Felsenstein, J. and Yokoyama, S. (1976)
The evolutionary advantage of recombination. Genetics 83:845-859.
Nei, M and Yokoyama, S. (1976)
The effect of random fluctuation of selection intensity on genetic variability in a finite population. Jpn. J. Genet. 51:355-369.
Yokoyama, S. (1977)
Theoretical studies of the distribution of rare deleterious alleles in natural and human populations. Ph. D. Dissertation, University of Washington.
Yokoyama, S. and Felsenstein, J. (1978)
A model for kin selection for an altruistic trait considered as a quantitative character. Proc. Natl. Acad. Sci. USA 75:420-422.
Chakraborty, R. and Yokoyama, S. (1978)
Monomorphism and heterozygosity reconsidered. Heredity 41:327-333.
Yokoyama, S. and Nei, M. (1979)
Population dynamics of sex-determining alleles in honey-bees and self-incompatibility alleles in plants. Genetics 91:609- 626.
Yokoyama, S. (1979)
The rate of allelism of lethal genes in a geographically structured population. Genetics 93:245-262.
Yokoyama, S. (1979)
Role of genetic drift for the high frequency of Tay-Sachs disease among Ashkenazic Jews. Ann. Hum. Genet. 43:133-136.
Yokoyama, S. and Templeton, A. (1980)
The effect of social selection on population dynamics of Huntington's disease. Ann. Hum. Genet. 43:413-417.
Templeton, A. and Yokoyama, S. (1980)
The effect of reproductive compensation and the desire to have male offspring on the incidence of a sex- linked lethal disease. Am. J. Hum. Genet. 32:575-581.
Yokoyama, S. (1980)
The effect of social selection on population dynamics of rare deleterious genes. Heredity 45:271-280.
Yokoyama, S. (1980)
The effect of variable progeny size and social selection on population dynamics of rare lethal genes. Social Biol. 27:70-78.
Yokoyama, S., Rice, J. P. and Yokoyama, R. W. (1980)
The effect of social selection due to familial mental retardation on the marriage frequency of normal individuals. Social Biol. 27:194-198.
Yokoyama, S. (1981)
Social selection in human populations: I. Modification of the fitness of offspring by an affected parent. Am. J. Hum. Genet. 33:407-417.
Yokoyama, S. (1981)
Family size and evolution of Rh polymorphism. J. Theor. Biol. 92:119-125.
Nei, M. and Yokoyama, S. (1981)
Estimation of fitness reduction due to chronic disease in man. Ann. Hum. Genet. 45:261-265.
Yokoyama, S., Reich, T. and Morgan, K. (1981)
Inbreeding and the genetic control of nondisjunction. Human Genet. 59:125-128.
Yokoyama, S. (1981)
Concept of genetic and evolutionary fitness and hereditary poposis coli. Am. J. Hum. Genet. 33:995-998.
Yokoyama, S. (1981)
Cultural inheritance of having male offspring and the incidence of a sex-linked lethal disease. Social Biol. 28:325-327.
Yokoyama, S. and Hetherlington, L. E. (1982)
Expected number of self- incompatibility alleles in finite plant populations. Heredity 48:299-303.
Yokoyama, S. and Templeton, R. (1982)
Effect of cultural inheritance of reproductive compensation on the incidence of a sex-linked lethal disease. J. Theor. Biol. 99:389-395.
Yokoyama, S. and Rice, J. P. (1983)
Social selection in human populations: Deterministic analyses on the modification of the fitness of offspring by affected parents. Social Biol. 30:181-188.
Yokoyama, S. (1983)
Equilibrium frequencies of a-globin genes. J. Theor. Biol. 100:173-180.
Yokoyama, S. (1983)
Selection for the a-thalassemia genes. Genetics 103:143- 148.
Yokoyama, S. (1983)
Polymorphism in the 5'-flanking region of the human insulin gene and the incidence of diabetes. Am. J. Hum. Genet. 35:193-200.
Yokoyama, S. (1983)
Social selection in human populations: fitness modification of offspring by an affected parent at two loci. Am. J. Hum. Genet. 35:675-686.
Yokoyama, S. (1983)
Social selection and evolution of human diseases. Am. J. Phys. Anthrop. 62:61-66.
Hall, B. G., Yokoyama, S. and Calhoun, D. H. (1983)
Role of cryptic genes in microbial evolution. Mol. Biol. Evol. 1:109-124.
Yokoyama, S. (1983)
Social selection in human populations: Fitness interaction among sibs. Am. Naturalist 122:433-443.
Yokoyama, S. (1983)
Theories of social selection in human populations. Am. J. Hum. Genet. 35:362-375.
Cloninger, C. R., Reich, T. and Yokoyama, S. (1983)
Genetic diversity, genome organization, and investigation of the etiology of psychiatric diseases. Psychiatric Development 3:225-246.
Yokoyama, S. (1983)
Social selection and evolution of human diseases. in Genetics, Evolution, and Diseases. D. H. O'Rouke, G. M. Peterson, and F. E. Johnson (eds), Alan R. Liss, Inc., New York.
Yokoyama, S. (1984)
Comments on "The sociobiology of sex and sexes today" by M. Blute. Current Anthropology 25:206-207.
Yao, M.-C., Choi, J. W., Yokoyama, S., Austerberry, C. and Yao, C.-H. (1984)
Extensive deletion and rejoining of DNA occurs during the development of Tetrahymena. Cell 36:433-440.
Yokoyama, S. and Ward, R. H. (1984)
Age structure and the distribution of rare genetic diseases. Am. J. Med. Genet. 19:65-79.
Yokoyama, S. (1984)
Social selection in human populations: differential modification of the fitness by the sex of an affected parent. J. Theor. Biol. 109:453-459.
Yokoyama, S. and Schall, B. (1985)
A note on multiple-niche polymorphisms in plant populations. Am. Naturalist 125:158-163.
Gojobori, T. and Yokoyama, S. (1985)
Rates of evolution of the retroviral oncogene of Moloney murine sarcoma virus and the cellular homologues. Proc. Natl. Acad. Sci. USA 82:4198-4201.
Yokoyama, S. (1985)
DNA polymorphism and the susceptability to diseases. Am. J. Med. Genet. 21:649-654.
Yokoyama, S. (1985)
Social selection in human populations: sufficient conditions for protection of deleterious alleles in a subdivided population. J. Theor. Biol. 115:455-465.
Yokoyama, S. (1986)
Deterministic behavior of HLA haplotypes under symmetric overdominant selection. Jpn. J. Genet. 61:61-70.
Yokoyama, S. and Schaal, B. (1986)
Population dynamics of mutant alleles under maternal effect in plant populations. J. Hered. 77:256-260.
Rotwein, P., Yokoyama, S., Didier, D. K. and Chirgwin J. M. (1986)
Genetic analysis of the hypervariable region flanking the human insulin gene. Am. J. Hum. Genet. 39:291-299.
Yokoyama, S. (1986)
The effect of social selection on the frequencies of genetic diseases. in Recent Trends in Medical Genetics. K. M. Marimuthu and P. M. Gopinath (eds), Pp. 207-216, Pergamon Press, Oxford.
Yokoyama, S. and Gojobori, T. (1987)
Molecular evolution and phylogeny of the human AIDS viruses LAV, HTLV-III, and ARV. J. Mol. Evol. 24:330-336.
Yokoyama, S., Moriyama, E. N. and Gojobori, T. (1987)
Molecular phylogeny of the human immunodeficiency and related viruses. Proc. Japan Acad. 63:147- 150.
Yokoyama, S. and Yokoyama, R. (1987)
Molecular evolution of mammalian class I alcohol dehydrogenase. Mol. Biol. Evol. 4:504-513.
Yokoyama, S. (1987)
Social selection in human populations: Protected polymorphism of deleterious alleles with incomplete penetrance. Genetic Epidemiology 4:223-231.
Yokoyama, S., Yokoyama, R. and Rotwein, P. (1987)
Molecular characterization of cDNA clones encoding the human alcohol dehydrogenase b1 and the evolutionary relationship to the other class I subunits a and g. Jpn. J. Genet. 62:241-256.
Gojobori, T. and Yokoyama, S. (1987)
Molecular evolutionary rates of oncogenes. J. Mol. Evol. 26:148-156.
Gojobori, T., Moriyama, E. N. and Yokoyama, S. (1987)
Molecular evolution of oncogenes. Jpn. J. Genet. 62:163-177.
*Yokoyama, S., Chung, L. and Gojobori, T. (1988)
Molecular evolution of the human immunodeficiency and related viruses. Mol. Biol. Evol. 5:237-251. (* Cited as a hot paper in The Scientist)
Yokoyama, S. (1988)
Evolution by social selection. Evol. Biol. 21:85-126.
Yokoyama, S. (1988)
Molecular evolution of the human and simian immunodeficiency viruses. Mol. Biol. Evol. 5:645-659.
Yokoyama, S. and Yokoyama, R. (1989)
Molecular evolution of human visual pigment genes. Mol. Biol. Evol. 6:186-197.
Matsuo, Y. and Yokoyama, S. (1989)
Molecular structure of the human alcohol dehydrogenase 1 gene. FEBS Lett. 243:57-60.
Yokoyama, S., Isenberg, K. E. and Wright, A. F. (1989)
Adaptive evolution of G protein coupled receptor genes. Mol. Biol. Evol. 6:342-353.
Matsuo, Y., Yokoyama, R. and Yokoyama, S. (1989)
Human alcohol dehydrogenases b1 and b2 are specified by a single nucleotide difference. Eur. J. Biochem. 183:317-320.
Matsuo, Y. and Yokoyama, S. (1990)
Cloning and sequencing of a processed pseudogene derived from the human class III alcohol dehydrogenase gene. Am. J. Hum. Genet. 46:85-91.
Yokoyama, S., Yokoyama, R., Kinlaw, C. S. and Harry, D. E. (1990)
Molecular evolution of the zinc-containing long-chain alcohol dehydrogenase genes. Mol. Biol . Evol. 7:143-154.
Yokoyama, R, and Yokoyama, S. (1990)
Isolation, DNA sequence and evolution of a color visual pigment gene of the blind cave fish Astyanax fasciatus. Vision Res. 30:807-816.
Gojobori, T., Moriyama, E. N., Shimizu, N., Ina, Y., Ikeo, K., Tsujimoto, H., Hayami, M. and Yokoyama, S. (1990)
Evolutionary origin of human and simian immunodeficiency viruses. Proc. Natl. Acad. Sci. USA 87:4108-4111.
Yokoyama, R. and Yokoyama, S. (1990)
Convergent evolution of the red- and green-like visual pigment genes in fish, Astyanax fasciatus, and human. Proc. Natl. Acad. Sci. USA 87:9315-9318.
Yokoyama, S. and Yokoyama, R. (1990)
Molecular evolution of visual pigment genes and other G-protein coupled receptor genes. in Population Biology of Genes and Molecules, N. Takahata and J. F. Crow (eds), pp. 307-322, Baifukan, Tokyo.
Yokoyama, S. (1991)
Molecular evolution of the HIV and related viruses. in Evolution at the Molecular Level, R. K. Selander, A. G. Clark and T. S. Whittam (eds), Pp. 96-111, Sinauer, Sunderland.
Yokoyama, S. and Starmer, W. T. (1992)
Phylogeny and evolutionary rates of G protein a subunit genes. J. Mol. Evol. 35:230-238.
Yokoyama, S., Matsuo, Y., Rajasekharan, S. and Yokoyama, R. (1992)
Molecular structure of the human alcohol dehydrogenase 3 gene. Jpn. J. Genet. 67:167-171.
Yokoyama, S., Starmer, W. T. and Yokoyama, R. (1993)
Paralogous origin of the red- and green-sensitive visual pigment genes in vertebrates. Mol. Biol. Evol. 10:527-538.
Kawamura, S. and Yokoyama, S. (1993)
Molecular characterization of the red visual pigment gene of the American chameleon (Anolis carolinensis). FEBS Lett. 323:.247-251.
Yokoyama, S. and Harry, D. E. (1993)
Molecular phylogeny and evolutionary rates of alcohol dehydrogenases in vertebrates and plants. Mol. Biol. Evol. 10:1215-1226.
Yokoyama, R. and Yokoyama, S. (1993)
Molecular characterization of the blue visual pigment gene in the fish (Astyanax fasciatus). FEBS Lett. 334:27-31.
Yokoyama, S. (1994)
Duplication and evolution of the short wavelength- sensitive visual pigment genes in vertebrates. Mol. Biol. Evol. 11:32-39.
Wilkie, T. M. and Yokoyama, S. (1994)
Evolution of the G protein alpha subunit gene family. in Molecular Evolution of Physiological Processes. D. M. Fambrough (ed), Pp. 249-270, The Rockefeller Univ. Press, New York.
Register, E. A., Yokoyama, R. and Yokoyama, S. (1994)
Multiple origin of the green-sensitive opsin genes in fish. J. Mol. Evol. 39:268-273.
Yokoyama, S., Matsuo, Y., Ramsbotham, R. and Yokoyama, R. (1994)
Molecular characterization of a class IV human alcohol dehydrogenase gene (ADH7). FEBS Lett. 351:411-415.
Kawamura, S. and Yokoyama, S. (1994)
Cloning of the rhodopsin-encoding gene from the rod-less lizard Anolis carolinensis. Gene 149:267-270.
Kawamura, S. and Yokoyama, S. (1995)
Paralogous origin of the rhodopsinlike opsin genes in lizards. J. Mol. Evol. 40:594-600.
Yokoyama, S. (1995)
Amino acid changes and wavelength absorption of visual pigments in vertebrates. Mol. Biol. Evol. 12:53-61.
Yokoyama, R., Knox, B. E. and Yokoyama, S. (1995)
Rhodopsin from the fish, Astyanax: role of tyrosine 261 in the red shift. Invest. Opthalmol. Vision Sci. 36:939-945.
Yokoyama, S., Meany, A., Wilkens, H. and Yokoyama, R. (1995)
Initial mutational steps towards loss of opsin gene function in cavefish. Mol. Biol. Evol. 12:527-532.
Yokoyama, S. and Starmer, W. T. (1996)
Evolution of G-protein coupled receptor superfamily. in Human Genome Evolution. M. S. Jackson, G. Dover and T. Strachan (eds), Pp. 93-119, BIOS Scientific, Oxford.
Kawamura, S. and Yokoyama, S. (1996)
Phylogenetic relationships among short wavelength-sensitive opsin genes of American chameleon (Anolis carolinensis) and other vertebrates. Vision Res. 36:2797-2804.
Kawamura, S. and Yokoyama, S. (1996)
Molecular characterization of the pigeon P-opsin gene. Gene 182:213-214.
Yokoyama, S. (1996)
Molecular evolution of retinal and nonretinal opsins. Genes To Cells 1:787-794.
Yokoyama, S. and Yokoyama, R. (1996)
Evolution of photoreceptor cells and visual pigments. Annu. Rev. Ecol. Syst.27:543-567.
Kawamura, S. and Yokoyama, S. (1997)
Expression of visual and nonvisual opsins in American chameleon. Vision Res. 36:2797-2804.
Zhang, H. and Yokoyama, S. (1997)
Molecular evolution of the rhodopsin gene of marine lamprey, Petromyzon marinus. Gene 191:1-6.
Nei, M., Jianzhi Zhang and Yokoyama, S. (1997)
Color vision of ancestral organisms of higher primates. Mol. Biol. Evol. 14:611-618.
Yokoyama, S. (1997)
Molecular genetic basis of adaptive selection: Examples from color vision in vertebrates. Annu. Rev. Genet. 31: 311-332.
Radlwimmer, F. B. and Yokoyama, S. (1997)
Cloning and expression of the red visual pigment gene of goat (Capra hircus). Gene 198:211-215.
Yokoyama, S. and Zhang, H. (1997)
Cloning and characterization of the pineal gland-specific opsin gene of marine lamprey (Petromyzon marinus). Gene 202: 89-93.
Kawamura, S. and Yokoyama, S. (1998)
Functional characterization of visual pigments of American chameleon (Anolis carolinensis). Vision Res. 38:37-44.
Yokoyama, S. and Radlwimmer, F. B. (1998)
'Five-sites" rule and evolution of red and green color vision of mammals. Mol. Biol. Evol. 15:560-567.
Yokoyama, S., Radlwimmer, F. B. and Kawamura, S. (1998)
Regeneration of ultraviolet pigments of vertebrates. FEBS Lett. 423:155-158.
Radlwimmer, F. B. and Yokoyama, S. (1998)
Genetic analyses of the green visual pigments of rabbit (Oryctolagus cuniculus) and rat (Rattus norvegicus). Gene 218: 103-109.
*Yokoyama, S., Zhang, H., Radlwimmer, F. B. and Blow, N. S. (1999)
Adaptive evolution of color vision of the Comoran coelacanth (Latimeria chalumnae). Proc. Natl. Acad. Sci. USA 96: 6279-6284.
*Yokoyama, S. and Radlwimmer, F. B. (1999)
The molecular mechanism of red and green color vision in vertebrates. Genetics 153: 919-932.
(*Introduced in Science (1999) Gaining new insight into the molecular basis of evolution 285: 654-655 by Elizabeth Pennisi.)
Kawamura, S., Blow, N. S. and Yokoyama, S. (1999)
Genetic analyses of visual pigments of the pigeon (Columba livia). Genetics 153: 1839-1850.
Yokoyama, S. (1999)
Molecular bases of color vision in vertebrates. Genes Genet. Systems 74: 189-199
Yokoyama, S. (2000)
Phylogenetic analysis and experimental approaches to study color vision in vertebrates. In:Vertebrate Phototransduction and the Visual Cycle. Methods in Enzymology (K. Palczewski, ed.). 315: 312-325. Academic Press, New York.
Yokoyama, S. (2000)
Color vision of the coelacanth (Latimeria chalumnae) and adaptive evolution of rhodopsin (RH1) and rhodopsin-like (RH2) pigments. J. Heredity 91: 215-220.
Yokoyama, S. (2000)
Evolution of vertebrate visual pigments. Progress in Retinal and Eye Research 19: 385-419.
Yokoyama, S, Radlwimmer, F. B. and Blow, N. S. (2000)
Ultraviolet pigments in birds evolved from violet pigments by a single amino acid change. Proc. Natl. Acad. Sci. USA 97, 7366-7371.
Yokoyama, S. and Yokoyama, R. (2000)
Comparative molecular biology of visual pigments. in Handbook of Biological Physics (D. G. Stavenga, W. J. de Grip & E. N. Pugh, Jr., eds.), pp. 257-296, Elesevier, Amsterdam.
Yokoyama, S. & Shi, Y. (2000)
Genetics and evolution of ultraviolet vision in vertebrates. FEBS Lett. 486: 167-72.
Yokoyama, S., Blow, N. S. & Radlwimmer, F. B. (2000)
Molecular evolution of color vision in zebra finch. Gene. 259: 17-24.
Yokoyama, S. and Tada, T. (2000)
Adaptive evolution of the African and Indonesian coelacanths to deep-sea environments. Gene. 261: 35-42.
Kawamura, S., Hirai, M., Takenaka, O., Radlwimmer, F. B. & Yokoyama, S. (2001)
Genomic and spectral analyses of red-green visual pigments of common marmoset (Calithrix jacchus). Gene. 269: 45-51.
Yokoyama S, Radlwimmer FB. (2001)
The molecular genetics and evolution of red and green color vision in vertebrates. Genetics. 158: 1697-710.
Shi Y, Radlwimmer FB, Yokoyama S. (2001)
Molecular genetics and the evolution of ultraviolet vision in vertebrates. Proc. Natl. Acad. Sci. USA. 98: 11731-6.
Yokoyama S, Blow NS. (2001)
Molecular evolution of the cone visual pigments in the pure rod-retina of the nocturnal gecko, Gekko gekko. Gene. 76: 117-25.
Yokoyama S. (2002)
Molecular evolution of color vision in vertebrates. Gene. 300: 69-78. Review.
Yokoyama S. (2002)
Evaluating adaptive evolution (News & Views). Nat Genet. 30: 350-1.
Yokoyama, S. (2003)
Evolution of visual pigment genes. in "Encyclopedia of the Human Genome." D. N. Cooper, Editor-in-Chief, Nature Publishing Group. (in press).
Yokoyama S, Tada T. (2003)
The spectral tuning in the short wavelength-sensitive type 2 pigments. Gene. 306: 91-8.
Shi Y, Yokoyama S. (2003)
Molecular evolution of ultraviolet vision in vertebrates. Proc. Natl. Acad. Sci. U. S. A. 100: 8308-8313.
Deeb, S. S., Wakefield, M. J., Tada, T., Marotte, L., Yokoyama, S. & Graves, J. A. M. (2003)
The cone visual pigments of an Australian masupial, the tammar wallaby (Macropus eugenii): sequence, spectral tuning and evolution. Mol. Biol. Evol. (in press).