Cakmak I, Ozkan H, Braun HJ, Welch RM, Romheld V: Zinc and iron concentrations in seeds of wild, primitive, and modern wheats. Food Nutr Bull. 2000, 21: 401-403.
Article
Google Scholar
Kichey T, Hirel B, Heumez E, Dubois F, Le Gouis J: In winter wheat (Triticum aestivum L.), post- anthesis nitrogen uptake and remobilisation to the grain correlates with agronomic traits and nitrogen physiological markers. Field Crops Res. 2007, 102: 22-32. 10.1016/j.fcr.2007.01.002.
Article
Google Scholar
Uauy C, Distelfeld A, Fahima T, Blechl A, Dubcovsky J: A NAC gene regulating senescence improves grain protein, zinc, and iron content in wheat. Science. 2006, 314: 1298-1301. 10.1126/science.1133649.
Article
CAS
PubMed
PubMed Central
Google Scholar
White PJ, Broadley MR: Biofortification of crops with seven mineral elements often lacking in human diets - iron, zinc, copper, calcium, magnesium, selenium and iodine. New Phytol. 2009, 182: 49-84. 10.1111/j.1469-8137.2008.02738.x.
Article
CAS
PubMed
Google Scholar
Hörtensteiner S, Feller U: Nitrogen metabolism and remobilization during senescence. J Exp Bot. 2002, 53: 927-937. 10.1093/jexbot/53.370.927.
Article
PubMed
Google Scholar
Matile P, Hortensteiner S, Thomas H, Krautler B: Chlorophyll breakdown in senescent leaves. Plant Physiol. 1996, 112: 1403-1409.
Article
CAS
PubMed
PubMed Central
Google Scholar
Lim PO, Kim HJ, Gil Nam H: Leaf senescence. Annu Rev Plant Biol. 2007, 58: 115-136. 10.1146/annurev.arplant.57.032905.105316.
Article
CAS
PubMed
Google Scholar
Wilkinson S, Davies WJ: ABA-based chemical signalling: the co-ordination of responses to stress in plants. Plant Cell Environ. 2002, 25: 195-210. 10.1046/j.0016-8025.2001.00824.x.
Article
CAS
PubMed
Google Scholar
Harding S, Guikema J, Paulsen G: Photosynthetic decline from high temperature stress during maturation of wheat: 1. interaction with senescence processes. Plant Physiol. 2000, 92: 648-653.
Article
Google Scholar
He Y, Fukushige H, Hildebrand DF, Gan S: Evidence supporting a role of jasmonic acid in Arabidopsis leaf senescence. Plant Physiol. 2002, 128: 876-884. 10.1104/pp.010843.
Article
CAS
PubMed
PubMed Central
Google Scholar
Buchanan-Wollaston V, Page T, Harrison E, Breeze E, Lim PO, Nam HG, Lin J-F, Wu S-H, Swidzinski J, Ishizaki K, Leaver CJ: Comparative transcriptome analysis reveals significant differences in gene expression and signalling pathways between developmental and dark/starvation-induced senescence in Arabidopsis. Plant J. 2005, 42: 567-585. 10.1111/j.1365-313X.2005.02399.x.
Article
CAS
PubMed
Google Scholar
Morris K, Mackerness SAH, Page T, John CF, Murphy AM, Carr JP, Buchanan-Wollaston V: Salicylic acid has a role in regulating gene expression during leaf senescence. Plant J. 2000, 23: 677-685. 10.1046/j.1365-313x.2000.00836.x.
Article
CAS
PubMed
Google Scholar
Grbić V, Bleecker AB: Ethylene regulates the timing of leaf senescence in Arabidopsis. Plant J. 1995, 8: 595-602. 10.1046/j.1365-313X.1995.8040595.x.
Article
Google Scholar
Peoples M, Dalling M: The interplay between proteolysis and amino acid metabolism during senescence and nitrogen reallocation. 1988, San Diego, CA.: Academic Press
Book
Google Scholar
Barneix AJ: Physiology and biochemistry of source-regulated protein accumulation in the wheat grain. J Plant Physiol. 2007, 164: 581-590. 10.1016/j.jplph.2006.03.009.
Article
CAS
PubMed
Google Scholar
Peeters KMU, Van Laere AJ: Amino acid metabolism associated with N-mobilization from the flag leaf of wheat (Triticum aestivum L.) during grain development. Plant Cell Environ. 1994, 17: 131-141. 10.1111/j.1365-3040.1994.tb00276.x.
Article
CAS
Google Scholar
Hall JL, Williams LE: Transition metal transporters in plants. J Exp Bot. 2003, 54: 2601-2613. 10.1093/jxb/erg303.
Article
CAS
PubMed
Google Scholar
Buchanan-Wollaston V, Earl S, Harrison E, Mathas E, Navabpour S, Page T, Pink D: The molecular analysis of leaf senescence - a genomics approach. Plant Biotech J. 2003, 1: 3-22.
Article
CAS
Google Scholar
Lin J-F, Wu S-H: Molecular events in senescing Arabidopsis leaves. Plant J. 2004, 39: 612-628. 10.1111/j.1365-313X.2004.02160.x.
Article
CAS
PubMed
Google Scholar
Andersson A, Keskitalo J, Sjodin A, Bhalerao R, Sterky F, Wissel K, Tandre K, Aspeborg H, Moyle R, Ohmiya Y, et al: A transcriptional timetable of autumn senescence. Genome Biol. 2004, R24-
Google Scholar
Jukanti AK, Heidlebaugh NM, Parrott DL, Fischer IA, McInnerney K, Fischer AM: Comparative transcriptome profiling of near-isogenic barley (Hordeum vulgare) lines differing in the allelic state of a major grain protein content locus identifies genes with possible roles in leaf senescence and nitrogen reallocation. New Phytol. 2008, 177: 333-349.
CAS
PubMed
Google Scholar
Gregersen PL, Holm PB: Transcriptome analysis of senescence in the flag leaf of wheat (Triticum aestivum L.). Plant Biotech J. 2007, 5: 192-206. 10.1111/j.1467-7652.2006.00232.x.
Article
CAS
Google Scholar
Joppa L, Cantrell R: Chromosomal location of genes for grain protein content in wild tetraploid wheat. Crop Sci. 1990, 30: 1059-1064. 10.2135/cropsci1990.0011183X003000050021x.
Article
CAS
Google Scholar
Uauy C, Brevis JC, Dubcovsky J: The high grain protein content gene Gpc-B1 accelerates senescence and has pleiotropic effects on protein content in wheat. J Exp Bot. 2006, 57: 2785-2794. 10.1093/jxb/erl047.
Article
CAS
PubMed
Google Scholar
Balazadeh S, Kwasniewski M, Caldana C, Mehrnia M, Zanor MaIs, Xue G-P, Mueller-Roeber B: ORS1, an H2O2-responsive NAC transcription factor, controls senescence in Arabidopsis thaliana. Mol Plant. 2011
Google Scholar
Balazadeh S, Riaño-Pachón DM, Mueller-Roeber B: Transcription factors regulating leaf senescence in Arabidopsis thaliana. Plant Biol. 2008, 10: 63-75.
Article
PubMed
Google Scholar
Guo Y, Gan S: AtNAP, a NAC family transcription factor, has an important role in leaf senescence. Plant J. 2006, 46: 601-612. 10.1111/j.1365-313X.2006.02723.x.
Article
CAS
PubMed
Google Scholar
Sperotto R, Ricachenevsky F, Duarte G, Boff T, Lopes K, Sperb E, Grusak M, Fett J: Identification of up-regulated genes in flag leaves during rice grain filling and characterization of OsNAC5, a new ABA-dependent transcription factor. Planta. 2009, 230: 985-1002. 10.1007/s00425-009-1000-9.
Article
CAS
PubMed
Google Scholar
Waters BM, Uauy C, Dubcovsky J, Grusak MA: Wheat (Triticum aestivum) NAM proteins regulate the translocation of iron, zinc, and nitrogen compounds from vegetative tissues to grain. J Exp Bot. 2009, 60: 4263-4274. 10.1093/jxb/erp257.
Article
CAS
PubMed
Google Scholar
Wang Z, Gerstein M, Snyder M: RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet. 2009, 10: 57-63. 10.1038/nrg2484.
Article
CAS
PubMed
PubMed Central
Google Scholar
Wall PK, Leebens-Mack J, Chanderbali A, Barakat A, Wolcott E, Liang H, Landherr L, Tomsho L, Hu Y, Carlson J, et al: Comparison of next generation sequencing technologies for transcriptome characterization. BMC Genomics. 2009, 10: 347-10.1186/1471-2164-10-347.
Article
PubMed
PubMed Central
Google Scholar
Langmead B, Trapnell C, Pop M, Salzberg S: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10: R25-10.1186/gb-2009-10-3-r25.
Article
PubMed
PubMed Central
Google Scholar
Anders S, Huber W: Differential expression analysis for sequence count data. Genome Biol. 2010, 11: R106-10.1186/gb-2010-11-10-r106.
Article
CAS
PubMed
PubMed Central
Google Scholar
Robinson MD, McCarthy DJ, Smyth GK: edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics. 2010, 26: 139-140. 10.1093/bioinformatics/btp616.
Article
CAS
PubMed
Google Scholar
Benjamini Y, Hochberg Y: Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Series B Stat Methodol. 1995, 57: 289-300.
Google Scholar
Livak KJ, Schmittgen TD: Analysis of relative gene expression data using real-time quantitative PCR and the 2-(Delta Delta CT)) method. Methods. 2001, 25: 402-408. 10.1006/meth.2001.1262.
Article
CAS
PubMed
Google Scholar
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, et al: Gene Ontology: tool for the unification of biology. Nat Genet. 2000, 25: 25-29. 10.1038/75556.
Article
CAS
PubMed
PubMed Central
Google Scholar
Yu J, Hu S, Wang J, Wong GK-S, Li S, Liu B, Deng Y, Dai L, Zhou Y, Zhang X, et al: A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. indica). Science. 2002, 296: 79-92. 10.1126/science.1068037.
Article
CAS
PubMed
Google Scholar
Cantu D, Vanzetti L, Sumner A, Dubcovsky M, Matvienko M, Distelfeld A, Michelmore R, Dubcovsky J: Small RNAs, DNA methylation and transposable elements in wheat. BMC Genomics. 2010, 11: 408-10.1186/1471-2164-11-408.
Article
PubMed
PubMed Central
Google Scholar
Hirochika: Activation of plant retrotransposons by stress. Modification of gene expression and non-mendelian inheritance. Japan: NIAR. 1995, 15-21.
Google Scholar
Wendel JF, Wessler SR: Retrotransposon-mediated genome evolution on a local ecological scale. Proc Natl Acad Sci USA. 2000, 97: 6250-6252. 10.1073/pnas.97.12.6250.
Article
CAS
PubMed
PubMed Central
Google Scholar
Echenique VC, Stamova B, Wolters P, Lazo GR, Carollo VL, J D: Frequencies of Ty1-copia and Ty3-gypsy retroelements within the Triticeae EST databases. Theor Appl Genet. 2002, 104: 840-844. 10.1007/s00122-001-0849-1.
Article
CAS
PubMed
Google Scholar
Guo Y, Cai Z, Gan S: Transcriptome of Arabidopsis leaf senescence. Plant Cell Environ. 2004, 27: 521-549. 10.1111/j.1365-3040.2003.01158.x.
Article
CAS
Google Scholar
Pourtau N, Jennings R, Pelzer E, Pallas J, Wingler A: Effect of sugar-induced senescence on gene expression and implications for the regulation of senescence in Arabidopsis. Planta. 2006, 224: 556-568. 10.1007/s00425-006-0243-y.
Article
CAS
PubMed
Google Scholar
Liu X, Li Z, Jiang Z, Zhao Y, Peng J, Jin J, Guo H, Luo J: LSD: a leaf senescence database. Nucleic Acids Res. 2011, 39: D1103-D1107. 10.1093/nar/gkq1169.
Article
CAS
PubMed
Google Scholar
Vera JC, Wheat CW, Fescemyer HW, Frilander MJ, Crawford DL, Hanski I, Marden JH: Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing. Mol Ecol. 2008, 17: 1636-1647. 10.1111/j.1365-294X.2008.03666.x.
Article
CAS
PubMed
Google Scholar
Kumar S, Blaxter M: Comparing de novo assemblers for 454 transcriptome data. BMC Genomics. 2010, 11: 571-10.1186/1471-2164-11-571.
Article
PubMed
PubMed Central
Google Scholar
Dvorak J, Akhunov ED, Akhunov AR, Deal KR, Luo MC: Molecular characterization of a diagnostic DNA marker for domesticated tetraploid wheat provides evidence for gene flow from wild tetraploid wheat to hexaploid wheat. Mol Biol Evol. 2006, 23: 1386-1396. 10.1093/molbev/msl004.
Article
CAS
PubMed
Google Scholar
Pop M, Salzberg SL: Bioinformatics challenges of new sequencing technology. Trends Genet. 2008, 24: 142-149. 10.1016/j.tig.2007.12.006.
Article
CAS
PubMed
PubMed Central
Google Scholar
Audic S, Claverie J-M: The significance of digital gene expression profiles. Genome Res. 1997, 7: 986-995.
CAS
PubMed
Google Scholar
Barnes M, Freudenberg J, Thompson S, Aronow B, Pavlidis P: Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression analysis platforms. Nucleic Acids Res. 2005, 33: 5914-5923. 10.1093/nar/gki890.
Article
CAS
PubMed
PubMed Central
Google Scholar
Marioni JC, Mason CE, Mane SM, Stephens M, Gilad Y: RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays. Genome Res. 2008, 18: 1509-1517. 10.1101/gr.079558.108.
Article
CAS
PubMed
PubMed Central
Google Scholar
van der Graaff E, Schwacke R, Schneider A, Desimone M, Flugge U-I, Kunze R: Transcription analysis of Arabidopsis membrane transporters and hormone pathways during developmental and induced leaf senescence. Plant Physiol. 2006, 141: 776-792. 10.1104/pp.106.079293.
Article
CAS
PubMed
PubMed Central
Google Scholar
Rampino P, Spano G, Pataleo S, Mita G, Napier JA, Di Fonzo N, Shewry PR, Perrotta C: Molecular analysis of a durum wheat "stay green" mutant: expression pattern of photosynthesis-related genes. J Cereal Sci. 2006, 43: 160-168. 10.1016/j.jcs.2005.07.004.
Article
CAS
Google Scholar
Jung C, Lyou S, Yeu S, Kim M, Rhee S, Kim M, Lee J, Choi Y, Cheong J-J: Microarray-based screening of jasmonate-responsive genes in Arabidopsis thaliana. Plant Cell Rep. 2007, 26: 1053-1063. 10.1007/s00299-007-0311-1.
Article
CAS
PubMed
Google Scholar
Sasaki-Sekimoto Y, Taki N, Obayashi T, Aono M, Matsumoto F, Sakurai N, Suzuki H, Hirai MY, Noji M, Saito K, et al: Coordinated activation of metabolic pathways for antioxidants and defence compounds by jasmonates and their roles in stress tolerance in Arabidopsis. Plant J. 2005, 44: 653-668. 10.1111/j.1365-313X.2005.02560.x.
Article
CAS
PubMed
Google Scholar
Shan X, Wang J, Chua L, Jiang D, Peng W, Xie D: The role of Arabidopsis rubisco activase in jasmonate-Induced leaf senescence. Plant Physiol. 2011, 155: 751-764. 10.1104/pp.110.166595.
Article
CAS
PubMed
Google Scholar
Waters BM, Grusak MA: Whole-plant mineral partitioning throughout the life cycle in Arabidopsis thaliana ecotypes Columbia, Landsberg erecta, Cape Verde Islands, and the mutant line ysl1ysl3. New Phytol. 2008, 177: 389-405.
PubMed
Google Scholar
Parrott DL, Martin JM, Fischer AM: Analysis of barley (Hordeum vulgare) leaf senescence and protease gene expression: a family C1A cysteine protease is specifically induced under conditions characterized by high carbohydrate, but low to moderate nitrogen levels. New Phytol. 2010, 187: 313-331. 10.1111/j.1469-8137.2010.03278.x.
Article
CAS
PubMed
Google Scholar
Parrott DL, McInnerney K, Feller U, Fischer AM: Steam-girdling of barley (Hordeum vulgare) leaves leads to carbohydrate accumulation and accelerated leaf senescence, facilitating transcriptomic analysis of senescence-associated genes. New Phytol. 2007, 176: 56-69. 10.1111/j.1469-8137.2007.02158.x.
Article
CAS
PubMed
Google Scholar
Ramesh SA, Choimes S, Schachtman DP: Over-expression of an Arabidopsis zinc transporter in Hordeum vulgare increases short-term zinc uptake after zinc deprivation and deed zinc content. Plant Mol Biol. 2004, 54: 373-385.
Article
CAS
PubMed
Google Scholar
Curie C, Panaviene Z, Loulergue C, Dellaporta SL, Briat JF, Walker EL: Maize yellow stripe1 encodes a membrane protein directly involved in Fe(III) uptake. Nature. 2001, 409: 346-349. 10.1038/35053080.
Article
CAS
PubMed
Google Scholar
Xia J, Yamaji N, Kasai T, Ma JF: Plasma membrane-localized transporter for aluminum in rice. Proc Natl Acad Sci USA. 2010, 107: 18381-18385. 10.1073/pnas.1004949107.
Article
CAS
PubMed
PubMed Central
Google Scholar
Cailliatte R, Lapeyre B, Briat JÄo, Mari S, Curie C: The NRAMP6 metal transporter contributes to cadmium toxicity. Biochem J. 2009, 422: 217-228. 10.1042/BJ20090655.
Article
CAS
PubMed
Google Scholar
Chu Z, Fu B, Yang H, Xu C, Li Z, Sanchez A, Park Y, Bennetzen J, Zhang Q, Wang S: Targeting xa13, a recessive gene for bacterial blight resistance in rice. Theor Appl Genet. 2006, 112: 455-461. 10.1007/s00122-005-0145-6.
Article
CAS
PubMed
Google Scholar
Yuan M, Chu Z, Li X, Xu C, Wang S: The bacterial pathogen Xanthomonas oryzae overcomes rice defenses by regulating host copper redistribution. The Plant Cell Online. 2010, 10.1105/tpc.1110.078022
Google Scholar
O'Neill L, Turner B: Histone H4 acetylation distinguishes coding regions of the human genome from heterochromatin in a differentiation-dependent but transcription-independent manner. EMBO. 1995, 14: 3946-3957.
Google Scholar
Xue G, Bower NI, McIntyre CL, Riding GA, Kazan K, Shorter R: TaNAC69 from the NAC superfamily of transcription factors is up-regulated by abiotic stresses in wheat and recognises two consensus DNA-binding sequences. Funct Plant Biol. 2006, 33: 43-57. 10.1071/FP05161.
Article
CAS
Google Scholar
Uauy C, Paraiso F, Colasuonno P, Tran R, Tsai H, Berardi S, Comai L, Dubcovsky J: A modified TILLING approach to detect induced mutations in tetraploid and hexaploid wheat. BMC Plant Biol. 2009, 9: 115-10.1186/1471-2229-9-115.
Article
PubMed
PubMed Central
Google Scholar
Li R, Yu C, Li Y, Lam T-W, Yiu S-M, Kristiansen K, Wang J: SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics. 2009, 25: 1966-1967. 10.1093/bioinformatics/btp336.
Article
CAS
PubMed
Google Scholar