-
1
-
-
0034649566
-
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
-
Arabidopsis Genome Initiative
-
Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature, 408, 796 815.
-
(2000)
Nature
, vol.408
, pp. 796-815
-
-
-
2
-
-
33847298027
-
Patterns in grass genome evolution
-
Bennetzen, J.L. (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
-
3
-
-
21644437476
-
Mechanisms of recent genome size variation in flowering plants
-
Bennetzen, J.L., Ma, J. Devos, K.M. (2005) Mechanisms of recent genome size variation in flowering 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
-
4
-
-
33846108228
-
RetrOryza: A database of the rice LTR-retrotransposons
-
Chaparro, C., Guyot, R., Zuccolo, A., Piegu, B. Panaud, O. (2007) RetrOryza: a database of the rice LTR-retrotransposons. Nucleic Acids Res. 35, D66 D77.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Chaparro, C.1
Guyot, R.2
Zuccolo, A.3
Piegu, B.4
Panaud, O.5
-
5
-
-
30044440641
-
Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat
-
Devos, K.M., Ma, J., Pontaroli, A.C., Pratt, L.H. Bennetzen, J.L. (2005) Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat. Proc. Natl Acad. Sci. USA, 102, 19243 19248.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 19243-19248
-
-
Devos, K.M.1
Ma, J.2
Pontaroli, A.C.3
Pratt, L.H.4
Bennetzen, J.L.5
-
6
-
-
0031978181
-
Base-calling of automated sequencer traces using phred II. Error probabilities
-
Ewing, B. Green, P. (1998) Base-calling of automated sequencer traces using phred II. Error probabilities. Genome Res. 8, 186 194.
-
(1998)
Genome Res.
, vol.8
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
7
-
-
0031955518
-
Base-calling of automated sequencer traces using phred I. Accuracy assessment
-
Ewing, B., Hillier, L., Wendl, M.C. Green, P. (1998) Base-calling of automated sequencer traces using phred I. Accuracy assessment. Genome Res. 8, 175 185.
-
(1998)
Genome Res.
, vol.8
, pp. 175-185
-
-
Ewing, B.1
Hillier, L.2
Wendl, M.C.3
Green, P.4
-
8
-
-
0036250001
-
Plant transposable elements: Where genetics meets genomics
-
Feschotte, C., Jiang, N. Wessler, S.R. (2002) Plant transposable elements: where genetics meets genomics. Nat. Rev. Genet. 3, 329 341.
-
(2002)
Nat. Rev. Genet.
, vol.3
, pp. 329-341
-
-
Feschotte, C.1
Jiang, N.2
Wessler, S.R.3
-
9
-
-
0030464460
-
SEAVIEW and PHYLO-WIN: Two graphics tools for sequence alignment and molecular phylogeny
-
Galtier, N., Gouy, M. Gautier, C. (1996) SEAVIEW and PHYLO-WIN: two graphics tools for sequence alignment and molecular phylogeny. Comput. Appl. Biosci., 12, 543 548.
-
(1996)
Comput. Appl. Biosci.
, vol.12
, pp. 543-548
-
-
Galtier, N.1
Gouy, M.2
Gautier, C.3
-
10
-
-
0345651521
-
Molecular variation as a diverse source of disease resistance in cultivated rice
-
In. Kush, G.S. ed. Los Baños, Laguna, The Philippines. International Rice Research Institute. pp.
-
Glaszmann, J.C., Mew, T., Hibino, H., Kim, C.K., Vergel de Dios-Mew, T.J., Vera Cruz, C.M., Notteghem, J.L. Bonman, J.M. (1996) Molecular variation as a diverse source of disease resistance in cultivated rice. In Rice Genetics III. Proceedings of the Third International Rice Genetics Symposium, Manila, Philippines (Kush, G.S., ed Los Baños, Laguna, The Philippines : International Rice Research Institute, pp. 460 465.
-
(1996)
Rice Genetics III. Proceedings of the Third International Rice Genetics Symposium, Manila, Philippines
, pp. 460-465
-
-
Glaszmann, J.C.1
Mew, T.2
Hibino, H.3
Kim, C.K.4
Vergel De Dios-Mew, T.J.5
Vera Cruz, C.M.6
Notteghem, J.L.7
Bonman, J.M.8
-
11
-
-
0031955116
-
Consed: A graphical tool for sequence finishing
-
Gordon, D., Abajian, C. Green, P. (1998) Consed: a graphical tool for sequence finishing. Genome Res. 8, 195 202.
-
(1998)
Genome Res.
, vol.8
, pp. 195-202
-
-
Gordon, D.1
Abajian, C.2
Green, P.3
-
12
-
-
0032080772
-
Activation of plant retrotransposons under stress conditions
-
Grandbastien, M.A. (1998) Activation of plant retrotransposons under stress conditions. Trends Plant Sci. 3, 181 187.
-
(1998)
Trends Plant Sci.
, vol.3
, pp. 181-187
-
-
Grandbastien, M.A.1
-
13
-
-
23844474398
-
Stress activation and genomic impact of Tnt1 retrotransposons in Solanaceae
-
Grandbastien, M.A., Audeon, C., Bonnivard, E. et al. (2005) Stress activation and genomic impact of Tnt1 retrotransposons in Solanaceae. Cytogenet. Genome Res. 110, 229 241.
-
(2005)
Cytogenet. Genome Res.
, vol.110
, pp. 229-241
-
-
Grandbastien, M.A.1
Audeon, C.2
Bonnivard, E.3
-
14
-
-
0036029014
-
Viral sequences integrated into plant genomes
-
Harper, G., Hull, R., Lockhart, B. Olszewski, N. (2002) Viral sequences integrated into plant genomes. Annu. Rev. Phytopathol. 40, 119 136.
-
(2002)
Annu. Rev. Phytopathol.
, vol.40
, pp. 119-136
-
-
Harper, G.1
Hull, R.2
Lockhart, B.3
Olszewski, N.4
-
15
-
-
0031238581
-
Retrotranspons of rice: Their regulation and use for genome analysis
-
Hirochika, H. (1997) Retrotranspons of rice: their regulation and use for genome analysis. Plant Mol. Biol. 35, 231 240.
-
(1997)
Plant Mol. Biol.
, vol.35
, pp. 231-240
-
-
Hirochika, H.1
-
16
-
-
0035115215
-
Contribution of the Tos17 retrotransposon to rice functional genomics
-
Hirochika, H. (2001) Contribution of the Tos17 retrotransposon to rice functional genomics. Curr. Opin. Plant Biol. 4, 118 122.
-
(2001)
Curr. Opin. Plant Biol.
, vol.4
, pp. 118-122
-
-
Hirochika, H.1
-
17
-
-
0029824259
-
Retrotransposons of rice involved in mutations induced by tissue culture
-
Hirochika, H., Sugimoto, K., Otsuki, Y., Tsugawa, H. Kanda, M. (1996) Retrotransposons of rice involved in mutations induced by tissue culture. Proc. Natl Acad. Sci. USA, 93, 7783 7788.
-
(1996)
Proc. Natl Acad. Sci. USA
, vol.93
, pp. 7783-7788
-
-
Hirochika, H.1
Sugimoto, K.2
Otsuki, Y.3
Tsugawa, H.4
Kanda, M.5
-
18
-
-
4043125298
-
Rice mutant resources for gene discovery
-
Hirochika, H., Guiderdoni, E., An, G. et al. (2004) Rice mutant resources for gene discovery. Plant Mol. Biol. 54, 325 334.
-
(2004)
Plant Mol. Biol.
, vol.54
, pp. 325-334
-
-
Hirochika, H.1
Guiderdoni, E.2
An, G.3
-
19
-
-
84907150192
-
The map-based sequence of the rice genome
-
International Rice Genome Sequencing Project
-
International Rice Genome Sequencing Project (2005) The map-based sequence of the rice genome. Nature, 436, 793 800.
-
(2005)
Nature
, vol.436
, pp. 793-800
-
-
-
20
-
-
34848886909
-
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
-
Jaillon, O., Aury, J.M., Noël, B. et al. (2007) The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature, 449, 463 467.
-
(2007)
Nature
, vol.449
, pp. 463-467
-
-
Jaillon, O.1
Aury, J.M.2
Noël, B.3
-
21
-
-
0346034923
-
An active DNA transposon family in rice
-
Jiang, N., Bao, Z., Zhang, X., Hirochika, H., Eddy, S.R., McCouch, S.R. Wessler, S.R. (2003) An active DNA transposon family in rice. Nature, 421, 163 167.
-
(2003)
Nature
, vol.421
, pp. 163-167
-
-
Jiang, N.1
Bao, Z.2
Zhang, X.3
Hirochika, H.4
Eddy, S.R.5
McCouch, S.R.6
Wessler, S.R.7
-
22
-
-
0037226595
-
Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat
-
Kashkush, K., Feldman, M. Levy, A.A. (2003) Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat. Nat. Genet. 33, 102 106.
-
(2003)
Nat. Genet.
, vol.33
, pp. 102-106
-
-
Kashkush, K.1
Feldman, M.2
Levy, A.A.3
-
23
-
-
0043030233
-
Two-step regulation and continuous retrotransposition of the rice LINE-type retrotransposon Karma
-
Komatsu, M., Shimamoto, K. Kyozuka, J. (2003) Two-step regulation and continuous retrotransposition of the rice LINE-type retrotransposon Karma. Plant Cell, 15, 1934 1944.
-
(2003)
Plant Cell
, vol.15
, pp. 1934-1944
-
-
Komatsu, M.1
Shimamoto, K.2
Kyozuka, J.3
-
25
-
-
29444438757
-
Genome-wide transcription analyses in rice using tiling microarrays
-
Li, L., Wang, X., Stolc, V. et al. (2006) Genome-wide transcription analyses in rice using tiling microarrays. Nat. Genet. 38, 124 129.
-
(2006)
Nat. Genet.
, vol.38
, pp. 124-129
-
-
Li, L.1
Wang, X.2
Stolc, V.3
-
26
-
-
0033645667
-
Retrotransposon activation followed by rapid repression in introgressed rice plants
-
Liu, B. Wendel, J.F. (2000) Retrotransposon activation followed by rapid repression in introgressed rice plants. Genome, 43, 874 880.
-
(2000)
Genome
, vol.43
, pp. 874-880
-
-
Liu, B.1
Wendel, J.F.2
-
27
-
-
0029001089
-
The tobacco retrotransposon Tnt1 transposes in Arabidopsis thaliana
-
Lucas, H., Feuerbach, F., Grandbastien, M.A. Caboche, M. (1995) The tobacco retrotransposon Tnt1 transposes in Arabidopsis thaliana. EMBO J. 14, 2364 2373.
-
(1995)
EMBO J.
, vol.14
, pp. 2364-2373
-
-
Lucas, H.1
Feuerbach, F.2
Grandbastien, M.A.3
Caboche, M.4
-
28
-
-
33847030761
-
Plant centromere organization: A dynamic structure with conserved functions
-
Ma, J., Wing, R.A., Bennetzen, J.L. Jackson, S.A. (2007) Plant centromere organization: a dynamic structure with conserved functions. Trends Genet. 23, 134 139.
-
(2007)
Trends Genet.
, vol.23
, pp. 134-139
-
-
Ma, J.1
Wing, R.A.2
Bennetzen, J.L.3
Jackson, S.A.4
-
29
-
-
0041419305
-
Target site specificity of the Tos17 retrotransposon shows a preference for insertion within genes and against insertion in retrotransposon-rich regions of the genome
-
Miyao, A., Tanaka, K., Murata, K., Sawaki, H., Takeda, S., Abe, K., Shinozuka, Y., Onosato, K. Hirochika, H. (2003) Target site specificity of the Tos17 retrotransposon shows a preference for insertion within genes and against insertion in retrotransposon-rich regions of the genome. Plant Cell, 15, 1771 1780.
-
(2003)
Plant Cell
, vol.15
, pp. 1771-1780
-
-
Miyao, A.1
Tanaka, K.2
Murata, K.3
Sawaki, H.4
Takeda, S.5
Abe, K.6
Shinozuka, Y.7
Onosato, K.8
Hirochika, H.9
-
30
-
-
33845253615
-
Identification of active transposon dTok, a member of the hAT family, in rice
-
Moon, S., Jung, K.H., Lee, D.E., Jiang, W.Z., Koh, H.J., Heu, M.H., Lee, D.S., Suh, H.S. An, G. (2006) Identification of active transposon dTok, a member of the hAT family, in rice. Plant Cell Physiol. 47, 1473 1483.
-
(2006)
Plant Cell Physiol.
, vol.47
, pp. 1473-1483
-
-
Moon, S.1
Jung, K.H.2
Lee, D.E.3
Jiang, W.Z.4
Koh, H.J.5
Heu, M.H.6
Lee, D.S.7
Suh, H.S.8
An, G.9
-
31
-
-
0019321718
-
Rapid isolation of high molecular weight plant DNA
-
Murray, M.G. Thompson, W.F. (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acid Res. 8, 4321 4325.
-
(1980)
Nucleic Acid Res.
, vol.8
, pp. 4321-4325
-
-
Murray, M.G.1
Thompson, W.F.2
-
32
-
-
51549119808
-
Invasion of the Arabidopsis genome by the tobacco retrotransposon Tnt1 is controlled by reversible transcriptional gene silencing
-
Perez-Hormaeche, J., Potet, F., Beauclair, L., Le Masson, I., Courtial, B., Bouche, N. Lucas, H. (2008) Invasion of the Arabidopsis genome by the tobacco retrotransposon Tnt1 is controlled by reversible transcriptional gene silencing. Plant Physiol. 147, 1264 1278.
-
(2008)
Plant Physiol.
, vol.147
, pp. 1264-1278
-
-
Perez-Hormaeche, J.1
Potet, F.2
Beauclair, L.3
Le Masson, I.4
Courtial, B.5
Bouche, N.6
Lucas, H.7
-
33
-
-
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. et al. (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
-
34
-
-
35448983932
-
Large-scale characterization of Tos17 insertion sites in a rice T-DNA mutant library
-
Piffanelli, P., Droc, G., Mieulet, D. et al. (2007) Large-scale characterization of Tos17 insertion sites in a rice T-DNA mutant library. Plant Mol. Biol. 65, 587 601.
-
(2007)
Plant Mol. Biol.
, vol.65
, pp. 587-601
-
-
Piffanelli, P.1
Droc, G.2
Mieulet, D.3
-
35
-
-
0033635022
-
Artemis: Sequence visualization and annotation
-
Rutherford, K., Parkhill, J., Crook, J., Horsnell, T., Rice, P., Rajandream, M.A. Barrell, B. (2000) Artemis: sequence visualization and annotation. Bioinformatics, 16, 944 945.
-
(2000)
Bioinformatics
, vol.16
, pp. 944-945
-
-
Rutherford, K.1
Parkhill, J.2
Crook, J.3
Horsnell, T.4
Rice, P.5
Rajandream, M.A.6
Barrell, B.7
-
36
-
-
12444303856
-
Highly efficient production and characterization of T-DNA plants for rice (Oryza sativa L.) functional genomics
-
Sallaud, C., Meynard, D., Van Boxtel, J. et al. (2003) Highly efficient production and characterization of T-DNA plants for rice (Oryza sativa L.) functional genomics. Theor. Appl. Genet. 106, 1396 1408.
-
(2003)
Theor. Appl. Genet.
, vol.106
, pp. 1396-1408
-
-
Sallaud, C.1
Meynard, D.2
Van Boxtel, J.3
-
37
-
-
33947303168
-
Transposable elements and the epigenetic regulation of the genome
-
Slotkin, R.K. Martienssen, R. (2007) Transposable elements and the epigenetic regulation of the genome. Nat. Rev. Genet. 8, 272 285.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 272-285
-
-
Slotkin, R.K.1
Martienssen, R.2
-
38
-
-
0029654258
-
A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis
-
Sonnhammer, E.L. Durbin, R. (1995) A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene, 167, 1 10.
-
(1995)
Gene
, vol.167
, pp. 1-10
-
-
Sonnhammer, E.L.1
Durbin, R.2
-
39
-
-
33644861343
-
An active DNA transposon nDart causing leaf variegation and mutable dwarfism and its related elements in rice
-
Tsugane, K., Maekawa, M., Takagi, K., Takahara, H., Qian, Q., Eun, C.H. Iida, S. (2006) An active DNA transposon nDart causing leaf variegation and mutable dwarfism and its related elements in rice. Plant J. 45, 46 57.
-
(2006)
Plant J.
, vol.45
, pp. 46-57
-
-
Tsugane, K.1
Maekawa, M.2
Takagi, K.3
Takahara, H.4
Qian, Q.5
Eun, C.H.6
Iida, S.7
-
40
-
-
33748760611
-
The genome of black cottonwood, Populus trichocarpa (Torr& Gray)
-
Tuskan, G.A., Difazio, S., Jansson, S. 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
-
41
-
-
44849126727
-
Generation of a 3D indexed Petunia insertion database for reverse genetics
-
Vandenbussche, M., Janssen, A., Zethof, J. et al. (2008) Generation of a 3D indexed Petunia insertion database for reverse genetics. Plant J. 54, 1105 1114.
-
(2008)
Plant J.
, vol.54
, pp. 1105-1114
-
-
Vandenbussche, M.1
Janssen, A.2
Zethof, J.3
-
42
-
-
33845186134
-
Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution
-
Vitte, C. Bennetzen, J.F. (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.F.2
-
43
-
-
13244264889
-
Genomic paleontology provides evidence for two distinct origins of Asian rice (Oryza sativa L.)
-
Vitte, C., Lamy, F., Ishii, T., Brar, D.S. Panaud, O. (2004) Genomic paleontology provides evidence for two distinct origins of Asian rice (Oryza sativa L.). Mol. Genet. Genomics. 272, 504 511.
-
(2004)
Mol. Genet. Genomics.
, vol.272
, pp. 504-511
-
-
Vitte, C.1
Lamy, F.2
Ishii, T.3
Brar, D.S.4
Panaud, O.5
-
44
-
-
34547740136
-
LTR retrotransposons in rice (Oryza sativa L.): Recent burst amplifications followed by rapid DNA loss
-
Vitte, C., Panaud, O. Quesneville, H. (2007) LTR retrotransposons in rice (Oryza sativa L.): recent burst amplifications followed by rapid DNA loss. BMC Genomics, 8, 218.
-
(2007)
BMC Genomics
, vol.8
, pp. 218
-
-
Vitte, C.1
Panaud, O.2
Quesneville, H.3
-
45
-
-
0030207150
-
Plant retrotransposons: Turned on by stress
-
Wessler, S.R. (1996) Plant retrotransposons: turned on by stress. Curr. Biol. 6, 959 961.
-
(1996)
Curr. Biol.
, vol.6
, pp. 959-961
-
-
Wessler, S.R.1
-
46
-
-
0029583698
-
LTR-retrotransposons and MITEs: Important players in the evolution of plant genomes
-
Wessler, S.R., Bureau, T.E. White, S.E. (1995) LTR-retrotransposons and MITEs: important players in the evolution of plant genomes. Curr. Opin. Genet. Dev. 5, 814 821.
-
(1995)
Curr. Opin. Genet. Dev.
, vol.5
, pp. 814-821
-
-
Wessler, S.R.1
Bureau, T.E.2
White, S.E.3
-
47
-
-
36249023071
-
A unified classification system for eukaryotic transposable elements
-
Wicker, T., Sabot, F., Hua-Van, A. et al. (2007) A unified classification system for eukaryotic transposable elements. Nat. Rev. Genet. 8, 973 982.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 973-982
-
-
Wicker, T.1
Sabot, F.2
Hua-Van, A.3
-
48
-
-
0034053725
-
A greedy algorithm for aligning DNA sequences
-
Zhang, Z., Schwartz, S., Wagner, L. Miller, W. (2000) A greedy algorithm for aligning DNA sequences. J. Comput. Biol. 7, 203 214.
-
(2000)
J. Comput. Biol.
, vol.7
, pp. 203-214
-
-
Zhang, Z.1
Schwartz, S.2
Wagner, L.3
Miller, W.4
|