-
1
-
-
50649109231
-
Genome-wide analyses of alternative splicing in plants: Opportunities and challenges
-
Barbazuk WB, Fu Y, McGinnis KM (2008) Genome-wide analyses of alternative splicing in plants: opportunities and challenges. Genome Res 18:1381-1392
-
(2008)
Genome Res
, vol.18
, pp. 1381-1392
-
-
Barbazuk, W.B.1
Fu, Y.2
McGinnis, K.M.3
-
2
-
-
0028890990
-
Expression of a low-temperature-induced protein in Brassica napus
-
Boothe JG, de Beus MD, Johnson-Flanagan AM (1995) Expression of a low-temperature-induced protein in Brassica napus. Plant Physiol 108:795-803
-
(1995)
Plant Physiol
, vol.108
, pp. 795-803
-
-
Boothe, J.G.1
De Beus, M.D.2
Johnson-Flanagan, A.M.3
-
3
-
-
70350569286
-
Mechanisms of alternative splicing regulation: Insights from molecular and genomics approaches
-
Chen M, Manley JL (2009) Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches. Nat Rev Mol Cell Biol 10:741-754
-
(2009)
Nat Rev Mol Cell Biol
, vol.10
, pp. 741-754
-
-
Chen, M.1
Manley, J.L.2
-
4
-
-
80053914535
-
BRAD, the genetics and genomics database for Brassica plants
-
Cheng F, Liu S, Wu J, Fang L, Sun S, Liu B, Li P, Hua W, Wang X (2011) BRAD, the genetics and genomics database for Brassica plants. BMC Plant Biol 11:136
-
(2011)
BMC Plant Biol
, vol.11
, pp. 136
-
-
Cheng, F.1
Liu, S.2
Wu, J.3
Fang, L.4
Sun, S.5
Liu, B.6
Li, P.7
Hua, W.8
Wang, X.9
-
5
-
-
1642441342
-
Molecular genetic perspectives on cross-talk and specificity in abiotic stress signalling in plants
-
DOI 10.1093/jxb/erh005, Crosstalk in Plant Signal Transduction
-
Chinnusamy V, Schumaker K, Zhu JK (2004) Molecular genetic perspectives on cross-talk and specificity in abiotic stress signalling in plants. J Exp Bot 55:225-236 (Pubitemid 38119165)
-
(2004)
Journal of Experimental Botany
, vol.55
, Issue.395
, pp. 225-236
-
-
Chinnusamy, V.1
Schumaker, K.2
Zhu, J.-K.3
-
6
-
-
34648834403
-
Cold stress regulation of gene expression in plants
-
DOI 10.1016/j.tplants.2007.07.002, PII S1360138507002154
-
Chinnusamy V, Zhu JH, Zhu JK (2007) Cold stress regulation of gene expression in plants. Trends Plant Sci 12:444-451 (Pubitemid 47465035)
-
(2007)
Trends in Plant Science
, vol.12
, Issue.10
, pp. 444-451
-
-
Chinnusamy, V.1
Zhu, J.2
Zhu, J.-K.3
-
7
-
-
80052979140
-
Mechanisms and consequences of alternative polyadenylation
-
Di Giammartino DC, Nishida K, Manley JL (2011) Mechanisms and consequences of alternative polyadenylation. Mol Cell 43:853-866
-
(2011)
Mol Cell
, vol.43
, pp. 853-866
-
-
Di Giammartino, D.C.1
Nishida, K.2
Manley, J.L.3
-
9
-
-
1642506263
-
A novel endo-beta-mannanase gene in tomato LeMAN5 is associated with anther and pollen development
-
DOI 10.1104/pp.103.035998
-
Filichkin SA, Leonard JM, Monteros A, Liu PP, Nonogaki H (2004) A novel endo-beta-mannanase gene in tomato LeMAN5 is associated with anther and pollen development. Plant Physiol 134:1080-1087 (Pubitemid 38398256)
-
(2004)
Plant Physiology
, vol.134
, Issue.3
, pp. 1080-1087
-
-
Filichkin, S.A.1
Leonard, J.M.2
Monteros, A.3
Liu, P.-P.4
Nonogaki, H.5
-
10
-
-
74949084336
-
Genome-wide mapping of alternative splicing in Arabidopsis thaliana
-
Filichkin SA, Priest HD, Givan SA, Shen R, Bryant DW, Fox SE, Wong WK, Mockler TC (2010) Genome-wide mapping of alternative splicing in Arabidopsis thaliana. Genome Res 20:45-58
-
(2010)
Genome Res
, vol.20
, pp. 45-58
-
-
Filichkin, S.A.1
Priest, H.D.2
Givan, S.A.3
Shen, R.4
Bryant, D.W.5
Fox, S.E.6
Wong, W.K.7
Mockler, T.C.8
-
11
-
-
78049282812
-
What happens in plant molecular responses to cold stress?
-
Heidarvand L, Amiri RM (2010) What happens in plant molecular responses to cold stress? Acta Physiol Plant 32:419-431
-
(2010)
Acta Physiol Plant
, vol.32
, pp. 419-431
-
-
Heidarvand, L.1
Amiri, R.M.2
-
12
-
-
84860322259
-
Signal transduction during cold, salt, and drought stresses in plants
-
Huang GT, Ma SL, Bai LP, Zhang L, Ma H, Jia P, Liu J, Zhong M, Guo ZF (2012) Signal transduction during cold, salt, and drought stresses in plants. Mol Biol Rep 39:969-987
-
(2012)
Mol Biol Rep
, vol.39
, pp. 969-987
-
-
Huang, G.T.1
Ma, S.L.2
Bai, L.P.3
Zhang, L.4
Ma, H.5
Jia, P.6
Liu, J.7
Zhong, M.8
Guo, Z.F.9
-
13
-
-
84869187282
-
Plant polyadenylation factors: Conservation and variety in the polyadenylation complex in plants
-
Hunt AG, Xing D, Li QQ (2012) Plant polyadenylation factors: conservation and variety in the polyadenylation complex in plants. BMC Genom 13:641
-
(2012)
BMC Genom
, vol.13
, pp. 641
-
-
Hunt, A.G.1
Xing, D.2
Li, Q.Q.3
-
14
-
-
84860128193
-
Alternative splicing mediates responses of the Arabidopsis circadian clock to temperature changes
-
James AB, Syed NH, Bordage S, Marshall J, Nimmo GA, Jenkins GI, Herzyk P, Brown JW, Nimmo HG (2012) Alternative splicing mediates responses of the Arabidopsis circadian clock to temperature changes. Plant Cell 24:961-981
-
(2012)
Plant Cell
, vol.24
, pp. 961-981
-
-
James, A.B.1
Syed, N.H.2
Bordage, S.3
Marshall, J.4
Nimmo, G.A.5
Jenkins, G.I.6
Herzyk, P.7
Brown, J.W.8
Nimmo, H.G.9
-
15
-
-
3543030479
-
Abscisic acid induces CBF gene transcription and subsequent induction of cold-regulated genes via the CRT promoter element
-
DOI 10.1104/pp.104.043562
-
Knight H, Zarka DG, Okamoto H, Thomashow MF, Knight MR (2004) Abscisic acid induces CBF gene transcription and subsequent induction of cold-regulated genes via the CRT promoter element. Plant Physiol 135:1710-1717 (Pubitemid 39009414)
-
(2004)
Plant Physiology
, vol.135
, Issue.3
, pp. 1710-1717
-
-
Knight, H.1
Zarka, D.G.2
Okamoto, H.3
Thomashow, M.F.4
Knight, M.R.5
-
16
-
-
0025461406
-
Cloning and characterization of a cold- and ABA-inducible Arabidopsis gene
-
Kurkela S, Franck M (1990) Cloning and characterization of a cold- and ABA-inducible Arabidopsis gene. Plant Mol Biol 15:137-144
-
(1990)
Plant Mol Biol
, vol.15
, pp. 137-144
-
-
Kurkela, S.1
Franck, M.2
-
17
-
-
0036085047
-
PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences
-
Lescot M, Déhais P, Thijs G, Marchal K, Moreau Y, Van de Peer Y, Rouzé P, Rombauts S (2002) PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic Acids Res 30:325-327 (Pubitemid 34685468)
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.1
, pp. 325-327
-
-
Lescot, M.1
Dehais, P.2
Thijs, G.3
Marchal, K.4
Moreau, Y.5
Van De, P.Y.6
Rouze, P.7
Rombauts, S.8
-
19
-
-
69249216356
-
Effects of the multiple polyadenylation signal AUA on mRNA 3′-end formation and gene expression
-
Lin HH, Huang LF, Su HC, Jeng ST (2009) Effects of the multiple polyadenylation signal AUA on mRNA 3′-end formation and gene expression. Planta 230:699-712
-
(2009)
Planta
, vol.230
, pp. 699-712
-
-
Lin, H.H.1
Huang, L.F.2
Su, H.C.3
Jeng, S.T.4
-
20
-
-
27244444905
-
Compilation of mRNA polyadenylation signals in Arabidopsis revealed a new signal element and potential secondary structures
-
DOI 10.1104/pp.105.060541
-
Loke JC, Stahlberg EA, Strenski DG, Haas BJ, Wood PC, Li QQ (2005) Compilation of mRNA polyadenylation signals in Arabidopsis revealed a new signal element and potential secondary structures. Plant Physiol 138:1457-1468 (Pubitemid 43142092)
-
(2005)
Plant Physiology
, vol.138
, Issue.3
, pp. 1457-1468
-
-
Loke, J.C.1
Stahlberg, E.A.2
Strenski, D.G.3
Haas, B.J.4
Wood, P.C.5
Qingshun, Q.L.6
-
21
-
-
0742323558
-
Nonsense-mediated mRNA decay: Splicing, translation and mRNP dynamics
-
Maquat LE (2004) Nonsense-mediated mRNA decay: splicing, translation and mRNP dynamics. Nat Rev Mol Cell Biol 5:89-99
-
(2004)
Nat Rev Mol Cell Biol
, vol.5
, pp. 89-99
-
-
Maquat, L.E.1
-
22
-
-
84856672314
-
Alternative splicing: Enhancing ability to cope with stress via transcriptome plasticity
-
Mastrangelo AM, Marone D, Laidò G, De Leonardis AM, De Vita P (2012) Alternative splicing: enhancing ability to cope with stress via transcriptome plasticity. Plant Sci 185-186:40-49
-
(2012)
Plant Sci
, vol.185-186
, pp. 40-49
-
-
Mastrangelo, A.M.1
Marone, D.2
Laidò, G.3
De Leonardis, A.M.4
De Vita, P.5
-
23
-
-
0032104190
-
A rule for termination-codon position within intron-containing genes: When nonsense affects RNA abundance
-
DOI 10.1016/S0968-0004(98)01208-0
-
Nagy E, Maquat LE (1998) A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci 23:198-199 (Pubitemid 28302613)
-
(1998)
Trends in Biochemical Sciences
, vol.23
, Issue.6
, pp. 198-199
-
-
Nagy, E.1
Maquat, L.E.2
-
24
-
-
32044464356
-
Transcriptional regulation of ABI3- and ABA-responsive genes including RD29B and RD29A in seeds, germinating embryos, and seedlings of Arabidopsis
-
DOI 10.1007/s11103-005-2418-5
-
Nakashima K, Fujita Y, Katsura K, Maruyama K, Narusaka Y, Seki M, Shinozaki K, Yamaguchi-Shinozaki K (2006) Transcriptional regulation of ABI3- and ABA-responsive genes including RD29B and RD29A in seeds, germinating embryos, and seedlings of Arabidopsis. Plant Mol Biol 60:51-68 (Pubitemid 43194442)
-
(2006)
Plant Molecular Biology
, vol.60
, Issue.1
, pp. 51-68
-
-
Nakashima, K.1
Fujita, Y.2
Katsura, K.3
Maruyama, K.4
Narusaka, Y.5
Seki, M.6
Shinozaki, K.7
Yamaguchi-Shinozaki, K.8
-
25
-
-
4944241489
-
Intron retention is a major phenomenon in alternative splicing in Arabidopsis
-
Ner-Gaon H, Halachmi R, Savaldi-Goldstein S, Rubin E, Ophir R, Fuhr R (2004) Intron retention is a major phenomenon in alternative splicing in Arabidopsis. Plant J 39:877-886
-
(2004)
Plant J
, vol.39
, pp. 877-886
-
-
Ner-Gaon, H.1
Halachmi, R.2
Savaldi-Goldstein, S.3
Rubin, E.4
Ophir, R.5
Fuhr, R.6
-
26
-
-
0000200261
-
Complementary DNA sequence of a low temperature-induced Brassica napus gene with homology to the Arabidopsis thaliana kin1 gene
-
Orr W, Lu B, White TC, Robert LS, Singh J (1992) Complementary DNA sequence of a low temperature-induced Brassica napus gene with homology to the Arabidopsis thaliana kin1 gene. Plant Physiol 98:1532-1534
-
(1992)
Plant Physiol
, vol.98
, pp. 1532-1534
-
-
Orr, W.1
Lu, B.2
White, T.C.3
Robert, L.S.4
Singh, J.5
-
27
-
-
34250813107
-
Alternative splicing of pre-messenger RNAs in plants in the genomic era
-
Reddy ASN (2007) Alternative splicing of pre-messenger RNAs in plants in the genomic era. Annu Rev Plant Biol 58:267-294
-
(2007)
Annu Rev Plant Biol
, vol.58
, pp. 267-294
-
-
Reddy, A.S.N.1
-
28
-
-
44349130371
-
Genome level analysis of rice mRNA 3′-end processing signals and alternative polyadenylation
-
DOI 10.1093/nar/gkn158
-
Shen Y, Ji G, Haas BJ, Wu X, Zheng J, Reese GJ, Li QQ (2008) Genome level analysis of rice mRNA 3′-end processing signals and alternative polyadenylation. Nucleic Acids Res 36:3150-3161 (Pubitemid 351737206)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.9
, pp. 3150-3161
-
-
Shen, Y.1
Ji, G.2
Haas, B.J.3
Wu, X.4
Zheng, J.5
Reese, G.J.6
Li, Q.Q.7
-
30
-
-
0038343397
-
FY is an RNA 3′ end-processing factor that interacts with FCA to control the Arabidopsis floral transition
-
DOI 10.1016/S0092-8674(03)00425-2
-
Simpson GG, Dijkwel PP, Quesada V, Henderson I, Dean C (2003) FY is an RNA 3′end-processing factor that interacts with FCA to control the Arabidopsis floral transition. Cell 113:777-787 (Pubitemid 36724941)
-
(2003)
Cell
, vol.113
, Issue.6
, pp. 777-787
-
-
Simpson, G.G.1
Dijkwel, P.P.2
Quesada, V.3
Henderson, I.4
Dean, C.5
-
31
-
-
33644814604
-
Quantitative statistical analysis of cis-regulatory sequences in ABA/VP1- and CBF/DREB1-regulated genes of arabidopsis
-
DOI 10.1104/pp.104.058412
-
Suzuki M, Ketterling MG, McCarty DR (2005) Quantitative statistical analysis of cis-regulatory sequences in ABA/VP1- and CBF/DREB1-regulated genes of Arabidopsis. Plant Physiol 139:437-447 (Pubitemid 43951626)
-
(2005)
Plant Physiology
, vol.139
, Issue.1
, pp. 437-447
-
-
Suzuki, M.1
Ketterling, M.G.2
McCarty, D.R.3
-
32
-
-
34547781750
-
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
-
DOI 10.1093/molbev/msm092
-
Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599 (Pubitemid 47236692)
-
(2007)
Molecular Biology and Evolution
, vol.24
, Issue.8
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
33
-
-
84865167453
-
Characterization of the variable 3′UTR and expression of the two intron-containing KIN transcripts from Capsella bursa-pastoris
-
Tao P, Wang J (2012) Characterization of the variable 3′UTR and expression of the two intron-containing KIN transcripts from Capsella bursa-pastoris. Gene 507:99-105
-
(2012)
Gene
, vol.507
, pp. 99-105
-
-
Tao, P.1
Wang, J.2
-
34
-
-
84866457910
-
Comparative analysis of the variable 3′UTR and gene expression of the KIN and KIN-homologous LEA genes in Capsella bursa-pastoris
-
Tao P, Peng L, Huang X, Wang J (2012) Comparative analysis of the variable 3′UTR and gene expression of the KIN and KIN-homologous LEA genes in Capsella bursa-pastoris. Plant Cell Rep 31:1769-1777
-
(2012)
Plant Cell Rep
, vol.31
, pp. 1769-1777
-
-
Tao, P.1
Peng, L.2
Huang, X.3
Wang, J.4
-
35
-
-
0031574072
-
The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
DOI 10.1093/nar/25.24.4876
-
Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The ClustalX-Windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876-4882 (Pubitemid 28022245)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.24
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
36
-
-
33644846351
-
The cold-induced early activation of phospholipase C and D pathways determines the response of two distinct clusters of genes in Arabidopsis cell suspensions
-
DOI 10.1104/pp.105.068171
-
Vergnolle C, Vaultier M, Taconnat L, Renou J, Kader J, Zachowski A, Ruelland E (2005) The cold-induced early activation of phospholipase C and D pathways determines the response of two distinct clusters of genes in Arabidopsis cell suspensions. Plant Physiol 139:1217-1233 (Pubitemid 43786825)
-
(2005)
Plant Physiology
, vol.139
, Issue.3
, pp. 1217-1233
-
-
Vergnolle, C.1
Vaultier, M.-N.2
Taconnat, L.3
Renou, J.-P.4
Kader, J.-C.5
Zachowski, A.6
Ruelland, E.7
-
37
-
-
33646484347
-
Genomewide comparative analysis of alternative splicing in plants
-
Wang BB, Brendel V (2006) Genomewide comparative analysis of alternative splicing in plants. Proc Natl Acad Sci USA 103:7175-7180
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 7175-7180
-
-
Wang, B.B.1
Brendel, V.2
-
38
-
-
0029328315
-
Promoters from kin1 and cor6.6, two Arabidopsis thaliana low-temperature- and ABA-inducible genes, direct strong β-glucuronidase expression in guard cells, pollen and young developing seeds
-
Wang H, Cutler AJ (1995) Promoters from kin1 and cor6.6, two Arabidopsis thaliana low-temperature- and ABA-inducible genes, direct strong β-glucuronidase expression in guard cells, pollen and young developing seeds. Plant Mol Biol 28:619-634
-
(1995)
Plant Mol Biol
, vol.28
, pp. 619-634
-
-
Wang, H.1
Cutler, A.J.2
-
39
-
-
40349091686
-
An 'electronic fluorescent pictograph' browser for exploring and analyzing large-scale biological data sets
-
Winter D, Vinegar B, Nahal H, Ammar R, Wilson GV, Provart NJ (2007) An 'electronic fluorescent pictograph' browser for exploring and analyzing large-scale biological data sets. PLoS One 2:e718
-
(2007)
PLoS One
, vol.2
-
-
Winter, D.1
Vinegar, B.2
Nahal, H.3
Ammar, R.4
Wilson, G.V.5
Provart, N.J.6
-
40
-
-
84870439173
-
In silico prediction of mRNA poly(A) sites in Chlamydomonas reinhardtii
-
Wu X, Ji G, Zeng Y (2012) In silico prediction of mRNA poly(A) sites in Chlamydomonas reinhardtii. Mol Genet Genomics 287:895-907
-
(2012)
Mol Genet Genomics
, vol.287
, pp. 895-907
-
-
Wu, X.1
Ji, G.2
Zeng, Y.3
-
41
-
-
0037040919
-
Regulation of osmotic stress-responsive gene expression by the LOS6/ABA1 locus in Arabidopsis
-
DOI 10.1074/jbc.M109275200
-
Xiong L, Lee H, Ishitani M, Zhu J (2002) Regulation of osmotic stress-responsive gene expression by the LOS6/ABA1 locus in Arabidopsis. J Biol Chem 277:8588-8596 (Pubitemid 34968324)
-
(2002)
Journal of Biological Chemistry
, vol.277
, Issue.10
, pp. 8588-8596
-
-
Xiong, L.1
Lee, H.2
Ishitani, M.3
Zhu, J.-K.4
-
42
-
-
77958114685
-
Mitochondrially-targeted expression of a cytoplasmic male sterility-associated orf220 gene causes male sterility in Brassica juncea
-
Yang J, Liu X, Yang X, Zhang M (2010) Mitochondrially-targeted expression of a cytoplasmic male sterility-associated orf220 gene causes male sterility in Brassica juncea. BMC Plant Biol 10:231
-
(2010)
BMC Plant Biol
, vol.10
, pp. 231
-
-
Yang, J.1
Liu, X.2
Yang, X.3
Zhang, M.4
-
43
-
-
84884944185
-
Bolbase: A comprehensive genomics database for Brassica oleracea
-
Yu J, Zhao M, Wang X, Tong C, Huang S, Tehrim S, Liu Y, Hua W, Liu S (2013) Bolbase: a comprehensive genomics database for Brassica oleracea. BMC Genom 14:664
-
(2013)
BMC Genom
, vol.14
, pp. 664
-
-
Yu, J.1
Zhao, M.2
Wang, X.3
Tong, C.4
Huang, S.5
Tehrim, S.6
Liu, Y.7
Hua, W.8
Liu, S.9
-
44
-
-
0142092368
-
RPS4-mediated disease resistance requires the combined presence of RPS4 transcripts with full-length and truncated open reading frames
-
Zhang XC, Gassmann W (2003) RPS4-mediated disease resistance requires the combined presence of RPS4 transcripts with full-length and truncated open reading frames. Plant Cell 15:2333-2342
-
(2003)
Plant Cell
, vol.15
, pp. 2333-2342
-
-
Zhang, X.C.1
Gassmann, W.2
|