RNAi suppression of DNA methylation affects the drought stress response and genome integrity in transgenic poplar

Sow, Mamadou Dia; Gac, Anne-Laure Le; Fichot, Régis; Lanciano, Sophie; Delaunay, Alain; Jan, Isabelle Le; Lesage-Descauses, Marie-Claude; Citerne, Sylvie; Caïus, José; Brunaud, Véronique; Soubigou‐Taconnat, Ludivine; Cochard, Hervé; Segura, Vincent; Chaparro, Cristian; Grunau, Christoph; Daviaud, Christian; Tost, Jörg; Brignolas, Franck; Strauss, Steven H.; Mirouze, Marie; Maury, Stéphane

doi:10.1111/nph.17555

Cited by 46 publications

(40 citation statements)

References 116 publications

(178 reference statements)

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“…Early studies have already shown that chromosomal damage, such as breaks in DNA, DNA methylation, and abnormal gene expression, may accumulate during the process of seed aging, causing the frequency of affected cell damage to surpass a threshold after which seeds lose their germinability [58]. Moreover, although epigenetic modifications can be reset between generations, the transmission of gradually acquired epimutations over generations appears to be higher in plants than in animals [62][63][64][65]. Epigenetic alterations, especially those involving DNA methylation, may contribute to transgenerational epigenetic variation.…”

Section: Discussionmentioning

confidence: 99%

DNA Methylation as an Early Indicator of Aging in Stored Seeds of “Exceptional” Species Populus nigra L.

Michalak

Plitta-Michalak

Naskręt-Barciszewska

et al. 2022

Cells

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Ex situ preservation of genetic resources is an essential strategy for the conservation of plant biodiversity. In this regard, seed storage is the most convenient and efficient way of preserving germplasm for future plant breeding efforts. A better understanding of the molecular changes that occur during seed desiccation and aging is necessary to improve conservation protocols, as well as real-time methods for monitoring seed quality. In the present study, we assessed changes in the level of genomic 5-methylcytosine (5mC) in seeds of Populus nigra L. by 2D-TLC. Epigenetic changes were characterized in response to several seed storage regimes. Our results demonstrate that P. nigra seeds represent an intermediate type of post-harvest behavior, falling between recalcitrant and orthodox seeds. This was also true for the epigenetic response of P. nigra seeds to external factors. A crucial question is whether aging in seeds is initiated by a decline in the level of 5mC, or if epigenetic changes induce a process that leads to deterioration. In our study, we demonstrate for the first time that 5mC levels decrease during storage and that the decline can be detected before any changes in seed germination are evident. Once P. nigra seeds reached an 8–10% reduction in the level of 5mC, a substantial decrease in germination occurred. The decline in the level of 5mC appears to be a critical parameter underlying the rapid deterioration of intermediate seeds. Thus, the measurement of 5mC can be a fast, real-time method for assessing asymptomatic aging in stored seeds.

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Section: Discussionmentioning

confidence: 99%

DNA Methylation as an Early Indicator of Aging in Stored Seeds of “Exceptional” Species Populus nigra L.

Michalak

Plitta-Michalak

Naskręt-Barciszewska

et al. 2022

Cells

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“…For example, knockdown of miR393 promoted growth and biomass production in poplar, which was verified in STTM393 transgenic poplar lines [ 88 ]. RNAi suppression of DNA methylation affected the drought stress response and genome integrity in transgenic poplar [ 89 ]. Additionally, expression of artificial microRNAs (amiRNAs) in plants using virus- and non-virus-based expression vectors achieved RNAi effects on specific transcripts [ 90 ].…”

Section: Discussion and Perspectivesmentioning

confidence: 99%

The Intersection of Non-Coding RNAs Contributes to Forest Trees’ Response to Abiotic Stress

Xiao

Chen

Yang

et al. 2022

IJMS

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Non-coding RNAs (ncRNAs) play essential roles in plants by modulating the expression of genes at the transcriptional or post-transcriptional level. In recent years, ncRNAs have been recognized as crucial regulators for growth and development in forest trees, and ncRNAs that respond to various abiotic stresses are now under intense study. In this review, we summarized recent advances in the understanding of abiotic stress-responsive microRNAs (miRNAs), long non-coding RNAs (lncRNAs), and circular RNAs (circRNAs) in forest trees. Furthermore, we analyzed the intersection of miRNAs, and epigenetic modified ncRNAs of forest trees in response to abiotic stress. In particular, the abiotic stress-related lncRNA/circRNA–miRNA–mRNA regulatory network of forest trees was explored.

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“…Nonetheless, its role in plant stress tolerance was recently proposed. The DDM1-deficient line in poplar trees was shown to have improved drought tolerance accompanied by DNA methylation and transcriptional alterations [15].…”

Section: Discussionmentioning

confidence: 99%

“…Interestingly, a recent publication provides evidence for the role of DDM1 in the response of plants to environmental conditions. RNAi-DDM1 lines of poplar (Populus tremula × Populus alba) were more tolerant to drought-induced cavitation and presented thousands of differentially methylated regions along with transposable elements activation [15]. We aimed to assess the possible involvement of DDM1 in heat stress response in tomato.…”

Section: Introductionmentioning

confidence: 99%

The Tomato ddm1b Mutant Shows Decreased Sensitivity to Heat Stress Accompanied by Transcriptional Alterations

Singh

Miller

Faigenboim

et al. 2021

Genes

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Heat stress is a major environmental factor limiting crop productivity, thus presenting a food security challenge. Various approaches are taken in an effort to develop crop species with enhanced tolerance to heat stress conditions. Since epigenetic mechanisms were shown to play a regulatory role in mediating plants’ responses to their environment, we investigated the role of DNA methylation in response to heat stress in tomato (Solanum lycopersicum), an important vegetable crop. To meet this aim, we tested a DNA methylation-deficient tomato mutant, Slddm1b. In this short communication paper, we report phenotypic and transcriptomic preliminary findings, implying that the tomato ddm1b mutant is significantly less sensitive to heat stress compared with the background tomato line, M82. Under conditions of heat stress, this mutant line presented higher fruit set and seed set rates, as well as a higher survival rate at the seedling stage. On the transcriptional level, we observed differences in the expression of heat stress-related genes, suggesting an altered response of the ddm1b mutant to this stress. Following these preliminary results, further research would shed light on the specific genes that may contribute to the observed thermotolerance of ddm1b and their possibly altered DNA methylation status.

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RNAi suppression of DNA methylation affects the drought stress response and genome integrity in transgenic poplar

Cited by 46 publications

References 116 publications

DNA Methylation as an Early Indicator of Aging in Stored Seeds of “Exceptional” Species Populus nigra L.

DNA Methylation as an Early Indicator of Aging in Stored Seeds of “Exceptional” Species Populus nigra L.

The Intersection of Non-Coding RNAs Contributes to Forest Trees’ Response to Abiotic Stress

The Tomato ddm1b Mutant Shows Decreased Sensitivity to Heat Stress Accompanied by Transcriptional Alterations

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