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Clanistics: a multi-level perspective for harvesting unrooted gene trees.
Lapointe FJ, Lopez P, Boucher Y, Koenig J, Bapteste E. Lapointe FJ, et al. Trends Microbiol. 2010 Aug;18(8):341-7. doi: 10.1016/j.tim.2010.03.009. Epub 2010 May 31. Trends Microbiol. 2010. PMID: 20605718
Lateral gene transfer challenges principles of microbial systematics.
Bapteste E, Boucher Y. Bapteste E, et al. Trends Microbiol. 2008 May;16(5):200-7. doi: 10.1016/j.tim.2008.02.005. Epub 2008 Apr 15. Trends Microbiol. 2008. PMID: 18420414
Paradigm change in evolutionary microbiology.
O'Malley MA, Boucher Y. O'Malley MA, et al. Stud Hist Philos Biol Biomed Sci. 2005 Mar;36(1):183-208. doi: 10.1016/j.shpsc.2004.12.002. Stud Hist Philos Biol Biomed Sci. 2005. PMID: 16120264
Integron-associated gene cassettes in Halifax Harbour: assessment of a mobile gene pool in marine sediments.
Koenig JE, Boucher Y, Charlebois RL, Nesbø C, Zhaxybayeva O, Bapteste E, Spencer M, Joss MJ, Stokes HW, Doolittle WF. Koenig JE, et al. Environ Microbiol. 2008 Apr;10(4):1024-38. doi: 10.1111/j.1462-2920.2007.01524.x. Epub 2008 Jan 7. Environ Microbiol. 2008. PMID: 18190517
Lateral gene transfer and phylogenetic assignment of environmental fosmid clones.
Nesbø CL, Boucher Y, Dlutek M, Doolittle WF. Nesbø CL, et al. Environ Microbiol. 2005 Dec;7(12):2011-26. doi: 10.1111/j.1462-2920.2005.00918.x. Environ Microbiol. 2005. PMID: 16309397
Complex histories of genes encoding 3-hydroxy-3-methylglutaryl-CoenzymeA reductase.
Gophna U, Thompson JR, Boucher Y, Doolittle WF. Gophna U, et al. Mol Biol Evol. 2006 Jan;23(1):168-78. doi: 10.1093/molbev/msj019. Epub 2005 Sep 14. Mol Biol Evol. 2006. PMID: 16162862
Phylogenetic reconstruction and lateral gene transfer.
Bapteste E, Boucher Y, Leigh J, Doolittle WF. Bapteste E, et al. Trends Microbiol. 2004 Sep;12(9):406-11. doi: 10.1016/j.tim.2004.07.002. Trends Microbiol. 2004. PMID: 15337161 Review.
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