EST-based gene discovery in pig: virtual expression patterns and comparative mapping to human.
A molecular understanding of porcine reproduction is of biological interest and economic importance. Our Midwest Consortium has produced cDNA libraries containing the majority of genes expressed in major female reproductive tissues, and we have deposited into public databases 21,499 expressed sequence tag (EST) gene sequences from the 3' end of clones from these libraries. These sequences represent 10,574 different genes, based on sequence comparison among these data, and comparison with existing porcine ESTs and genes indicate as many as 4652 of these EST clusters are novel. In silico analysis identified sequences that are expressed in specific pig tissues or organs and confirmed the broad expression in pig for many genes ubiquitously expressed in human tissues. Furthermore, we have developed computer software to identify sequence similarity of these pig genes with their human counterparts, and to extract the mapping information of these human homologues from genome databases. We demonstrate the utility of this software for comparative mapping by localizing 61 genes on the porcine physical map for Chromosomes (Chrs) 5, 10, and 14.
Tuggle
Christopher K
CK
Center for Integrated Animal Genomics and Department of Animal Science, Iowa State University, 2255 Kildee Hall, Ames, Iowa 50011, USA. cktuggle@iastate.edu
Green
Jon A
JA
Fitzsimmons
Carolyn
C
Woods
Rami
R
Prather
Randall S
RS
Malchenko
Sergei
S
Soares
Bento M
BM
Kucaba
Tamara
T
Crouch
Keith
K
Smith
Christina
C
Tack
Dylan
D
Robinson
Natalie
N
O'Leary
Brian
B
Scheetz
Todd
T
Casavant
Thomas
T
Pomp
Daniel
D
Edeal
Brad J
BJ
Zhang
Yuandan
Y
Rothschild
Max F
MF
Garwood
Kevin
K
Beavis
William
W
D000465:Algorithms; D000818:Animals; D001483:Base Sequence; D002874:Chromosome Mapping; D020224:Expressed Sequence Tags; D015870:Gene Expression; D015723:Gene Library; D006801:Humans; D006822:Hybrid Cells; D008969:Molecular Sequence Data; D017422:Sequence Analysis, DNA; D034421:Sus scrofa / Q000235:genetics*