-
1
-
-
0008767749
-
A Cytological and Genetical Study of Triploid Maize
-
McClintock, B. A Cytological and Genetical Study of Triploid Maize. Genetics 1929, 14, 180-222.
-
(1929)
Genetics
, vol.14
, pp. 180-222
-
-
McClintock, B.1
-
2
-
-
0041925729
-
The order of the genes c, sh and wx in zea mays with reference to a cytologically known point in the chromosome
-
McClintock, B. The order of the genes c, sh and wx in zea mays with reference to a cytologically known point in the chromosome. Proc. Natl. Acad. Sci. USA 1931, 17, 485-491.
-
(1931)
Proc. Natl. Acad. Sci. USA
, vol.17
, pp. 485-491
-
-
McClintock, B.1
-
3
-
-
72749127435
-
The origin and behavior of mutable loci in maize
-
McClintock, B. The origin and behavior of mutable loci in maize. Proc. Natl. Acad. Sci. USA 1950, 36, 344-355.
-
(1950)
Proc. Natl. Acad. Sci. USA
, vol.36
, pp. 344-355
-
-
McClintock, B.1
-
4
-
-
0000642462
-
Induction of Instability at Selected Loci in Maize
-
McClintock, B. Induction of Instability at Selected Loci in Maize. Genetics 1953, 38, 579-599.
-
(1953)
Genetics
, vol.38
, pp. 579-599
-
-
McClintock, B.1
-
5
-
-
0036250001
-
Plant transposable elements: Where genetics meets genomics
-
Feschotte, C.; Jiang, N.; Wessler, S.R. Plant transposable elements: Where genetics meets genomics. Nat. Rev. Gen. 2002, 3, 329-341.
-
(2002)
Nat. Rev. Gen.
, vol.3
, pp. 329-341
-
-
Feschotte, C.1
Jiang, N.2
Wessler, S.R.3
-
6
-
-
0018894384
-
Selfish genes, the phenotype paradigm and genome evolution
-
Doolittle, W.F.; Sapienza, C. Selfish genes, the phenotype paradigm and genome evolution. Nature 1980, 284, 601-603.
-
(1980)
Nature
, vol.284
, pp. 601-603
-
-
Doolittle, W.F.1
Sapienza, C.2
-
7
-
-
0018857680
-
Selfish DNA: The ultimate parasite
-
Orgel, L.E.; Crick, F.H. Selfish DNA: The ultimate parasite. Nature 1980, 284, 604-607.
-
(1980)
Nature
, vol.284
, pp. 604-607
-
-
Orgel, L.E.1
Crick, F.H.2
-
8
-
-
0020402387
-
Exaptation-a missing term in the science of form
-
Gould, S.J.; Vrba, E.S. Exaptation-a missing term in the science of form. Paleobiology 1982, 8, 4-15.
-
(1982)
Paleobiology
, vol.8
, pp. 4-15
-
-
Gould, S.J.1
Vrba, E.S.2
-
9
-
-
0025864962
-
Retroposons-Seeds of evolution
-
Brosius, J. Retroposons-Seeds of evolution. Science 1991, 251, 753.
-
(1991)
Science
, vol.251
, pp. 753
-
-
Brosius, J.1
-
10
-
-
0033288496
-
Molecular domestication-More than a sporadic episode in evolution
-
Miller, W.J.; McDonald, J.F.; Nouaud, D.; Anxolabehere, D. Molecular domestication-More than a sporadic episode in evolution. Genetica 1999, 107, 197-207.
-
(1999)
Genetica
, vol.107
, pp. 197-207
-
-
Miller, W.J.1
McDonald, J.F.2
Nouaud, D.3
Anxolabehere, D.4
-
11
-
-
0035105221
-
Perspective: Transposable elements, parasitic DNA, and genome evolution
-
Kidwell, M.G.; Lisch, D.R. Perspective: Transposable elements, parasitic DNA, and genome evolution. Evolution 2001, 55, 1-24.
-
(2001)
Evolution
, vol.55
, pp. 1-24
-
-
Kidwell, M.G.1
Lisch, D.R.2
-
12
-
-
33646928347
-
A distal enhancer and an ultraconserved exon are derived from a novel retroposon
-
Bejerano, G.; Lowe, C.; Ahituv, N.; King, B.; Siepel, A.; Salama, S.; Rubin, E.; Kent, W.; Haussler, D. A distal enhancer and an ultraconserved exon are derived from a novel retroposon. Nature 2006, 441, 87-90.
-
(2006)
Nature
, vol.441
, pp. 87-90
-
-
Bejerano, G.1
Lowe, C.2
Ahituv, N.3
King, B.4
Siepel, A.5
Salama, S.6
Rubin, E.7
Kent, W.8
Haussler, D.9
-
13
-
-
33748936552
-
Turning junk into gold: Domestication of transposable elements and the creation of new genes in eukaryotes
-
Volff, J.N. Turning junk into gold: Domestication of transposable elements and the creation of new genes in eukaryotes. BioEssays 2006, 28, 913-922.
-
(2006)
BioEssays
, vol.28
, pp. 913-922
-
-
Volff, J.N.1
-
14
-
-
37549029474
-
DNA transposons and the evolution of eukaryotic genomes
-
Feschotte, C.; Pritham, E. DNA transposons and the evolution of eukaryotic genomes. Annu. Rev. Genet. 2007, 41, 331-368.
-
(2007)
Annu. Rev. Genet.
, vol.41
, pp. 331-368
-
-
Feschotte, C.1
Pritham, E.2
-
15
-
-
41949093041
-
Possible involvement of SINEs in mammalian brain formation
-
Sasaki, T.; Nishihara, H.; Hirakawa, M.; Fujimura, K.; Tanaka, M.; Kokubo, N.; Kimura-Yoshida, C.; Matsuo, I.; Sumiyama, K.; Saitou, N.; et al. Possible involvement of SINEs in mammalian brain formation. Proc. Natl. Acad. Sci. USA 2008, 105, 4220-4225.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 4220-4225
-
-
Sasaki, T.1
Nishihara, H.2
Hirakawa, M.3
Fujimura, K.4
Tanaka, M.5
Kokubo, N.6
Kimura-Yoshida, C.7
Matsuo, I.8
Sumiyama, K.9
Saitou, N.10
-
16
-
-
82955188747
-
A mammalian conserved element derived from SINE displays enhancer properties recapitulating Satb2 expression in early-born callosal projection neurons
-
Tashiro, K.; Teissier, A.; Kobayashi, N.; Nakanishi, A.; Sasaki, T.; Yan, K.; Tarabykin, V.; Vigier, L.; Sumiyama, K.; Hirakawa, M.; et al. A mammalian conserved element derived from SINE displays enhancer properties recapitulating Satb2 expression in early-born callosal projection neurons. PLoS One 2011, 6, e28497.
-
(2011)
PLoS One
, vol.6
-
-
Tashiro, K.1
Teissier, A.2
Kobayashi, N.3
Nakanishi, A.4
Sasaki, T.5
Yan, K.6
Tarabykin, V.7
Vigier, L.8
Sumiyama, K.9
Hirakawa, M.10
-
17
-
-
55949134735
-
Repeated horizontal transfer of a DNA transposon in mammals and other tetrapods
-
Pace, J.K.; Gilbert, C.; Clark, M.S.; Feschotte, C. Repeated horizontal transfer of a DNA transposon in mammals and other tetrapods. Proc. Natl. Acad. Sci. USA 2012, 105, 17023-17028.
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 17023-17028
-
-
Pace, J.K.1
Gilbert, C.2
Clark, M.S.3
Feschotte, C.4
-
18
-
-
0032509302
-
Genome sequence of the nematode C. elegans: A platform for investigating biology
-
Ainscough, R.; Bardill, S.; Barlow, K.; Basham, V.; Baynes, C.; Beard, L.; Beasley, A.; Berks, M.; Bonfield, J.; Brown, J.; et al. Genome sequence of the nematode C. elegans: A platform for investigating biology. Science 1998, 282, 2012-2018.
-
(1998)
Science
, vol.282
, pp. 2012-2018
-
-
Ainscough, R.1
Bardill, S.2
Barlow, K.3
Basham, V.4
Baynes, C.5
Beard, L.6
Beasley, A.7
Berks, M.8
Bonfield, J.9
Brown, J.10
-
19
-
-
36549035839
-
Discovering and detecting transposable elements in genome sequences
-
Bergman, C.M.; Quesneville, H. Discovering and detecting transposable elements in genome sequences. Brief. Bioinform. 2007, 8, 382-392.
-
(2007)
Brief. Bioinform.
, vol.8
, pp. 382-392
-
-
Bergman, C.M.1
Quesneville, H.2
-
20
-
-
77952670452
-
Identifying repeats and transposable elements in sequenced genomes: How to find your way through the dense forest of programs
-
Lerat, E. Identifying repeats and transposable elements in sequenced genomes: How to find your way through the dense forest of programs. Heredity 2010, 104, 520-533.
-
(2010)
Heredity
, vol.104
, pp. 520-533
-
-
Lerat, E.1
-
21
-
-
84860173551
-
Methods and software in NGS for TE analysis
-
Chaparro, C.; Sabot, F. Methods and software in NGS for TE analysis. Methods Mol. Biol. 2012, 859, 105-114.
-
(2012)
Methods Mol. Biol.
, vol.859
, pp. 105-114
-
-
Chaparro, C.1
Sabot, F.2
-
22
-
-
36249023071
-
A unified classification system for eukaryotic transposable elements
-
Wicker, T.; Sabot, F.; Hua-van, A.; Bennetzen, J.L.; Capy, P.; Chalhoub, B.; Flavell, A.; Leroy, P.; Morgante, M.; Panaud, O.; et al. A unified classification system for eukaryotic transposable elements. Nat. Rev. Genet. 2007, 8, 973-982.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 973-982
-
-
Wicker, T.1
Sabot, F.2
Hua-van, A.3
Bennetzen, J.L.4
Capy, P.5
Chalhoub, B.6
Flavell, A.7
Leroy, P.8
Morgante, M.9
Panaud, O.10
-
23
-
-
42349111552
-
A universal classification of eukaryotic transposable elements implemented in Repbase
-
Kapitonov, V.V.; Jurka, J. A universal classification of eukaryotic transposable elements implemented in Repbase. Nat. Rev. Genet. 2008, 9, 411-412.
-
(2008)
Nat. Rev. Genet.
, vol.9
, pp. 411-412
-
-
Kapitonov, V.V.1
Jurka, J.2
-
24
-
-
34848876954
-
Helitrons on a roll: Eukaryotic rolling-circle transposons
-
Kapitonov, V.V.; Jurka, J. Helitrons on a roll: Eukaryotic rolling-circle transposons. Trends Genet. 2007, 23, 521-529.
-
(2007)
Trends Genet.
, vol.23
, pp. 521-529
-
-
Kapitonov, V.V.1
Jurka, J.2
-
25
-
-
33645227457
-
Self-synthesizing DNA transposons in eukaryotes
-
Kapitonov, V.V.; Jurka, J. Self-synthesizing DNA transposons in eukaryotes. Proc. Natl. Acad. Sci. USA 2006, 103, 4540-4545.
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 4540-4545
-
-
Kapitonov, V.V.1
Jurka, J.2
-
26
-
-
0029927086
-
The 3' ends of tRNA-derived short interspersed repetitive elements are derived from the 3' ends of long interspersed repetitive elements
-
Ohshima, K.; Hamada, M.; Terai, Y.; Okada, N. The 3' ends of tRNA-derived short interspersed repetitive elements are derived from the 3' ends of long interspersed repetitive elements. Mol. Cell. Biol. 1996, 16, 3756-3764.
-
(1996)
Mol. Cell. Biol.
, vol.16
, pp. 3756-3764
-
-
Ohshima, K.1
Hamada, M.2
Terai, Y.3
Okada, N.4
-
27
-
-
0031593205
-
SINEs and LINEs share common 3' sequences: A review
-
Okada, N.; Hamada, M.; Ogiwara, I.; Ohshima, K. SINEs and LINEs share common 3' sequences: A review. Gene 1997, 205, 229-243.
-
(1997)
Gene
, vol.205
, pp. 229-243
-
-
Okada, N.1
Hamada, M.2
Ogiwara, I.3
Ohshima, K.4
-
28
-
-
0036849412
-
LINEs mobilize SINEs in the eel through a shared 3' sequence
-
Kajikawa, M.; Okada, N. LINEs mobilize SINEs in the eel through a shared 3' sequence. Cell 2002, 111, 433-444.
-
(2002)
Cell
, vol.111
, pp. 433-444
-
-
Kajikawa, M.1
Okada, N.2
-
29
-
-
0035207756
-
Evolutionary dynamics in a novel L2 clade of non-LTR retrotransposons in Deuterostomia
-
Lovsin, N.; Gubensek, F.; Kordis, D. Evolutionary dynamics in a novel L2 clade of non-LTR retrotransposons in Deuterostomia. Mol. Biol. Evol. 2001, 18, 2213-2224.
-
(2001)
Mol. Biol. Evol.
, vol.18
, pp. 2213-2224
-
-
Lovsin, N.1
Gubensek, F.2
Kordis, D.3
-
30
-
-
34147106061
-
Phylogenomic analysis of the L1 retrotransposons in Deuterostomia
-
Kordis, D.; Lovsin, N.; Gubensek, F. Phylogenomic analysis of the L1 retrotransposons in Deuterostomia. Syst. Biol. 2006, 55, 886-901.
-
(2006)
Syst. Biol.
, vol.55
, pp. 886-901
-
-
Kordis, D.1
Lovsin, N.2
Gubensek, F.3
-
31
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
Lander, E.S.; Linton, L.M.; Birren, B.; Nusbaum, C.; Zody, M.C.; Baldwin, J.; Devon, K.; Dewar, K.; Doyle, M.; FitzHugh, W.; et al. Initial sequencing and analysis of the human genome. Nature 2001, 409, 860-921.
-
(2001)
Nature
, vol.409
, pp. 860-921
-
-
Lander, E.S.1
Linton, L.M.2
Birren, B.3
Nusbaum, C.4
Zody, M.C.5
Baldwin, J.6
Devon, K.7
Dewar, K.8
Doyle, M.9
FitzHugh, W.10
-
32
-
-
1542513556
-
Mobile elements: Drivers of genome evolution
-
Kazazian, H.H., Jr. Mobile elements: Drivers of genome evolution. Science 2004, 303, 1626-1632.
-
(2004)
Science
, vol.303
, pp. 1626-1632
-
-
Kazazian Jr., H.H.1
-
33
-
-
34248576291
-
Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
-
Mikkelsen, T.S.; Wakefield, M.J.; Aken, B.; Amemiya, C.T.; Chang, J.L.; Duke, S.; Garber, M.; Gentles, A.J.; Goodstadt, L.; Heger, A.; et al. Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature 2007, 447, 167-177.
-
(2007)
Nature
, vol.447
, pp. 167-177
-
-
Mikkelsen, T.S.1
Wakefield, M.J.2
Aken, B.3
Amemiya, C.T.4
Chang, J.L.5
Duke, S.6
Garber, M.7
Gentles, A.J.8
Goodstadt, L.9
Heger, A.10
-
34
-
-
77955027318
-
Tracking marsupial evolution using archaic genomic retroposon insertions
-
Nilsson, M.A.; Churakov, G.; Sommer, M.; Tran, N.V.; Zemann, A.; Brosius, J.; Schmitz J. Tracking marsupial evolution using archaic genomic retroposon insertions. PLoS Biol. 2010, 8, e1000436.
-
(2010)
PLoS Biol.
, vol.8
-
-
Nilsson, M.A.1
Churakov, G.2
Sommer, M.3
Tran, N.V.4
Zemann, A.5
Brosius, J.6
Schmitz, J.7
-
35
-
-
33745639951
-
Sauria SINEs: Novel short interspersed transposable elements that are widespread in reptile genomes
-
Piskurek, O.; Austin, C.C.; Okada, N. Sauria SINEs: Novel short interspersed transposable elements that are widespread in reptile genomes. J. Mol. Evol. 2006, 62, 630-644.
-
(2006)
J. Mol. Evol.
, vol.62
, pp. 630-644
-
-
Piskurek, O.1
Austin, C.C.2
Okada, N.3
-
36
-
-
77951880040
-
Transposable elements in reptilian and avian (sauropsida) genomes
-
Kordis, D. Transposable elements in reptilian and avian (sauropsida) genomes. Cytogenet. Genome Res. 2009, 127, 94-111.
-
(2009)
Cytogenet. Genome Res.
, vol.127
, pp. 94-111
-
-
Kordis, D.1
-
37
-
-
80053359585
-
The genome of the green anole lizard and a comparative analysis with birds and mammals
-
Alföldi, J.; Di Palma, F.; Grabherr, M.; Williams, C.; Kong, L.; Mauceli, E.; Russell, P.; Lowe, C.B.; Glor, R.E.; Jaffe, J.D.; et al. The genome of the green anole lizard and a comparative analysis with birds and mammals. Nature 2011, 477, 587-591.
-
(2011)
Nature
, vol.477
, pp. 587-591
-
-
Alföldi, J.1
Di Palma, F.2
Grabherr, M.3
Williams, C.4
Kong, L.5
Mauceli, E.6
Russell, P.7
Lowe, C.B.8
Glor, R.E.9
Jaffe, J.D.10
-
38
-
-
79952706183
-
The struggle for life of the genome's selfish architects
-
Hua-Van, A.; Le Rouzic, A.; Boutin, T.S.; Filée, J.; Capy, P. The struggle for life of the genome's selfish architects. Biol. Direct. 2011, 17, 6-19.
-
(2011)
Biol. Direct.
, vol.17
, pp. 6-19
-
-
Hua-Van, A.1
Le Rouzic, A.2
Boutin, T.S.3
Filée, J.4
Capy, P.5
-
39
-
-
42149157760
-
Broad phylogenomic sampling improves resolution of the animal tree of life
-
Dunn, C.W.D.; Hejnol, A.; Matus, D.Q.; Pang, K.; Browne, W.E.; Smith, S.A.; Seaver, E.C.S.; Rouse, G.W.; Obst, M.; Edgecombe, G.D.; et al. Broad phylogenomic sampling improves resolution of the animal tree of life. Nature 2008, 452, 745-749.
-
(2008)
Nature
, vol.452
, pp. 745-749
-
-
Dunn, C.W.D.1
Hejnol, A.2
Matus, D.Q.3
Pang, K.4
Browne, W.E.5
Smith, S.A.6
Seaver, E.C.S.7
Rouse, G.W.8
Obst, M.9
Edgecombe, G.D.10
-
40
-
-
65249099546
-
Phylogenomics revives traditional views on deep animal relationships
-
Philippe, H.P.; Derelle, R.; Lopez, P.; Pick, K.; Borchiellini, C.; Boury-Esnault, N.; Vacelet, J.; Renard, E.; Houliston, E.; Quéinnec, E.; et al. Phylogenomics revives traditional views on deep animal relationships. Curr. Biol. 2009, 19, 706-712.
-
(2009)
Curr. Biol.
, vol.19
, pp. 706-712
-
-
Philippe, H.P.1
Derelle, R.2
Lopez, P.3
Pick, K.4
Borchiellini, C.5
Boury-Esnault, N.6
Vacelet, J.7
Renard, E.8
Houliston, E.9
Quéinnec, E.10
-
41
-
-
77955497041
-
Improved phylogenomic taxon sampling noticeably affects non-bilaterian relationships
-
Pick, K.; Hervé, P.; Fabian, S.; Erpenbeck, D.; Jackson, D.J.; Wrede, P.; Matthias, W.; Alie, A.; Burkhard, M.; Manuel, M.; et al. Improved phylogenomic taxon sampling noticeably affects non-bilaterian relationships. Mol. Biol. Evol. 2010, 27, 1983-1987.
-
(2010)
Mol. Biol. Evol.
, vol.27
, pp. 1983-1987
-
-
Pick, K.1
Hervé, P.2
Fabian, S.3
Erpenbeck, D.4
Jackson, D.J.5
Wrede, P.6
Matthias, W.7
Alie, A.8
Burkhard, M.9
Manuel, M.10
-
42
-
-
77955160719
-
High-throughput sequencing reveals extensive variation in human-specific L1 content in individual human genomes
-
Ewing, A.D.; Kazazian, H.H., Jr. High-throughput sequencing reveals extensive variation in human-specific L1 content in individual human genomes. Genome Res. 2010, 20, 1262-1270.
-
(2010)
Genome Res.
, vol.20
, pp. 1262-1270
-
-
Ewing, A.D.1
Kazazian Jr., H.H.2
-
43
-
-
79953710031
-
T-lex: A program for fast and accurate assessment of transposable element presence using next-generation sequencing data
-
Fiston-Lavier, A.S.; Carrigan, M.; Petrov, D.A.; González, J. T-lex: A program for fast and accurate assessment of transposable element presence using next-generation sequencing data. Nucleic Acids Res. 2011, 39, e36.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Fiston-Lavier, A.S.1
Carrigan, M.2
Petrov, D.A.3
González, J.4
-
44
-
-
79551624472
-
Considering transposable element diversification in de novo annotation approaches
-
Flutre, T.; Duprat, E.; Feuillet, C.; Quesneville, H. Considering transposable element diversification in de novo annotation approaches. PLoS One 2011, 6, e16526.
-
(2011)
PLoS One
, vol.6
-
-
Flutre, T.1
Duprat, E.2
Feuillet, C.3
Quesneville, H.4
-
45
-
-
34047240364
-
Causes of insertion sequences abundance in prokaryotic genomes
-
Touchon, M.; Rocha, E.P.C. Causes of insertion sequences abundance in prokaryotic genomes. Mol. Biol. Evol. 2007, 24, 969-981.
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 969-981
-
-
Touchon, M.1
Rocha, E.P.C.2
-
46
-
-
45849089569
-
Massive horizontal gene transfer in bdelloid rotifers
-
Gladyshev, E.A.; Meselson, M.; Arkhipova, I.R. Massive horizontal gene transfer in bdelloid rotifers. Science 2008, 320, 1210-1213.
-
(2008)
Science
, vol.320
, pp. 1210-1213
-
-
Gladyshev, E.A.1
Meselson, M.2
Arkhipova, I.R.3
-
47
-
-
67749145406
-
A single-copy IS5-like transposon in the genome of a bdelloid rotifer
-
Gladyshev, E.A.; Arkhipova, I.R. A single-copy IS5-like transposon in the genome of a bdelloid rotifer. Mol. Biol. Evol. 2009, 26, 1921-1929.
-
(2009)
Mol. Biol. Evol.
, vol.26
, pp. 1921-1929
-
-
Gladyshev, E.A.1
Arkhipova, I.R.2
-
48
-
-
0025093426
-
Evidence for horizontal transmission of the P transposable elements between Drosophila species
-
Daniels, S.B.; Petterson, K.R.; Strausbaugh, L.D.; Kidwell, M.G.; Chovnick, A.C. Evidence for horizontal transmission of the P transposable elements between Drosophila species. Genetics 1990, 124, 339-355.
-
(1990)
Genetics
, vol.124
, pp. 339-355
-
-
Daniels, S.B.1
Petterson, K.R.2
Strausbaugh, L.D.3
Kidwell, M.G.4
Chovnick, A.C.5
-
49
-
-
0027398902
-
The mariner transposable element is widely distributed in insects
-
Robertson, H.M. The mariner transposable element is widely distributed in insects. Nature 1993, 362, 241-245.
-
(1993)
Nature
, vol.362
, pp. 241-245
-
-
Robertson, H.M.1
-
50
-
-
1942498768
-
Evolutionary genomics of chromoviruses in eukaryotes
-
Gorinsek, B.; Gubensek, F.; Kordis, D. Evolutionary genomics of chromoviruses in eukaryotes. Mol. Biol. Evol. 2004, 21, 781-798.
-
(2004)
Mol. Biol. Evol.
, vol.21
, pp. 781-798
-
-
Gorinsek, B.1
Gubensek, F.2
Kordis, D.3
-
51
-
-
0344876091
-
Factors that affect the horizontal transfer of transposable elements
-
Silva, J.C.; Loreto, E.L.; Clark, J.B. Factors that affect the horizontal transfer of transposable elements. Curr. Issues Mol. Biol. 2004, 6, 57-72.
-
(2004)
Curr. Issues Mol. Biol.
, vol.6
, pp. 57-72
-
-
Silva, J.C.1
Loreto, E.L.2
Clark, J.B.3
-
52
-
-
44349148619
-
Revisiting horizontal transfer of transposable elements in Drosophila
-
Loreto, E.L.; Carareto, C.M.; Capy, P. Revisiting horizontal transfer of transposable elements in Drosophila. Heredity 2008, 100, 545-554.
-
(2008)
Heredity
, vol.100
, pp. 545-554
-
-
Loreto, E.L.1
Carareto, C.M.2
Capy, P.3
-
53
-
-
62349104354
-
Widespread evidence for horizontal transfer of transposable elements across Drosophila genomes
-
Bartolomé, C.; Bello, X.; Maside, X. Widespread evidence for horizontal transfer of transposable elements across Drosophila genomes. Genome Biol. 2009, 10, R22.
-
(2009)
Genome Biol.
, vol.10
-
-
Bartolomé, C.1
Bello, X.2
Maside, X.3
-
54
-
-
77955658052
-
Promiscuous DNA: Horizontal transfer of transposable elements and why it matters for eukaryotic evolution
-
Schaack, S.; Gilbert, C.; Feschotte, C. Promiscuous DNA: Horizontal transfer of transposable elements and why it matters for eukaryotic evolution. Trends Ecol. Evol. 2010, 25, 537-546.
-
(2010)
Trends Ecol. Evol.
, vol.25
, pp. 537-546
-
-
Schaack, S.1
Gilbert, C.2
Feschotte, C.3
-
55
-
-
0032168623
-
Unusual horizontal transfer of a long interspersed nuclear element between distant vertebrate classes
-
Kordis, D.; Gubensek, F. Unusual horizontal transfer of a long interspersed nuclear element between distant vertebrate classes. Proc. Natl. Acad. Sci. USA 1998, 95, 10704-10709.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 10704-10709
-
-
Kordis, D.1
Gubensek, F.2
-
56
-
-
0034809990
-
Evolutionary dynamics and evolutionary history in the RTE clade of non-LTR retrotransposons
-
Zupunski, V.; Gubensek, F.; Kordis, D. Evolutionary dynamics and evolutionary history in the RTE clade of non-LTR retrotransposons. Mol. Biol. Evol. 2001, 18, 1849-1863.
-
(2001)
Mol. Biol. Evol.
, vol.18
, pp. 1849-1863
-
-
Zupunski, V.1
Gubensek, F.2
Kordis, D.3
-
57
-
-
34547505117
-
Poxviruses as possible vectors for horizontal transfer of retroposons from reptiles to mammals
-
Piskurek, O.; Okada, N. Poxviruses as possible vectors for horizontal transfer of retroposons from reptiles to mammals. Proc. Natl. Acad. Sci. USA 2007, 104, 12046-12051.
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 12046-12051
-
-
Piskurek, O.1
Okada, N.2
-
58
-
-
0026418311
-
Possible horizontal transfer of Drosophila genes by the mite Proctolaelaps regalis
-
Houck, M.A.; Clark, J.B.; Peterson, K.R.; Kidwell, M.G. Possible horizontal transfer of Drosophila genes by the mite Proctolaelaps regalis. Science 1991, 253, 1125-1128.
-
(1991)
Science
, vol.253
, pp. 1125-1128
-
-
Houck, M.A.1
Clark, J.B.2
Peterson, K.R.3
Kidwell, M.G.4
-
59
-
-
77951778552
-
A role for host-parasite interactions in the horizontal transfer of transposons across phyla
-
Gilbert, C.; Schaack, S.; Pace, J.K., 2nd.; Brindley, P.J.; Feschotte, C. A role for host-parasite interactions in the horizontal transfer of transposons across phyla. Nature 2010, 464, 1347-1350.
-
(2010)
Nature
, vol.464
, pp. 1347-1350
-
-
Gilbert, C.1
Schaack, S.2
Pace II, J.K.3
Brindley, P.J.4
Feschotte, C.5
-
60
-
-
38049170862
-
The bandit, a new DNA transposon from a hookworm-possible horizontal genetic transfer between host and parasite
-
Laha, T.; Loukas, A.; Wattanasatitarpa, S.; Somprakhon, J.; Kewgrai, N.; Sithithaworn, P.; Kaewkes, S.; Mitreva, M.; Brindley, P.J. The bandit, a new DNA transposon from a hookworm-possible horizontal genetic transfer between host and parasite. PLoS Negl. Trop. Dis. 2007, 1, e35.
-
(2007)
PLoS Negl. Trop. Dis.
, vol.1
-
-
Laha, T.1
Loukas, A.2
Wattanasatitarpa, S.3
Somprakhon, J.4
Kewgrai, N.5
Sithithaworn, P.6
Kaewkes, S.7
Mitreva, M.8
Brindley, P.J.9
-
61
-
-
80052826076
-
Molecular evolution under increasing transposable element burden in Drosophila: A speed limit on the evolutionary arms race
-
Castillo, D.M.; Mell, J.C.; Box, K.S.; Blumenstiel, J.P. Molecular evolution under increasing transposable element burden in Drosophila: A speed limit on the evolutionary arms race. BMC Evol. Biol. 2011, 11, 258.
-
(2011)
BMC Evol. Biol.
, vol.11
, pp. 258
-
-
Castillo, D.M.1
Mell, J.C.2
Box, K.S.3
Blumenstiel, J.P.4
-
62
-
-
4544222472
-
SINEs of speciation: Tracking lineages with retroposons
-
Shedlock, A.M.; Takahashi, K.; Okada, N. SINEs of speciation: Tracking lineages with retroposons. Trends Ecol. Evol. 2004, 19, 545-553.
-
(2004)
Trends Ecol. Evol.
, vol.19
, pp. 545-553
-
-
Shedlock, A.M.1
Takahashi, K.2
Okada, N.3
-
63
-
-
0033964296
-
SINE insertions: Powerful tools for molecular systematics
-
Shedlock, A.M.; Okada, N. SINE insertions: Powerful tools for molecular systematics. Bioessays 2000, 22, 148-160.
-
(2000)
Bioessays
, vol.22
, pp. 148-160
-
-
Shedlock, A.M.1
Okada, N.2
-
64
-
-
0027205382
-
Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution
-
Murata, S.; Takasaki, N.; Saitoh, M.; Okada, N. Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution. Proc. Natl. Acad. Sci. USA 1993, 90, 6995-6999.
-
(1993)
Proc. Natl. Acad. Sci. USA
, vol.90
, pp. 6995-6999
-
-
Murata, S.1
Takasaki, N.2
Saitoh, M.3
Okada, N.4
-
65
-
-
0033621101
-
Phylogenetic relationships among cetartiodactyls based on insertions of short and long interspersed elements: Hippopotamuses are the closest extant relatives of whales
-
Nikaido, M.; Rooney, A.P.; Okada, N. Phylogenetic relationships among cetartiodactyls based on insertions of short and long interspersed elements: Hippopotamuses are the closest extant relatives of whales. Proc. Natl. Acad. Sci. USA 1999, 96, 10261-10266.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 10261-10266
-
-
Nikaido, M.1
Rooney, A.P.2
Okada, N.3
-
66
-
-
33745620751
-
Functional noncoding sequences derived from SINEs in the mammalian genome
-
Nishihara, H.; Smit, A.F.; Okada, N. Functional noncoding sequences derived from SINEs in the mammalian genome. Genome Res. 2006, 16, 864-874.
-
(2006)
Genome Res.
, vol.16
, pp. 864-874
-
-
Nishihara, H.1
Smit, A.F.2
Okada, N.3
-
67
-
-
34147192150
-
Extensive morphological convergence and rapid radiation in the evolutionary history of the family Geoemydidae (old world pond turtles) revealed by SINE insertion analysis
-
Sasaki, T.; Yasukawa, Y.; Takahashi, K.; Miura, S.; Shedlock, A.M.; Okada, N. Extensive morphological convergence and rapid radiation in the evolutionary history of the family Geoemydidae (old world pond turtles) revealed by SINE insertion analysis. Syst. Biol. 2006, 55, 912-927.
-
(2006)
Syst. Biol.
, vol.55
, pp. 912-927
-
-
Sasaki, T.1
Yasukawa, Y.2
Takahashi, K.3
Miura, S.4
Shedlock, A.M.5
Okada, N.6
-
68
-
-
33947572688
-
Toothed whale monophyly reassessed by SINE insertion analysis: The absence of lineage sorting effects suggests a small population of a common ancestral species
-
Nikaido, M.; Piskurek, O.; Okada, N. Toothed whale monophyly reassessed by SINE insertion analysis: The absence of lineage sorting effects suggests a small population of a common ancestral species. Mol. Phylogen. Evol. 2007, 43, 216-224.
-
(2007)
Mol. Phylogen. Evol.
, vol.43
, pp. 216-224
-
-
Nikaido, M.1
Piskurek, O.2
Okada, N.3
-
69
-
-
65249116423
-
Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals
-
Nishihara, H.; Maruyama, S.; Okada, N. Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals. Proc. Natl. Acad. Sci. USA 2009, 106, 5235-5240.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 5235-5240
-
-
Nishihara, H.1
Maruyama, S.2
Okada, N.3
-
70
-
-
0035108258
-
SINE insertions in cladistic analyses and the phylogenetic affiliations of Tarsius bancanus to other primates
-
Schmitz, J.; Ohme, M.; Zischler, H. SINE insertions in cladistic analyses and the phylogenetic affiliations of Tarsius bancanus to other primates. Genetics 2001, 157, 777-784.
-
(2001)
Genetics
, vol.157
, pp. 777-784
-
-
Schmitz, J.1
Ohme, M.2
Zischler, H.3
-
71
-
-
37549035420
-
Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes)
-
Kriegs, J.O.; Matzke, A.; Churakov, G.; Kuritzin, A.; Mayr, G.; Brosius, J.; Schmitz, J. Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes). BMC Evol. Biol. 2007, 7, 190.
-
(2007)
BMC Evol. Biol.
, vol.7
, pp. 190
-
-
Kriegs, J.O.1
Matzke, A.2
Churakov, G.3
Kuritzin, A.4
Mayr, G.5
Brosius, J.6
Schmitz, J.7
-
72
-
-
66049159777
-
Mosaic retroposon insertion patterns in placental mammals
-
Churakov, G.; Kriegs, J.O.; Baertsch, R.; Zemann, A.; Brosius, J.; Schmitz, J. Mosaic retroposon insertion patterns in placental mammals. Genome Res. 2009, 19, 868-875.
-
(2009)
Genome Res.
, vol.19
, pp. 868-875
-
-
Churakov, G.1
Kriegs, J.O.2
Baertsch, R.3
Zemann, A.4
Brosius, J.5
Schmitz, J.6
-
73
-
-
80052392767
-
Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds
-
Suh, A.; Paus, M.; Kiefmann, M.; Churakov, G.; Franke, F.A.; Brosius, J.; Kriegs, J.O.; Schmitz, J. Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds. Nat. Commun. 2011, 2, 443.
-
(2011)
Nat. Commun.
, vol.2
, pp. 443
-
-
Suh, A.1
Paus, M.2
Kiefmann, M.3
Churakov, G.4
Franke, F.A.5
Brosius, J.6
Kriegs, J.O.7
Schmitz, J.8
-
74
-
-
84861358284
-
Retroposon insertion patterns of neoavian birds: Strong evidence for an extensive incomplete lineage sorting era
-
Matzke, A.; Churakov, G.; Berkes, P.; Arms, E.M.; Kelsey, D.; Brosius, J.; Kriegs, J.O.; Schmitz, J. Retroposon insertion patterns of neoavian birds: Strong evidence for an extensive incomplete lineage sorting era. Mol. Biol. Evol. 2012, 29, 1497-1501.
-
(2012)
Mol. Biol. Evol.
, vol.29
, pp. 1497-1501
-
-
Matzke, A.1
Churakov, G.2
Berkes, P.3
Arms, E.M.4
Kelsey, D.5
Brosius, J.6
Kriegs, J.O.7
Schmitz, J.8
-
75
-
-
70450202132
-
The B73 Maize Genome: Complexity, Diversity, and Dynamics
-
Schnable, P.S.; Ware, D.; Fulton, R.S.; Stein, J.C.; Wei, F.; Pasternak, S.; Liang, C.; Zhang, J.; Fulton, L.; Graves, T.A.; et al. The B73 Maize Genome: Complexity, Diversity, and Dynamics. Science 2009, 326, 1112-1115.
-
(2009)
Science
, vol.326
, pp. 1112-1115
-
-
Schnable, P.S.1
Ware, D.2
Fulton, R.S.3
Stein, J.C.4
Wei, F.5
Pasternak, S.6
Liang, C.7
Zhang, J.8
Fulton, L.9
Graves, T.A.10
-
76
-
-
77950080387
-
The dynamic genome of Hydra
-
Chapman, J.A.; Kirkness, E.F.; Simakov, O.; Hampson, S.E.; Mitros, T.; Weinmaier, T.; Rattei, T.; Balasubramanian, P.G.; Borman, J.; Busam, D.; et al. The dynamic genome of Hydra. Nature 2010, 464, 592-596.
-
(2010)
Nature
, vol.464
, pp. 592-596
-
-
Chapman, J.A.1
Kirkness, E.F.2
Simakov, O.3
Hampson, S.E.4
Mitros, T.5
Weinmaier, T.6
Rattei, T.7
Balasubramanian, P.G.8
Borman, J.9
Busam, D.10
-
77
-
-
84855281420
-
Repetitive elements may comprise over two-thirds of the human genome
-
De Konin, A.P.; Gu, W.; Castoe, T.A.; Batzer, M.A.; Pollock, D.D. Repetitive elements may comprise over two-thirds of the human genome. PLoS Genet. 2011, 7, e1002384.
-
(2011)
PLoS Genet.
, vol.7
-
-
De Konin, A.P.1
Gu, W.2
Castoe, T.A.3
Batzer, M.A.4
Pollock, D.D.5
-
78
-
-
0344585056
-
Mobile elements and mammalian genome evolution
-
Deininger, P.L.; Moran, J.V.; Batzer, M.A.; Kazazian, H.H., Jr. Mobile elements and mammalian genome evolution. Curr. Opin. Genet. Dev. 2003, 13, 651-658.
-
(2003)
Curr. Opin. Genet. Dev.
, vol.13
, pp. 651-658
-
-
Deininger, P.L.1
Moran, J.V.2
Batzer, M.A.3
Kazazian Jr., H.H.4
-
79
-
-
34247344319
-
Retrotransposable elements and human disease
-
Callinan, P.A.; Batzer, M.A. Retrotransposable elements and human disease. Genome Dyn. 2006, 1, 104-115.
-
(2006)
Genome Dyn.
, vol.1
, pp. 104-115
-
-
Callinan, P.A.1
Batzer, M.A.2
-
80
-
-
79953729211
-
Population genomics of transposable elements in Drosophila melanogaster
-
Petrov, D.A.; Fiston-Lavier, A.S.; Lipatov, M.; Lenkov, K.; González, J. Population genomics of transposable elements in Drosophila melanogaster. Mol. Biol. Evol. 2011, 28, 1633-1644.
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 1633-1644
-
-
Petrov, D.A.1
Fiston-Lavier, A.S.2
Lipatov, M.3
Lenkov, K.4
González, J.5
-
81
-
-
0037301560
-
Origin of a substantial fraction of human regulatory sequences from transposable elements
-
Jordan, I.K.; Rogozin, I.B.; Glazko, G.V.; Koonin, E.V. Origin of a substantial fraction of human regulatory sequences from transposable elements. Trends Genet. 2003, 19, 68-72.
-
(2003)
Trends Genet.
, vol.19
, pp. 68-72
-
-
Jordan, I.K.1
Rogozin, I.B.2
Glazko, G.V.3
Koonin, E.V.4
-
82
-
-
0035500898
-
Transposable elements are found in a large number of human protein-coding genes
-
Nekrutenko, A.; Li, W.H. Transposable elements are found in a large number of human protein-coding genes. Trends Genet. 2001, 17, 619-621.
-
(2001)
Trends Genet.
, vol.17
, pp. 619-621
-
-
Nekrutenko, A.1
Li, W.H.2
-
83
-
-
34447515727
-
Developmentally regulated activation of a SINE B2 repeat as a domain boundary in organogenesis
-
Lunyak, V.V.; Prefontaine, G.G.; Nunez, E.; Cramer, T.; Ju, B.G.; Ohgi, K.A.; Hutt, K.; Roy, R.; Garcia-Diaz, A.; Zhu, X.; et al. Developmentally regulated activation of a SINE B2 repeat as a domain boundary in organogenesis. Science 2007, 317, 248-251.
-
(2007)
Science
, vol.317
, pp. 248-251
-
-
Lunyak, V.V.1
Prefontaine, G.G.2
Nunez, E.3
Cramer, T.4
Ju, B.G.5
Ohgi, K.A.6
Hutt, K.7
Roy, R.8
Garcia-Diaz, A.9
Zhu, X.10
-
84
-
-
3843093872
-
From-junkll to gene: Curriculum vitae of a primate receptor isoform gene
-
Singer, S.S.; Mannel, D.N.; Hehlgans, T.; Brosius, J.; Schmitz, J. From-junkll to gene: Curriculum vitae of a primate receptor isoform gene. J. Mol. Biol. 2004, 341, 883-886.
-
(2004)
J. Mol. Biol.
, vol.341
, pp. 883-886
-
-
Singer, S.S.1
Mannel, D.N.2
Hehlgans, T.3
Brosius, J.4
Schmitz, J.5
-
85
-
-
34547643930
-
Functional persistence of exonized mammalian-wide interspersed repeat elements (MIRs)
-
Krull, M.; Petrusma, M.; Makalowski, W.; Brosius, J.; Schmitz, J. Functional persistence of exonized mammalian-wide interspersed repeat elements (MIRs). Genome Res. 2007, 17, 1139-1145.
-
(2007)
Genome Res.
, vol.17
, pp. 1139-1145
-
-
Krull, M.1
Petrusma, M.2
Makalowski, W.3
Brosius, J.4
Schmitz, J.5
-
86
-
-
50349089199
-
Beyond DNA: RNA editing and steps toward Alu exonization in primates
-
Möller-Krull, M.; Zemann, A.; Roos, C.; Brosius, J.; Schmitz, J. Beyond DNA: RNA editing and steps toward Alu exonization in primates. J. Mol. Biol. 2008, 382, 601-609.
-
(2008)
J. Mol. Biol.
, vol.382
, pp. 601-609
-
-
Möller-Krull, M.1
Zemann, A.2
Roos, C.3
Brosius, J.4
Schmitz, J.5
-
87
-
-
80053564717
-
Exonization of transposed elements: A challenge and opportunity for evolution
-
Schmitz, J.; Brosius, J. Exonization of transposed elements: A challenge and opportunity for evolution. Biochimie 2011, 93, 1928-1934.
-
(2011)
Biochimie
, vol.93
, pp. 1928-1934
-
-
Schmitz, J.1
Brosius, J.2
-
88
-
-
81555230337
-
Extensive intron gain in the ancestor of placental mammals
-
Kordis, D. Extensive intron gain in the ancestor of placental mammals. Biol. Direct. 2011, 6, 59.
-
(2011)
Biol. Direct.
, vol.6
, pp. 59
-
-
Kordis, D.1
-
89
-
-
0026447994
-
On-genomenclaturell: A comprehensive (and respectful) taxonomy for pseudogenes and other-junk DNAll
-
Brosius, J.; Gould, S.J. On-genomenclaturell: A comprehensive (and respectful) taxonomy for pseudogenes and other-junk DNAll. Proc. Natl. Acad. Sci. USA 1992, 89, 10706-10710.
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 10706-10710
-
-
Brosius, J.1
Gould, S.J.2
-
90
-
-
2542542256
-
Ultraconserved elements in the human genome
-
Bejerano, G.; Pheasant, M.; Makunin, I.; Stephen, S.; Kent, W.J.; Mattick, J.S.; Haussler, D. Ultraconserved elements in the human genome. Science 2004, 304, 1321-1325.
-
(2004)
Science
, vol.304
, pp. 1321-1325
-
-
Bejerano, G.1
Pheasant, M.2
Makunin, I.3
Stephen, S.4
Kent, W.J.5
Mattick, J.S.6
Haussler, D.7
-
91
-
-
0033017956
-
CORE-SINEs: Eukaryotic short interspersed retroposing elements with common sequence motifs
-
Gilbert, N.; Labuda, D. CORE-SINEs: Eukaryotic short interspersed retroposing elements with common sequence motifs. Proc. Natl. Acad. Sci. USA 1999, 96, 2869-2874.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 2869-2874
-
-
Gilbert, N.1
Labuda, D.2
-
92
-
-
0036177682
-
V-SINEs: A new superfamily of vertebrate SINEs that are widespread in vertebrate genomes and retain a strongly conserved segment within each repetitive unit
-
Ogiwara, I.; Miya, M.; Ohshima, K.; Okada, N. V-SINEs: A new superfamily of vertebrate SINEs that are widespread in vertebrate genomes and retain a strongly conserved segment within each repetitive unit. Genome Res. 2002, 12, 316-324.
-
(2002)
Genome Res.
, vol.12
, pp. 316-324
-
-
Ogiwara, I.1
Miya, M.2
Ohshima, K.3
Okada, N.4
-
93
-
-
77952533015
-
Characterization of a novel SINE superfamily from invertebrates:-Ceph-SINEsll from the genomes of squids and cuttlefish
-
Akasaki, T.; Nikaido, M.; Nishihara, H.; Tsuchiya, K.; Segawa, S.; Okada, N. Characterization of a novel SINE superfamily from invertebrates:-Ceph-SINEsll from the genomes of squids and cuttlefish. Gene 2010, 454, 8-19.
-
(2010)
Gene
, vol.454
, pp. 8-19
-
-
Akasaki, T.1
Nikaido, M.2
Nishihara, H.3
Tsuchiya, K.4
Segawa, S.5
Okada, N.6
-
94
-
-
35948981635
-
Ancient exaptation of a CORE-SINE retroposon into a highly conserved mammalian neuronal enhancer of the proopiomelanocortin gene
-
Santangelo, A.M.; de Souza, F.S.; Franchini, L.F.; Bumaschny, V.F.; Low, M.J.; Rubinstein, M. Ancient exaptation of a CORE-SINE retroposon into a highly conserved mammalian neuronal enhancer of the proopiomelanocortin gene. PLoS Genet. 2007, 3, 1813-1826.
-
(2007)
PLoS Genet.
, vol.3
, pp. 1813-1826
-
-
Santangelo, A.M.1
de Souza, F.S.2
Franchini, L.F.3
Bumaschny, V.F.4
Low, M.J.5
Rubinstein, M.6
-
95
-
-
80053067142
-
Convergent evolution of two mammalian neuronal enhancers by sequential exaptation of unrelated retroposons
-
Franchini, L.F.; López-Leal, R.; Nasif, S.; Beati, P.; Gelman, D.M.; Low, M.J.; de Souza, F.J.; Rubinstein, M. Convergent evolution of two mammalian neuronal enhancers by sequential exaptation of unrelated retroposons. Proc. Natl. Acad. Sci. USA 2011, 108, 15270-15275.
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 15270-15275
-
-
Franchini, L.F.1
López-Leal, R.2
Nasif, S.3
Beati, P.4
Gelman, D.M.5
Low, M.J.6
de Souza, F.J.7
Rubinstein, M.8
-
96
-
-
77954693443
-
Emergence of mammals by emergency: Exaptation
-
Okada, N.; Sasaki, T.; Shimogori, T.; Nishihara, H. Emergence of mammals by emergency: Exaptation. Genes Cells 2010, 15, 801-812.
-
(2010)
Genes Cells
, vol.15
, pp. 801-812
-
-
Okada, N.1
Sasaki, T.2
Shimogori, T.3
Nishihara, H.4
-
97
-
-
80055010534
-
Transposon-mediated rewiring of gene regulatory networks contributed to the evolution of pregnancy in mammals
-
Lynch, V.J.; Leclerc, R.D.; May, G.; Wagner, G.P. Transposon-mediated rewiring of gene regulatory networks contributed to the evolution of pregnancy in mammals. Nat. Genet. 2011, 43, 1154-1159.
-
(2011)
Nat. Genet.
, vol.43
, pp. 1154-1159
-
-
Lynch, V.J.1
Leclerc, R.D.2
May, G.3
Wagner, G.P.4
-
98
-
-
0036250811
-
Alu repeats and human genomic diversity
-
Batzer, M.A.; Deininger, P.L. Alu repeats and human genomic diversity. Nat. Rev. Genet. 2002, 3, 370-379.
-
(2002)
Nat. Rev. Genet.
, vol.3
, pp. 370-379
-
-
Batzer, M.A.1
Deininger, P.L.2
-
99
-
-
42349096534
-
Transposable elements and the evolution of regulatory networks
-
Feschotte, C. Transposable elements and the evolution of regulatory networks. Nat. Rev. Genet. 2008, 9, 397-405.
-
(2008)
Nat. Rev. Genet.
, vol.9
, pp. 397-405
-
-
Feschotte, C.1
-
100
-
-
84863393570
-
Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages
-
Schmidt, D.; Schwalie, P.C.; Wilson, M.D.; Ballester, B.; Gonçalves, A.; Kutter, C.; Brown, G.D.; Marshall, A.; Flicek, P.; Odom, D.T. Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages. Cell 2012, 148, 335-348.
-
(2012)
Cell
, vol.148
, pp. 335-348
-
-
Schmidt, D.1
Schwalie, P.C.2
Wilson, M.D.3
Ballester, B.4
Gonçalves, A.5
Kutter, C.6
Brown, G.D.7
Marshall, A.8
Flicek, P.9
Odom, D.T.10
-
101
-
-
0036673472
-
Automated de novo identification of repeat sequence families in sequenced genomes
-
Bao, Z.; Eddy, S.R. Automated de novo identification of repeat sequence families in sequenced genomes. Genome Res. 2002, 12, 1269-1276.
-
(2002)
Genome Res.
, vol.12
, pp. 1269-1276
-
-
Bao, Z.1
Eddy, S.R.2
-
102
-
-
84860513986
-
PILER: Identification and classification of genomic repeats
-
Edgar, R.C.; Myers, E.W. PILER: Identification and classification of genomic repeats. Bioinformatics 2005, 21, i152-i158.
-
(2005)
Bioinformatics
, vol.21
-
-
Edgar, R.C.1
Myers, E.W.2
-
103
-
-
28844444029
-
Combined evidence annotation of transposable elements in genome sequences
-
Quesneville, H.; Bergman, C.M.; Andrieu, O.; Autard, D.; Nouaud, D.; Ashburner, M.; Anxolabehere, D. Combined evidence annotation of transposable elements in genome sequences. PLoS Comput. Biol. 2005, 1, 166-175.
-
(2005)
PLoS Comput. Biol.
, vol.1
, pp. 166-175
-
-
Quesneville, H.1
Bergman, C.M.2
Andrieu, O.3
Autard, D.4
Nouaud, D.5
Ashburner, M.6
Anxolabehere, D.7
-
104
-
-
55449118548
-
ReAS: Recovery of ancestral sequences for transposable elements from the unassembled reads of a whole genome shotgun
-
Li, R.; Ye, J.; Li, S.; Wang, J.; Han, Y.; Ye, C.; Wang, J.; Yang, H.; Yu, J.; Wong, G.K.; et al. ReAS: Recovery of ancestral sequences for transposable elements from the unassembled reads of a whole genome shotgun. PLoS Comput. Biol. 2005, 1, e43.
-
(2005)
PLoS Comput. Biol.
, vol.1
-
-
Li, R.1
Ye, J.2
Li, S.3
Wang, J.4
Han, Y.5
Ye, C.6
Wang, J.7
Yang, H.8
Yu, J.9
Wong, G.K.10
-
105
-
-
29144455282
-
De novo identification of repeat families in large genomes
-
Price, A.L.; Jones, N.C.; Pevzner, P.A. De novo identification of repeat families in large genomes. Bioinformatics 2005, 21, i351-i358.
-
(2005)
Bioinformatics
, vol.21
-
-
Price, A.L.1
Jones, N.C.2
Pevzner, P.A.3
-
106
-
-
33750069168
-
Genomic alterations upon integration of zebrafish L1 elements revealed by the TANT method
-
Ichiyanagi, K.; Okada, N. Genomic alterations upon integration of zebrafish L1 elements revealed by the TANT method. Gene 2006, 383, 108-116.
-
(2006)
Gene
, vol.383
, pp. 108-116
-
-
Ichiyanagi, K.1
Okada, N.2
-
107
-
-
71749089142
-
Exploring repetitive DNA landscapes using REPCLASS, a tool that automates the classification of transposable elements in eukaryotic genomes
-
Feschotte, C.; Keswani, U.; Ranganathan, N.; Guibotsy, M.L.; Levine, D. Exploring repetitive DNA landscapes using REPCLASS, a tool that automates the classification of transposable elements in eukaryotic genomes. Genome Biol. Evol. 2009, 1, 205-220.
-
(2009)
Genome Biol. Evol.
, vol.1
, pp. 205-220
-
-
Feschotte, C.1
Keswani, U.2
Ranganathan, N.3
Guibotsy, M.L.4
Levine, D.5
-
108
-
-
78649623426
-
A novel web-based TinT application and the chronology of the Primate Alu retroposon activity
-
Churakov, G.; Grundmann, N.; Kuritzin, A.; Brosius, J.; Makałowski, W.; Schmitz, J. A novel web-based TinT application and the chronology of the Primate Alu retroposon activity. BMC Evol. Biol. 2010, 10, 376.
-
(2010)
BMC Evol. Biol.
, vol.10
, pp. 376
-
-
Churakov, G.1
Grundmann, N.2
Kuritzin, A.3
Brosius, J.4
Makałowski, W.5
Schmitz, J.6
-
109
-
-
33847281471
-
Phylogenomics of nonavian reptiles and the structure of the ancestral amniote genome
-
Shedlock, A.M.; Botka, C.W.; Zhao, S.; Shetty, J.; Zhang, T.; Liu, J.S.; Deschavanne, P.J.; Edwards, S.V. Phylogenomics of nonavian reptiles and the structure of the ancestral amniote genome. Proc. Natl. Acad. Sci. USA 2007, 104, 2767-2772.
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 2767-2772
-
-
Shedlock, A.M.1
Botka, C.W.2
Zhao, S.3
Shetty, J.4
Zhang, T.5
Liu, J.S.6
Deschavanne, P.J.7
Edwards, S.V.8
-
110
-
-
67349113896
-
The evolution of two partner LINE/SINE families and a full-length chromodomain-containing Ty3/Gypsy LTR element in the first reptilian whole-genome of Anolis carolinensis
-
Piskurek, O.; Nishihara, H.; Okada, N. The evolution of two partner LINE/SINE families and a full-length chromodomain-containing Ty3/Gypsy LTR element in the first reptilian whole-genome of Anolis carolinensis. Gene 2009, 15, 111-118.
-
(2009)
Gene
, vol.15
, pp. 111-118
-
-
Piskurek, O.1
Nishihara, H.2
Okada, N.3
-
111
-
-
0030952844
-
Bov-B long interspersed repeated DNA (LINE) sequences are present in Vipera ammodytes phospholipase A2 genes and in genomes of Viperidae snakes
-
Kordis, D.; Gubensek, F. Bov-B long interspersed repeated DNA (LINE) sequences are present in Vipera ammodytes phospholipase A2 genes and in genomes of Viperidae snakes. Eur. J. Biochem. 1997, 246, 772-779.
-
(1997)
Eur. J. Biochem.
, vol.246
, pp. 772-779
-
-
Kordis, D.1
Gubensek, F.2
-
112
-
-
84863781102
-
First draft of the genomic organization of a PIII-SVMP gene
-
in press
-
Sanz, L.; Harrison, R.A.; Calvete, J.J. First draft of the genomic organization of a PIII-SVMP gene. Toxicon 2012, in press.
-
(2012)
Toxicon
-
-
Sanz, L.1
Harrison, R.A.2
Calvete, J.J.3
-
113
-
-
63849253211
-
Atypical relaxation of structural constraints in Hox gene clusters of the green anole lizard
-
Di Poi, N.; Montoya-Burgos, J.I.; Duboule, D. Atypical relaxation of structural constraints in Hox gene clusters of the green anole lizard. Genome Res. 2009, 19, 602-610.
-
(2009)
Genome Res.
, vol.19
, pp. 602-610
-
-
Di Poi, N.1
Montoya-Burgos, J.I.2
Duboule, D.3
-
114
-
-
23844456247
-
Penelope-like elements-A new class of retroelements: Distribution, function and possible evolutionary significance
-
Evgen'ev, M.B.; Arkhipova, I.R. Penelope-like elements-A new class of retroelements: Distribution, function and possible evolutionary significance. Cytogenet. Genome Res. 2005, 110, 510-521.
-
(2005)
Cytogenet. Genome Res.
, vol.110
, pp. 510-521
-
-
Evgen'ev, M.B.1
Arkhipova, I.R.2
-
115
-
-
39149144816
-
Maintenance of transposon-free regions throughout vertebrate evolution
-
Simons, C.; Makunin, I.V.; Pheasant, M.; Mattick, J.S. Maintenance of transposon-free regions throughout vertebrate evolution. BMC Genomics 2007, 8, 470.
-
(2007)
BMC Genomics
, vol.8
, pp. 470
-
-
Simons, C.1
Makunin, I.V.2
Pheasant, M.3
Mattick, J.S.4
-
116
-
-
84859061219
-
Transposon diversity is higher in amphioxus than in vertebrates: Functional and evolutionary inferences
-
Cañestro, C.; Albalat, R. Transposon diversity is higher in amphioxus than in vertebrates: Functional and evolutionary inferences. Brief. Funct. Genomics 2012, 11, 131-141.
-
(2012)
Brief. Funct. Genomics
, vol.11
, pp. 131-141
-
-
Cañestro, C.1
Albalat, R.2
-
117
-
-
79957833976
-
BEL/Pao retrotransposons in metazoan genomes
-
De la Chaux, N.; Wagner, A. BEL/Pao retrotransposons in metazoan genomes. BMC Evol. Biol. 2011, 11, 154.
-
(2011)
BMC Evol. Biol.
, vol.11
, pp. 154
-
-
De la Chaux, N.1
Wagner, A.2
-
118
-
-
77955490196
-
The Amphimedon queenslandica genome and the evolution of animal complexity
-
Srivastava, M.; Simakov, O.; Chapman, J.; Fahey, B.; Gauthier, M.E.; Mitros, T.; Richards, G.S.; Conaco, C.; Dacre, M.; Hellsten, U.; et al. The Amphimedon queenslandica genome and the evolution of animal complexity. Nature 2010, 466, 720-726.
-
(2010)
Nature
, vol.466
, pp. 720-726
-
-
Srivastava, M.1
Simakov, O.2
Chapman, J.3
Fahey, B.4
Gauthier, M.E.5
Mitros, T.6
Richards, G.S.7
Conaco, C.8
Dacre, M.9
Hellsten, U.10
-
119
-
-
50049092481
-
The Trichoplax genome and the nature of placozoans
-
Srivastava, M.; Begovic, E.; Chapman, J.; Putnam, N.H.; Hellsten, U.; Kawashima, T.; Kuo, A.; Mitros, T.; Salamov, A.; Carpenter, M.L.; et al. The Trichoplax genome and the nature of placozoans. Nature 2008, 454, 955-960.
-
(2008)
Nature
, vol.454
, pp. 955-960
-
-
Srivastava, M.1
Begovic, E.2
Chapman, J.3
Putnam, N.H.4
Hellsten, U.5
Kawashima, T.6
Kuo, A.7
Mitros, T.8
Salamov, A.9
Carpenter, M.L.10
-
120
-
-
77950829471
-
Genome-wide analysis of transposable elements and tandem repeats in the compact placozoan genome
-
Wang, S.; Zhang, L.; Meyer, E.; Bao, Z. Genome-wide analysis of transposable elements and tandem repeats in the compact placozoan genome. Biol. Direct 2010, 5, 18.
-
(2010)
Biol. Direct
, vol.5
, pp. 18
-
-
Wang, S.1
Zhang, L.2
Meyer, E.3
Bao, Z.4
-
121
-
-
80053190889
-
Tracking the ancestry of a deeply conserved eumetazoan SINE domain
-
Piskurek, O.; Jackson, D.J. Tracking the ancestry of a deeply conserved eumetazoan SINE domain. Mol. Biol. Evol. 2011, 28, 2727-2730.
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 2727-2730
-
-
Piskurek, O.1
Jackson, D.J.2
-
122
-
-
34147148636
-
Distribution and phylogeny of Penelope-like elements in eukaryotes
-
875-585
-
Arkhipova, I.R. Distribution and phylogeny of Penelope-like elements in eukaryotes. Syst. Biol. 2006, 55, 875-585.
-
(2006)
Syst. Biol.
, vol.55
-
-
Arkhipova, I.R.1
-
123
-
-
83655183283
-
Eukaryote DIRS1-like retrotransposons: An overview
-
Piednoël, M.; Gonçalves, I.R.; Higuet, D.; Bonnivard, E. Eukaryote DIRS1-like retrotransposons: An overview. BMC Genomics 2011, 12, 621.
-
(2011)
BMC Genomics
, vol.12
, pp. 621
-
-
Piednoël, M.1
Gonçalves, I.R.2
Higuet, D.3
Bonnivard, E.4
|