Large-scale search for genes on which positive selection may operate.

We conducted a systematic search for the candidate genes on which positive selection may operate, on the premise that for such genes the number of nonsynonymous substitution is expected to be larger than that of synonymous substitutions when the nucleotide sequences of genes under investigation are compared with each other. By obtaining 3,595 groups of homologous sequences from the DDBJ, EMBL, and GenBank DNA sequence databases, we found that 17 gene groups can be the candidates for the genes on which positive selection may operate. Thus, such genes are found to occupy only about 0.5% of the vast number of gene groups so far available. Interestingly enough 9 out of the 17 gene groups were the surface antigens of parasites or viruses.

[1]  C Kappen,et al.  Two steps in the evolution of Antennapedia-class vertebrate homeobox genes. , 1989, Proceedings of the National Academy of Sciences of the United States of America.

[2]  M. Kimura,et al.  The neutral theory of molecular evolution. , 1983, Scientific American.

[3]  S. B. Needleman,et al.  A General Method Applicable to the Search for Similarities in the Amino Acid Sequence of Two Proteins , 1989 .

[4]  B. Bainbridge,et al.  Genetics , 1981, Experientia.

[5]  J. Minjas,et al.  Genes for Plasmodium falciparum surface antigens cloned by expression in COS cells. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[6]  M. Long,et al.  Natural selection and the origin of jingwei, a chimeric processed functional gene in Drosophila. , 1993, Science.

[7]  T. Ohta.  Pattern of nucleotide substitutions in growth hormone-prolactin gene family: a paradigm for evolution by gene duplication. , 1993, Genetics.

[8]  D. R. Allred,et al.  Molecular basis for surface antigen size polymorphisms and conservation of a neutralization-sensitive epitope in Anaplasma marginale. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[9]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[10]  K. Chandy,et al.  Molecular evolution of voltage-sensitive ion channel genes: on the origins of electrical excitability. , 1993, Molecular biology and evolution.

[11]  R. Coppel,et al.  Identification of two integral membrane proteins of Plasmodium falciparum. , 1988, Proceedings of the National Academy of Sciences of the United States of America.

[12]  R. Coppel,et al.  Structural diversity in the 45-kilodalton merozoite surface antigen of Plasmodium falciparum. , 1990, Molecular and biochemical parasitology.

[13]  B. Fenton,et al.  Structural and antigenic polymorphism of the 35- to 48-kilodalton merozoite surface antigen (MSA-2) of the malaria parasite Plasmodium falciparum , 1991, Molecular and cellular biology.

[14]  G Bernardi,et al.  Compositional properties of nuclear genes from Plasmodium falciparum. , 1995, Gene.

[15]  R. Coppel,et al.  Structural diversity in the Plasmodium falciparum merozoite surface antigen 2. , 1991, Proceedings of the National Academy of Sciences of the United States of America.

[16]  T. Ota,et al.  Positive selection is a general phenomenon in the evolution of abalone sperm lysin. , 1995, Molecular biology and evolution.

[17]  M. Nei,et al.  Nucleotide substitution at major histocompatibility complex class II loci: evidence for overdominant selection. , 1989, Proceedings of the National Academy of Sciences of the United States of America.

[18]  M. Nei,et al.  Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection , 1988, Nature.

[19]  M. Nei,et al.  Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. , 1986, Molecular biology and evolution.

[20]  A. Wilson,et al.  Concerted evolution of ruminant stomach lysozymes. Characterization of lysozyme cDNA clones from sheep and deer. , 1990, The Journal of biological chemistry.

[21]  S. Yokoyama,et al.  Molecular evolution of human visual pigment genes. , 1989, Molecular biology and evolution.

[22]  R. Coppel,et al.  A Plasmodium falciparum MSA-2 gene apparently generated by intragenic recombination between the two allelic families. , 1991, Molecular and biochemical parasitology.

[23]  M. Goodman,et al.  Duplication of the gamma-globin gene mediated by L1 long interspersed repetitive elements in an early ancestor of simian primates. , 1991, Proceedings of the National Academy of Sciences of the United States of America.

[24]  A. Hughes,et al.  Circumsporozoite protein genes of malaria parasites (Plasmodium spp.): evidence for positive selection on immunogenic regions. , 1991, Genetics.