatical ProgramSearch small
                    Search
            
            ARS Home
                                About ARS
                                Contact Us




ARS Home Research Publications at this Location





- ARS National Programs
- Search for a scientific manuscript
- Search for a research project
- ARS Software
- Programs and Projects
- Collaborations
- Subjects of Investigation
- Publications

Title:   Author  item
                                            Liu, Ge

                                                         - *George*item
                                            Van Tassell, Curtis

                                                         - *Curt*item
                                            Sonstegard, Taditem
                                            MATUKUMALLI, LAKSHMI - GEORGE MASON UNIVERSITYitem
                                            Shade, Larry
  Submitted to: BARC Poster Day
                                    Publication Type: Abstract Only
                                    Publication Acceptance Date: 4/21/2005
                                    Publication  Date: 5/1/2005
                                    Citation: Liu, G., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Shade, L.L. 2005. Comparative genomics:genomic variation between bovine and human genomes [abstract]. BARC Poster Day. p. 32.Interpretive Summary:
                                Technical Abstract: Cattle researchers have accumulated hundreds of quantitative traits loci (QTL) waiting for the candidate gene identification.  But only a few successful examples of gene cloning exist because the conventional process of gene discovery and functional verification is slow and tedious.  Bovine Genome Project is working to sequence and annotate the genome of the cow, Bos taurus using a whole genome shotgun approach.  It generates a promise to accelerate the gene cloning process in cattle.  However, the whole genome shotgun assembly of the cow is less than perfect at the current coverage: it contains gaps and collapses of duplicated and repetitive sequences; the order and orientation of contigs are determined by overlay on human genome.  We designed a combined computational strategy to overcome the above limitation.  First, we plan to check the cow BAC span/orientation concordance or discordance after the optimal placement of cow BAC end pairs on the human genome.  The pairing of cow BAC ends allows us to detect large-scale evolutionary events like insertion, deletion, inversions and rearrangements between bovine and human genomes.  Next, we plan to perform a detailed comparative analysis directly on cattle-human genomic sequence alignment in individual genomic regions of high priorities.  We will calculate mutation rates to screen for the genes under adaptive evolution or positive selection.  We will compare cattle-human orthologous fragments to reveal the change of the genome sizes and the potential contribution from retrotranspositions.  PCR, FISH and Southern blotting experiments will be planned to confirm these in silico predictions.  We will exam the distribution of those events, investigate those genes which are altered and cluster them into functional groups.  These studies could directly translate into candidate gene and mutation identification for economic traits and disease resistance in cattle.  They would also provide insights regarding genome evolution and function, which could serve as the starting point for understanding how the genomic variation contributes to diverse phenotypes and diseases.


Return to top


Connect with ARS Sign up


ARS Home
                            USDA.gov
                            Plain Writing
                            Policies & Links
                            Civil Rights Statements
                            FOIA
                            Accessibility Statement
                            Privacy Policy
                            Non-Discrimination Statement
                            Quality of Information
                            USA.gov
                            WhiteHouse.gov