Ник Лэйн - Вопрос жизни [Энергия, эволюция и происхождение сложности]

Интроны и происхождение ядра

Koonin, E. Intron-dominated genomes of early ancestors of eukaryotes // Journal of Heredity 100: 618–623 (2009).

Martin, W., and E. V. Koonin Introns and the origin of nucleus – cytosol compartmentalization // Nature 440: 41–45 (2006).

Rogozin, I. B., Wokf, Y. I., Sorokin, A. V., Mirkin, B. G.,and E. V. Koonin Remarkable interkingdom conservation of intron positions and massive, lineage-specific intron loss and gain in eukaryotic evolution // Current Biology 13: 1512–1517 (2003).

Wujek, D. E. Intracellular bacteria in the blue-green-alga Pleurocapsa minor // Transactions American Microscopical Society 98: 143–145 (1979).

Sverdlov, A. V., Csuros, M., Rogozin, I. B., and E. V. Koonin A glimpse of a putative pre-intron phase of eukaryotic evolution // Trends in Genetics 23: 105–108 (2007).

Ядерно-митохондриальные псевдогены

Hazkani-Covo, E., Zeller, R. M., and W. Martin Molecular poltergeists: mitochondrial DNA copies (numts) in sequenced nuclear genomes // PLoS Genetics 6: e1000834 (2010).

Lane, N. Plastids, genomes and the probability of gene transfer // Genome Biology and Evolution 3: 372–374 (2011).

Отбор против интронов

Lane, N. Energetics and genetics across the prokaryote-eukaryote divide // Biology Direct 6: 35 (2011).

Lynch, M., and A. O. Richardson The evolution of spliceosomal introns // Current Opinion in Genetics and Development 12: 701–710 (2002).

Скорость сплайсинга по сравнению со скоростью трансляции

Cavalier-Smith, T. Intron phylogeny: A new hypothesis // Trends in Genetics 7: 145–148 (1991).

Martin, W., and E. V. Koonin Introns and the origin of nucleus – cytosol compartmentalization // Nature 440: 41–45 (2006).

Происхождение ядерной мембраны, поровых комплексов и ядрышка

Mans, B. J., Anantharaman, V., Aravind, L., and E. V. Koonin Comparative genomics, evolution and origins of the nuclear envelope and nuclear pore complex // Cell Cycle 3: 1612–1637 (2004).

Martin, W. A briefly argued case that mitochondria and plastids are descendants of endosymbionts, but that the nuclear compartment is not // Proc. R. Soc. B 266: 1387–1395 (1999).

Martin, W. Archaebacteria (Archaea) and the origin of the eukaryotic nucleus // Current Opinion in microbiology 8: 630–637 (2005).

McInerney J. O., Martin, W. F., Koonin, E. V., Allen, J. F., Galperin, M. Y., Lane, N., Archibald, J. M., and T. M. Embley Planctomycetes and eukaryotes: A case of analogy not homology // BioEssays 33: 810–817 (2011).

Mercier, R., Kawai, Y., and J. Errington Excess membrane synthesis drives a primitive mode of cell proliferation // Cell 152: 997–1007 (2013).

Staub, E., Fiziev, P., Rosenthal, A., and B. Hinzmann Insights into the evolution of the nucleolus by an analysis of its protein domain repertoire // BioEssays 26: 567–581 (2004).

Эволюция секса

Bell, G. The Masterpiece of Nature: The Evolution and Genetics of Sexuality . University of California Press, Berkeley (1982).

Felsenstein, J. The evolutionary advantage of recombination // Genetics 78: 737–756 (1974).

Hamilton, W. D. Sex versus non-sex versus parasite // Oikos 35: 282–290 (1980).

Lane, N. Why sex is worth losing your head for // New Scientist 2712: 40–43 (2009).

Otto, S. P., and N. Barton Selection for recombination in small populations // Evolution 55: 1921–1931 (2001).

Partridge, L., and L. D. Hurst Sex and conflict // Science 281: 2003–2008 (1998).

Ridley, M. Mendel’s Demon: Gene Justice and the Complexity of Life . Weidenfeld and Nicholson, London (2000).

Ridley, M. The Red Queen: Sex and the Evolution of Human Nature . Penguin, London (1994).

Происхождение слияния клеток и хромосомной сегрегации

Blackstone, N. W., and D. R. Green The evolution of a mechanism of cell suicide // BioEssays 21: 84–88 (1999).

Ebersbach, G., and K. Gerdes Plasmid segregation mechanisms // Annual Review Genetics 39: 453–479 (2005).

Errington, J. L-form bacteria, cell walls and the origins of life // Open Biology 3: 120143 (2013).

Два пола

Fisher RA. The Genetical Theory of Natural Selection . Clarendon Press, Oxford (1930).

Hoekstra, R. F. On the asymmetry of sex – evolution of mating types in isogamous populations // Journal of Theoretical Biology 98: 427–451 (1982).

Hurst, L. D., and W. D. Hamilton Cytoplasmic fusion and the nature of sexes // Proc. R. Soc. B 247: 189–194 (1992).

Hutson V, Law R. Four steps to two sexes // Proc. R. Soc. B 253: 43–51 (1993).

Parker, G. A., Smith, V. G. F., and R. R. Baker The origin and evolution of gamete dimorphism and the male-female phenomenon // Journal of Theoretical Biology 36: 529–553 (1972).

Однородительское наследование митохондрий

Birky, C. W. Uniparental inheritance of mitochondrial and chloroplast genes – mechanisms and evolution // Proceedings National Academy Sciences USA 92: 11331–11338 (1995).

Cosmides, L. M., and J. Tooby Cytoplasmic inheritance and intragenomic conflict // Journal of Theoretical Biology 89: 83–129 (1981).

Hadjivasiliou, Z., Lane, N., Seymour, R., and A. Pomiankowski Dynamics of mitochondrial inheritance in the evolution of binary mating types and two sexes // Proc. R. Soc. B 280: 20131920 (2013).

Hadjivasiliou, Z., Pomiankowski, A., Seymour, R., and N. Lane Selection for mitonuclear co-adaptation could favour the evolution of two sexes // Proc. R. Soc. B 279: 1865–18672 (2012).

Lane, N. Power, Sex, Suicide: Mitochondria and the Meaning of Life . Oxford University Press, Oxford (2005).

Скорость митохондриального мутагенеза у животных, растений и базальных метазоев

Galtier, N. The intriguing evolutionary dynamics of plant mitochondrial DNA // BMC Biology 9: 61 (2011).

Huang, D., Meier, R., Todd, P. A., and L. M. Chou Slow mitochondrial COI sequence evolution at the base of the metazoan tree and its implications for DNA barcoding // Journal of Molecular Evolution 66: 167–174 (2008).

Lane, N. On the origin of barcodes // Nature 462: 272–274 (2009).

Linnane, A. W., Ozawa, T., Marzuki, S., and M. Tanaka Mitochondrial DNA mutations as an important contributor to ageing and degenerative disease // Lancet 333: 642–645 (1989).

Pesole, G., Gissi, C., De Chirico, A., and C. Saccone Nucleotide substitution rate of mammalian mitochondrial genomes // Journal of Molecular Evolution 48: 427–434 (1999).

Возникновение разделения на сому и зародышевую линию

Allen, J. F., and W. B. M. de Paula Mitochondrial genome function and maternal inheritance // Biochemical Society Transactions 41: 1298–1304 (2013).

Allen, J. F. Separate sexes and the mitochondrial theory of ageing // Journal of Theoretical Biology 180: 135–140 (1996).

Buss, L. The Evolution of Individuality . Princeton University Press, Princeton (1987).

Clark, W. R. Sex and the Origins of Death . Oxford University Press, New York (1997).

Radzvilavicius, A. L., Hadjivasiliou, Z., Pomiankowski, A., and N. Lane Mitochondrial variation drives the evolution of sexes and the germline-soma distinction // PloS Biol. 2016 Dec 20;14 (12): e2000410 (2016).

“Мозаичная” дыхательная цепь

Allen, J. F. The function of genomes in bioenergetic organelles // Phil. Trans. R. Soc. B 358: 19–37 (2003).

Lane, N. The costs of breathing // Science 334: 184–185 (2011).

Moser, C. C., Page, C. C., and P. L. Dutton Darwin at the molecular scale: selection and variance in electron tunnelling proteins including cytochrome c oxidase // Phil. Trans. R. Soc. B 361: 1295–1305 (2006).

Schatz, G., and T. L. Mason The biosynthesis of mitochondrial proteins // Annual Review Biochemistry 43: 51–87 (1974).

Vinothkumar, K. R., Zhu, J., and J. Hirst Architecture of the mammalian respiratory complex I // Nature 515: 80–84 (2014).

Гибридное разрушение, цибриды и происхождение видов

Barrientos, A., Kenyon, L., and C. T. Moraes Human xenomitochondrial cybrids. Cellular models of mitochondrial complex I deficiency // Journal of Biological Chemistry 273: 14210–14217 (1998).

Blier, P. U., Dufresne, F., and R. S. Burton Natural selection and the evolution of mtDNA-encoded peptides: evidence for intergenomic co-adaptation // Trends in Genetics 17: 400–406 (2001).

Burton, R. S., and F. S. Barreto A disproportionate role for mtDNA in Dobzhansky – Muller incompatibilities? // Molecular Ecology 21: 4942–4957 (2012).

Burton, R. S., Ellison, C. K., and J. S. Harrison The sorry state of F 2 hybrids: consequences of rapid mitochondrial DNA evolution in allopatric populations // American Naturalist 168 Supplement 6: S14–24 (2006).

Gershoni, M., Templeton, A. R., and D. Mishmar Mitochondrial biogenesis as a major motive force of speciation // Bioessays 31: 642–650 (2009).

Lane, N. On the origin of barcodes // Nature 462: 272–274 (2009).

Митохондриальный контроль апоптоза

Hengartner, M. O. Death cycle and Swiss army knives // Nature 391: 441–442 (1998).

Koonin, E. V., and L. Aravind Origin and evolution of eukaryotic apoptosis: the bacterial connection // Cell Death and Differentiation 9: 394–404 (2002).

Lane, N. Origins of death // Nature 453: 583–585 (2008).