Publications

Recent Articles | Articles (1997-2004) | Articles (1983-1996) | Review Articles | Editorial Material | Letters | Notes

Articles

Bernat, J. A., Crawford, G. E., Ogurtsov, A. Y., Collins, F. S., Ginsburg, D., & Kondrashov, A. S. (2006). Distant conserved sequences flanking endothelial-specific promoters contain tissue-specific DNase-hypersensitive sites and over-represented motifs. Human Molecular Genetics, 15, 2098-2105. PubMed Link

Yampolsky, L. Y., Allen, C., Shabalina, S. A., & Kondrashov, A. S. (2005). Persistence time of loss-of-function mutations at nonessential loci affecting eye color in Drosophila melanogaster. Genetics, 171, 2133-2138. PubMed Link

Yampolsky, L. Y., Kondrashov, F. A., & Kondrashov, A. S. (2005). Distribution of the strength of selection against amino acid replacements in human proteins. Human Molecular Genetics, 14, 3191-3201. PubMed Link

Jordan, I. K., Kondrashov, F. A., Adzhubei, I. A., Wolf, Y. I., Koonin, E. V., Kondrashov, A. S., & Sunyaev, S. (2005). A universal trend of amino acid gain and loss in protein evolution. Nature, 433, 633-638. [Correction: 435, 528] PubMed Link

- back to top -

Articles (1997-2004)

Ogurtsov, A. Y., Sunyaev, S., & Kondrashov, A. S. (2004). Indel-based evolutionary distance and mouse-human divergence. Genome Research, 14, 1610-1616. PubMed Link

Kondrashov, A. S., & Rogozin, I. B. (2004). Context of deletions and insertions in human coding sequences. Human Mutation, 23, 177-185. PubMed Link

Bazykin, G. A., Kondrashov, F. A., Ogurtsov, A. Y., Sunyaev, S., & Kondrashov, A. S. (2004). Positive selection at sites of multiple amino acid replacements since rat-mouse divergence. Nature, 429, 558-562. PubMed Link

Kondrashov, F. A., Ogurtsov, A. Y., & Kondrashov, A. S. (2004). Bioinformatical assay of human gene morbidity. Nucleic Acids Research, 32, 1731-1737. PubMed Link

McCune, A. R., Houle, D., McMillan, K., Annable, R., & Kondrashov, A. S. (2004). Two classes of deleterious recessive alleles in a natural population of zebrafish, Danio rerio. Proceedings of the Royal Society of London, Series B- Biological Sciences, 271, 2025-2033. PubMed Link

Kondrashov, A. S. (2003). Accumulation of Dobzhansky-Muller incompatabilities within a spatially structured population. Evolution, 57, 151-153. PubMed Link

Yang, H. P., & Kondrashov, A. S. (2003). Cyclical dynamics under constant selection against in haploid and diploid populations with facultative mutations selfing. Genetical Research, 81, 1-6. PubMed Link

Silva, J. C., Shabalina, S. A., Harris, D. G., Spouge, J. L., & Kondrashov, A. S. (2003). Conserved fragments of transposable elements in intergenic regions: Evidence for widespread recruitment of MIR- and L2-derived sequences within the mouse and human genomes. Genetical Research, 82, 1-18. PubMed Link

Shabalina, S. A., Ogurtsov, A. Y., Lipman, D. J., & Kondrashov, A. S. (2003). Patterns in interspecies similarity correlate with nucleotide composition in mammalian 3' UTRs. Nucleic Acids Research, 31, 5433-5439. PubMed Link

Roytberg, M. A., Ogurtsov, A. Y., Shabalina, S. A., & Kondrashov, A. S. (2002). A hierarchical approach to aligning collinear regions of genomes. Bioinformatics, 18, 1673-1680. PubMed Link

Ogurtsov, A. Y., Roytberg, M. A., Shabalina, S. A., & Kondrashov, A. S. (2002). OWEN: Aligning long collinear regions of genomes. Bioinformatics, 18, 1703-1704.

Kondrashov, A. S., & Shabalina, S. A. (2002). Classification of common conserved sequences in mammalian intergenic regions. Human Molecular Genetics, 11, 669-674. PubMed Link

Webb, C. T., Shabalina, S. A., Ogurtsov, A. Y., & Kondrashov, A. S. (2002). Analysis of similarity within 142 pairs of orthologous intergenic regions of Caenorhabditis elegans and Caenorhabditis briggsae. Nucleic Acids Research, 30, 1233-1239. PubMed Link

Kondrashov, A. S., Sunyaev, S., & Kondrashov, F. A. (2002). Dobzhansky-Muller incompatibilities in protein evolution. Proceedings of the National Academy of Sciences of the USA, 99, 14878-14883. PubMed Link

Houle, D., & Kondrashov, A. S. (2002). Coevolution of costly mate choice and condition-dependent display of good genes. Proceedings of the Royal Society of London, Series B- Biological Sciences, 269, 97-104. PubMed Link

McCune, A. R., Fuller, R. C., Aquilina, A. A., Dawley, R. M., Fadool, J. M., Houle, D., Travis, J., & Kondrashov, A. S. (2002). A low genomic number of recessive lethals in natural populations of bluefin killifish and zebrafish. Science, 296, 2398-2401. PubMed Link

Silva, J. C., & Kondrashov, A. S. (2002). Patterns in spontaneous mutation revealed by human-baboon sequence comparison. Trends in Genetics, 18, 544-547. PubMed Link

Yang, H. P., Tanikawa, A. Y., Van Voorhies, W. A., Silva, J. C., & Kondrashov, A. S. (2001). Whole-genome effects of ethyl methanesulfonate-induced mutation on nine quantitative traits in outbred Drosophila melanogaster. Genetics, 157, 1257-1265. PubMed Link

Yang, H. P., Tanikawa, A. Y., & Kondrashov, A. S. (2001). Molecular nature of 11 spontaneous de novo mutations in Drosophila melanogaster. Genetics, 157, 1285-1292. PubMed Link

Wolf, Y. I., Rogozin, I. B., Kondrashov, A. S., & Koonin, E. V. (2001). Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context. Genome Research, 11, 356-372. PubMed Link

Sunyaev, S., Ramensky, V., Koch, I., Lathe, W., Kondrashov, A. S., & Bork, P. (2001). Prediction of deleterious human alleles. Human Molecular Genetics, 10, 591-597. PubMed Link

Kondrashov, F. A., & Kondrashov, A. S. (2001). Multidimensional epistasis and the disadvantage of sex. Proceedings of the National Academy of Sciences of the USA, 98, 12089-12092. PubMed Link

Shabalina, S. A., Ogurtsov, A. Y., Kondrashov, V. A., & Kondrashov, A. S. (2001). Selective constraint in intergenic regions of human and mouse genomes. Trends in Genetics, 17, 373-376. PubMed Link

Koonin, E. V., Wolf, Y. I., Kondrashov, A. S., & Aravind, L. (2000). Bacterial homologs of the small subunit of eukaryotic DNA primase. Journal of Molecular Microbiology and Biotechnology, 2, 509-512. PubMed Link

Kondrashov, A. S. (1999). Comparative genomics and evolutionary biology. Current Opinion in Genetics & Development, 9, 624-629. PubMed Link

Shpak, M., & Kondrashov, A. S. (1999). Applicability of the hypergeometric phenotypic model to haploid and diploid populations. Evolution, 53, 600-604.

Yampolsky, L. Y., Webb, C. T., Shabalina, S. A., & Kondrashov, A. S. (1999). Rapid accumulation of a vertically transmitted parasite triggered by relaxation of natural selection among hosts. Evolutionary Ecology Research, 1, 581-589.

Shabalina, S. A., & Kondrashov, A. S. (1999). Pattern of selective constraint in C. elegans and C. briggsae genomes. Genetical Research, 74, 23-30.

Kondrashov, A. S., & Kondrashov, F. A. (1999). Interactions among quantitative traits in the course of sympatric speciation. Nature, 400, 351-354. PubMed Link

Kondrashov, A. S., & Shpak, M. (1998). On the origin of species by means of assortative mating. Proceedings of the Royal Society of London, Series B- Biological Sciences, 265, 2273-2278. PubMed Link

Houle, D., Kondrashov, A. S., Yampolsky, L. Y., Caldwell, S., & Steponkus, P. L. (1997). The effect of cryopreservation on the lethal mutation rate in Drosophila melanogaster. Genetical Research, 69, 209-213. PubMed Link

Shabalina, S. A., Yampolsky, L. Y., & Kondrashov, A. S. (1997). Rapid decline of fitness in panmictic populations of Drosophila melanogaster maintained under relaxed natural selection. Proceedings of the National Academy of Sciences of the USA, 94, 13034-13039. PubMed Link

Khibnik, A. I., & Kondrashov, A. S. (1997). Three mechanisms of Red Queen dynamics. Proceedings of the Royal Society of London, Series B- Biological Sciences, 264, 1049-1056.

Kondrashov, A. S., & Yampolsky, L. Y. (1996). High genetic variability under the balance between symmetric mutation and fluctuating stabilizing selection. Genetical Research, 68, 157-164.

- back to top -

Articles (1983-1996)

Kondrashov, A. S., & Yampolsky, L. Y. (1996). Evolution of amphimixis and recombination under fluctuating selection in one and many traits. Genetical Research, 68, 165-173.

Nazipova, N. N., Shabalina, S. A., Ogurtsov, A. Y., Kondrashov, A. S., Roytberg, M. A., Buryakov, G. V., & Vernoslov, S. E. (1995). Samson - A software package for the biopolymer primary structure analysis. Computer Applications in the Biosciences, 11, 423-426. PubMed Link

Kondrashov, A. S. (1995). Dynamics of unconditionally deleterious mutations - Gaussian approximation and soft selection. Genetical Research, 65, 113-121. PubMed Link

Kondrashov, A. S. (1995). Modifiers of mutation-selection balance - General approach and the evolution of mutation rates. Genetical Research, 66, 53-69.

Kondrashov, A. S. (1995). Contamination of the genome by very slightly deleterious mutations - Why have we not died 100 times over? Journal of Theoretical Biology, 175, 583-594. PubMed Link

Kondrashov, A. S. (1994). Muller's ratchet under epistatic selection. Genetics, 136, 1469-1473. PubMed Link

Kondrashov, A. S. (1994). Mutation load under vegetative reproduction and cytoplasmic inheritance. Genetics, 137, 311-318. PubMed Link

Shnol, E. E., & Kondrashov, A. S. (1994). Some relations between different characteristics of selection. Journal of Mathematical Biology, 32, 835-840.

Kondrashov, A. S. (1994). The asexual ploidy cycle and the origin of sex. Nature, 370, 213-216. PubMed Link

Kondrashov, A. S., & Houle, D. (1994). Genotype-environment interactions and the estimation of the genomic mutation rate in Drosophila melanogaster. Proceedings of the Royal Society of London, Series B- Biological Sciences, 258, 221-227. PubMed Link

Shnol, E. E., & Kondrashov, A. S. (1993). The effect of selection on the phenotypic variance. Genetics, 134, 995-996. PubMed Link

Kondrashov, A. S., & Crow, J. F. (1993). A molecular approach to estimating the human deleterious mutation rate. Human Mutation, 2, 229-234. PubMed Link

Kondrashov, A. S. (1993). Classification of hypotheses on the advantage of amphimixis. Journal of Heredity, 84, 372-387. PubMed Link

Kondrashov, A. S., & Turelli, M. (1992). Deleterious mutations, apparent stabilizing selection and the maintenance of quantitative variation. Genetics, 132, 603-618. PubMed Link

Shabalina, S. A., Yurieva, O. V., & Kondrashov, A. S. (1991). On the frequencies of nucleotides and nucleotide substitutions in conservative regulatory DNA sequences. Journal of Theoretical Biology, 149, 43-54. PubMed Link

Kondrashov, A. S., & Crow, J. F. (1991). Haploidy or diploidy - Which is better? Nature, 351, 314-315. PubMed Link

Kondrashov, A. S., Beridze, T. G., & Chiaureli, N. B. (1990). 2 regions of M13 phage genome hybridizing with human DNA are similar to several keratin genes. Biochimie, 72, 867-871. PubMed Link

Vernoslov, S. E., Kondrashov, A. S., Roitberg, M. A., Shabalina, S. A., Yureva, O. V., & Nazipova, N. N. (1990). Samson program package for primary structure - Analysis of biopolymers. Molecular Biology, 24, 430-435.

Kondrashov, A. S., & Crow, J. F. (1988). King's formula for the mutation load with epistasis. Genetics, 120, 853-856. PubMed Link

Kondrashov, A. S. (1988). Deleterious mutations as an evolutionary factor 3 - Mating preference and some general remarks. Journal of Theoretical Biology, 131, 487-496. PubMed Link

Kondrashov, A. S., & Mina, M. V. (1986). Sympatric speciation - When is it possible? Biological Journal of the Linnean Society, 27, 201-223.

Kondrashov, A. S. (1986). Multilocus model of sympatric speciation 3 - Computer stimulations. Theoretical Population Biology, 29, 1-15.

Alexeev, S. S., Mina, M. V., & Kondrashov, A. S. (1986). Parallel clines as a result of countercurrent dispersion and character displacement with the special reference to the genus Brachy-Mystax (Salmoniformes, Salmonidae). Zoologichesky Zhurnal, 65, 227-234.

Kondrashov, A. S. (1985). Deleterious mutations as an evolutionary factor 2 - Facultative apomixis and selfing. Genetics, 111, 635-653.

Kondrashov, A. S. (1984). Deleterious mutations as an evolutionary factor 1 - The advantage of recombination. Genetical Research, 44, 199-217.

Kondrashov, A. S. (1984). The intensity of selection for reproductive isolation at the beginning of sympatric speciation. Genetika, 20, 408-415.

Kondrashov, A. S. (1984). Rate of evolution in a changing environment. Journal of Theoretical Biology, 107, 249-260.

Kondrashova, M. N., Zinchenko, V. P., Kondrashov, A. S., & Okon, E. B. (1983). Mechanism of auto-oscillations in mitochondria based on succinate dehydrogenase activity modulations. Biofizika, 28, 1049-1054.

Kondrashov, A. S. (1983). Multilocus model of sympatric speciation 1 - One character. Theoretical Population Biology, 24, 121-135.

Kondrashov, A. S. (1983). Multilocus model of sympatric speciation 2 - Two characters. Theoretical Population Biology, 24, 136-144.

- back to top -

Review Articles

Kondrashov, F. A., & Kondrashov, A. S. (2006). Role of selection in fixation of gene duplications. Journal of Theoretical Biology, 239, 141-151.

Arnegard, M. E., & Kondrashov, A. S. (2004). Sympatric speciation by sexual selection alone is unlikely. Evolution, 58, 222-237.

Kondrashov, A. S. (2003). Direct estimates of human per nucleotide mutation rates at 20 loci causing Mendelian diseases. Human Mutation, 21, 12-27.

Koonin, E. V., Aravind, L., & Kondrashov, A. S. (2000). The impact of comparative genomics on our understanding of evolution. Cell, 101, 573-576.

Kondrashov, A. S. (1998). Measuring spontaneous deleterious mutation process. Genetica, 102-103 (Sp. Issue), 183-197.

Kondrashov, A. S. (1997). Evolutionary genetics of life cycles. Annual Review of Ecology and Systematics, 28, 391-435.

Kondrashov, A. S. (1988). Deleterious mutations and the evolution of sexual reproduction. Nature, 336, 435-440.

- back to top -

Editorial Material

Kondrashov, A. S. (2005). Evolutionary biology - Fruitfly genome is not junk. Nature, 437, 1106.

Kondrashov, A. S. (2001). Sex and U. Trends in Genetics, 17, 75-77.

Kondrashov, A. S. (1999). Being too nice may be not too wise - Commentary. Journal of Evolutionary Biology, 12, 1031.

Kondrashov, A. S. (1994). Evolutionary genetic - Sex and deleterious mutation. Nature, 369, 99-100.

- back to top -

Letters

Kondrashov, A. S. (1992). Species and speciation. Nature, 356, 752.

- back to top -

Notes

Kondrashov, A. S. (1992). The third phase of Wright shifting balance - A simple analysis of the extreme case. Evolution, 46, 1972-1975.

Kondrashov, A. S. (1984). A possible explanation of cyclical parthenogenesis. Heredity, 52, 307-308.

Kondrashov, A. S. (1982). Selection against harmful mutations in large sexual and asexual populations. Genetical Research, 40, 325-332.

- back to top -