DNA hypomethylation of the host tree impairs interaction with mutualistic ectomycorrhizal fungus

New Phytologist, Journal Year: 2023, Volume and Issue: 238(6), P. 2561 - 2577

Published: Feb. 20, 2023

Ectomycorrhizas are an intrinsic component of tree nutrition and responses to environmental variations. How epigenetic mechanisms might regulate these mutualistic interactions is unknown. By manipulating the level expression chromatin remodeler DECREASE IN DNA METHYLATION 1 (DDM1) two demethylases DEMETER-LIKE (DML) in Populus tremula × alba lines, we examined how host methylation modulates multiple parameters root colonization with fungus Laccaria bicolor. We compared ectomycorrhizas formed between transgenic wild-type (WT) trees analyzed their methylomes transcriptomes. The poplar lines displaying lower mycorrhiza formation rate corresponded hypomethylated overexpressing DML or RNAi-ddm1 lines. found 86 genes 288 transposable elements (TEs) differentially methylated WT (common both OX-dml RNAi-ddm1) 120 genes/1441 TEs fungal genome suggesting a host-induced remodeling methylome. Hypomethylated displayed 205 expressed (cis trans effects) common 17 being (cis). Our findings suggest central role ability form including not only involved initiation, ethylene jasmonate-mediated pathways, immune response but also terpenoid metabolism.

Language: Английский

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Challenges and Perspectives in the Epigenetics of Climate Change-Induced Forests Decline

Frontiers in Plant Science, Journal Year: 2022, Volume and Issue: 12

Published: Jan. 4, 2022

Forest tree species are highly vulnerable to the effects of climate change. As sessile organisms with long generation times, their adaptation a local changing environment may rely on epigenetic modifications when allele frequencies not able shift fast enough. However, current lack knowledge this field is remarkable, due many challenges that researchers face studying issue. Huge genome sizes, absence reference genomes and annotation, having analyze huge amounts data among these difficulties, which limit ability understand how change drives modifications. In spite challenging framework, some insights relationships change-induced stress epigenomics coming. Advances in DNA sequencing technologies an increasing number studies dealing topic must boost our adaptive capacity environmental conditions. Here, we discuss perspectives epigenetics forests decline, aiming provide general overview state art.

Language: Английский

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Natural and induced epigenetic variation for crop improvement

Current Opinion in Plant Biology, Journal Year: 2022, Volume and Issue: 70, P. 102297 - 102297

Published: Sept. 12, 2022

Language: Английский

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Multi-Omics Techniques in Genetic Studies and Breeding of Forest Plants

Forests, Journal Year: 2023, Volume and Issue: 14(6), P. 1196 - 1196

Published: June 9, 2023

In recent years, the ecological and economic values of forest plants have been gradually recognized worldwide. However, growing global demand for new plant varieties with higher wood production capacity better stress tolerance cannot be satisfied by conventional phenotype-based breeding, marker-assisted selection, genomic selection. past, diverse omics technologies, including genomics, transcriptomics, epigenomics, proteomics, metabolomics, developed rapidly, providing powerful tools precision genetic breeding plants. Genomics lays a solid foundation understanding complex biological regulatory networks, while other technologies provide different perspectives at levels. Multi-omics integration combines becoming tool genome-wide functional element identification in breeding. This review summarizes progress their applications studies on It will breeders an elementary knowledge multi-omics techniques future programs.

Language: Английский

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Spatiotemporal metabolic responses to water deficit stress in distinct leaf cell-types of poplar

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: March 1, 2024

The impact of water-deficit (WD) stress on plant metabolism has been predominantly studied at the whole tissue level. However, tissues are made several distinct cell types with unique and differentiated functions, which limits ‘omics’-based studies to determine only an averaged molecular signature arising from multiple types. Advancements in spatial omics technologies provide opportunity understand mechanisms underlying responses WD cell-type levels. Here, we spatiotemporal metabolic two poplar ( Populus tremula× P. alba ) leaf -palisade vascular cells- using matrix-assisted laser desorption/ionization-mass spectrometry imaging (MALDI-MSI). We identified stress-mediated shifts each type when exposed early prolonged stresses recovery stress. During water-limited conditions, flavonoids phenolic metabolites were exclusively accumulated palisade cells. cells mainly sugars fatty acids during respectively, highlighting functional divergence response By comparing our MALDI-MSI data gas chromatography-mass (GC-MS)-based profile, a few including monosaccharides, hexose phosphates, palmitic acid that showed similar accumulation trend both Overall, this work highlights potential MSI approach complement tissue-based metabolomics techniques provides novel understanding This will help engineer specific pathways cellular level strategic perennial trees like poplars withstand future aberrations environmental conditions increase bioenergy sustainability.

Language: Английский

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A modulatory role of CG methylation on gene expression in soybean implicates its potential utility in breeding

Plant Biotechnology Journal, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 31, 2025

Summary Cytosine methylation (mCG) is an important heritable epigenetic modification, yet its functions remain to be fully defined in crops. This study investigates mCG soybean following the loss‐of‐function mutation of two GmMET1 genes. We generated knockout mutants GmMET1s by CRISPR‐Cas9 and conducted comprehensive methylome transcriptome analyses. Our findings unravel functional redundancy s, with GmMET1b being more critically involved maintaining levels, complete both copies lethal. establish that genome‐wide levels scale aggregated expression . identify a set mCG‐regulated genes whose were quantitatively modulated upstream, body, or downstream mCG. Moreover, we find negatively regulated upstream body are enriched specific biological processes such as jasmonic acid metabolism. Notably, >80% differentially methylated (DMGs) also exist DMGs natural populations. Phenotypically, heterozygous for GmMET1a homozygous knockouts ( +/− −/− ) exhibited early flowering, which was inherited their selfed progeny +/+ otherwise normal growth development. either , slight reduction similar phenotypes compared wild type under conditions, showed enhanced tolerance cold drought stresses. Together, our results underscore highly orchestrated regulatory effects on gene soybean, dictates growth, development stress responses, implicating utility improvement better adaptability higher yield.

Language: Английский

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Climatic and stress memory in trees - and how to study it

Elsevier eBooks, Journal Year: 2025, Volume and Issue: unknown, P. 399 - 418

Published: Jan. 1, 2025

Language: Английский

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Plant gene networks involved in drought stress response and tolerance

Elsevier eBooks, Journal Year: 2025, Volume and Issue: unknown, P. 403 - 426

Published: Jan. 1, 2025

Language: Английский

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Roles for epigenetics in wood formation and stress response intrees–from basic biology to forest management

Frontiers in Epigenetics and Epigenomics, Journal Year: 2025, Volume and Issue: 3

Published: Feb. 27, 2025

Annual model and crop species have been the subject of most epigenetic studies for plants. In contrast to annuals, forest trees persist on natural landscapes experience environmental variation within across seasons, years, decades or even centuries. Most are undomesticated typically grown variable with no irrigation application agricultural chemicals. Forest must thus rely their inherent ability alter growth physiology mitigate effects changing abiotic biotic stressors. Like other plants, mechanisms encoded in genomic DNA sequence that can respond directly stress events such as drought heat. Hypothetically, it would be highly advantageous join these a dynamic “memory” past exposure stress. It is now well established annual plants establish epigenetic-based memory support more rapid robust response future. Here, evidence discussed regulation two fundamental biological processes trees, wood formation response. Wood an ideal trait research responsive conditions includes multiple developmental changes cells adopt distinct fates complex tissues. This followed by discussion needs provide foundation new applications forestry.

Language: Английский

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Novel insights into drought-induced regulation of ribosomal genes through DNA methylation in chickpea

International Journal of Biological Macromolecules, Journal Year: 2024, Volume and Issue: 266, P. 131380 - 131380

Published: April 4, 2024

Language: Английский

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