Thermoplasticity in the plant circadian clock

References

• Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet 2008; 40:1413 - 5; http://dx.doi.org/10.1038/ng.259; PMID: 18978789
   PubMed Web of Science ®Google Scholar
• Marquez Y, Brown JW, Simpson C, Barta A, Kalyna M. Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis.. Genome Res 2012; 22:1184 - 95; http://dx.doi.org/10.1101/gr.134106.111; PMID: 22391557
   PubMed Web of Science ®Google Scholar
• Filichkin SA, Priest HD, Givan SA, Shen R, Bryant DW, Fox SE, et al. Genome-wide mapping of alternative splicing in Arabidopsis thaliana.. Genome Res 2010; 20:45 - 58; http://dx.doi.org/10.1101/gr.093302.109; PMID: 19858364
   PubMed Web of Science ®Google Scholar
• Kazan K. Alternative splicing and proteome diversity in plants: the tip of the iceberg has just emerged. Trends Plant Sci 2003; 8:468 - 71; http://dx.doi.org/10.1016/j.tplants.2003.09.001; PMID: 14557042
   PubMed Web of Science ®Google Scholar
• Iida K, Seki M, Sakurai T, Satou M, Akiyama K, Toyoda T, et al. Genome-wide analysis of alternative pre-mRNA splicing in Arabidopsis thaliana based on full-length cDNA sequences. Nucleic Acids Res 2004; 32:5096 - 103; http://dx.doi.org/10.1093/nar/gkh845; PMID: 15452276
   PubMed Web of Science ®Google Scholar
• Duque P. A role for SR proteins in plant stress responses. Plant Signal Behav 2011; 6:49 - 54; http://dx.doi.org/10.4161/psb.6.1.14063; PMID: 21258207
   PubMedGoogle Scholar
• Seo PJ, Kim MJ, Ryu JY, Jeong EY, Park CM. Two splice variants of the IDD14 transcription factor competitively form nonfunctional heterodimers which may regulate starch metabolism. Nat Commun 2011; 2:303; http://dx.doi.org/10.1038/ncomms1303; PMID: 21556057
   PubMed Web of Science ®Google Scholar
• Lamberto I, Percudani R, Gatti R, Folli C, Petrucco S. Conserved alternative splicing of Arabidopsis transthyretin-like determines protein localization and S-allantoin synthesis in peroxisomes. Plant Cell 2010; 22:1564 - 74; http://dx.doi.org/10.1105/tpc.109.070102; PMID: 20511299
   PubMed Web of Science ®Google Scholar
• Zhang XN, Mount SM. Two alternatively spliced isoforms of the Arabidopsis SR45 protein have distinct roles during normal plant development. Plant Physiol 2009; 150:1450 - 8; http://dx.doi.org/10.1104/pp.109.138180; PMID: 19403727
   PubMed Web of Science ®Google Scholar
• Severing EI, van Dijk AD, Stiekema WJ, van Ham RC. Comparative analysis indicates that alternative splicing in plants has a limited role in functional expansion of the proteome. BMC Genomics 2009; 10:154; http://dx.doi.org/10.1186/1471-2164-10-154; PMID: 19358722
   PubMed Web of Science ®Google Scholar
• Severing EI, van Dijk AD, van Ham RC. Assessing the contribution of alternative splicing to proteome diversity in Arabidopsis thaliana using proteomics data. BMC Plant Biol 2011; 11:82; http://dx.doi.org/10.1186/1471-2229-11-82; PMID: 21575182
   PubMed Web of Science ®Google Scholar
• Syed NH, Kalyna M, Marquez Y, Barta A, Brown JW. Alternative splicing in plants - coming of age. Trends Plant Sci 2012; http://dx.doi.org/10.1016/j.tplants.2012.06.001; PMID: 22743067
   PubMed Web of Science ®Google Scholar
• Nicholson P, Yepiskoposyan H, Metze S, Zamudio Orozco R, Kleinschmidt N, Mühlemann O. Nonsense-mediated mRNA decay in human cells: mechanistic insights, functions beyond quality control and the double-life of NMD factors. Cell Mol Life Sci 2010; 67:677 - 700; http://dx.doi.org/10.1007/s00018-009-0177-1; PMID: 19859661
   PubMed Web of Science ®Google Scholar
• Kalyna M, Simpson CG, Syed NH, Lewandowska D, Marquez Y, Kusenda B, et al. Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis.. Nucleic Acids Res 2012; 40:2454 - 69; http://dx.doi.org/10.1093/nar/gkr932; PMID: 22127866
   PubMed Web of Science ®Google Scholar
• James AB, Syed NH, Bordage S, Marshall J, Nimmo GA, Jenkins GI, et al. Alternative splicing mediates responses of the Arabidopsis circadian clock to temperature changes. Plant Cell 2012; 24:961 - 81; http://dx.doi.org/10.1105/tpc.111.093948; PMID: 22408072
   PubMed Web of Science ®Google Scholar
• Michael TP, Salome PA, McClung CR. Two Arabidopsis circadian oscillators can be distinguished by differential temperature sensitivity. Proc Natl Acad Sci U S A 2003; 100:6878 - 83; http://dx.doi.org/10.1073/pnas.1131995100; PMID: 12736379
   PubMed Web of Science ®Google Scholar
• Seo PJ, Park MJ, Lim MH, Kim SG, Lee M, Baldwin IT, et al. A Self-Regulatory Circuit of CIRCADIAN CLOCK-ASSOCIATED1 Underlies the Circadian Clock Regulation of Temperature Responses in Arabidopsis.. Plant Cell 2012; http://dx.doi.org/10.1105/tpc.112.098723; PMID: 22715042
   PubMed Web of Science ®Google Scholar
• Rawat R, Takahashi N, Hsu PY, Jones MA, Schwartz J, Salemi MR, et al. REVEILLE8 and PSEUDO-REPONSE REGULATOR5 form a negative feedback loop within the Arabidopsis circadian clock. PLoS Genet 2011; 7:e1001350; http://dx.doi.org/10.1371/journal.pgen.1001350; PMID: 21483796
   PubMed Web of Science ®Google Scholar
• Farinas B, Mas P. Functional implication of the MYB transcription factor RVE8/LCL5 in the circadian control of histone acetylation. Plant J 2011; 66:318 - 29; http://dx.doi.org/10.1111/j.1365-313X.2011.04484.x; PMID: 21205033
   PubMed Web of Science ®Google Scholar
• McClung CR, Davis SJ. Ambient thermometers in plants: from physiological outputs towards mechanisms of thermal sensing. Curr Biol 2010; 20:R1086 - 92; http://dx.doi.org/10.1016/j.cub.2010.10.035; PMID: 21172632
   PubMed Web of Science ®Google Scholar
• Wilczek AM, Roe JL, Knapp MC, Cooper MD, Lopez-Gallego C, Martin LJ, et al. Effects of genetic perturbation on seasonal life history plasticity. Science 2009; 323:930 - 4; http://dx.doi.org/10.1126/science.1165826; PMID: 19150810
   PubMed Web of Science ®Google Scholar
• Vanin S, Bhutani S, Montelli S, Menegazzi P, Green EW, Pegoraro M, et al. Unexpected features of Drosophila circadian behavioural rhythms under natural conditions. Nature 2012; 484:371 - 5; http://dx.doi.org/10.1038/nature10991; PMID: 22495312
   PubMed Web of Science ®Google Scholar
• Ramos A, Pérez-Solís E, Ibáñez C, Casado R, Collada C, Gómez L, et al. Winter disruption of the circadian clock in chestnut. Proc Natl Acad Sci U S A 2005; 102:7037 - 42; http://dx.doi.org/10.1073/pnas.0408549102; PMID: 15860586
   PubMed Web of Science ®Google Scholar
• Bieniawska Z, Espinoza C, Schlereth A, Sulpice R, Hincha DK, Hannah MA. Disruption of the Arabidopsis circadian clock is responsible for extensive variation in the cold-responsive transcriptome. Plant Physiol 2008; 147:263 - 79; http://dx.doi.org/10.1104/pp.108.118059; PMID: 18375597
   PubMed Web of Science ®Google Scholar
• Ibañez C, Ramos A, Acebo P, Contreras A, Casado R, Allona I, et al. Overall alteration of circadian clock gene expression in the chestnut cold response. PLoS One 2008; 3:e3567; http://dx.doi.org/10.1371/journal.pone.0003567; PMID: 18958171
   PubMed Web of Science ®Google Scholar
• Ibáñez C, Kozarewa I, Johansson M, Ogren E, Rohde A, Eriksson ME. Circadian clock components regulate entry and affect exit of seasonal dormancy as well as winter hardiness in Populus trees. Plant Physiol 2010; 153:1823 - 33; http://dx.doi.org/10.1104/pp.110.158220; PMID: 20530613
   PubMed Web of Science ®Google Scholar
• Salomé PA, McClung CR. PSEUDO-RESPONSE REGULATOR 7 and 9 are partially redundant genes essential for the temperature responsiveness of the Arabidopsis circadian clock. Plant Cell 2005; 17:791 - 803; http://dx.doi.org/10.1105/tpc.104.029504; PMID: 15705949
   PubMed Web of Science ®Google Scholar
• Edwards KD, Lynn JR, Gyula P, Nagy F, Millar AJ. Natural allelic variation in the temperature-compensation mechanisms of the Arabidopsis thaliana circadian clock. Genetics 2005; 170:387 - 400; http://dx.doi.org/10.1534/genetics.104.035238; PMID: 15781708
   PubMed Web of Science ®Google Scholar
• Edwards KD, Anderson PE, Hall A, Salathia NS, Locke JC, Lynn JR, et al. FLOWERING LOCUS C mediates natural variation in the high-temperature response of the Arabidopsis circadian clock. Plant Cell 2006; 18:639 - 50; http://dx.doi.org/10.1105/tpc.105.038315; PMID: 16473970
   PubMed Web of Science ®Google Scholar
• Gould PD, Locke JC, Larue C, Southern MM, Davis SJ, Hanano S, et al. The molecular basis of temperature compensation in the Arabidopsis circadian clock. Plant Cell 2006; 18:1177 - 87; http://dx.doi.org/10.1105/tpc.105.039990; PMID: 16617099
   PubMed Web of Science ®Google Scholar
• Salomé PA, Weigel D, McClung CR. The role of the Arabidopsis morning loop components CCA1, LHY, PRR7, and PRR9 in temperature compensation. Plant Cell 2010; 22:3650 - 61; http://dx.doi.org/10.1105/tpc.110.079087; PMID: 21098730
   PubMed Web of Science ®Google Scholar
• Fowler SG, Cook D, Thomashow MF. Low temperature induction of Arabidopsis CBF1, 2, and 3 is gated by the circadian clock. Plant Physiol 2005; 137:961 - 8; http://dx.doi.org/10.1104/pp.104.058354; PMID: 15728337
   PubMed Web of Science ®Google Scholar
• Mikkelsen MD, Thomashow MF. A role for circadian evening elements in cold-regulated gene expression in Arabidopsis.. Plant J 2009; 60:328 - 39; http://dx.doi.org/10.1111/j.1365-313X.2009.03957.x; PMID: 19566593
   PubMed Web of Science ®Google Scholar
• Penfield S. Temperature perception and signal transduction in plants. New Phytol 2008; 179:615 - 28; http://dx.doi.org/10.1111/j.1469-8137.2008.02478.x; PMID: 18466219
   PubMed Web of Science ®Google Scholar
• Ruelland E, Zachowski A. How plants sense temperature. Environ Exp Bot 2010; 69:225 - 32; http://dx.doi.org/10.1016/j.envexpbot.2010.05.011
   Web of Science ®Google Scholar
• Harmer SL. The circadian system in higher plants. Annu Rev Plant Biol 2009; 60:357 - 77; http://dx.doi.org/10.1146/annurev.arplant.043008.092054; PMID: 19575587
   PubMed Web of Science ®Google Scholar
• Matthys RJ. A short history of temperature compensation. In: Matthys RJ, ed. Accurate clock pendulums. Oxford; New York: Oxford University Press, 2004:7-12.
   Google Scholar
• Sobel D. Longitude: The True Story of a Lone Genius Who Solved the Greatest Scientific Problem of His Time. New York: Penguin, 1995.
   Google Scholar
• Hong S, Song HR, Lutz K, Kerstetter RA, Michael TP, McClung CR. Type II protein arginine methyltransferase 5 (PRMT5) is required for circadian period determination in Arabidopsis thaliana.. Proc Natl Acad Sci U S A 2010; 107:21211 - 6; http://dx.doi.org/10.1073/pnas.1011987107; PMID: 21097700
   PubMed Web of Science ®Google Scholar
• Sanchez SE, Petrillo E, Beckwith EJ, Zhang X, Rugnone ML, Hernando CE, et al. A methyl transferase links the circadian clock to the regulation of alternative splicing. Nature 2010; 468:112 - 6; http://dx.doi.org/10.1038/nature09470; PMID: 20962777
   PubMed Web of Science ®Google Scholar