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Books
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Nei, M., and S. Kumar (2000) Molecular Evolution and Phylogenetics. Oxford University Press, Oxford.

(Examples and the software used in this book are available at http://lifesciences.asu.edu/mep/ .)

Nei, M., and N. Takahata (eds). (1996) Current Topics on Molecular Evolution. Proceedings of the U.S.-Japan Workshop, Hayama, Japan.  The Pennsylvania State University, PA, USA.

Roychoudhury, A. K., and M. Nei (1988) Human Polymorphic Genes: World Distribution. Oxford University Press, Oxford and New York.

Nei, M. (1987) Molecular Evolutionary Genetics. Columbia University Press, New York.

Nei, M., and R. K. Koehn (eds). (1983) Evolution of Genes and Proteins. Sinauer Assoc., Sunderland, MA.

Click HERE to go to the Molecular Evolution and Phylogenetics (MEP) web site for various computer programs for analyzing gene frequency data, DNA and protein sequence data.

Kumar, S., K. Tamura, I. B. Jakobsen, and M. Nei (2001) MEGA2 : Molecular Evolutionary Genetics Analysis. Ver. 2.1, Bioinformatics 17:1244-1245.

Kumar, S., K. Tamura, and M. Nei (1993) MEGA: Molecular Evolutionary Genetics Analysis. Ver. 1.02, The Pennsylvania State University, University Park, PA.

Original Papers
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2008

2007

2006

2005
2004
2003
2002
2001
2000

Supplemental Table 1                   

Supplemental Table 2                                           

Lin, Z., Nei, M., and Ma, H. (2007) The origins and early evolution of DNA mismatch repair genes-multiple horizontal gene transfers and co-evolution. Nucleic Acids Res, 35(22):7591-7603.

Niimura, Y. and M. Nei. (2007) The Human Genome Project (12). Major gene families in humans and their evolutionary history. Henry Stewart Talks. http://hst.streamuk.com/extracts/humpop.htm

Niimura, Y. and M. Nei. (2007) Extensive gains and losses of olfactory receptor genes in mammalian evolution. PLoS One e708:1-8.

     Nei, M. (2007) Historical perspectives of the above PNAS paper (informal comments).

Nozawa, M. and M. Nei. (2007) Evolutionary dynamics of olfactory receptor genes in Drosophila species. Proc. Natl. Acad. Sci. USA, 104:7122-7127. Supporting Information

Lin, Z., Kong, H., Nei, M. and Ma. H. (2006) Origin and evolution of the recA/RAD51 gene family: Evidence for ancient gene duplication and endosymbiotic gene transfer. Proc. Natl. Acad. Sci. USA, 103:10328-10333.

Editor's Choice Paper (2006) Science 312:1849.

Niimura, Y. and M. Nei (2006) Evolutionary dynamics of olfactory and other chemosensory receptor genes in vertebrates. J. Hum. Gen. 51:505-517.

Hao, L., Klein, J., and M. Nei (2006) Heterogeneous but conserved natural killer receptor gene complexes in four major orders of mammals. Proc. Natl. Acad. Sci. USA, 103:3192-3197.

2005  (back to top)

Nei, M. (2005) Selectionism and neutralism in molecular evolution. Mol. Biol. Evol. 22:2318-2342.

Nei, M. Selectionism and neutralism in molecular evolution. Erratum Mol. Biol. Evol. 23:1095 (2006).

Nam, J. and M. Nei (2005) Evolutionary change of the numbers of homebox genes in bilaterial animals. Mol. Biol. Evol. 22:2386-2394

Nei, M. and A. P. Rooney (2005) Concerted and birth-and-death evolution of multigene families. Annu. Rev. Genet. 39:121-152.

Glazko, G., V. Veeramachaneni, M. Nei, and W. Makalowski (2005) Eighty percent of proteins are different between humans and chimpanzees. Gene. 346:215-219.

Hao, L. and M. Nei (2005) Rapid expansion of killer cell immunoglobulin-like receptor genes in primates and their coevolution with MHC Class I genes. Gene. 347:149-159.

Nam, J., K. Kaufmann, G. Theissen, and M. Nei (2005) A simple method for predicting the functional differentiation of duplicate genes and its application to MIKC-type MADS-box genes. Nucleic Acids Res, 33:e12.

Nikolaidis, N., J. Klein, and M. Nei (2005) Origin and evolution of the Ig-like domains present in mammalian leukocyte receptors: insights from chicken, frog, and fish homologues. Immunogenetics, 57:151-157.

Nikolaidis, N., I. Makalowska, D. Chalkia, W. Makalowski, J. Klein, and M. Nei (2005) Origin and evolution of the chicken leukocyte receptor complex. Proc. Natl. Acad. Sci. USA, 102:4057-4062.

Niimura, Y. and M. Nei (2005) Comparative evolutionary analysis of olfactory receptor gene clusters between humans and mice. Gene: Evol. Genomics, 346:13-21.

Niimura, Y. and M. Nei (2005) Evolutionary changes of the number of olfactory receptor genes in the human and mouse lineages. Gene: Evol. Genomics, 346:23-28.

Niimura, Y. and M. Nei (2005) Evolutionary dynamics of olfactory receptor genes in fishes and tetrapods. Proc. Natl. Acad. Sci. USA, 102:6039-6044.

Editor's Choice Paper (2005) Science 308:927-928.

2004  (back to top)

Hao, L. and M. Nei (2004) Genomic organization and evolutionary analysis of Ly49 genes encoding the rodent natural killer cell receptors: rapid evolution by repeated gene duplication. Immunogenetics 56:343-354.

Kumar, S., K. Tamura, and M. Nei (2004) MEGA3: Integrated Software for Molecular Evolutionary Genetics Analysis and Sequence Alignment. Brief. Bioinform. 5:150-163.

Nam, J., J. Kim, S. Lee, G. An, H. Ma, and M. Nei (2004) Type I MADS-box genes have experienced faster birth-and-death evolution than type II MADS-box genes in angiosperms.  Proc. Natl. Acad. Sci. USA 101:1910-1915.

Nikolaidis, N. and M. Nei (2004) Concerted and nonconcerted evolution of the Hsp70 gene superfamily in two sibling species of nematodes. Mol. Biol. Evol. 21:498-505.

Suzuki, Y. and M. Nei (2004) False-positive selection identified by ML-based methods: Examples from the Sig1 gene of the diatom Thalassiosira weissflogii and the tax  gene of a human T-cell lymphotropic virus. Mol. Biol. Evol. 21:914-921.

Tamura, K., M. Nei, and S. Kumar (2004) Prospects for inferring very large phylogenies using the neighbor-joining method.  Proc. Natl. Acad. Sci. USA 101:11030-11035.

2003  (back to top)

Misawa, K. and M. Nei (2003) Reanalysis of Murphy et al.'s data gives various mammalian phylogenies and suggests overcredibility of Bayesian trees. J. Mol. Evol. 57:S290-S296.

Niimura, Y. and M. Nei (2003) Evolution of olfactory receptor genes in the human genome. Proc. Natl. Acad. Sci. USA 100:12235-12240.

Nam, J., C. W. dePamphilis, H. Ma, and M. Nei (2003) Antiquity and evolution of the MADS-box gene family controlling flower development in plants. Mol. Biol. Evol. 20:1435-1447.

Piontkivska, H. & M. Nei (2003) Birth-and-death evolution in primate MHC class I genes: divergence time estimates. Mol. Biol. Evol. 20:601-609.

Glazko, G. V. and M. Nei (2003) Estimation of divergence times for major lineages of primate species. Mol. Biol. Evol. 20:424-434.

2002  (back to top)

Itoh, T., W. Martin, and M. Nei (2002) Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts. Proc. Natl. Acad. Sci. USA 99:12944-12948.

Nei, M. and G. V. Glazko (2002) Estimation of divergence times for a few mammalian and several primate species. J. Hered. 93:157-164.

Piontkivska, H., A. P. Rooney, and M. Nei (2002) Purifying selection and birth-and-death evolution in the histone H4 gene family. Mol. Biol. Evol. 19:689-697.

Rooney, A. P., H. Piontkivska, and M. Nei (2002) Molecular evolution of the nontandemly repeated genes of the histone 3 multigene family. Mol. Biol. Evol. 19:68-75.   

Su, C., V. K. Nguyen, and M. Nei (2002) Adaptive evolution of variable region genes encoding an unusual type of immunoglobulin in camelids. Mol. Biol. Evol. 19:205-215.

Suzuki, Y. and M. Nei (2002) Origin and evolution of influenza virus hemagglutinin genes. Mol. Biol. Evol. 19:501-509.

Suzuki, Y. and M. Nei (2002) Simulation study of the reliability and robustness of the statistical methods for detecting positive selection at single amino acid sites. Mol. Biol. Evol. 19:1865-1869.

Suzuki, Y., G. Glazko, and M. Nei (2002) Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proc. Natl. Acad. Sci. USA 99:16138-16143.

Kumar, S., K. Tamura, I. B. Jakobsen, and M. Nei (2001) MEGA2: Molecular evolutionary genetics analysis software, Ver. 2.1, Bioinformatics 17:1244-1245.

Nei, M., P. Xu, and G. Glazko (2001) Estimation of divergence times from multiprotein sequences for a few mammalian species and several distantly related organisms. Proc. Natl. Acad. Sci. USA 98:2497-2502.

Su, C. and M. Nei (2001) Evolutionary dynamics of the T-cell receptore VB gene family as inferred from the human and mouse genomic sequences. Mol. Biol. Evol. 18:503-513.

Suzuki, Y., T. Gojobori, and M. Nei (2001) ADAPTSITE: detecting natural selection at single amino acid sites. Bioinformatics 17:660-661.

Suzuki, Y. and M. Nei (2001) Reliabilities of parsimony-based and likelihood-based methods for detecting positive selection at single amino acid sites. Mol. Biol. Evol. 18:2179-2185.

Nei, M., I. B. Rogozin, and H. Piontkivska (2000) Purifying selection and birth-and-death evolution in the ubiquitin gene family. Proc. Nat. Acad. Sci. USA 97:10866-10871.

Ota, T., T. Sitnikova, and M. Nei (2000) Evolution of vertebrate immunologlobulin variable gene segments. Curr. Top. Microbiol. Immunol. 248:221-245.

Rooney, A. P., J. Zhang, and M. Nei (2000) An unusual form of purifying selection in a sperm protein. Mol. Biol. Evol. 17:278-283.

Takahashi, K. and M. Nei (2000) Efficiencies of fast algorithms of phylogenetic inference under the criteria of maximum parsimony, minimum evolution, and maximum likelihood when a large number of sequences are used. Mol. Biol. Evol.17:1251-1258.

Takahashi, K., A. P. Rooney, and M. Nei (2000) Origins and divergence times of mammalian class II MHC gene clusters. J. Hered. 91:198-204.

Zhang, J. and M. Nei (2000) Positive selection in the evolution of mammalian interleukin-2 genes. Mol. Biol. Evol. 17:1413-1416.

Gu, X. and M. Nei (1999) Locus specificity of polymorphic alleles and evolution by a birth-and-death process in mammalian MHC genes. Mol. Biol. Evol. 16:147-156.

Su, C., I. Jakobsen, X. Gu, and M. Nei (1999) Diversity and evolution of T-cell receptor variable region genes in mammals and birds. Immunogenetics 50:301-308.

Su, C. and M. Nei (1999) Fifty-million-year old polymorphism at an immunoglobulin variable region gene locus in the rabbit evolutionary lineage. Proc. Natl. Acad. Sci. USA 96:9710-9715.

Nei, M. (1998) Genetic studies on the origin of modern humans.  In: The origins and past of modern humans - towards reconciliation (K. Omoto and P. V. Tobias, eds.). World Scientific, Singapore and London, pp. 27-41.

Nei, M., S. Kumar, and K. Takahashi (1998) The optimization principle in phylogenetic analysis tends to give incorrect topologies when the number of nucleotides or amino acids used is small. Proc. Natl. Acad. Sci. USA 95:12390-12397.

Nei, M. and J. Zhang (1998) Molecular origin of species. Science 282:1428-1429.

Sitnikova, T. and M. Nei (1998) Evolution of immunoglobulin kappa chain variable region genes in vertebrates. Mol. Biol. Evol. 15:50-60.

Zhang, J., H. F. Rosenberg, and M. Nei (1998) Positive Darwinian selection after gene duplication in primate ribonuclease genes. Proc. Natl. Acad. Sci. USA 95:3708-3713.

Nei, M. (1997) Molecular Phylogeny and genetic diversity analysis. In: Diversity and adaptation in oak species proceedings (K. C. Steiner, ed.), Pennsylvania State University, College of Agricultural Sciences, University Park, PA, pp. 78-80.

Nei, M., X. Gu, and T. Sitnikova (1997) Evolution by the birth-and-death process in multigene families of the vertebrate immune system. Proc. Natl. Acad. Sci. USA 94:7799-7806.

Nei, M., J. Zhang, and S. Yokoyama (1997) Color vision of ancestral organisms of higher primates. Mol. Biol. Evol. 14:611-618.

Roychoudhury, A. K. and M. Nei (1997) The emergence and dispersal of mongoloids. J. Indian Anthrop. Soc. 32:1-49.

Zhang, J. and M. Nei (1997) Accuracies of ancestral amino acid sequences inferred by parsimony, likelihood, and distance methods. J. Mol. Evol. 44 (Suppl. 1): S139-S146.

Zhang, J., S. Kumar, and M. Nei (1997) Small-sample tests of episodic adaptive evolution: a case study of primate lysozymes. Mol. Biol. Evol. 14:1335-1338.

Nei, M. (1996) Phylogenetic analysis in molecular evolutionary genetics. Annu. Rev. Genet. 30:371-403.

Nei, M. and N. Takezaki (1996) The root of the phylogenetic tree of human populations. Mol. Biol. Evol. 13:170-177.

Nei, M. and N. Takezaki (1996) Reconstruction of phylogenetic trees from microsatellite (STR) loci. Anim. Genet. 27(Suppl. 2):1-3.

Russo, C. A. M., N. Takezaki, and M. Nei (1996) Efficiencies of different genes and different tree-building methods in recovering a known vertebrate phylogeny. Mol. Evol. Biol. 13:525-536.

Takezaki, N. and M. Nei (1996) Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics 144:389-399.

Zhang, J. and M. Nei (1996) Evolution of Antennapedia-class homeobox genes. Genetics 142:295-303.

Edwards, A. W. F., M. Nei, N. Takezaki, and T. Sitnikova (1995) Assessing molecular phylogeny. Science 267:253-256.

Nei, M. (1995) The origins of human populations: genetic, linguistic, and archeological data. In: The Origin and Past of Modern Humans as Viewed from DNA (S. Brenner and K. Hanihara, eds.), World Scientific, London, pp. 71-91.

Nei, M. (1995) Genetic support for the out-of-Africa theory of human evolution. Proc. Natl. Acad. Sci. USA 92:6720-6722.

Ota, T. and M. Nei (1995) Evolution of immunoglobulin V_H pseudogenes in chickens. Mol. Biol. Evol. 12:94-102.

Russo, C. A. M., N. Takezaki, and M. Nei (1995) Molecular phylogeny and divergence times of Drosophilid species. Mol. Biol. Evol. 12:391-404.

Rzhetsky, A. and M. Nei (1995) Tests of applicability of several substitution models for DNA sequence data. Mol. Biol. Evol. 12:131-151.

Rzhetsky, A., S. Kumar, and M. Nei (1995) Four-cluster analysis: a simple method to test phylogenetic hypotheses. Mol. Biol. Evol. 12:163-167.

Sitnikova, T., A. Rzhetsky, and M. Nei (1995) Interior-branch and bootstrap tests of phylogenetic trees. Mol. Biol. Evol. 12:319-333.

Takezaki, N., A. Rzhetsky, and M. Nei (1995) Phylogenetic test of molecular clock and linearized trees. Mol. Evol. Biol. 12:823-833.

Yang, Z., S. Kumar, and M. Nei (1995) A new method of inference of ancestral nucleotide and amino acid sequences. Genetics 141:1641-1650.

Hughes, A. L., M. K. Hughes, C. Y. Howell, and M. Nei (1994) Natural selection at the class II major histocompatibility complex loci of mammals. Philos. Trans. R. Soc. Lond. B. 346:359-367.

Kumar, S., K. Tamura, and M. Nei (1994) MEGA: Molecular Evolutionary Genetics Analysis software for microcomputers. CABIOS (Bioinformatics) 10:189-191.

Nei, M. and N. Takezaki (1994) Estimation of genetic distances and phylogenetic trees from DNA analysis. In: Proceedings of the 5th World Congress on Genetics Applied to Livestock Production (c. Smith et al., eds.), University of Guelph, Canada, 21:405-412.

Ota, T. and M. Nei (1994) Divergent evolution and evolution by the birth-and-death process in the immunoglobulin V_H gene family. Mol. Biol. Evol. 11:469-482.

Ota, T. and M. Nei (1994) Variance and covariances of the numbers of synonymous and nonsynonymous substitutions per site. Mol. Biol. Evol. 11:613-619.

 Ota, T. and M. Nei (1994) Estimation of the number of amino acid substitutions per site when the substitution rate varies among sites. J. Mol. Evol. 38:642-643.

Rzhetsky, A. and M. Nei (1994) METREE: A program package for inferring and testing minimum-evolution trees. CABIOS (Bioinformatics) 10:409-412.

Rzhetsky, A. and M. Nei (1994) Unbiased estimates of the number of nucleotide substitutions when substitution rate varies among different sites. J. Mol. Evol. 38:295-299.

Takezaki, N. and Nei, M. (1994) Inconsistency of the maximum parsimony method when the rate of nucleotide substitution is constant. J. Mol. Evol. 39:210-218.

Tateno, Y., N. Takezaki, and M. Nei (1994) Relative efficiencies of the maximum-likelihood, neighbor-joining, and maximum-parsimony methods when substitution rate varies with site. Mol. Biol. Evol. 11:261-277.

Hughes, A. L. and M. Nei (1993) Evolutionary relationships of the classes of major histocompatibility complex genes. Immunogenetics 37:337-346.

Nei, M. and A. K. Roychoudhury (1993) Evolutionary relationships of human populations on a global scale. Mol. Biol. Evol. 10:927-943.

Nei, M. and N. Takahata (1993) Effective population size, genetic diversity, and coalescence time in subdivided populations. J. Mol. Evol. 37:240-244.

Nei, M., G. Livshits, and T. Ota (1993) Genetic variation and evolution of human populations. In: Genetics of cellular, individual, family, and population variability (C. F. Sing and C. L. Hanis, eds.), Oxford University Press, Oxford, pp. 239-252.

Rzhetsky, A. and M. Nei (1993) Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol. Biol. Evol. 10:1073-1095.

Tamura, K. and M. Nei (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10:512-526.

Hughes, A. L. and M. Nei (1992) Maintenance of MHC polymorphism. Nature 355:402-403.

Hughes, A. L. and M. Nei (1992) Models of host-parasite interaction and MHC polymorphism. Genetics 132:863-864.

Nei, M. (1992) Age of the common ancestor of human mitochondrial DNA. Mol. Biol. Evol. 9:1176-1178.

Nei, M. and A. L. Hughes (1992) Balanced polymorphism and evolution by the birth-and-death process in the MHC loci. In: Proceedings of the 11th Histocompatibility Workshop and Conference (K. Tsuji, M. Aizawa, and T. Sasazuki, eds.), Oxford University Press, Oxford, pp. 27-38.

Rzhetsky, A. and M. Nei (1992) A simple method for estimating and testing minimum-evolution trees. Mol. Biol. Evol. 9:945-967.

Rzhetsky, A. and M. Nei (1992) Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference. J. Mol. Evol. 35:367-375.

Jin, L. and M. Nei (1991) Relative efficiencies of the maximum-parsimony and distance-matrix methods of phylogeny construction for restriction data. Mol. Biol. Evol. 8:356-365.

Nei, M. (1991) Relative efficiencies of different tree-making methods for molecular data. In: Phylogenetic Analysis of DNA Sequences (M. M. Miyamoto and J. L. Cracraft, eds.), Oxford University Press, NY, pp. 90-128.

Nei, M. and A. L. Hughes (1991) Polymorphism and evolution of the major histocompatibility complex loci in mammals. In: Evolution at the Molecular Level (R. Selander, A. Clark, and T. Whittam, eds.), Sinauer Associates, Sunderland, MA, pp. 222-247.

Nei, M. and A. L. Hughes (1991) Polymorphism due to balancing selection at the major histocompatibility complex loci. In: The Unity of Evolutionary Biology: Proc. IV Intl. Cong. System. Evol. Biol., (E. Dudley, ed.), Dioscorides Press, Portland, Oregon, Vol. 2, pp. 878-889.

Nei, M. and T. Ota (1991) Evolutionary relationships of human populations at the molecular level. In: Evolution of Life (S. Osawa and T. Honjo, eds.). Springer-Verlag, Heidelberg, pp. 415-428.

Nei, M. and A. Y. Rzhetsky (1991) Reconstruction of phylogenetic trees and evolution of major histocompatibility complex genes. In: Evolution of MHC genes, (J. Klein and D. Klein, eds.), Springer Verlag, Heidelberg, pp. 13-27.

Whittam, T. and M. Nei (1991) Neutral mutation hypothesis test. Nature 354:115-116.

Hughes, A. L. and Nei, M. (1990) Evolutionary relationships of class II major-histocompatibility-complex genes in mammals. Mol. Biol. Evol. 7:491-514.

Hughes, A. L., T. Ota, and M. Nei (1990) Positive Darwinian selection promotes charge profile diversity in the antigen-binding cleft of class I major-histocompatibility-complex molecules. Mol. Biol. Evol. 7:515-524.

Jin, L. and M. Nei (1990) Limitations of the evolutionary parsimony method of phylogenetic analysis. Mol. Biol. Evol. 7:82-102.

Livshits, G. and M. Nei (1990) Relationships between intrapopulational and interpopulational genetic diversity in man. Ann. Hum. Biol. 17:501-513.

Nei, M. (1990) The origin of human populations. Kagaku (Science) 60:69-78 (In Japanese)

Nei, M. (1990) DNA Polymorphism and Adaptive Evolution. In: Plant Population Genetics, Breeding and Genetic Resources, eds. A. H. D. Brown, M. T. Clegg, A. Kahler, and B. W. Weir. Sinauer Assoc., Sunderland, MA, pp. 128-142.

Nei, M. and G. Livshits (1990) Evolutionary relationships of Europeans, Asians, and Africans at the molecular level. In: Population Biology of Genes and Molecules (N. Takahata and J. F. Crow, eds.), Baifukan, Tokyo, pp. 251-265.

Nei, M. and J. C. Miller (1990) A simple method for estimating average number of nucleotide substitutions within and between populations from restriction data. Genetics 125:873-879.

Takahata, N. and M. Nei (1990) Allelic genealogy under overdominant and frequency-dependent selection and polymorphism of major histocompatibility complex loci. Genetics 124:967-978.

1989 (back to top)

Hughes, A. L. and M. Nei (1989) Nucleotide substitution at major histocompatibility complex class II loci: evidence for overdominant selection. Proc. Natl. Acad. Sci. USA 86:958-962.

Hughes, A. L. and M. Nei (1989) Evolution of the major histocompatibility complex: independent origin of nonclassical class I genes in different groups of mammals. Mol. Biol. Evol. 6:559-579.

Hughes, A. L. and M. Nei (1989) Ancient interlocus exon exchange in the history of the HLA-A locus. Genetics 122:681-686.

Nei, M. and L. Jin (1989) Variances of the average numbers of nucleotide substitutions within and between populations. Mol. Biol. Evol. 6:290-300.

Nei, M. and G. Livshits (1989) Genetic relationships of Europeans, Asians, and Africans and the origin of modern Homo sapiens. Hum. Hered. 39:276-281.

Tanaka, T. and M. Nei (1989) Positive Darwinian selection observed at the variable region genes of immunoglobulins Mol. Biol. Evol. 6:447-459.

1988 (back to top)

Hughes, A. L. and M. Nei (1988) Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature 335:167-170.

Nei, M. (1988) Relative roles of mutation and selection in the maintenance of genetic variability. Phills. Trans. R. Soc. Lond. B. Biol. Sci. 319:615-629.

Pamilo, P. and M. Nei (1988) Relationships between gene trees and species trees. Mol. Biol. Evol. 5:568-583.

Sourdis, J. and M. Nei (1988) Relative efficiencies of the maximum parsimony and distance-matrix methods in obtaining the correct phylogenetic tree. Mol. Biol. Evol. 5:298-311.

Nei, M. (1987) Genetic distance molecular phylogeny. In: Population Genetics and Fishery Management (N. Ryman and F. Utter, eds.), University of Washington Press, Seattle, WA, pp. 193-223.

Nei, M. and F. Tajima (1987) Problems arising in phylogenetic inference from restriction-site data. Mol. Biol. Evol. 4:320-323.

Pamilo, P., M. Nei, and W.-H. Li (1987) Accumulation of mutations in sexual an asexual populations. Genet. Res. 49:135-146.

Saitou, N. and M. Nei (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.

1986  (back to top)

Gojobori, T. and M. Nei (1986) Relative contributions of germline gene variation and somatic mutation to immunoglobulin diversity in the mouse. Mol. Biol. Evol. 3:156-167.

Varvio, S.-L., R. Chakraborty, and M. Nei (1986) Genetic variation in subdivided populations and conservation genetics. Heredity 57:189-198.

Nei, M. (1986) Definition and estimation of fixation indices. Evolution 40:643-645.

Nei, M. (1986) Stochastic errors in DNA evolution and molecular phylogeny. In: Evolutionary Perspectives and the New Genetics (H. Gershowitz, ed.), Alan R. Liss, New York, pp. 133-147.

Nei, M. and T. Gojobori (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:418-426.

Nei, M. and N. Saitou (1986) Genetic relationship of human populations and ethnic differences in reaction to drugs and food. In: Ethnic Differences in Reactions to Drugs and Other Xenobiotics (W. Kalow, ed.), Alan R. Liss, New York, pp. 21-37.

Saitou, N. and M. Nei (1986) Polymorphism and evolution of influenza A virus genes. Mol. Biol. Evol. 3:57-74.

Saitou, N. and M. Nei (1986) The number of nucleotides required to determine the branching order of three species, with special reference to the human-chimpanzee-gorilla divergence. J. Mol. Evol. 24:189-204.

Nei, M. (1985) Human evolution at the molecular level. In: Population Genetics and Molecular Evolution (T. Ohta and K. Aoki, eds.), Japan