Structure-based comparison of four eukaryotic genomes.
The field of comparative genomics allows us to elucidate the molecular mechanisms necessary for the machinery of an organism by contrasting its genome against those of other organisms. In this paper, we contrast the genome of homo sapiens against C. Elegans, Drosophila melanogaster, and S. cerevisiae to gain insights on what structural domains are present in each organism. Previous work has assessed this using sequence-based homology recognition systems such as Pfam [1] and Interpro [2]. Here, we pursue a structure-based assessment, analyzing genomes according to domains in the SCOP structural domain dictionary. Compared to other eukaryotic genomes, we observe additional domains in the human genome relating to signal transduction, immune response, transport, and certain enzymes. Compared to the metazoan genomes, the yeast genome shows an absence of domains relating to immune response, cell-cell interactions, and cell signaling.
Cline
Melissa
M
Affymetrix, Inc., 6550 Vallejo Street, Emeryville, CA 94608, USA. melissa_cline@affymetrix.com
Liu
Guoying
G
Loraine
Ann E
AE
Shigeta
Ronald
R
Cheng
Jill
J
Mei
Gangwu
G
Kulp
David
D
Siani-Rose
Michael A
MA
D000818:Animals; D017173:Caenorhabditis elegans / Q000235:genetics; D003198:Computer Simulation; D004331:Drosophila melanogaster / Q000235:genetics; D004798:Enzymes / Q000235:genetics; D016678:Genome; D023281:Genomics / Q000379:methods*; D006801:Humans; D008957:Models, Genetic; D012441:Saccharomyces cerevisiae / Q000235:genetics; D017422:Sequence Analysis, DNA / Q000379:methods*; D016335:Zinc Fingers / Q000235:genetics
D004798:Enzymes