The contribution of transposable elements to transcriptional novelty in plants: the<i>FLC</i>affair

Quadrana, Leandro

doi:10.1080/21541264.2020.1803031

Cited by 29 publications

(26 citation statements)

References 71 publications

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“…There are several examples of TE domestication, illustrating their contribution both to new genes and cis-regulatory sequences [54]. In Arabidopsis, TE fragments are present in the first intron of the gene encoding the master flowering regulator FLC and in the promoter of the gene LEC2, which encodes a regulator of FLC [55,56]. Both genes are silenced by PRC2.…”

Section: H3k27me3 Is a Dominant Mark At Tes In Ancestral Eukaryotic L...mentioning

confidence: 99%

Role of Polycomb in the control of transposable elements

2021

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Section: H3k27me3 Is a Dominant Mark At Tes In Ancestral Eukaryotic L...mentioning

confidence: 99%

Role of Polycomb in the control of transposable elements

2021

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“…Interestingly, in Arabidopsis, TE insertions were recorded exclusively within the (single-copy) FLC locus and not in other flowering time related loci such as SUPPRESSOR of CONSTANS 1 (SCO1), FLOWERING LOCUS T (FT) and FLOWERING LOCUS D (FD). Reduction in the regulation of vernalization enables plants to adapt well under drought/hot summer areas and facilitates a rapid lifecycle, while conversely an increase in vernalization facilitates adaptation toward more northerly latitudes (Quadrana, 2020).…”

Section: Cross-talk Between Tes and The Methylomementioning

confidence: 99%

On the Role of Transposable Elements in the Regulation of Gene Expression and Subgenomic Interactions in Crop Genomes

Gill

Scossa

King

et al. 2021

Critical Reviews in Plant Sciences

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Transposable elements (TEs) represent a major and variable portion of plant genomes, and recent progress in genetics and genomics has highlighted the importance of different TE species as a useful genetic tool in crop breeding. TEs can cause changes in the pattern of gene expression, and regulate gene function by various means such as cis-up-or downregulation of nearby genes through insertion at promoter, intron, exon and down-stream regions, and trans-production of short interfering RNAs (siRNAs) via two RNA-directed DNA methylation (RdDM) pathways. siRNAs generated through different RdDM pathways differ in length and have variable effects on TEs. For instance, noncoding siRNAs of 20-60 nt produced by RNA polymerase IV (dicer-independent) and 21/22 nt by Pol II (dicer-dependent) have only minor effects on TEs compared with 24 nt siRNAs produced by Pol IV (dicerdependent pathways). Following whole-genome duplication (WGD) events after polyploidization in allopolyploids, TEs from either parent are able to induce siRNAs to regulate the complex polyploid genome. Those designated as 'controllers' usually reside in the dominant parent and affect the TEs of the recessive parent. Subgenome cross-talk thus appears to contribute to epigenetic regulation as well as reshuffling or restructuring of subgenomes and creation of novel patterns of genes expression/and variation in local or global copy number. In this review, we focus on recent progress in unraveling the role of TEs in gene expression regulation via TE-derived siRNAs in the context of polyploid plant evolution and environmental stress, and explore how ancient WGD and recent polyploidy affected the evolution of TE-induced epigenetic mechanisms.

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“…Interestingly, HSFs also regulate heat stress signalling cascade through activation of transposable elements (TEs) (Quadrana, 2020).…”

Section: Hsfs At the Centre Of Epigenetic Regulations Involving Dna M...mentioning

confidence: 99%

Genetic and molecular mechanisms underlying root architecture and function under heat stress—A hidden story

Tiwari

Kumar

Min

et al. 2022

Plant Cell & Environment

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Heat stress events are resulting in a significant negative impact on global food production. The dynamics of cellular, molecular and physiological homoeostasis in aboveground parts under heat stress are extensively deciphered. However, root responses to higher soil/air temperature or stress signalling from shoot to root are limited. Therefore, this review presents a holistic view of root physio-morphological and molecular responses to adapt under hotter environments. Heat stress reprogrammes root cellular machinery, including crosstalk between genes, phytohormones, reactive oxygen species (ROS) and antioxidants. Spatio-temporal regulation and long-distance transport of phytohormones, such as auxin, cytokinin and abscisic acid (ABA) determine the root growth and development under heat stress. ABA cardinally integrates a signalling pathway involving heat shock factors, heat shock proteins and ROS to govern heat stress responses. Additionally, epigenetic modifications by transposable elements, DNA methylation and acetylation also regulate root growth under heat stress. Exogenous application of chemical compounds or biological agents such as ascorbic acid, metal ion chelators, fungi and bacteria can alleviate heat stress-induced reduction in root biomass. Future research should focus on the systemic effect of heat stress from shoot to root with more detailed investigations to decipher the molecular cues underlying the roots architecture and function.

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The contribution of transposable elements to transcriptional novelty in plants: theFLCaffair

Cited by 29 publications

References 71 publications

Role of Polycomb in the control of transposable elements

Role of Polycomb in the control of transposable elements

On the Role of Transposable Elements in the Regulation of Gene Expression and Subgenomic Interactions in Crop Genomes

Genetic and molecular mechanisms underlying root architecture and function under heat stress—A hidden story

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