Translational Components Contribute to Acclimation Responses to High Light, Heat, and Cold in Arabidopsis

iScience - Tập 23 - Trang 101331 - 2020
Antoni Garcia-Molina1, Tatjana Kleine1, Kevin Schneider2, Timo Mühlhaus2, Martin Lehmann1, Dario Leister1
1Plant Molecular Biology, Faculty of Biology, Ludwig-Maximilians-University Munich, Großhadernerstraße 2-4, 82152 Planegg-Martinsried, Germany
2Computational Systems Biology, TU Kaiserslautern, Paul-Ehrlich-Straße 23, 67663 Kaiserslautern, Germany

Tài liệu tham khảo

Amme, 2006, Proteome analysis of cold stress response in Arabidopsis thaliana using DIGE-technology, J. Exp. Bot., 57, 1537, 10.1093/jxb/erj129

Anjum, 2015, Plant acclimation to environmental stress: a critical appraisal, Front. Plant Sci., 6, 445, 10.3389/fpls.2015.00445

Ashraf, 2012, Crop improvement through different means: challenges and prospects, 1

Barakat, 2001, The organization of cytoplasmic ribosomal protein genes in the Arabidopsis genome, Plant Physiol., 127, 398, 10.1104/pp.010265

Beine-Golovchuk, 2018, Plant temperature acclimation and growth rely on cytosolic ribosome biogenesis factor homologs, Plant Physiol., 176, 2251, 10.1104/pp.17.01448

Buchanan, 2000

Byun, 2014, Comparative analysis of gene expression under cold acclimation, deacclimation and reacclimation in Arabidopsis, Physiol. Plant, 152, 256, 10.1111/ppl.12163

Caldana, 2011, High-density kinetic analysis of the metabolomic and transcriptomic response of Arabidopsis to eight environmental conditions, Plant J., 67, 869, 10.1111/j.1365-313X.2011.04640.x

Carrera, 2017, Comparative proteomic analysis of plant acclimation to six different long-term environmental changes, Plant Cell Physiol., 59, 510, 10.1093/pcp/pcx206

Carroll, 2008, Analysis of the Arabidopsis cytosolic ribosome proteome provides detailed insights into its components and their post-translational modification, Mol. Cell Proteomics, 7, 347, 10.1074/mcp.M700052-MCP200

Carvalho, 2015, Quantifying the dynamics of light tolerance in Arabidopsis plants during ontogenesis, Plant Cell Environ., 38, 2603, 10.1111/pce.12574

Cerny, 2014, Cytokinin modulates proteomic, transcriptomic and growth responses to temperature shocks in Arabidopsis, Plant Cell Environ., 37, 1641, 10.1111/pce.12270

Crawford, 2012, High temperature exposure increases plant cooling capacity, Curr. Biol., 22, R396, 10.1016/j.cub.2012.03.044

Crisp, 2017, Rapid recovery gene downregulation during excess-light stress and recovery in Arabidopsis, Plant Cell, 29, 1836, 10.1105/tpc.16.00828

Dyson, 2015, Acclimation of metabolism to light in Arabidopsis thaliana: the glucose 6-phosphate/phosphate translocator GPT2 directs metabolic acclimation, Plant Cell Environ., 38, 1404, 10.1111/pce.12495

Dyson, 2016, FUM2, a cytosolic fumarase, is essential for acclimation to low temperature in Arabidopsis thaliana, Plant Physiol., 172, 118, 10.1104/pp.16.00852

Espinoza, 2010, Interaction with diurnal and circadian regulation results in dynamic metabolic and transcriptional changes during cold acclimation in Arabidopsis, PLoS One, 5, e14101, 10.1371/journal.pone.0014101

Ezer, 2017, The G-Box transcriptional regulatory code in Arabidopsis, Plant Physiol., 175, 628, 10.1104/pp.17.01086

Fowler, 2002, Arabidopsis transcriptome profiling indicates that multiple regulatory pathways are activated during cold acclimation in addition to the CBF cold response pathway, Plant Cell, 14, 1675, 10.1105/tpc.003483

Foyer, 2009, Photorespiratory metabolism: genes, mutants, energetics, and redox signaling, Annu. Rev. Plant Biol., 60, 455, 10.1146/annurev.arplant.043008.091948

Garcia-Molina, 2020, Accelerated relaxation of photoprotection impairs biomass accumulation in Arabidopsis, Nat. Plants, 6, 9, 10.1038/s41477-019-0572-z

Gross, 2013, Free energy rhythms in Saccharomyces cerevisiae: a dynamic perspective with implications for ribosomal biogenesis, Biochemistry, 52, 1641, 10.1021/bi3016982

Grotewold, 2006, The genetics and biochemistry of floral pigments, Annu. Rev. Plant Biol., 57, 761, 10.1146/annurev.arplant.57.032905.105248

Guo, 2002, An Arabidopsis mutation in translation elongation factor 2 causes superinduction of CBF/DREB1 transcription factor genes but blocks the induction of their downstream targets under low temperatures, Proc. Natl. Acad. Sci. U S A, 99, 7786, 10.1073/pnas.112040099

Guy, 1990, Cold acclimation and freezing stress tolerance: role of protein metabolism, Annu. Rev. Plant Physiol. Plant Mol. Biol., 41, 187, 10.1146/annurev.pp.41.060190.001155

Hannah, 2005, A global survey of gene regulation during cold acclimation in Arabidopsis thaliana, PLoS Genet., 1, e26, 10.1371/journal.pgen.0010026

Hannah, 2006, Natural genetic variation of freezing tolerance in Arabidopsis, Plant Physiol., 142, 98, 10.1104/pp.106.081141

Higashi, 2015, Landscape of the lipidome and transcriptome under heat stress in Arabidopsis thaliana, Sci. Rep., 5, 10533, 10.1038/srep10533

Hoermiller, 2017, Subcellular reprogramming of metabolism during cold acclimation in Arabidopsis thaliana, Plant Cell Environ., 40, 602, 10.1111/pce.12836

Huang, 2016, The DEAD-box RNA helicase AtRH7/PRH75 participates in pre-rRNA processing, plant development and cold tolerance in Arabidopsis, Plant Cell Physiol., 57, 174, 10.1093/pcp/pcv188

Huang, 2019, The Arabidopsis transcriptome responds specifically and dynamically to high light stress, Cell Rep., 29, 4186, 10.1016/j.celrep.2019.11.051

Juszczak, 2016, Natural variation of cold deacclimation correlates with variation of cold-acclimation of the plastid antioxidant system in Arabidopsis thaliana accessions, Front. Plant Sci., 7, 305, 10.3389/fpls.2016.00305

Kaplan, 2004, Exploring the temperature-stress metabolome of Arabidopsis, Plant Physiol., 136, 4159, 10.1104/pp.104.052142

Kaplan, 2007, Transcript and metabolite profiling during cold acclimation of Arabidopsis reveals an intricate relationship of cold-regulated gene expression with modifications in metabolite content, Plant J., 50, 967, 10.1111/j.1365-313X.2007.03100.x

Karpinski, 2013, Light acclimation, retrograde signalling, cell death and immune defences in plants, Plant Cell Environ., 36, 736, 10.1111/pce.12018

Kim, 2004, Molecular cloning of low-temperature-inducible ribosomal proteins from soybean, J. Exp. Bot., 55, 1153, 10.1093/jxb/erh125

Kravchenko-Balasha, 2012, On a fundamental structure of gene networks in living cells, Proc. Natl. Acad. Sci. U S A, 109, 4702, 10.1073/pnas.1200790109

Kromdijk, 2016, Improving photosynthesis and crop productivity by accelerating recovery from photoprotection, Science, 354, 857, 10.1126/science.aai8878

Kupsch, 2012, Arabidopsis chloroplast RNA binding proteins CP31A and CP29A associate with large transcript pools and confer cold stress tolerance by influencing multiple chloroplast RNA processing steps, Plant Cell, 24, 4266, 10.1105/tpc.112.103002

Larkindale, 2005, Heat stress phenotypes of Arabidopsis mutants implicate multiple signaling pathways in the acquisition of thermotolerance, Plant Physiol., 138, 882, 10.1104/pp.105.062257

Larkindale, 2008, Core genome responses involved in acclimation to high temperature, Plant Physiol., 146, 748, 10.1104/pp.107.112060

Levine, 1978, Information theory approach to molecular reaction dynamics, Ann. Rev. Phys. Chem., 29, 59, 10.1146/annurev.pc.29.100178.000423

Levine, 1980, An information theoretical approach to inversion problems, J. Phys. A Math. Gen., 13, 91, 10.1088/0305-4470/13/1/011

Li, 2018, Plastid translation elongation factor Tu is prone to heat-induced aggregation despite its critical role in plant heat tolerance, Plant Physiol., 176, 3027, 10.1104/pp.17.01672

Linhart, 2008, Transcription factor and microRNA motif discovery: the Amadeus platform and a compendium of metazoan target sets, Genome Res., 18, 1180, 10.1101/gr.076117.108

Lobell, 2012, The influence of climate change on global crop productivity, Plant Physiol., 160, 1686, 10.1104/pp.112.208298

Lokdarshi, 2020, Light activates the translational regulatory kinase GCN2 via reactive oxygen species emanating from the chloroplast, Plant Cell, 32, 1161, 10.1105/tpc.19.00751

Marino, 2019, Relationship of GUN1 to FUG1 in chloroplast protein homeostasis, Plant J., 99, 521, 10.1111/tpj.14342

Moin, 2016, Rice ribosomal protein large subunit genes and their spatio-temporal and stress regulation, Front. Plant Sci., 7, 1284, 10.3389/fpls.2016.01284

Mueller, 2015, Accumulation of extra-chloroplastic triacylglycerols in Arabidopsis seedlings during heat acclimation, J. Exp. Bot., 66, 4517, 10.1093/jxb/erv226

Nägele, 2013, Approximating subcellular organisation of carbohydrate metabolism during cold acclimation in different natural accessions of Arabidopsis thaliana, New Phytol., 198, 777, 10.1111/nph.12201

Nakaminami, 2014, Analysis of differential expression patterns of mRNA and protein during cold-acclimation and de-acclimation in Arabidopsis, Mol. Cell Proteomics, 13, 3602, 10.1074/mcp.M114.039081

Nishizawa, 2008, Galactinol and raffinose constitute a novel function to protect plants from oxidative damage, Plant Physiol., 147, 1251, 10.1104/pp.108.122465

Noctor, 2011, Glutathione, Arabidopsis Book, 9, e0142, 10.1199/tab.0142

Paieri, 2018, The DEAD-box RNA helicase RH50 is a 23S-4.5S rRNA maturation factor that functionally overlaps with the plastid signaling factor GUN1, Plant Physiol., 176, 634, 10.1104/pp.17.01545

Panikulangara, 2004, Galactinol synthase1. A novel heat shock factor target gene responsible for heat-induced synthesis of raffinose family oligosaccharides in Arabidopsis, Plant Physiol., 136, 3148, 10.1104/pp.104.042606

Park, 2015, Heat shock proteins: a review of the molecular chaperones for plant immunity, Plant Pathol. J., 31, 323, 10.5423/PPJ.RW.08.2015.0150

Patzke, 2019, The plastidic sugar transporter pSuT influences flowering and affects cold responses, Plant Physiol., 179, 569, 10.1104/pp.18.01036

Pfister, 2019, Emerging role of the nucleolar stress response in autophagy, Front. Cell Neurosci., 13, 156, 10.3389/fncel.2019.00156

Pinnola, 2018, Molecular mechanisms involved in plant photoprotection, Biochem. Soc. Trans., 46, 467, 10.1042/BST20170307

Pulido, 2018, CHLOROPLAST RIBOSOME ASSOCIATED supports translation under stress and interacts with the ribosomal 30S subunit, Plant Physiol., 177, 1539, 10.1104/pp.18.00602

Reiter, 2020, The Arabidopsis protein CGL20 is required for plastid 50S ribosome biogenesis, Plant Physiol., 182, 1222, 10.1104/pp.19.01502

Remacle, 2010, Information-theoretic analysis of phenotype changes in early stages of carcinogenesis, Proc. Natl. Acad. Sci. U S A, 107, 10324, 10.1073/pnas.1005283107

Rocco, 2013, Proteomic analysis of temperature stress-responsive proteins in Arabidopsis thaliana rosette leaves, Mol. Biosyst., 9, 1257, 10.1039/c3mb70137a

Rogalski, 2008, Rpl33, a nonessential plastid-encoded ribosomal protein in tobacco, is required under cold stress conditions, Plant Cell, 20, 2221, 10.1105/tpc.108.060392

Rossel, 2002, Global changes in gene expression in response to high light in Arabidopsis, Plant Physiol., 130, 1109, 10.1104/pp.005595

Ruban, 2016, Nonphotochemical chlorophyll fluorescence quenching: mechanism and effectiveness in protecting plants from photodamage, Plant Physiol., 170, 1903, 10.1104/pp.15.01935

Saez-Vasquez, 2000, Accumulation and nuclear targeting of BnC24, a Brassica napus ribosomal protein corresponding to a mRNA accumulating in response to cold treatment, Plant Sci., 156, 35, 10.1016/S0168-9452(00)00229-6

Salih, 2020, Impact of oxidative stress on the function, abundance and turnover of the Arabidopsis 80S cytosolic ribosome, Plant J., 10.1111/tpj.14713

Sanchez-Bermejo, 2015, Genetic architecture of natural variation in thermal responses of Arabidopsis, Plant Physiol., 169, 647, 10.1104/pp.15.00942

Schmitz, 2014, The essential role of sugar metabolism in the acclimation response of Arabidopsis thaliana to high light intensities, J. Exp. Bot., 65, 1619, 10.1093/jxb/eru027

Schulz, 2016, Flavonoids are determinants of freezing tolerance and cold acclimation in Arabidopsis thaliana, Sci. Rep., 6, 34027, 10.1038/srep34027

Schwachtje, 2019, Induced, imprinted, and primed responses to changing environments: does metabolism store and process information?, Front. Plant Sci., 10, 106, 10.3389/fpls.2019.00106

Serrano, 2019, Thermopriming reprograms metabolic homeostasis to confer heat tolerance, Sci. Rep., 9, 181, 10.1038/s41598-018-36484-z

Song, 2017, Metabolite profiling of adh1 mutant response to cold stress in Arabidopsis, Front. Plant Sci., 7, 2072, 10.3389/fpls.2016.02072

Speiser, 2015, The significance of cysteine synthesis for acclimation to high light conditions, Front. Plant Sci., 5, 776, 10.3389/fpls.2014.00776

Suzuki, 2015, Ultra-fast alterations in mRNA levels uncover multiple players in light stress acclimation in plants, Plant J., 84, 760, 10.1111/tpj.13039

Thimm, 2004, MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes, Plant J., 37, 914, 10.1111/j.1365-313X.2004.02016.x

Thomashow, 1998, Role of cold-responsive genes in plant freezing tolerance, Plant Physiol., 118, 1, 10.1104/pp.118.1.1

Vandereyken, 2018, Hub protein controversy: taking a closer look at plant stress response hubs, Front. Plant Sci., 9, 694, 10.3389/fpls.2018.00694

Vogel, 2014, Fast retrograde signaling in response to high light involves metabolite export, MITOGEN-ACTIVATED PROTEIN KINASE6, and AP2/ERF transcription factors in Arabidopsis, Plant Cell, 26, 1151, 10.1105/tpc.113.121061

Vyse, 2019, Deacclimation after cold acclimation—a crucial, but widely neglected part of plant winter survival, J. Exp. Bot., 70, 4595, 10.1093/jxb/erz229

Wang, 2013, Expression changes of ribosomal proteins in phosphate- and iron-deficient Arabidopsis roots predict stress-specific alterations in ribosome composition, BMC Genomics, 14, 783, 10.1186/1471-2164-14-783

Wang, 2015, Efficient test and visualization of multi-set intersections, Sci. Rep., 5, 16923, 10.1038/srep16923

Yamori, 2016, Photosynthetic response to fluctuating environments and photoprotective strategies under abiotic stress, J. Plant Res., 129, 379, 10.1007/s10265-016-0816-1

Yang, 2018, Nucleolar stress: hallmarks, sensing mechanism and diseases, Cell Stress, 2, 125, 10.15698/cst2018.06.139

Yano, 2005, Starch-related α-glucan/water dikinase is involved in the cold-induced development of freezing tolerance in Arabidopsis, Plant Physiol., 138, 837, 10.1104/pp.104.056374

Zandalinas, 2019, Identification and characterization of a core set of ROS wave-associated transcripts involved in the systemic acquired acclimation response of Arabidopsis to excess light, Plant J., 98, 126, 10.1111/tpj.14205

Zhang, 2016, Plastid ribosomal protein S5 is involved in photosynthesis, plant development, and cold stress tolerance in Arabidopsis, J. Exp. Bot., 67, 2731, 10.1093/jxb/erw106

Zhang, 2017, Mutations in eIF5B confer thermosensitive and pleiotropic phenotypes via translation defects in Arabidopsis thaliana, Plant Cell, 29, 1952, 10.1105/tpc.16.00808

Zhao, 2017, MAP kinase cascades regulate the cold response by modulating ICE1 protein stability, Dev. Cell, 43, 618, 10.1016/j.devcel.2017.09.024

Zhao, 2016, Mutational evidence for the critical role of CBF transcription factors in cold acclimation in Arabidopsis, Plant Physiol., 171, 2744, 10.1104/pp.16.00533

Zhou, 2017, LNK1 and LNK2 corepressors interact with the MYB3 transcription factor in phenylpropanoid biosynthesis, Plant Physiol., 174, 1348, 10.1104/pp.17.00160

Zuther, 2015, Time-dependent deacclimation after cold acclimation in Arabidopsis thaliana accessions, Sci. Rep., 5, 12199, 10.1038/srep12199

Zuther, 2019, Molecular signatures associated with increased freezing tolerance due to low temperature memory in Arabidopsis, Plant Cell Environ., 42, 854, 10.1111/pce.13502