References

Alonso, C., Medrano, M., Pérez, R., Bazaga, P., & Herrera, C. M. (2017). Tissue-specific response to experimental demethylation at seed germination in the non-model herb Erodium cicutarium. Epigenomes, 1(3), 16.

Alonso, C., Medrano, M., Pérez, R., Canto, A., Parra‐Tabla, V., & Herrera, C. M. (2019). Interspecific variation across angiosperms in global DNA methylation: phylogeny, ecology and plant features in tropical and Mediterranean communities. New Phytologist, 224(2), 949-960.

Alonso, C., Ramos‐Cruz, D., & Becker, C. (2019). The role of plant epigenetics in biotic interactions. New Phytologist, 221(2), 731-737.

Balao, F., Paun, O., & Alonso, C. (2018). Uncovering the contribution of epigenetics to plant phenotypic variation in Mediterranean ecosystems. Plant Biology, 20, 38-49.

Baldwin, I. T. (1998). Jasmonate-induced responses are costly but benefit plants under attack in native populations. Proceedings of the National Academy of Sciences, 95(14), 8113-8118. ‌

Bej, S., & Basak, J. (2017). Abiotic stress induced epigenetic modifications in plants: How much do we know? In Plant epigenetics (pp. 493-512). Springer, Cham.

Berr, A., McCallum, E. J., Alioua, A., Heintz, D., Heitz, T., & Shen, W. H. (2010). Arabidopsis histone methyltransferase SET DOMAIN GROUP8 mediates induction of the jasmonate/ethylene pathway genes in plant defense response to necrotrophic fungi. Plant physiology, 154(3), 1403-1414.

Bian, X. Y., Rasheed, M. S., Seemanpillai, M. J., & Rezaian, M. A. (2006). Analysis of silencing escape of tomato leaf curl virus: an evaluation of the role of DNA methylation. Molecular plant-microbe interactions, 19(6), 614-624.

Bossdorf, O., Richards, C. L., & Pigliucci, M. (2008). Epigenetics for ecologists. Ecology letters, 11(2), 106-115.

Boyko, A., & Kovalchuk, I. (2008). Epigenetic control of plant stress response. Environmental and molecular mutagenesis, 49(1), 61-72.

Boyko, A., & Kovalchuk, I. (2010). Transgenerational response to stress in Arabidopsis thaliana. Plant signaling & behavior, 5(8), 995-998.

‌Boyko, A., Kathiria, P., Zemp, F. J., Yao, Y., Pogribny, I., & Kovalchuk, I. (2007). Transgenerational changes in the genome stability and methylation in pathogen-infected plants: (Virus-induced plant genome instability). Nucleic acids research, 35(5), 1714-1725.

‌Brown, J. K. M., & Rant, J. C. (2013). Fitness costs and trade‐offs of disease resistance and their consequences for breeding arable crops. Plant Pathology, 62, 83-95.

Bruce, T. J., Matthes, M. C., Napier, J. A., & Pickett, J. A. (2007). Stressful “memories” of plants: evidence and possible mechanisms. Plant science, 173(6), 603-608.

‌Chen, Z., Zhang, H., Jablonowski, D., Zhou, X., Ren, X., Hong, X., ... & Gong, Z. (2006). Mutations in ABO1/ELO2, a subunit of holo-Elongator, increase abscisic acid sensitivity and drought tolerance in Arabidopsis thaliana. Molecular and cellular biology, 26(18), 6902-6912.

Choi, C. S., & Sano, H. (2007). Abiotic-stress induces demethylation and transcriptional activation of a gene encoding a glycerophosphodiesterase-like protein in tobacco plants. Molecular Genetics and Genomics, 277(5), 589-600.

Choi, S. M., Song, H. R., Han, S. K., Han, M., Kim, C. Y., Park, J., ... & Noh, B. (2012). HDA19 is required for the repression of salicylic acid biosynthesis and salicylic acid‐mediated defense responses in Arabidopsis. The Plant Journal, 71(1), 135-146.

Correia, B., Valledor, L., Meijon, M., Rodriguez, J. L., Dias, M. C., Santos, C., ... & Pinto, G. (2013). Is the interplay between epigenetic markers related to the acclimation of cork oak plants to high temperatures?. PLoS One, 8(1), e53543.

Ding, Y., Shi, Y., & Yang, S. (2019). Advances and challenges in uncovering cold tolerance regulatory mechanisms in plants. New Phytologist, 222(4), 1690-1704.

Dowen, R. H., Pelizzola, M., Schmitz, R. J., Lister, R., Dowen, J. M., Nery, J. R., ... & Ecker, J. R. (2012). Widespread dynamic DNA methylation in response to biotic stress. Proceedings of the National Academy of Sciences, 109(32), E2183-E2191.

Durrant, W. E., Wang, S., & Dong, X. (2007). Arabidopsis SNI1 and RAD51D regulate both gene transcription and DNA recombination during the defense response. Proceedings of the National Academy of Sciences, 104(10), 4223-4227.

Gao, G., Li, J., Li, H., Li, F., Xu, K., Yan, G., ... & Wu, X. (2014). Comparison of the heat stress induced variations in DNA methylation between heat-tolerant and heat-sensitive rapeseed seedlings. Breeding science, 64(2), 125-133.

Gong, B., & Zhang, G. (2014). Interactions between plants and herbivores: a review of plant defense. Acta Ecologica Sinica, 34(6), 325-336.

Grativol, C., Hemerly, A. S., & Ferreira, P. C. G. (2012). Genetic and epigenetic regulation of stress responses in natural plant populations. Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms, 1819(2), 176-185.

Hashida, S. N., Uchiyama, T., Martin, C., Kishima, Y., Sano, Y., & Mikami, T. (2006). The temperature-dependent change in methylation of the Antirrhinum transposon Tam3 is controlled by the activity of its transposase. The Plant Cell, 18(1), 104-118.

Herman, J. J., & Sultan, S. E. (2011). Adaptive transgenerational plasticity in plants: case studies, mechanisms, and implications for natural populations. Frontiers in plant science, 2, 102.

Herman, J. J., Spencer, H. G., Donohue, K., & Sultan, S. E. (2014). How stable ‘should’epigenetic modifications be? Insights from adaptive plasticity and bet hedging. Evolution, 68(3), 632-643.

Herrera, C. M., & Bazaga, P. (2011). Untangling individual variation in natural populations: ecological, genetic and epigenetic correlates of long‐term inequality in herbivory. Molecular ecology, 20(8), 1675-1688.

Herrera, C. M., Medrano, M., & Bazaga, P. (2016). Comparative spatial genetics and epigenetics of plant populations: heuristic value and a proof of concept. Molecular Ecology, 25(8), 1653-1664.

‌Holeski, L. M. (2007). Within and between generation phenotypic plasticity in trichome density of Mimulus guttatus. Journal of evolutionary biology, 20(6), 2092-2100.

Holeski, L. M., Jander, G., & Agrawal, A. A. (2012). Transgenerational defense induction and epigenetic inheritance in plants. Trends in ecology & evolution, 27(11), 618-626.

Huang, S., Zhang, A., Jin, J. B., Zhao, B., Wang, T. J., Wu, Y., ... & Xu, Z. Y. (2019). Arabidopsis histone H3K4 demethylase JMJ 17 functions in dehydration stress response. New Phytologist, 223(3), 1372-1387.

Huang, S., Zhang, A., Jin, J. B., Zhao, B., Wang, T. J., Wu, Y., ... & Xu, Z. Y. (2019). Arabidopsis histone H3K4 demethylase JMJ 17 functions in dehydration stress response. New Phytologist, 223(3), 1372-1387.

Jablonka, E., & Raz, G. (2009). Transgenerational epigenetic inheritance: prevalence, mechanisms, and implications for the study of heredity and evolution. The Quarterly review of biology, 84(2), 131-176.

Kanazawa, A., Inaba, J. I., Shimura, H., Otagaki, S., Tsukahara, S., Matsuzawa, A., ... & Masuta, C. (2011). Virus‐mediated efficient induction of epigenetic modifications of endogenous genes with phenotypic changes in plants. The Plant Journal, 65(1), 156-168.

Karban, R., Agrawal, A. A., Thaler, J. S., & Adler, L. S. (1999). Induced plant responses and information content about risk of herbivory. Trends in Ecology & Evolution, 14(11), 443-447.

‌Kim, J. M., Sasaki, T., Ueda, M., Sako, K., & Seki, M. (2015). Chromatin changes in response to drought, salinity, heat, and cold stresses in plants. Frontiers in plant science, 6, 114.

Kim, S. Y., Zhu, T., & Sung, Z. R. (2010). Epigenetic regulation of gene programs by EMF1 and EMF2 in Arabidopsis. Plant Physiology, 152(2), 516-528.

Kovar˘ik, A., Koukalová, B., Bezde˘k, M. et al. (1997). Hypermethylation of tobacco heterochromatic loci in response to osmotic stress. Theor Appl Genet 95, 301–306.

Kranner, I., Minibayeva, F. V., Beckett, R. P., & Seal, C. E. (2010). What is stress? Concepts, definitions and applications in seed science. New Phytologist, 188(3), 655-673.

Kreutz, C., Can, N. S., Bruening, R. S., Meyberg, R., Mérai, Z., Fernandez-Pozo, N., & Rensing, S. A. (2020). A blind and independent benchmark study for detecting differentially methylated regions in plants. Bioinformatics, 36(11), 3314-3321

‌‌Lämke, J., & Bäurle, I. (2017). Epigenetic and chromatin-based mechanisms in environmental stress adaptation and stress memory in plants. Genome biology, 18(1), 1-11.

‌‌Lampei, C. (2019). Multiple simultaneous treatments change plant response from adaptive parental effects to within‐generation plasticity, in Arabidopsis thaliana. Oikos, 128(3), 368-379.

Lampei, C., Metz, J., & Tielbörger, K. (2017). Clinal population divergence in an adaptive parental environmental effect that adjusts seed banking. New Phytologist, 214(3), 1230-1244

Li, S., Castillo‐González, C., Yu, B., & Zhang, X. (2017). The functions of plant small RNA s in development and in stress responses. The Plant Journal, 90(4), 654-670.

Luna, E., Bruce, T. J., Roberts, M. R., Flors, V., & Ton, J. (2012). Next-generation systemic acquired resistance. Plant physiology, 158(2), 844-853.

Mauch-Mani, B., Baccelli, I., Luna, E., & Flors, V. (2017). Defense priming: an adaptive part of induced resistance. Annual review of plant biology, 68, 485-512.

Mosa, K. A., Ismail, A., & Helmy, M. (2017). Introduction to plant stresses. In Plant stress tolerance (pp. 1-19). Springer, Cham.

‌Niederhuth, C. E., & Schmitz, R. J. (2017). Putting DNA methylation in context: from genomes to gene expression in plants. Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms, 1860(1), 149-156.

Rasmann, S., De Vos, M., Casteel, C. L., Tian, D., Halitschke, R., Sun, J. Y., ... & Jander, G. (2012). Herbivory in the previous generation primes plants for enhanced insect resistance. Plant physiology, 158(2), 854-863.

‌Reed, T. E. et al. (2010). Phenotypic plasticity and population viability: the importance of environmental predictability. Proc. R. Soc. B 277: 3391–400.

‌Richards, C. L., Alonso, C., Becker, C., Bossdorf, O., Bucher, E., Colomé‐Tatché, M., ... & Verhoeven, K. J. (2017). Ecological plant epigenetics: Evidence from model and non‐model species, and the way forward. Ecology letters, 20(12), 1576-1590.

Richards, C. L., Bossdorf, O., & Verhoeven, K. J. (2010). Understanding natural epigenetic variation. New Phytologist, 187(3), 562-564.

‌Schulz, B., Eckstein, R. L., & Durka, W. (2014). Epigenetic variation reflects dynamic habitat conditions in a rare floodplain herb. Molecular ecology, 23(14), 3523-3537.

Shen, Y., Conde e Silva, N., Audonnet, L., Servet, C., Wei, W., & Zhou, D. X. (2014). Over-expression of histone H3K4 demethylase gene JMJ15 enhances salt tolerance in Arabidopsis. Frontiers in plant science, 5, 290.

Slaughter, A., Daniel, X., Flors, V., Luna, E., Hohn, B., & Mauch-Mani, B. (2012). Descendants of primed Arabidopsis plants exhibit resistance to biotic stress. Plant physiology, 158(2), 835-843.

‌Song, Y., Liu, L., Feng, Y., Wei, Y., Yue, X., He, W., ... & An, L. (2015). Chilling-and freezing-induced alterations in cytosine methylation and its association with the cold tolerance of an alpine subnival plant, Chorispora bungeana. PLoS One, 10(8), e0135485.

Steward, N., Ito, M., Yamaguchi, Y., Koizumi, N., & Sano, H. (2002). Periodic DNA methylation in maize nucleosomes and demethylation by environmental stress. Journal of Biological Chemistry, 277(40), 37741-37746.

Steward, N., Ito, M., Yamaguchi, Y., Koizumi, N., & Sano, H. (2002). Periodic DNA methylation in maize nucleosomes and demethylation by environmental stress. Journal of Biological Chemistry, 277(40), 37741-37746.

Steward, N., Kusano, T., & Sano, H. (2000). Expression of ZmMET1, a gene encoding a DNA methyltransferase from maize, is associated not only with DNA replication in actively proliferating cells, but also with altered DNA methylation status in cold-stressed quiescent cells. Nucleic acids research, 28(17), 3250-3259.

Stockinger, E. J., Mao, Y., Regier, M. K., Triezenberg, S. J., & Thomashow, M. F. (2001). Transcriptional adaptor and histone acetyltransferase proteins in Arabidopsis and their interactions with CBF1, a transcriptional activator involved in cold-regulated gene expression. Nucleic acids research, 29(7), 1524-1533.

Sunkar, R., & Zhu, J. K. (2004). Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis. The Plant Cell, 16(8), 2001-2019.

Sunkar, R., Chinnusamy, V., Zhu, J., & Zhu, J. K. (2007). Small RNAs as big players in plant abiotic stress responses and nutrient deprivation. Trends in plant science, 12(7), 301-309.

‌Thiebaut, F., Hemerly, A. S., & Ferreira, P. C. G. (2019). A role for epigenetic regulation in the adaptation and stress responses of non-model plants. Frontiers in Plant Science, 10, 246.

Verhoeven, K. J., & van Gurp, T. P. (2012). Transgenerational effects of stress exposure on offspring phenotypes in apomictic dandelion. PloS one, 7(6), e38605.

Verhoeven, K. J., Jansen, J. J., Van Dijk, P. J., & Biere, A. (2010). Stress‐induced DNA methylation changes and their heritability in asexual dandelions. New Phytologist, 185(4), 1108-1118.

Vlachonasios, K. E., Thomashow, M. F., & Triezenberg, S. J. (2003). Disruption mutations of ADA2b and GCN5 transcriptional adaptor genes dramatically affect Arabidopsis growth, development, and gene expression. The Plant Cell, 15(3), 626-638.

Wada, Y., Miyamoto, K., Kusano, T., & Sano, H. (2004). Association between up-regulation of stress-responsive genes and hypomethylation of genomic DNA in tobacco plants. Molecular Genetics and Genomics, 271(6), 658-666.

Walter, J., Jentsch, A., Beierkuhnlein, C., & Kreyling, J. (2013). Ecological stress memory and cross stress tolerance in plants in the face of climate extremes. Environmental and Experimental Botany, 94, 3-8.

‌‌Yaish, M. W. (2013). DNA methylation-associated epigenetic changes in stress tolerance of plants. In Molecular stress physiology of plants (pp. 427-440). Springer, India.

‌Yang, Y., & Guo, Y. (2018). Elucidating the molecular mechanisms mediating plant salt‐stress responses. New Phytologist, 217(2), 523-539.

‌Yin, J., Zhou, M., Lin, Z., Li, Q. Q., & Zhang, Y. Y. (2019). Transgenerational effects benefit offspring across diverse environments: A meta‐analysis in plants and animals. Ecology Letters, 22(11), 1976-1986.

Yu, A., Lepère, G., Jay, F., Wang, J., Bapaume, L., Wang, Y., ... & Navarro, L. (2013). Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense. Proceedings of the National Academy of Sciences, 110(6), 2389-2394.

Zhang, Z., Zhang, S., Zhang, Y., Wang, X., Li, D., Li, Q., ... & Bao, S. (2011). Arabidopsis floral initiator SKB1 confers high salt tolerance by regulating transcription and pre-mRNA splicing through altering histone H4R3 and small nuclear ribonucleoprotein LSM4 methylation. The Plant Cell, 23(1), 396-411.