RT Journal
A1 Cliften, Paul F.
A1 Hillier, LaDeana W.
A1 Fulton, Lucinda
A1 Graves, Tina
A1 Miner, Tracie
A1 Gish, Warren R.
A1 Waterston, Robert H.
A1 Johnston, Mark
T1 Surveying Saccharomyces Genomes to Identify Functional Elements by Comparative DNA Sequence Analysis
JF Genome Research 
JO Genome Research 
YR 2001 
FD July 01 
VO 11 
IS 7 
SP 1175 
OP 1186 
DO 10.1101/gr.182901 
UL http://genome.cshlp.org/content/11/7/1175.abstract 
AB Comparative sequence analysis has facilitated the discovery of protein coding genes and important functional sequences within proteins, but has been less useful for identifying functional sequence elements in nonprotein-coding DNA because the relatively rapid rate of change of nonprotein-coding sequences and the relative simplicity of non-coding regulatory sequence elements necessitates the comparison of sequences of relatively closely related species. We tested the use of comparative DNA sequence analysis to aid identification of promoter regulatory elements, nonprotein-coding RNA genes, and small protein-coding genes by surveying random DNA sequences of severalSaccharomyces yeast species, with the goal of learning which species are best suited for comparisons with S. cerevisiae. We also determined the DNA sequence of a few specific promoters and RNA genes of several Saccharomyces species to determine the degree of conservation of known functional elements within the genome. Our results lead us to conclude that comparative DNA sequence analysis will enable identification of functionally conserved elements within the yeast genome, and suggest a path for obtaining this information.