title: Porcine gene discovery by normalized cDNA-library sequencing and EST cluster assembly.
abstract: Genetic and environmental factors affect the efficiency of pork production by influencing gene expression during porcine reproduction, tissue development, and growth. The identification and functional analysis of gene products important to these processes would be greatly enhanced by the development of a database of expressed porcine gene sequence. Two normalized porcine cDNA libraries (MARC 1PIG and MARC 2PIG), derived respectively from embryonic and reproductive tissues, were constructed, sequenced, and analyzed. A total of 66,245 clones from these two libraries were 5?-end sequenced and deposited in GenBank. Cluster analysis revealed that within-library redundancy is low, and comparison of all porcine ESTs with the human database suggests that the sequences from these two libraries represent portions of a significant number of independent pig genes. A Porcine Gene Index (PGI), comprising 15,616 tentative consensus sequences and 31,466 singletons, includes all sequences in public repositories and has been developed to facilitate further comparative map development and characterization of porcine genes (http://www.tigr.org/tdb/ssgi/). The clones and sequences from these libraries provide a catalog of expressed porcine genes and a resource for development of high-density hybridization arrays for transcriptional profiling of porcine tissues. In addition, comparison of porcine ESTs with sequences from other species serves as a valuable resource for comparative map development. Both arrayed cDNA libraries are available for unrestricted public use.
authors.affiliation: USDA, ARS, U.S. Meat Animal Research Center, P.O. Box 166, Clay Center, Nebraska 68933, USA.
authors.forename: Scott C
authors.initials: SC
authors.lastname: Fahrenkrug
authors.forename: Timothy P L
authors.initials: TP
authors.lastname: Smith
authors.forename: Brad A
authors.initials: BA
authors.lastname: Freking
authors.forename: Jennifer
authors.initials: J
authors.lastname: Cho
authors.forename: Joseph
authors.initials: J
authors.lastname: White
authors.forename: Jeff
authors.initials: J
authors.lastname: Vallet
authors.forename: Tommy
authors.initials: T
authors.lastname: Wise
authors.forename: Gary
authors.initials: G
authors.lastname: Rohrer
authors.forename: Geo
authors.initials: G
authors.lastname: Pertea
authors.forename: Razvan
authors.initials: R
authors.lastname: Sultana
authors.forename: John
authors.initials: J
authors.lastname: Quackenbush
authors.forename: John W
authors.initials: JW
authors.lastname: Keele
mesh_terms: D000818:Animals; D018076:DNA, Complementary; D020224:Expressed Sequence Tags; D005260:Female; D015723:Gene Library; D008297:Male; D013552:Swine / Q000235:genetics*
chemical_list: D018076:DNA, Complementary