Книга: Виролюция. Важнейшая книга об эволюции после «Эгоистичного гена» Ричарда Докинза

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Keeble F. Plant Animals: A Study in Symbiosis. Cambridge: Cambridge University Press, 1919.

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Rumpho M.E, Worful J.M, Lee J., et al. Horizontal gene transfer of the algal gene psb0 to the photosynthetic sea slug Elysia chlorotica. Proceedings of the National Academy of Sciences 2008; 105 (46); 17 867-17871.

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Ryan F. Virus X. London: HarperCollins, UK, 1996.

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Wimmer E. The test-tube synthesis of a chemical called poliovirus. European Molecular Biology Reports 2006; 7: 53–59.

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Judson H. F. The Eighth Day of Creation: Makers of the Revolution in Biology. London: Penguin Books, 1979.

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Spencer H. Principles of Biology. London, Williams and Norgate, 1864.

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A better way to treat cancer, Sikora K. Daily Telegraph 18 Sept 2006. http://www.telegraph.co.uk/health/3343151/А-better-way-totreat-cancer.html

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Vogelstein В., Kinzler K. W. Cancer genes and the pathways they control. Nature Medicine 2004; 10 (8): 789–799.

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Sj?blom Т, Jones S., Wood L. D., et al. The consensus coding sequences of human breast and colorectal cancers. Science 2006; 314: 268–274.

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http://cancergenome.nih.gov.

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Название этой главы — перефразированная цитата из нобелевской речи Дж. Ледерберга: «Земная жизнь — плотная цепь генетических взаимодействий».

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Huxley L. Life and Letters of Thomas Henry Huxley. Vol I London: Macmillan & Co, 1900: 219.

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Lederberg J. Cell genetics and hereditary symbiosis. Physiological Review, 1952; 32: 403–430.

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Sapp J. Evolution by Association: A History of Symbiosis. Oxford: Oxford, University Press, 1994.

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De Вагу Н. A. Die Erscheinung der Symbiose (1879).

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Константин Сергеевич Мережковский (1855–1921) — ботаник, зоолог, философ, писатель. Брат писателя и общественного деятеля Д. С. Мережковского. — Прим. ред.

· #17

Margulis L., Fester R. Symbiosis as a Source of Evolutionary Innovation. Oxford Oxford University Press, Oxford, 1999. См. также: Smith J. M., Szathm?ry E. The Origins of Life. Oxford: Oxford University Press, 1999.

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Ryan F. Darwin’s Blind Spot. New York: Houghton Mifflin, 2002.

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Shilts R. And the Band Played On. London: Penguin Books, 1987.

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Essex М., Kanki P. J. The origins of the AIDS vims. Scientific American, October 1988: 256: 64–71.

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Polesz B. J., Ruscetti F. W., et al. Detection and isolation of type-C retrovirus particles from fresh and cultured lymphocytes of a patient with cutaneous T-cell lymphoma. Proceedings of the National Academy of Sciences, 1980; 77: 7415–9. See also, Gallo R. The discovery of the first human retrovirus: HTLV-1 and HTLV-2. Retrovirology 2005; 2:17–24.

· #22

В книге «Virus X» я описал увлекательную историю открытия вируса ВИЧ-1 в январе 1983 года Люком Монтанье из Пастеровского института в Париже.

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Kanki P. J., McLane М. F., et al. Serologic identification and characterization of a macaque T-lymphotropic retrovirus closely related to HTLV–III. Science 1985; 228: 1199–1201.

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Whitfield J. В. Parasitoids, polydnaviruses and endosymbiosis. Parasitology 1990; 6: 381–384. Whitfield J. B. Estimating the age of the polydnavirus / braconid wasp symbiosis. Proceedings of the National Academy of Sciences 2002; 99: 7508–13.

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De Groot N., Otting N., et al. Evidence for an ancient selective sweep in the МНС class I gene repertoire of chimpanzees. Proceedings of the National Academy of Sciences 2002; 99:11 748-53. Gagneux P., Wills C., Gerloff U., et al. Mitochondrial sequences show diverse evolutionary histories of African hominoids. Proceedings of the National Academy of Sciences 1999; 96: 5077–82. Zhao Z., Jin L., Fu Y.-X., et al. Worldwide DNA sequence variation in a 10-kilobase noncoding region on human chromosome 22. Proceedings of the National Academy of Sciences 2000; 97: 11 354-8. Vogel T. U., Evans D. T., Urvater J. E., et al. Major histocompatibility complex Class 1 genes in primates: co-evolution with pathogens. Immunological Reviews 1999; 167: 327–337.

· #26

Экспрессия гена — процесс, в ходе которого наследственная информация от гена преобразуется в РНК или белок. — Прим. ред.

· #27

Из моего интервью с профессором Луисом Вильярреалом, 2002.

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Gilbert S. F.. Developmental Biology, seventh edition. Sunderland, Massachusetts: Sinauer Associates Inc, 2003:130.

· #29

Hanger J. J., Bromham L. D., McKee J. J., et al. The nucleotide sequence of koala (Phascolarctos cinereus) retrovirus: a novel type c endogenous virus related to gibbon ape leukemia virus. J. Virol. 2000; 74 (9): 4264–72.

· #30

Martin J., Hemiou E., Cook J., et al. Interclass transmission and phyletic host tracking in murine leukemia virus-related retroviruses. J. Virol. 1999;73 (3): 2442–9.

· #31

Tarlinton R., Meers J., Young P. R. Retroviral invasion of the koala genome. Nature 2006; 442: 79–81; Tarlinton R., Meers J., Young P. Biology and evolution of the endogenous koala retrovirus. Cellular and Molecular Life Sciences, 2008. Online at doi 10.1007/s00 018–008–8499-y.

· #32

Katzourakis A., Tristem М., Pybus O. G., Gifford R. J. Discovery and analysis of the first endogenous retrovirus. Proceedings of the National Academy of Sciences 2007; 104 (15): 6261–5.

· #33

Gifford R. J., Katzourakis A., Tristem M., et al. A transitional endogenous lentivirus from the genome of a basal primate and implications for lentivirus evolution. Proceedings of the National Academy of Sciences 2008; 105 (51): 20 362-7.

· #34

Здесь: способность длительно сохранять свои свойства в окружающей среде. — Прим. ред.

· #35

Ryan F. Darwin’s Blind Spot. New York: Houghton Mifflin, 2002.

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Villarreal L. P. Viruses and the Evolution of Life. Washington, DC: ASM Press 2005.

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Thomas L. The Lives of a Cell. London: Penguin Books, 1974: 4.

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Перевод А. Эфроса. — Прим. ред.

· #39

http://en.wikipedia.org/wiki/Barbara_McClintock.

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Расе II J.K., Feschotte C. The evolutionary history of human DNA transposons: evidence for intense activity in the primate lineage. Genome Research 2007; 17: 422–432.

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Villarreal L. The source of self: genetic parasites and the origin of adaptive immunity. Annals of the New York Academy of Sciences (in press).

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Weiss R. A. The discovery of endogenous retroviruses. Retrovirology 2006; 3:67 Online at doi: 10.1186/1742–4690-3–67.

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Harris J. R. Placental endogenous retrovirus (ERV): structural, functional and evolutionary significance. Bioessays 1998; 20: 307–316.

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Martin M. A., Bryan T., Rasheed S., Khan A. S. Identification and cloning of endogenous retroviral sequences present in human DNA. Proceedings of the National Academy of Sciences 1981; 78 (8): 4892–6. Cohen M., Rein A., Stephens R. M., et al. Baboon endogenous virus genome: molecular cloning and structural characterisation of nondefective viral genomes from DNA of a baboon cell strain. Proceedings of the National Academy of Sciences 1981; 78 (8): 5207–11.

· #45

O’Connell C., O’Brien S., Nash W. G., Cohen M. ERV3, a full-length human endogenous provirus: chromosomal localization and evolutionary relationships. Virology 1984; 138: 225–235.

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Ono M. Molecular cloning and long terminal repeat sequences of human endogenous retrovirus genes related to types A and В retrovirus genes. Journal of Virology 1986; 58 (3): 937–944.

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Britten R. J. DNA sequence insertion and evolutionary variation in gene regulation. Proceedings of the National Academy of Sciences 1996; 93: 9374–7.

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O’Neill R.J.W., Eldredge М. D. В., Graves J. А. М. Chromosome heterozygosity and de novo chromosome rearrangements in mammalian interspecies hybrids. Mammalian Genome 2001; 12: 256–259.

· #49

Sverdlov E. D. Retroviruses and human evolution. Bio Essays 2000; 22: 161–171.

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Hughes J. F.,Coffin J. M. Human endogenous retrovirus К solo-LTR formation and insertional polymorphisms: implications for human and viral evolution. Proceedings of the National Academy of Sciences 2004; 101: 1668–72.

· #51

Mi S., Lee X., Li X., et al. Syncytin is a captive retroviral envelope protein involved in human placental morphogenesis. Nature 2000; 403: 785–9.

· #52

Blond J.-L., Lavillette D., Cheynet V., et al. An envelope glycoprotein of the human endogenous retrovirus HERV-W is expressed in the human placenta and fuses cells expressing the type D mammalian retrovirus receptor. Journal of Virology 2000; 74: 3321–9.

· #53

Blaise S., de Parseval N., B?nit L., Heidmann T. Genomewide screening for fusogenic human endogenous retrovirus envelopes identifies syncytin 2, a gene conserved on primate evolution. Proceedings of the National Academy of Sciences 2003; 100:13 013-8.

· #54

Bonnaud B., Bouton О., Oriol G., et al. Evidence of selection on the domesticated ERVWE1 env retroviral element involved in placentation. Molecular Biology and Evolution 2004; 21:1895–901.

· #55

Andersson A.-C., Merza M., Venables P., et al. Elevated levels of the endogenous retrovirus ERV3 in human sebaceous glands. Journal of Investigative Dermatology 1996; 106: 125–128.

· #56

Andersson A.-C., Venables P., Tonjes R. R., et al. Developmental expression of HERV-R (ERV-3) and HERV-K in human tissue. Virology 2002; 297: 220–225.

· #57

De Parseval N., Lazar V., Casella J.-F., et al. Survey of human genes of retroviral origin: identification and transcriptome of the genes with coding capacity for complete envelope proteins. Journal of Virology 2003: 77 (19): 10 414-22.

· #58

Nekrutenko A., Li W.-H. Transposable elements are found in a large number of human protein-coding genes. Trends in Genetics 2001; 17(11): 619–621.

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Van Lagemaat L.N., Landre J.-R., Mager D.L., Medstrand P. Transposable elements in mammals promote regulated variations in diversifications of genes with specialized functions. Trends in Genetics 2003; 19 (10): 530–6.

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Seifarth W.,Frank O., Zeilfelder U., et al. Comprehensive analysis of human endogenous retrovirus transcriptional activity inhuman tissues with a retrovirus-specific microarray. Journal of Virology 2005; 79: 341–52.

· #61

Flockerzi A., Ruggieri A., Frank О., et al. Expression patterns of transcribed human endogenous retrovirus HERV-K (HML-2) loci in human tissues and the need for a HERV transcriptome project. BMC Genomics 2008; 9: 354. Online at doi:10.1186/ 1471–2164-9–354.

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Thomas L. The Lives of a Cell. London and New York: Penguin Books 1978.

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Bosch Е., Jobling M.A. Duplications of the AZFa region of the humanY chromosome are mediated by homologous recombination between HERVs and are compatible with male fertility. Human Molecular Genetics 2003; 12 (3): 341–347.

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Zody M.C., Garber M., Adams D. J., et al. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. Nature 2006; 440: 1045–9.

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Batzer MA, Deininger PL. Alu repeats and human genomic diversity. Nature Reviews Genetics 2002; 3: 370–380. Sukarova E, Dimovski AJ, Tchacarova P., etal. An alu insert as the cause of a severe form of hemophilia A. Acta haematologica 2001; 106 (3): 126–129.

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Перевод Б. Пастернака. — Прим. ред.

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Ужас самоотравления (англ.).

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Villarreal L. The source of self: genetic parasites and the origin of adaptive immunity. Annals of the New York Academy of Sciences (in press).

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Perron H., Jouvin-Marche E., Ounanian-Paraz A., et al. Multiple sclerosis retrovirus particles and recombinant envelope trigger an abnormal immune response in vitro, by inducing polyclonal V 16-T-lymphocyte activation. Virology 2001; 287: 321–332.

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Dolei A., Serra С., Mameli G., et al. Multiple sclerosis-associated retrovirus (MSRV) in Sardinian MS patients. Neurology 2002; 58: 471–473.

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Anthony J. М., van Marie G., Opii W., et al. Human endogenous retrovirus glycoprotein-mediated induction of redox reactants causes oligodendrocyte death and demyelination. Nature Neuroscience 2004; 7 (10): 1088–95.

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Секвенирование — определение последовательности нуклеотидов в гене. — Прим. ред.

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Sekigawa l., Ogasawara H., Naito T., et al. Systemic lupus erythematosus and human endogenous retroviruses. Modern Rheumatology 2003; 13:107–113.

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Dunlap К. А., Palmarini M., Varela М., et al. Endogenous retroviruses regulate periimplantation placental growth and differentiation. Proceedings of the National Academy of Sciences 2006; 103 (39): 14 390-5.

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Cousens C., Bishop J.V., Philbey A.W., et al. Analysis of Integration sites of Jaagsietke sheep retrovirus in ovine pulmonary adenocarcinoma. Journal of Virology 2004; 78 (16): 8506–12.

· #83

Более подробное описание этих исследований и обсуждение результатов можно найти в работе Ryan F. P. An alternative approach to medical genetics based on modern evolutionary biology. Part 4: HERVs in cancer. Journal of the Royal Society of Medicine 2009: (in press).

· #84

Guasch G., Popovici C., Mugneret F., et al. Endogenous retroviral sequence is fused to FGFR1 kinase in the 8p 12 stemcell myeloproliferative disorder with t (8; 19) (pl2; q13.3). Blood 2003; 101 (1): 286–288.

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Schulte A. M., Shoupeng L., Kurtz A., et al. Human trophoblast and choriocarcinoma expression of the growth factor pleiotrophin attributable to germ line insertion of an endogenous retrovirus. Proceedings of the National Academy of Sciences 1996; 93: 14 759-64.

· #86

Более подробное описание этих исследований и дальнейшие ссылки можно найти в работе: Ryan F. P. An alternative approach to medical genetics based on modem evolutionary biology. Part 4: HERVs in cancer. Journal of the Royal Society of Medicine 2009: (in press).

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Ruprecht K., Mayer J., Sauter М., et al. Endogenous retroviruses and cancer. Cellular and Molecular Life Sciences, 2008; 65: 3366–82.

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O’Neil J., Tchinda J., Gutierrez A., et al. Alu elements mediate MYB gene tandem duplication in human T-ALL. Journal of Experimental Medicine 2007; 204 (13): 3059–66.

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Fukuuchi A., Nagamura Y., Yaguchi H., et al. A wholeMEN1 gene deletion flanked by Alu repeats in a family with multiple endocrine neoplasia type 1. Japanese Journal of Clinical Oncology 2006; 36 (11): 739–744.

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Более подробное описание этих исследований и дальнейшие ссылки можно найти в работе: Ryan F.P. An alternative approach to medical genetics based on modem evolutionary biology. Part 4: HERVs in cancer. Journal of the Royal Society of Medicine 2009: (in press).

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Seraf?no A., Balestrieri E., Pierimarchi P., et al. The activation of human endogenous retrovirus К (HERV-K) is implicated in melanoma cell malignant transformation. Experimental Cell Research 2009; 315: 849–862.

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Более подробное описание этих исследований и дальнейшие ссылки можно найти в работе: Ryan F.P. An alternative approach to medical genetics based on modern evolutionary biology. Part 5: epigenetics and genomic duplications. Journal of the Royal Society of Medicine 2009: (in press).

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