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Transposon-mediated rewiring of gene regulatory networks contributed to the evolution of pregnancy in mammals.
Lynch VJ, Leclerc RD, May G, Wagner GP. Lynch VJ, et al. Nat Genet. 2011 Sep 25;43(11):1154-9. doi: 10.1038/ng.917. Nat Genet. 2011. PMID: 21946353
Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs.
Kapusta A, Kronenberg Z, Lynch VJ, Zhuo X, Ramsay L, Bourque G, Yandell M, Feschotte C. Kapusta A, et al. Among authors: lynch vj. PLoS Genet. 2013 Apr;9(4):e1003470. doi: 10.1371/journal.pgen.1003470. Epub 2013 Apr 25. PLoS Genet. 2013. PMID: 23637635 Free PMC article.
Ancient transposable elements transformed the uterine regulatory landscape and transcriptome during the evolution of mammalian pregnancy.
Lynch VJ, Nnamani MC, Kapusta A, Brayer K, Plaza SL, Mazur EC, Emera D, Sheikh SZ, Gr├╝tzner F, Bauersachs S, Graf A, Young SL, Lieb JD, DeMayo FJ, Feschotte C, Wagner GP. Lynch VJ, et al. Cell Rep. 2015 Feb 3;10(4):551-61. doi: 10.1016/j.celrep.2014.12.052. Epub 2015 Jan 29. Cell Rep. 2015. PMID: 25640180 Free PMC article.
Transposable elements are the primary source of novelty in primate gene regulation.
Trizzino M, Park Y, Holsbach-Beltrame M, Aracena K, Mika K, Caliskan M, Perry GH, Lynch VJ, Brown CD. Trizzino M, et al. Among authors: lynch vj. Genome Res. 2017 Oct;27(10):1623-1633. doi: 10.1101/gr.218149.116. Epub 2017 Aug 30. Genome Res. 2017. PMID: 28855262 Free PMC article.
A Derived Allosteric Switch Underlies the Evolution of Conditional Cooperativity between HOXA11 and FOXO1.
Nnamani MC, Ganguly S, Erkenbrack EM, Lynch VJ, Mizoue LS, Tong Y, Darling HL, Fuxreiter M, Meiler J, Wagner GP. Nnamani MC, et al. Among authors: lynch vj. Cell Rep. 2016 Jun 7;15(10):2097-2108. doi: 10.1016/j.celrep.2016.04.088. Epub 2016 May 26. Cell Rep. 2016. PMID: 27239043
Regulatory evolution through divergence of a phosphoswitch in the transcription factor CEBPB.
Lynch VJ, May G, Wagner GP. Lynch VJ, et al. Nature. 2011 Nov 13;480(7377):383-6. doi: 10.1038/nature10595. Nature. 2011. PMID: 22080951
Convergent evolution of endometrial prolactin expression in primates, mice, and elephants through the independent recruitment of transposable elements.
Emera D, Casola C, Lynch VJ, Wildman DE, Agnew D, Wagner GP. Emera D, et al. Among authors: lynch vj. Mol Biol Evol. 2012 Jan;29(1):239-47. doi: 10.1093/molbev/msr189. Epub 2011 Aug 2. Mol Biol Evol. 2012. PMID: 21813467
Evolution of a derived protein-protein interaction between HoxA11 and Foxo1a in mammals caused by changes in intramolecular regulation.
Brayer KJ, Lynch VJ, Wagner GP. Brayer KJ, et al. Among authors: lynch vj. Proc Natl Acad Sci U S A. 2011 Aug 9;108(32):E414-20. doi: 10.1073/pnas.1100990108. Epub 2011 Jul 25. Proc Natl Acad Sci U S A. 2011. PMID: 21788518 Free PMC article.
Evolutionary novelties.
Wagner GP, Lynch VJ. Wagner GP, et al. Among authors: lynch vj. Curr Biol. 2010 Jan 26;20(2):R48-52. doi: 10.1016/j.cub.2009.11.010. Curr Biol. 2010. PMID: 20129035
Live-birth in vipers (Viperidae) is a key innovation and adaptation to global cooling during the Cenozoic.
Lynch VJ. Lynch VJ. Evolution. 2009 Sep;63(9):2457-65. doi: 10.1111/j.1558-5646.2009.00733.x. Epub 2009 Jun 26. Evolution. 2009. PMID: 19563326
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