(Shapiro 1982; McClintock 1984; Shapiro 1991; Shapiro 1992; Shapiro 1993; Shapiro 1994; Shapiro 1997; Bellgard, Itoh et al. 1999;
Jorgensen 2004; Shapiro 2005; Shapiro 2005; Shapiro 2007; Koonin and Wolf 2008; Koonin 2009; Koonin 2009; Pigliucci 2009; Shapiro 2009; D'Onofrio and An 2010)
Mobile genetic elements and genome
change
(McClintock 1950; McClintock 1953; Bukhari 1977; Cohen and Shapiro 1980; Shapiro 1983; Purugganan and Wessler 1995;
DeBerardinis,
Goodier et al. 1998;
Shapiro 1999;
Evgen'ev,
Zelentsova et al. 2000;
Comfort 2001;
Bowen and Jordan
2002; Craig 2002;
Feschotte, Jiang
et al. 2002;
Kidwell 2002;
Deininger, Moran
et al. 2003;
Kazazian 2004;
Miller and Capy
2004; Biemont and
Vieira 2005; Feschotte and
Pritham 2007;
Jurka, Kapitonov
et al. 2007;
Pritham and
Feschotte 2007;
Bohne, Brunet et
al. 2008;
Ray, Feschotte
et al. 2008;
Bourque 2009;
Churakov, Kriegs
et al. 2009;
Oliver and
Greene 2009; Pritham 2009;
Shapiro 2010;
Jurka, Bao et
al. 2011; Oliver and
Greene 2011)
Reverse transcription of RNA
sequences into the
genome
(DeBerardinis, Goodier et al.
1998; Brosius 1999;
Hiller, Hetzer
et al. 2000;
Betrán, Thornton
et al. 2002;
Brosius 2003;
von Sternberg
and Shapiro 2005;
Kriegs, Churakov
et al. 2006;
Xing, Wang et
al. 2006; Moller-Krull,
Delsuc et al. 2007;
Volff and
Brosius 2007; Baertsch,
Diekhans et al. 2008;
Bai, Casola et
al. 2008; Conley,
Piriyapongsa et al. 2008;
Moller-Krull,
Zemann et al. 2008;
Churakov, Kriegs
et al. 2009;
Hancks, Ewing et
al. 2009;
Chen, Zou et al.
2011)
Formation of novel coding sequences
and genetic loci
(Wessler 1988; Wessler, Baran et al. 1988;
Purugganan and Wessler 1992;
Varagona,
Purugganan et al. 1992;
Moran,
DeBerardinis et al. 1999;
Hiller, Hetzer
et al. 2000;
Long 2001;
Betrán, Thornton
et al. 2002;
Long, Deutsch et
al. 2003;
Jiang, Bao et
al. 2004; Brandt, Schrauth
et al. 2005;
Brandt, Veith et
al. 2005;
Krull, Brosius
et al. 2005;
Britten 2006;
Xing, Wang et
al. 2006; Arguello, Fan et
al. 2007;
Babushok,
Ostertag et al. 2007;
Bowen and Jordan
2007; Casola, Lawing
et al. 2007;
Krull, Petrusma
et al. 2007;
Piriyapongsa,
Rutledge et al. 2007;
Moller-Krull,
Zemann et al. 2008;
Hancks, Ewing et
al. 2009;
Chen, Zhang et
al. 2010; Fu, Chen et al.
2010)
Regulatory signals and networks
written in the genome
(McClintock 1956; Britten 1996; Britten 1996; McDonald, Matyunina et al. 1997;
Comfort 1999;
Shapiro 1999;
Comfort 2001;
Shapiro 2002;
Jordan, Rogozin
et al. 2003;
Marino-Ramirez,
Lewis et
al. 2005; Shapiro
and
Sternberg 2005; von Sternberg and Shapiro 2005;
Marino-Ramirez
and Jordan 2006;
Istrail, De-Leon
et al. 2007;
Piriyapongsa,
Marino-Ramirez et al.
2007; Bai,
Casola
et al. 2008; Bourque,
Leong
et al. 2008; Conley,
Piriyapongsa
et al. 2008; Feschotte 2008; Jurka 2008; Polavarapu, Marino-Ramirez et
al. 2008; Bourque 2009;
Huda and Jordan
2009; Huda,
Marino-Ramirez et al. 2010;
Kunarso, Chia et
al. 2010;
Huda, Bowen et
al. 2011)
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