Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
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Aikawa, 2010, Robust control of the seasonal expression of the Arabidopsis FLC gene in a fluctuating environment, Proc. Natl. Acad. Sci. USA, 107, 11632, 10.1073/pnas.0914293107
Andrés, 2012, The genetic basis of flowering responses to seasonal cues, Nat. Rev. Genet., 13, 627, 10.1038/nrg3291
Angel, 2011, A Polycomb-based switch underlying quantitative epigenetic memory, Nature, 476, 105, 10.1038/nature10241
Angel, 2015, Vernalizing cold is registered digitally at FLC, Proc. Natl. Acad. Sci. USA, 112, 4146, 10.1073/pnas.1503100112
Berry, 2015, Local chromatin environment of a Polycomb target gene instructs its own epigenetic inheritance, Elife, 4, e07205, 10.7554/eLife.07205
Bieniawska, 2008, Disruption of the Arabidopsis circadian clock is responsible for extensive variation in the cold-responsive transcriptome, Plant Physiol., 147, 263, 10.1104/pp.108.118059
Bloomer, 2017, Fine-tuning timing: natural variation informs the mechanistic basis of the switch to flowering in Arabidopsis thaliana, J. Exp. Bot., 68, 5439, 10.1093/jxb/erx270
Bond, 2009, Histone acetylation, VERNALIZATION INSENSITIVE 3, FLOWERING LOCUS C, and the vernalization response, Mol. Plant, 2, 724, 10.1093/mp/ssp021
Bond, 2009, VERNALIZATION INSENSITIVE 3 (VIN3) is required for the response of Arabidopsis thaliana seedlings exposed to low oxygen conditions, Plant J., 59, 576, 10.1111/j.1365-313X.2009.03891.x
Bond, 2011, The low temperature response pathways for cold acclimation and vernalization are independent, Plant Cell Environ., 34, 1737, 10.1111/j.1365-3040.2011.02370.x
Box, 2015, ELF3 controls thermoresponsive growth in Arabidopsis, Curr. Biol., 25, 194, 10.1016/j.cub.2014.10.076
Buzas, 2011, Transcription-dependence of histone H3 lysine 27 trimethylation at the Arabidopsis polycomb target gene FLC, Plant J. Cell. Mol. Biol., 65, 872, 10.1111/j.1365-313X.2010.04471.x
Chew, 2012, An augmented Arabidopsis phenology model reveals seasonal temperature control of flowering time, New Phytol., 194, 654, 10.1111/j.1469-8137.2012.04069.x
Csorba, 2014, Antisense COOLAIR mediates the coordinated switching of chromatin states at FLC during vernalization, Proc. Natl. Acad. Sci. USA, 111, 16160, 10.1073/pnas.1419030111
De Lucia, 2008, A PHD-polycomb repressive complex 2 triggers the epigenetic silencing of FLC during vernalization, Proc. Natl. Acad. Sci. USA, 105, 16831, 10.1073/pnas.0808687105
Duncan, 2018, Gaining insight into plant gene transcription using smFISH, Transcription, 9, 166, 10.1080/21541264.2017.1372043
Duncan, 2015, Seasonal shift in timing of vernalization as an adaptation to extreme winter, Elife, 4, e06620, 10.7554/eLife.06620
Duncan, 2016, A method for detecting single mRNA molecules in Arabidopsis thaliana, Plant Methods, 12, 13, 10.1186/s13007-016-0114-x
Finnegan, 2011, Polycomb proteins regulate the quantitative induction of VERNALIZATION INSENSITIVE 3 in response to low temperatures, Plant J. Cell. Mol. Biol., 65, 382, 10.1111/j.1365-313X.2010.04428.x
Gendall, 2001, The VERNALIZATION 2 gene mediates the epigenetic regulation of vernalization in Arabidopsis, Cell, 107, 525, 10.1016/S0092-8674(01)00573-6
Gould, 2006, The molecular basis of temperature compensation in the Arabidopsis circadian clock, Plant Cell, 18, 1177, 10.1105/tpc.105.039990
Greb, 2007, The PHD finger protein VRN5 functions in the epigenetic silencing of Arabidopsis FLC, Curr. Biol., 17, 73, 10.1016/j.cub.2006.11.052
Helliwell, 2011, Vernalization-repression of Arabidopsis FLC requires promoter sequences but not antisense transcripts, PLoS One, 6, e21513, 10.1371/journal.pone.0021513
Hepworth, 2018, Absence of warmth permits epigenetic memory of winter in Arabidopsis, Nat. Commun., 9, 639, 10.1038/s41467-018-03065-7
IPCC, 2014, IPCC Climate Change 2014: Synthesis Report
Irwin, 2016, Nucleotide polymorphism affecting FLC expression underpins heading date variation in horticultural brassicas, Plant J., 87, 597, 10.1111/tpj.13221
Jones, 2001
Kemi, 2013, Role of vernalization and of duplicated FLOWERING LOCUS C in the perennial Arabidopsis lyrata, New Phytol., 197, 323, 10.1111/j.1469-8137.2012.04378.x
Kiefer, 2017, Divergence of annual and perennial species in the Brassicaceae and the contribution of cis-acting variation at FLC orthologues, Mol. Ecol., 26, 3437, 10.1111/mec.14084
Kim, 2017, The binding specificity of the PHD-finger domain of VIN3 moderates vernalization response, Plant Physiol., 173, 1258, 10.1104/pp.16.01320
Kim, 2010, Vernalization-mediated VIN3 induction overcomes the LIKE-HETEROCHROMATIN PROTEIN1/POLYCOMB REPRESSION COMPLEX2-mediated epigenetic repression, Plant Physiol., 154, 949, 10.1104/pp.110.161083
Kinmonth-Schultz, 2018, Mechanistic model of temperature influence on flowering through whole-plant accumulation of FT, BioRxiv
Kudoh, 2016, Molecular phenology in plants: in natura systems biology for the comprehensive understanding of seasonal responses under natural environments, New Phytol., 210, 399, 10.1111/nph.13733
Lee, 1995, Effect of vernalization, photoperiod, and light quality on the flowering phenotype of Arabidopsis Plants containing the FRIGIDA gene, Plant Physiol., 108, 157, 10.1104/pp.108.1.157
Lee, 2015, A methyltransferase required for proper timing of the vernalization response in Arabidopsis, Proc. Natl. Acad. Sci. USA, 112, 2269, 10.1073/pnas.1423585112
Linkert, 2010, Metadata matters: access to image data in the real world, J. Cell Biol., 189, 777, 10.1083/jcb.201004104
Locke, 2006, Experimental validation of a predicted feedback loop in the multi-oscillator clock of Arabidopsis thaliana, Mol. Syst. Biol., 2, 59, 10.1038/msb4100102
MacGregor, 2013, HIGH EXPRESSION OF OSMOTICALLY RESPONSIVE GENES1 Is Required for Circadian Periodicity through the Promotion of Nucleo-Cytoplasmic mRNA Export in Arabidopsis, Plant Cell, 25, 4391, 10.1105/tpc.113.114959
Michaels, 1999, FLOWERING LOCUS C encodes a novel MADS domain protein that acts as a repressor of flowering, Plant Cell, 11, 949, 10.1105/tpc.11.5.949
Nagel, 2015, Genome-wide identification of CCA1 targets uncovers an expanded clock network in Arabidopsis, Proc. Natl. Acad. Sci. USA, 112, E4802, 10.1073/pnas.1513609112
Napp-Zinn, 1957, Untersuchungen über das Vernalisationsverhalten einer winterannuellen Rasse von Arabidopsis thaliana, Planta, 50, 177, 10.1007/BF01930342
Qüesta, 2016, Arabidopsis transcriptional repressor VAL1 triggers Polycomb silencing at FLC during vernalization, Science, 353, 485, 10.1126/science.aaf7354
Quint, 2016, Molecular and genetic control of plant thermomorphogenesis, Nat. Plants, 2, 15190, 10.1038/nplants.2015.190
Rosa, 2016, Mutually exclusive sense–antisense transcription at FLC facilitates environmentally induced gene repression, Nat. Commun., 7, 13031, 10.1038/ncomms13031
Ruijter, 2009, Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data, Nucleic Acids Res., 37, e45, 10.1093/nar/gkp045
Sanchez, 2016, The plant circadian clock: From a simple timekeeper to a complex developmental manager, Cold Spring Harb. Perspect. Biol., 8, a027748, 10.1101/cshperspect.a027748
Satake, 2013, Forecasting flowering phenology under climate warming by modelling the regulatory dynamics of flowering-time genes, Nat. Commun., 4, 2303, 10.1038/ncomms3303
Schneider, 2012, NIH Image to ImageJ: 25 years of image analysis, Nat. Methods, 9, 671, 10.1038/nmeth.2089
Shampine, 1997, The MATLAB ODE suite. SIAM J, Sci. Comput., 18, 1
Sheldon, 1999, The FLF MADS box gene: a repressor of flowering in Arabidopsis regulated by vernalization and methylation, Plant Cell, 11, 445, 10.1105/tpc.11.3.445
Shrestha, 2014, Molecular control of seasonal flowering in rice, Arabidopsis and temperate cereals, Ann. Bot., 114, 1445, 10.1093/aob/mcu032
Sidaway-Lee, 2010, SPATULA links daytime temperature and plant growth rate, Curr. Biol., 20, 1493, 10.1016/j.cub.2010.07.028
Sung, 2004, Vernalization in Arabidopsis thaliana is mediated by the PHD finger protein VIN3, Nature, 427, 159, 10.1038/nature02195
Swiezewski, 2009, Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target, Nature, 462, 799, 10.1038/nature08618
Topham, 2017, Temperature variability is integrated by a spatially embedded decision-making center to break dormancy in Arabidopsis seeds, Proc. Natl. Acad. Sci. USA, 114, 6629, 10.1073/pnas.1704745114
Wales, 1997, Global optimization by basin-hopping and the lowest energy structures of Lennard-Jones clusters containing up to 110 atoms, J. Phys. Chem. A, 101, 5111, 10.1021/jp970984n
Wang, 2002, Development of a generic crop model template in the cropping system model APSIM, Eur. J. Agron, 18, 121, 10.1016/S1161-0301(02)00100-4
Wang, 2017, The uncertainty of crop yield projections is reduced by improved temperature response functions, Nat. Plants, 3, 17102, 10.1038/nplants.2017.102
Wang, 2009, PEP1 regulates perennial flowering in Arabis alpina, Nature, 459, 423, 10.1038/nature07988
Weir, 1984, A winter wheat crop simulation model without water or nutrient limitations, J. Agric. Sci., 102, 371, 10.1017/S0021859600042702
Wigge, 2013, Ambient temperature signalling in plants, Curr. Opin. Plant Biol., 16, 661, 10.1016/j.pbi.2013.08.004
Wilczek, 2009, Effects of genetic perturbation on seasonal life history plasticity, Science, 323, 930, 10.1126/science.1165826
Wollenberg, 2012, Natural variation in the temperature range permissive for vernalization in accessions of Arabidopsis thaliana, Plant Cell Environ., 35, 2181, 10.1111/j.1365-3040.2012.02548.x