A comprehensive collection of chicken cDNAs.
Birds have played a central role in many biological disciplines, particularly ecology, evolution, and behavior. The chicken, as a model vertebrate, also represents an important experimental system for developmental biologists, immunologists, cell biologists, and geneticists. However, genomic resources for the chicken have lagged behind those for other model organisms, with only 1845 nonredundant full-length chicken cDNA sequences currently deposited in the EMBL databank. We describe a large-scale expressed-sequence-tag (EST) project aimed at gene discovery in chickens (http://www.chick.umist.ac.uk). In total, 339,314 ESTs have been sequenced from 64 cDNA libraries generated from 21 different embryonic and adult tissues. These were clustered and assembled into 85,486 contiguous sequences (contigs). We find that a minimum of 38% of the contigs have orthologs in other organisms and define an upper limit of 13,000 new chicken genes. The remaining contigs may include novel avian specific or rapidly evolving genes. Comparison of the contigs with known chicken genes and orthologs indicates that 30% include cDNAs that contain the start codon and 20% of the contigs represent full-length cDNA sequences. Using this dataset, we estimate that chickens have approximately 35,000 genes in total, suggesting that this number may be a characteristic feature of vertebrates.
Boardman
Paul E
PE
Department of Biomolecular Sciences, University of Manchester Institute of Science and Technology, P.O. Box 88, M60 1QD, Manchester, United Kingdom.
Sanz-Ezquerro
Juan
J
Overton
Ian M
IM
Burt
David W
DW
Bosch
Elizabeth
E
Fong
Willy T
WT
Tickle
Cheryll
C
Brown
William R A
WR
Wilson
Stuart A
SA
Hubbard
Simon J
SJ
D000818:Animals; D002642:Chick Embryo; D002645:Chickens / Q000235:genetics*; D002874:Chromosome Mapping / Q000379:methods; D018076:DNA, Complementary / Q000235:genetics*; D020224:Expressed Sequence Tags; D012689:Sequence Homology, Nucleic Acid
D018076:DNA, Complementary