Almond Grafting for Plum Pox Virus Resistance Triggers Significant Transcriptomic and Epigenetic Shifts in Peaches DOI Open Access
Julia Corell‐Sierra, Régis L. Corrêa, Gustavo Gómez

et al.

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 26(1), P. 248 - 248

Published: Dec. 30, 2024

Sharka disease, caused by the plum pox virus (PPV), negatively impacts stone fruit production, resulting in economic losses. It has been demonstrated that grafting almond (Prunus dulcis (Miller) D.A. Webb) variety ‘Garrigues’ into susceptible peach persica (L.) Batsch) rootstocks can result PPV resistance. The molecular circuits related to Prunus species, however, have not fully investigated. In this study, ‘GF305’ were either heterografted with or homografted same cultivar. Peach samples collected at two stages of scion development, ungrafted plants utilized as controls. Profiles transcripts, small RNAs (sRNAs), and DNA methylation obtained analyzed on a genome-wide scale. Homografting heterografting significantly altered transcriptome methylome rootstocks, these modifications being more pronounced during early development. profiles sRNAs impacted when almonds used opposed peaches, likely due transmission PPV-unrelated viral sequences. Gene expression differences from alterations are thoroughly documented promoter sequences genes than within their bodies. This study suggests triggers complex defense response rootstock, potentially involving interplay epigenetic RNA-mediated priming antiviral defenses, which ultimately may contribute

Language: Английский

The structure of the R2T complex reveals a different architecture from the related HSP90 cochaperone R2TP DOI
Alberto Palacios‐Abella, Andrés López‐Perrote, Jasminka Boskovic

et al.

Structure, Journal Year: 2025, Volume and Issue: unknown

Published: Feb. 1, 2025

Language: Английский

Citations

1
The generation of novel epialleles in plants: the prospective behind re-shaping the epigenome DOI Creative Commons
Antonio Baldini, Francesco P. Battaglia, Giorgio Perrella

et al.

Frontiers in Plant Science, Journal Year: 2025, Volume and Issue: 16

Published: March 21, 2025

Chromatin organization is a relevant layer of control gene expression during plant development. states strictly depend on associated features such as DNA methylation, histone modifications and variants. Thus, epigenome editing has become primary interest to alter without disrupting genomic sequences. Different tools have been developed address this challenge, starting with modular Zinc Finger Proteins (ZFPs) Transcription Activator Like Effectors (TALEs). However, the discovery CRISPR/Cas9 system adaptability technologies based enzymatically dead Cas9 (dCas9) paved way towards reliable adaptable in great variety organisms. In review, we will focus application targeted plants, summarizing most updated advances field. The promising results obtained by altering state targets involved flowering time abiotic stress resistance are crucial not only for elucidating molecular interactions that underly chromatin dynamics, but also future applications breeding programs an alternative route genetic manipulation achievement higher quality crops particularly terms nutritional properties, yield tolerance.

Language: Английский

Citations

0
Genome‐wide mapping of DNase I hypersensitive sites revealed differential chromatin accessibility and regulatory DNA elements under drought stress in rice cultivars DOI

Mohan Singh Rajkumar,

Kunal Tembhare,

Rohini Garg

et al.

The Plant Journal, Journal Year: 2024, Volume and Issue: 119(4), P. 2063 - 2079

Published: June 10, 2024

SUMMARY Drought stress (DS) is one of the major constraints limiting yield in crop plants including rice. Gene regulation under DS largely governed by accessibility transcription factors (TFs) to their cognate cis ‐regulatory elements (CREs). In this study, we used DNase I hypersensitive assays followed sequencing identify accessible chromatin regions a drought‐sensitive (IR64) and drought‐tolerant (N22) rice cultivar. Our results indicated that sites (DHSs) were highly enriched at start (TSSs) numerous DHSs detected promoter regions. concurrent with epigenetic marks genes harboring TSS expressed. addition, induced changes (∆DHSs) positively correlated upregulation several involved drought/abiotic response, those encoding TFs located within drought‐associated quantitative trait loci, much preferentially The CREs representing binding response ∆DHSs, suggesting differential different cultivars, which may be further deployed for enhancing drought tolerance

Language: Английский

Citations

3
Chromatin accessibility and gene expression vary between a new and evolved autopolyploid Arabidopsis arenosa DOI Creative Commons
Thanvi Srikant, Adrián Gonzalo, Kirsten Bomblies

et al.

Molecular Biology and Evolution, Journal Year: 2024, Volume and Issue: 41(10)

Published: Oct. 1, 2024

Abstract Polyploids arise from whole-genome duplication (WGD) events, which have played important roles in genome evolution across eukaryotes. WGD can increase complexity, yield phenotypic novelty, and influence adaptation. Neo-polyploids been reported to often show seemingly stochastic epigenetic transcriptional changes, but this leaves open the question whether these changes persist evolved polyploids. A powerful approach address is compare diploids, neo-polyploids, polyploids of same species. Arabidopsis arenosa a species that allows us do this—natural diploid autotetraploid populations exist, while neo-tetraploids be artificially generated. Here, we use ATAC-seq assay local chromatin accessibility, RNA-seq study gene expression on matched leaf petal samples diploid, neo-tetraploid tetraploid A. arenosa. We found over 8,000 differentially accessible regions all samples. These are largely tissue specific distinct trends cytotypes, with roughly 70% arising upon WGD. Interestingly, only small proportion associated nearby genes. However, accessibility variation cytotypes associates strongly number transposable elements. Relatively few genes were expressed duplication, ∼60% reverted near-diploid levels tetraploid, suggesting most initial perturbations not last. Our results provide new insights into how epigenomic mechanisms jointly respond subsequent autopolyploids, importantly, one cannot directly predicted other.

Language: Английский

Citations

2
Vegetal memory through the lens of transcriptomic changes – recent progress and future practical prospects for exploiting plant transcriptional memory DOI Creative Commons
Dóra Farkas, Judit Dobránszki

Plant Signaling & Behavior, Journal Year: 2024, Volume and Issue: 19(1)

Published: July 30, 2024

Plant memory plays an important role in the efficient and rapid acclimation to a swiftly changing environment. In addition, since plant can be inherited, it is also of adaptive evolutionary importance. The ability store, retain, retrieve delete information on acquired experience based cellular, biochemical molecular networks plants. This review offers up-to-date overview formation, types, checkpoints our current knowledge focusing its transcriptional aspects, memory. Roles long small non-coding RNAs are summarized regulation, formation cooperation between different layers memory, i.e. establishment epigenetic changes associated with RNA interference mechanisms at DNA level interplays them presented. Furthermore, this gives insight how exploitation may provide new opportunities for elaborating promising cost-efficient, effective strategies cope ever-changing environmental perturbations, caused by climate change. potentials memory-based methods, such as crop priming, cross acclimatization, modification miRNAs associative use future's agriculture discussed.

Language: Английский

Citations

1
“To remember or forget: Insights into the mechanisms of epigenetic reprogramming and priming in early plant embryos” DOI Creative Commons
Leonardo Jo, Michael D. Nodine

Current Opinion in Plant Biology, Journal Year: 2024, Volume and Issue: 81, P. 102612 - 102612

Published: Aug. 3, 2024

Chromatin is dynamically modified throughout the plant life cycle to regulate gene expression in response environmental and developmental cues. Although such epigenetic information can be inherited across generations plants, chromatin features that are typically reprogrammed during gametogenesis directly after fertilization. Nevertheless, environmentally induced marks on genes transmitted generations. Moreover, installed early embryonic stably subsequent growth influence how plants respond conditions much later development. Here, we review recent breakthroughs towards deciphering mechanisms underlying reprogramming transcriptional priming embryogenesis.

Language: Английский

Citations

1
TORquing chromatin: the regulatory role of TOR kinase on chromatin function DOI
Yihan Dong, Fatemeh Aflaki, Iva Mozgová

et al.

Journal of Experimental Botany, Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 20, 2024

The Target of Rapamycin (TOR) kinase is a critical regulator plant growth and development, integrating environmental internal signals to modulate cellular processes. This review explores the emerging role TOR in chromatin regulation, with focus on its nuclear activities interactions remodeling factors. We highlight mechanisms by which influences structure gene expression, including involvement histone modifications DNA methylation. Additionally, discusses interplay between signaling, cytoskeleton, functions, emphasizing potential act as bridge cytoskeletal dynamics regulation. Finally, besides TOR-mediated cyto-nuclear shuttling metabolic we address translational control components additional layers impacting landscape. also propose future research directions further elucidate complex regulatory network governed cells.

Language: Английский

Citations

1
Focus on epigenetics DOI Creative Commons
Qikun Liu, Jurriaan Ton, Pablo A. Manavella

et al.

PLANT PHYSIOLOGY, Journal Year: 2024, Volume and Issue: 194(4), P. 1925 - 1928

Published: Feb. 24, 2024

Language: Английский

Citations

0
The structure of the R2T complex reveals a different architecture of the related HSP90 co-chaperones R2T and R2TP DOI Creative Commons
Alberto Palacios‐Abella, Andrés López‐Perrote, Jasminka Boskovic

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: March 28, 2024

ABSTRACT Heat shock protein 90 (HSP90) is a molecular chaperone that contributes to the maturation and activation of substrates in multiple cellular pathways. Its activity supported by various co-chaperones. One these R2TP, complex RuvBL1-RuvBL2-RPAP3-PIH1D1 humans, which involved assembly multiprotein complexes, including mTORC1 Box C/D H/ACA snoRNPs. Structural analyses have shown organized around heterohexameric ring ATPases RuvBL1-RuvBL2 both yeast humans. In addition, several R2TP-like co-chaperones been identified such as R2T, lacks PIH1D1, but are less well characterized. seed plants, there no PIH1D1 orthologs. Here, we R2T Arabidopsis determined its cryoEM structure. associates with prefoldin-like vivo located cytosolic nuclear compartments. dodecamer AtRuvBL1-AtRuvBL2a forms two rings, one AtRPAP3 anchored each ring. has effect on ATPase binds different stoichiometry than described for human R2TP. We show interaction AtRuvBL2a AtHSP90 describe residues involved. Taken together, our results recruits via mechanism also conserved other eukaryotes, R2TP co-chaperone complexes distinct structures suggest differences their functions mechanisms.

Language: Английский

Citations

0
Paulownia Witches’ Broom Disease: A Comprehensive Review DOI Creative Commons
Yajie Zhang,

Zesen Qiao,

Jidong Li

et al.

Microorganisms, Journal Year: 2024, Volume and Issue: 12(5), P. 885 - 885

Published: April 28, 2024

Phytoplasmas are insect-transmitted bacterial pathogens associated with diseases in a wide range of host plants, resulting significant economic and ecological losses. Perennial deciduous trees the genus Paulownia widely planted for wood harvesting ornamental purposes. witches’ broom (PaWB) disease, 16SrI-D subgroup phytoplasma, is destructive disease paulownia East Asia. The PaWB phytoplasmas mainly transmitted by insect vectors Pentatomidae (stink bugs), Miridae (mirid bugs) Cicadellidae (leafhoppers) families. Diseased show typical symptoms, such as branch shoot proliferation, which together referred to broom. phytoplasma presence affects physiological anatomical structures paulownia. Gene expression responding have been studied at transcriptional, post-transcriptional, translational post-translational levels high throughput sequencing techniques. A pathogenic mechanism frame diagram on molecular level summarized. Studies interactions among plant host, including mechanisms underlying how effectors modify processes gene expression, will lead deeper understanding development efficient control measures.

Language: Английский

Citations

0