333 Animal –GRIN a platform for animal genetic information. (5th December 2019)

• Record Type: Journal Article
• Authors: Blackburn, Harvey D; Manahan, Ted; Wilson, Carrie S; Fu, Wenkai; Cajueiro, Eduardo; Thomas, Milton G; Paiva, Samuel
• Is Part Of: Journal of animal science. Volume 97(2019)Supplement 3
• Page Start: 49
• Page End: 49
• Publication Date: 2019-12-05
• Subjects: Animal-GRIN -- genomic database -- livestock -- gene bank; Livestock -- Periodicals; Livestock; Electronic journals; Periodicals; 636.005
• DOI: 10.1093/jas/skz258.098
• Languages: English
• ISSNs: 0021-8812

Abstract

Abstract: An information system, Animal-GRIN, has been constructed as part of the U.S., Brazilian, and Canadian livestock genetic resource programs. It is designed to provide information to gene bank managers, the research community, and livestock producers about livestock breeds and subpopulations acquired in gene bank collections. The system was developed using a range of free software tools, including: MySQL, Ruby on Rails, Java Script, etc. The system is dynamic and publically accessible (https://nrrc.ars.usda.gov/A-GRIN ). Exemplary information in Animal-GRIN consists of: animal identifiers, number and type of samples in the collection, pedigrees, coefficients of genetic relationships between animals within a breed, breeding values, phenotypes, and geographic source. To meet the national need for the long term archiving of genomic information developed with public funds, Animal-GRIN was expanded to store and make publically available genomic information (SNP) from any SNP chip, including custom products. Researchers are encouraged to submit their data upon completion of their publically funded projects. With the drill down concept, users can search the database for genomic information, physical samples associated with the genomic information, and phenotypic information on specific animals. Once animals of interest are found, on-line tools enable users to request either germplasm samples or genomic data. Progress in meeting genetic security for a breed's collection can also be viewed. To date the U.S. collection has 52, 639 animals with almost a million samples representing 36 species, 167 breeds, and 331 subpopulations and these have been entered into Animal-GRIN. Genomic data has been acquired on 1, 899 animals representing 36 breeds. The next phase of Animal-GRIN development will be development of landscape genomics components. Acquisition of germplasm samples and associated genomic information are a continuing effort.