-
1
-
-
59949097135
-
Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome
-
Baucom RS, Estill JC, Leebens-Mack J, Bennetzen JL (2009) Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome. Genome Res 19:243-254
-
(2009)
Genome Res
, vol.19
, pp. 243-254
-
-
Baucom, R.S.1
Estill, J.C.2
Leebens-Mack, J.3
Bennetzen, J.L.4
-
2
-
-
0034830923
-
Three Tnt1 subfamilies show diVerent stress-associated patterns of expression in tobacco. Consequences for retrotransposon control and evolution in plants
-
Beguiristain T, Grandbastien MA, Puigdomenech P, Casacuberta JM (2001) Three Tnt1 subfamilies show diVerent stress-associated patterns of expression in tobacco. Consequences for retrotransposon control and evolution in plants. Plant Physiol 127:212-221
-
(2001)
Plant Physiol
, vol.127
, pp. 212-221
-
-
Beguiristain, T.1
Grandbastien, M.A.2
Puigdomenech, P.3
Casacuberta, J.M.4
-
3
-
-
33847298027
-
Patterns in grass genome evolution
-
Bennetzen JL (2007) Patterns in grass genome evolution. Curr Opin Plant Biol 10:176-181
-
(2007)
Curr Opin Plant Biol
, vol.10
, pp. 176-181
-
-
Bennetzen, J.L.1
-
4
-
-
21644437476
-
Mechanisms of recent genome size variation in Xowering plants
-
Bennetzen JL, Ma J, Devos KM (2005) Mechanisms of recent genome size variation in Xowering plants. Ann Bot 95:127-132
-
(2005)
Ann Bot
, vol.95
, pp. 127-132
-
-
Bennetzen, J.L.1
Ma, J.2
Devos, K.M.3
-
5
-
-
20344407697
-
Evolution of DNA sequence nonhomologies among maize inbreds
-
Brunner S, Fengler K, Morgante M, Tingey S, Rafalski A (2005) Evolution of DNA sequence nonhomologies among maize inbreds. Plant Cell 17:343-360
-
(2005)
Plant Cell
, vol.17
, pp. 343-360
-
-
Brunner, S.1
Fengler, K.2
Morgante, M.3
Tingey, S.4
Rafalski, A.5
-
6
-
-
70350662567
-
HACRE1, a recently inserted copia-like retrotransposon of sunXower (Helianthus annuus L.)
-
Buti M, Giordani T, Vukich M, Gentzbittel L, Pistelli L, Cattonaro F, Morgante M, Cavallini A, Natali L (2009) HACRE1, a recently inserted copia-like retrotransposon of sunXower (Helianthus annuus L.). Genome 11:904-911
-
(2009)
Genome
, vol.11
, pp. 904-911
-
-
Buti, M.1
Giordani, T.2
Vukich, M.3
Gentzbittel, L.4
Pistelli, L.5
Cattonaro, F.6
Morgante, M.7
Cavallini, A.8
Natali, L.9
-
7
-
-
75849125164
-
Analysis of transposons and repeat composition of the sunXower (Helianthus annuus L.) genome
-
Cavallini A, Natali L, Zuccolo A, Giordani T, Jurman I, Ferrillo V, Vitacolonna N, Sarri V, Cattonaro F, Ceccarelli M, Cionini PG, Morgante M (2010) Analysis of transposons and repeat composition of the sunXower (Helianthus annuus L.) genome. Theor Appl Genet 120:491-508
-
(2010)
Theor Appl Genet
, vol.120
, pp. 491-508
-
-
Cavallini, A.1
Natali, L.2
Zuccolo, A.3
Giordani, T.4
Jurman, I.5
Ferrillo, V.6
Vitacolonna, N.7
Sarri, V.8
Cattonaro, F.9
Ceccarelli, M.10
Cionini, P.G.11
Morgante, M.12
-
8
-
-
58149344008
-
Dynamics and diVerential proliferation of transposable elements during the evolution of the B and A genomes of wheat
-
Charles M, Belcram H, Just J, Huneau C, Viollet A, Couloux A, Segurens B, Carter M, Huteau V, Coriton O, Appels R, Samain S, Chalhoub B (2008) Dynamics and diVerential proliferation of transposable elements during the evolution of the B and A genomes of wheat. Genetics 180:1071-1086
-
(2008)
Genetics
, vol.180
, pp. 1071-1086
-
-
Charles, M.1
Belcram, H.2
Just, J.3
Huneau, C.4
Viollet, A.5
Couloux, A.6
Segurens, B.7
Carter, M.8
Huteau, V.9
Coriton, O.10
Appels, R.11
Samain, S.12
Chalhoub, B.13
-
9
-
-
40549086282
-
Computational prediction and molecular confirmation of Helitron transposons in the maize genome
-
Du C, Caronna J, He L, Dooner HK (2008) Computational prediction and molecular confirmation of Helitron transposons in the maize genome. BMC Genomics 9:51
-
(2008)
BMC Genomics
, vol.9
, pp. 51
-
-
Du, C.1
Caronna, J.2
He, L.3
Dooner, H.K.4
-
10
-
-
77957739762
-
Expansion and subfunctionalisation of Xavonoid 3́, 5́-hydroxylases in the grapevine lineage
-
Falginella L, Castellarin SD, Testolin R, Gambetta GA, Morgante M, Di Gaspero G (2010) Expansion and subfunctionalisation of Xavonoid 3́, 5́-hydroxylases in the grapevine lineage. BMC Genomics 11:562
-
(2010)
BMC Genomics
, vol.11
, pp. 562
-
-
Falginella, L.1
Castellarin, S.D.2
Testolin, R.3
Gambetta, G.A.4
Morgante, M.5
Di Gaspero, G.6
-
11
-
-
0000122573
-
PHYLIP-Phylogeny Inference Package (Version 3.2)
-
Felsenstein J (1989) PHYLIP-Phylogeny Inference Package (Version 3.2). Cladistics 5:164-166
-
(1989)
Cladistics
, vol.5
, pp. 164-166
-
-
Felsenstein, J.1
-
12
-
-
37249085596
-
Selective sweeps in the homoploid hybrid species Helianthus deserticola: Evolution in concert across populations and across origins
-
Gross BL, Turner KG, Rieseberg LH (2007) Selective sweeps in the homoploid hybrid species Helianthus deserticola: evolution in concert across populations and across origins. Mol Ecol 16:5246-5258
-
(2007)
Mol Ecol
, vol.16
, pp. 5246-5258
-
-
Gross, B.L.1
Turner, K.G.2
Rieseberg, L.H.3
-
13
-
-
59249108807
-
Phylogenetic insights into the pace and pattern of plant genome size evolution
-
In: VolV J-N (ed), Karger, Basel (Switzerland)
-
Grover C, Hawkins J, Wendel J (2008) Phylogenetic insights into the pace and pattern of plant genome size evolution. In: VolV J-N (ed) Plant Genomes. Genome Dynamics. Vol. 4. Karger, Basel (Switzerland), pp 57-68
-
(2008)
Plant Genomes. Genome Dynamics
, vol.4
, pp. 57-68
-
-
Grover, C.1
Hawkins, J.2
Wendel, J.3
-
14
-
-
33749389724
-
DiVerential lineage-specific amplification of transposable elements is responsible for genome size variation in Gossypium
-
Hawkins JS, Kim HR, Nason JD, Wing RA, Wendel JF (2006) DiVerential lineage-specific amplification of transposable elements is responsible for genome size variation in Gossypium. Genome Res 16:1252-1261
-
(2006)
Genome Res
, vol.16
, pp. 1252-1261
-
-
Hawkins, J.S.1
Kim, H.R.2
Nason, J.D.3
Wing, R.A.4
Wendel, J.F.5
-
15
-
-
0032918558
-
Plant cis-acting regulatory DNA elements (PLACE) database
-
Higo K, Ugawa Y, Iwamoto M, Korenaga T (1999) Plant cis-acting regulatory DNA elements (PLACE) database. Nucl Acids Res 27:297-300
-
(1999)
Nucl Acids Res
, vol.27
, pp. 297-300
-
-
Higo, K.1
Ugawa, Y.2
Iwamoto, M.3
Korenaga, T.4
-
16
-
-
33845765223
-
The transposable element landscape of the model legume Lotus japonicus
-
Holligan D, Zhang X, Jiang N, Pritham EJ, Wessler SR (2006) The transposable element landscape of the model legume Lotus japonicus. Genetics 174:2215-2228
-
(2006)
Genetics
, vol.174
, pp. 2215-2228
-
-
Holligan, D.1
Zhang, X.2
Jiang, N.3
Pritham, E.J.4
Wessler, S.R.5
-
17
-
-
0034284437
-
Repbase update: A database and an electronic journal of repetitive elements
-
Jurka J (2000) Repbase update: a database and an electronic journal of repetitive elements. Trends Genet 16:418-420
-
(2000)
Trends Genet
, vol.16
, pp. 418-420
-
-
Jurka, J.1
-
18
-
-
1942421723
-
Large retrotransposon derivatives: Abundant, conserved but nonautonomous retroelements of barley and related genomes
-
Kalendar R, Vicient CM, Peleg O, Anamthawat-Jonsson K, Bolshoy A, Schulman AH (2004) Large retrotransposon derivatives: abundant, conserved but nonautonomous retroelements of barley and related genomes. Genetics 166:1437-1450
-
(2004)
Genetics
, vol.166
, pp. 1437-1450
-
-
Kalendar, R.1
Vicient, C.M.2
Peleg, O.3
Anamthawat-Jonsson, K.4
Bolshoy, A.5
Schulman, A.H.6
-
20
-
-
4344616881
-
Rapid recent growth and divergence of rice nuclear genomes
-
Ma J, Bennetzen JL (2004) Rapid recent growth and divergence of rice nuclear genomes. Proc Natl Acad Sci USA 101:12404-12410
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 12404-12410
-
-
Ma, J.1
Bennetzen, J.L.2
-
21
-
-
2342466982
-
Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice
-
Ma J, Devos KM, Bennetzen JL (2004) Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Res 14:860-869
-
(2004)
Genome Res
, vol.14
, pp. 860-869
-
-
Ma, J.1
Devos, K.M.2
Bennetzen, J.L.3
-
22
-
-
0034755894
-
Abundance, distribution, and transcriptional activity of repetitive elements in the maize genome
-
Meyers BC, Tingey SV, Morgante M (2001) Abundance, distribution, and transcriptional activity of repetitive elements in the maize genome. Genome Res 11:1660-1676
-
(2001)
Genome Res
, vol.11
, pp. 1660-1676
-
-
Meyers, B.C.1
Tingey, S.V.2
Morgante, M.3
-
23
-
-
42949157236
-
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
-
Ming R, Hou S, Feng Y, Yu Q, Dionne-Laporte A, Albert H, Suzuki JY, Tripathi S, Moore PH, Gonsalves D (2008) The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature 452:991-997
-
(2008)
Nature
, vol.452
, pp. 991-997
-
-
Ming, R.1
Hou, S.2
Feng, Y.3
Yu, Q.4
Dionne-Laporte, A.5
Albert, H.6
Suzuki, J.Y.7
Tripathi, S.8
Moore, P.H.9
Gonsalves, D.10
-
24
-
-
55249105198
-
Characterization of ten novel Ty1/Copia-like retrotransposon families of the grapevine genome
-
Moisy C, Garrison KE, Meredith CP, Pelsy F (2008) Characterization of ten novel Ty1/Copia-like retrotransposon families of the grapevine genome. BMC Genomics 9:469
-
(2008)
BMC Genomics
, vol.9
, pp. 469
-
-
Moisy, C.1
Garrison, K.E.2
Meredith, C.P.3
Pelsy, F.4
-
25
-
-
33644947611
-
Distribution of Ty3-Gypsy-and Ty1-Copialike DNA sequences in the genus Helianthus and other Asteraceae
-
Natali L, Santini S, Giordani T, Minelli S, Maestrini P, Cionini PG, Cavallini A (2006) Distribution of Ty3-Gypsy-and Ty1-Copialike DNA sequences in the genus Helianthus and other Asteraceae. Genome 49:64-72
-
(2006)
Genome
, vol.49
, pp. 64-72
-
-
Natali, L.1
Santini, S.2
Giordani, T.3
Minelli, S.4
Maestrini, P.5
Cionini, P.G.6
Cavallini, A.7
-
26
-
-
33745371107
-
SigniWcant expansion of Vicia pannonica genome size mediated by ampliWcation of a single type of giant retroelement
-
Neumann P, Koblizkova A, Navratilova A, Macas J (2006) SigniWcant expansion of Vicia pannonica genome size mediated by ampliWcation of a single type of giant retroelement. Genetics 173:1047-1056
-
(2006)
Genetics
, vol.173
, pp. 1047-1056
-
-
Neumann, P.1
Koblizkova, A.2
Navratilova, A.3
Macas, J.4
-
27
-
-
58449137410
-
The Sorghum bicolor genome and the diversiWcation of grasses
-
Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Schmutz J, Spannagl M, Tang H, Wang X, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev I, Lyons E, Maher CA, Martis M, Narechania A, Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang L, Carpita NC, Freeling M, Gingle AR, Hash CT, Keller B, Klein P, Kresovich S, McCann MC, Ming R, Peterson DG, Rahman M, Ware D, WesthoV P, Mayer KFX, Messing M, Rokhsar DS (2009) The Sorghum bicolor genome and the diversiWcation of grasses. Nature 457:551-556
-
(2009)
Nature
, vol.457
, pp. 551-556
-
-
Paterson, A.H.1
Bowers, J.E.2
Bruggmann, R.3
Dubchak, I.4
Grimwood, J.5
Gundlach, H.6
Haberer, G.7
Hellsten, U.8
Mitros, T.9
Poliakov, A.10
Schmutz, J.11
Spannagl, M.12
Tang, H.13
Wang, X.14
Wicker, T.15
Bharti, A.K.16
Chapman, J.17
Feltus, F.A.18
Gowik, U.19
Grigoriev, I.20
Lyons, E.21
Maher, C.A.22
Martis, M.23
Narechania, A.24
Otillar, R.P.25
Penning, B.W.26
Salamov, A.A.27
Wang, Y.28
Zhang, L.29
Carpita, N.C.30
Freeling, M.31
Gingle, A.R.32
Hash, C.T.33
Keller, B.34
Klein, P.35
Kresovich, S.36
McCann, M.C.37
Ming, R.38
Peterson, D.G.39
Rahman, M.40
Ware, D.41
Westho, V.P.42
Mayer, K.F.X.43
Messing, M.44
Rokhsar, D.S.45
more..
-
28
-
-
33750030513
-
Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B
-
Paux E, Roger D, Badaeva E, Gay G, Bernard M, Sourdille P, Feuillet C (2006) Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. Plant J 48:463-474
-
(2006)
Plant J
, vol.48
, pp. 463-474
-
-
Paux, E.1
Roger, D.2
Badaeva, E.3
Gay, G.4
Bernard, M.5
Sourdille, P.6
Feuillet, C.7
-
29
-
-
33749392949
-
Doubling genome size without polyploidization: Dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice
-
Piegu B, Guyot R, Picault N, Roulin A, Saniyal A, Kim H, Collura K, Brar DS, Jackson S, Wing RA, Panaud O (2006) Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice. Genome Res 16:1262-1269
-
(2006)
Genome Res
, vol.16
, pp. 1262-1269
-
-
Piegu, B.1
Guyot, R.2
Picault, N.3
Roulin, A.4
Saniyal, A.5
Kim, H.6
Collura, K.7
Brar, D.S.8
Jackson, S.9
Wing, R.A.10
Panaud, O.11
-
30
-
-
0042178293
-
Major ecological transitions in wild sunXowers facilitated by hybridization
-
Rieseberg LH, Raymond O, Rosenthal DM, Lai Z, Livingstone K, Nakazato T, Durphy JL, Schwarzbach AE, Donovan LA, Lexer C (2003) Major ecological transitions in wild sunXowers facilitated by hybridization. Science 301:1211-1216
-
(2003)
Science
, vol.301
, pp. 1211-1216
-
-
Rieseberg, L.H.1
Raymond, O.2
Rosenthal, D.M.3
Lai, Z.4
Livingstone, K.5
Nakazato, T.6
Durphy, J.L.7
Schwarzbach, A.E.8
Donovan, L.A.9
Lexer, C.10
-
32
-
-
0032972599
-
DnaSP version 3: An integrated program for molecular population genetics and molecular evolution analysis
-
Rozas J, Rozas R (1999) DnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 15:174-175
-
(1999)
Bioinformatics
, vol.15
, pp. 174-175
-
-
Rozas, J.1
Rozas, R.2
-
33
-
-
0033990048
-
Primer3 on the WWW for general users and for biologist programmers
-
In: Krawetz S, Misener S (eds), Humana Press, Totowa
-
Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana Press, Totowa, pp 365-386
-
(2000)
Bioinformatics methods and protocols: Methods in molecular biology
, pp. 365-386
-
-
Rozen, S.1
Skaletsky, H.2
-
34
-
-
0032413101
-
Evidence that a recent increase in maize genome size was caused by the massive ampliWcation of intergene retrotransposons
-
SanMiguel P, Bennetzen JL (1998) Evidence that a recent increase in maize genome size was caused by the massive ampliWcation of intergene retrotransposons. Ann Bot 82:37-44
-
(1998)
Ann Bot
, vol.82
, pp. 37-44
-
-
SanMiguel, P.1
Bennetzen, J.L.2
-
35
-
-
0013630297
-
Nested retrotransposons in the intergenic regions of the maize genome
-
SanMiguel P, Tikhonov A, Jin YK, Motchoulskaia N, Zakharov D, Melake-Berhan A, Springer PS, Edwards KJ, Lee M, Avramova Z (1996) Nested retrotransposons in the intergenic regions of the maize genome. Science 274:765-768
-
(1996)
Science
, vol.274
, pp. 765-768
-
-
SanMiguel, P.1
Tikhonov, A.2
Jin, Y.K.3
Motchoulskaia, N.4
Zakharov, D.5
Melake-Berhan, A.6
Springer, P.S.7
Edwards, K.J.8
Lee, M.9
Avramova, Z.10
-
36
-
-
12244265085
-
Ty1/Copia-and Ty3/Gypsy-like DNA sequences in Helianthus species
-
Santini S, Cavallini A, Natali L, Minelli S, Maggini F, Cionini PG (2002) Ty1/Copia-and Ty3/Gypsy-like DNA sequences in Helianthus species. Chromosoma 111:192-200
-
(2002)
Chromosoma
, vol.111
, pp. 192-200
-
-
Santini, S.1
Cavallini, A.2
Natali, L.3
Minelli, S.4
Maggini, F.5
Cionini, P.G.6
-
37
-
-
21144437096
-
Large intraspecific haplotype variability at the Rph7 locus results from rapid and recent divergence in the barley genome
-
Scherrer B, Isidore E, Klein P, Kim JS, Bellec A, Chalhoub B, Keller B, Feuillet C (2005) Large intraspecific haplotype variability at the Rph7 locus results from rapid and recent divergence in the barley genome. Plant Cell 17:361-374
-
(2005)
Plant Cell
, vol.17
, pp. 361-374
-
-
Scherrer, B.1
Isidore, E.2
Klein, P.3
Kim, J.S.4
Bellec, A.5
Chalhoub, B.6
Keller, B.7
Feuillet, C.8
-
38
-
-
0032442762
-
Phylogenetic relationships in Helianthus (Asteraceae) based on nuclear ribosomal DNA internal transcribed spacer region sequence data
-
Schilling EE, Linder CR, Noyes RD, Rieseberg LH (1998) Phylogenetic relationships in Helianthus (Asteraceae) based on nuclear ribosomal DNA internal transcribed spacer region sequence data. Syst Bot 23:177-187
-
(1998)
Syst Bot
, vol.23
, pp. 177-187
-
-
Schilling, E.E.1
Linder, C.R.2
Noyes, R.D.3
Rieseberg, L.H.4
-
39
-
-
70450202132
-
The B73 maize genome: Complexity, diversity, and dynamics
-
Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M et al (2009) The B73 maize genome: complexity, diversity, and dynamics. Science 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
Minx, P.11
Reily, A.D.12
Courtney, L.13
Kruchowski, S.S.14
Tomlinson, C.15
Strong, C.16
Delehaunty, K.17
Fronick, C.18
Courtney, B.19
Rock, S.M.20
Belter, E.21
Du, F.22
Kim, K.23
Abbott, R.M.24
Cotton, M.25
Levy, A.26
Marchetto, P.27
Ochoa, K.28
Jackson, S.M.29
Gillam, B.30
Chen, W.31
Yan, L.32
Higginbotham, J.33
Cardenas, M.34
Waligorski, J.35
Applebaum, E.36
Phelps, L.37
Falcone, J.38
Kanchi, K.39
Thane, T.40
Scimone, A.41
Thane, N.42
Henke, J.43
Wang, T.44
Ruppert, J.45
Shah, N.46
Rotter, K.47
Hodges, J.48
Ingenthron, E.49
Cordes, M.50
more..
-
40
-
-
0033198094
-
Polyploidy: Recurrent formation and genome evolution
-
Soltis DE, Soltis PS (1999) Polyploidy: recurrent formation and genome evolution. Trends Ecol Evol 9:348-352
-
(1999)
Trends Ecol Evol
, vol.9
, pp. 348-352
-
-
Soltis, D.E.1
Soltis, P.S.2
-
41
-
-
0029654258
-
A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis
-
Sonnhammer EL, Durbin R (1995) A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene 167:GC1-GC10
-
(1995)
Gene
, vol.167
, pp. 1-10
-
-
Sonnhammer, E.L.1
Durbin, R.2
-
42
-
-
34250789278
-
Global repeat discovery and estimation of genomic copy number in a large, complex genome using a high-throughput 454 sequence survey
-
Swaminathan K, Varala K, Hudson ME (2007) Global repeat discovery and estimation of genomic copy number in a large, complex genome using a high-throughput 454 sequence survey. BMC Genomics 8:132
-
(2007)
BMC Genomics
, vol.8
, pp. 132
-
-
Swaminathan, K.1
Varala, K.2
Hudson, M.E.3
-
43
-
-
0034084963
-
The complete sequence of 340 kb of DNA around the rice Adh1-adh2 region reveals interrupted colinearity with maize chromosome 4
-
Tarchini R, Biddle P, Wineland R, Tingey S, Rafalski A (2000) The complete sequence of 340 kb of DNA around the rice Adh1-adh2 region reveals interrupted colinearity with maize chromosome 4. Plant Cell 12:381-391
-
(2000)
Plant Cell
, vol.12
, pp. 381-391
-
-
Tarchini, R.1
Biddle, P.2
Wineland, R.3
Tingey, S.4
Rafalski, A.5
-
44
-
-
34848886909
-
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
-
The French-Italian Public Consortium for Grape Genome Characterization
-
The French-Italian Public Consortium for Grape Genome Characterization (2007) The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 449:463-467
-
(2007)
Nature
, vol.449
, pp. 463-467
-
-
-
45
-
-
84907150192
-
The mapbased sequence of the rice genome
-
The International Rice Genome Sequencing Project
-
The International Rice Genome Sequencing Project (2005) The mapbased sequence of the rice genome. Nature 436:793-800
-
(2005)
Nature
, vol.436
, pp. 793-800
-
-
-
46
-
-
0027968068
-
CLUSTALW: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson JD, Desmond G, Gibson H, Gibson TJ (1994) CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl Acids Res 22:4673-4680
-
(1994)
Nucl Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Desmond, G.2
Gibson, H.3
Gibson, T.J.4
-
47
-
-
33748760611
-
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
-
Tuskan GA, DiFazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapman J, Chen GL, Cooper D, Coutinho PM, Couturier J, Covert S, Cronk Q, Cunningham R, Davis J, Degroeve S, Déjardin A, de Pamphilis C, Detter J, Dirks B, Dubchak I, Duplessis S, Ehlting J, Ellis B, Gendler K, Goodstein D, Gribskov M, Grimwood J, Groover A, Gunter L, Hamberger B, Heinze B, Helariutta Y et al (2006) The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 313:1596-1604
-
(2006)
Science
, vol.313
, pp. 1596-1604
-
-
Tuskan, G.A.1
DiFazio, S.2
Jansson, S.3
Bohlmann, J.4
Grigoriev, I.5
Hellsten, U.6
Putnam, N.7
Ralph, S.8
Rombauts, S.9
Salamov, A.10
Schein, J.11
Sterck, L.12
Aerts, A.13
Bhalerao, R.R.14
Bhalerao, R.P.15
Blaudez, D.16
Boerjan, W.17
Brun, A.18
Brunner, A.19
Busov, V.20
Campbell, M.21
Carlson, J.22
Chalot, M.23
Chapman, J.24
Chen, G.L.25
Cooper, D.26
Coutinho, P.M.27
Couturier, J.28
Covert, S.29
Cronk, Q.30
Cunningham, R.31
Davis, J.32
Degroeve, S.33
Déjardin, A.34
de Pamphilis, C.35
Detter, J.36
Dirks, B.37
Dubchak, I.38
Duplessis, S.39
Ehlting, J.40
Ellis, B.41
Gendler, K.42
Goodstein, D.43
Gribskov, M.44
Grimwood, J.45
Groover, A.46
Gunter, L.47
Hamberger, B.48
Heinze, B.49
Helariutta, Y.50
more..
-
48
-
-
33750018038
-
Genome expansion in three hybrid sunXower species is associated with retrotransposon proliferation
-
Ungerer MC, Strakosh SC, Zhen Y (2006) Genome expansion in three hybrid sunXower species is associated with retrotransposon proliferation. Curr Biol 16:R872-R873
-
(2006)
Curr Biol
, vol.16
, pp. 872-873
-
-
Ungerer, M.C.1
Strakosh, S.C.2
Zhen, Y.3
-
49
-
-
68249158010
-
Proliferation of Ty3/ gypsy-like retrotransposons in hybrid sunXower taxa inferred from phylogenetic data
-
Ungerer MC, Strakosh SC, Stimpson KM (2009) Proliferation of Ty3/ gypsy-like retrotransposons in hybrid sunXower taxa inferred from phylogenetic data. BMC Biol 7:40
-
(2009)
BMC Biol
, vol.7
, pp. 40
-
-
Ungerer, M.C.1
Strakosh, S.C.2
Stimpson, K.M.3
-
50
-
-
25144473504
-
Variability, recombination, and mosaic evolution of the barley BARE-1 retrotransposon
-
Vicient CM, Kalendar R, Schulman AH (2005) Variability, recombination, and mosaic evolution of the barley BARE-1 retrotransposon. J Mol Evol 61:275-291
-
(2005)
J Mol Evol
, vol.61
, pp. 275-291
-
-
Vicient, C.M.1
Kalendar, R.2
Schulman, A.H.3
-
51
-
-
33845186134
-
Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution
-
Vitte C, Bennetzen JL (2006) Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution. Proc Natl Acad Sci USA 103:17638-17643
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 17638-17643
-
-
Vitte, C.1
Bennetzen, J.L.2
-
52
-
-
70349655727
-
Genetic variability in sunXower (Helianthus annuus L.) and in the Helianthus genus as assessed by retrotransposonbased molecular markers
-
Vukich M, Schulman AH, Giordani T, Natali L, Kalendar R, Cavallini A (2009a) Genetic variability in sunXower (Helianthus annuus L.) and in the Helianthus genus as assessed by retrotransposonbased molecular markers. Theor Appl Genet 119:1027-1038
-
(2009)
Theor Appl Genet
, vol.119
, pp. 1027-1038
-
-
Vukich, M.1
Schulman, A.H.2
Giordani, T.3
Natali, L.4
Kalendar, R.5
Cavallini, A.6
-
53
-
-
75149187557
-
Copia and Gypsy retrotransposons activity in sun-Xower (Helianthus annuus L.)
-
Vukich M, Schulman AH, Giordani T, Natali L, Kalendar R, Cavallini A (2009b) Copia and Gypsy retrotransposons activity in sun-Xower (Helianthus annuus L.). BMC Plant Biol 9:150
-
(2009)
BMC Plant Biol
, vol.9
, pp. 150
-
-
Vukich, M.1
Schulman, A.H.2
Giordani, T.3
Natali, L.4
Kalendar, R.5
Cavallini, A.6
-
54
-
-
33845215653
-
Remarkable variation in maize genome structure inferred from haplotype diversity at the bz locus
-
Wang Q, Dooner HK (2006) Remarkable variation in maize genome structure inferred from haplotype diversity at the bz locus. Proc Natl Acad Sci USA 103:17644-17649
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 17644-17649
-
-
Wang, Q.1
Dooner, H.K.2
-
56
-
-
36249023071
-
A unified classiWcation system for eukaryotic transposable elements
-
Wicker T, Sabot F, Hua-Van A, Bennetzen JL, Capy P, Chalhoub B, Flavell A, Leroy P, Morgante M, Panaud O, Paux E, SanMiguel P, Schulman AH (2007) A unified classiWcation system for eukaryotic transposable elements. Nature Rev Genet 8:973-982
-
(2007)
Nature 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
Paux, E.11
SanMiguel, P.12
Schulman, A.H.13
-
57
-
-
0000465745
-
Shotgun sequencing
-
In: Birren B, Green ED, Klapholtz S, Myers RM, Roskams J (eds), Cold Spring Harbor Laboratory Press, Cold Spring Harbor
-
Wilson RK, Mardis ER (1997) Shotgun sequencing. In: Birren B, Green ED, Klapholtz S, Myers RM, Roskams J (eds) Genome analysis: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor
-
(1997)
Genome analysis: A laboratory manual
-
-
Wilson, R.K.1
Mardis, E.R.2
-
58
-
-
34547592867
-
LTR_FINDER: An eYcient tool for the prediction of full-length LTR retrotransposons
-
Xu Z, Wang H (2007) LTR_FINDER: an eYcient tool for the prediction of full-length LTR retrotransposons. Nucl Acids Res 35:W265-W268
-
(2007)
Nucl Acids Res
, vol.35
, pp. 265-268
-
-
Xu, Z.1
Wang, H.2
-
59
-
-
0035053052
-
The rice retrotransposon Tos17 prefers low-copy-number sequences as integration targets
-
Yamazaki M, Tsugawa H, Miyao A, Yano M, Wu J, Yamamoto S, Matsumoto T, Sasaki T, Hirochika H (2001) The rice retrotransposon Tos17 prefers low-copy-number sequences as integration targets. Mol Genet Genom 265:336-344
-
(2001)
Mol Genet Genom
, vol.265
, pp. 336-344
-
-
Yamazaki, M.1
Tsugawa, H.2
Miyao, A.3
Yano, M.4
Wu, J.5
Yamamoto, S.6
Matsumoto, T.7
Sasaki, T.8
Hirochika, H.9
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