Immune receptor genes and pericentromeric transposons as targets of common epigenetic regulatory elements

Cambiagno, Damián Alejandro; Nota, Florencia; Zavallo, Diego; Rius, Sebastián P; Casati, Paula; Asurmendi, Sebastián; Alvarez, María Elena

doi:10.1111/tpj.14098

Cited by 36 publications

(76 citation statements)

References 70 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Pericentromeric: chromosome regions that flank the centromere Interestingly, the majority of these defense genes were not targeted by NRPE1-and/or ROS1dependent DNA (de)methylation, suggesting that their responsiveness is trans-regulated by DNA methylation (81). More recently, Cambiagno and coworkers (24) reported that P. syringae infection of Arabidopsis results in both the transient expression of pericentromeric TEs and the accumulation of RdDM-related sRNAs that map to both TEs and defense genes. Although the TEs were resilenced over time, the complementary defense genes remained active (24).…”

Section: Py57ch23_tonmentioning

confidence: 99%

“…More recently, Cambiagno and coworkers (24) reported that P. syringae infection of Arabidopsis results in both the transient expression of pericentromeric TEs and the accumulation of RdDM-related sRNAs that map to both TEs and defense genes. Although the TEs were resilenced over time, the complementary defense genes remained active (24). Cambiagno and coworkers proposed that this antagonistic response is caused by sRNA competition, whereby sRNAs are allocated away from the defense-related genes toward the TEs (24).…”

Section: Py57ch23_tonmentioning

confidence: 99%

“…Although the TEs were resilenced over time, the complementary defense genes remained active (24). Cambiagno and coworkers proposed that this antagonistic response is caused by sRNA competition, whereby sRNAs are allocated away from the defense-related genes toward the TEs (24). Apart from this competition model, TE-derived sRNAs could also positively regulate the priming of distant defense genes.…”

Section: Py57ch23_tonmentioning

confidence: 99%

See 2 more Smart Citations

Surviving in a Hostile World: Plant Strategies to Resist Pests and Diseases

Wilkinson

Magerøy

Sánchez

et al. 2019

Annu. Rev. Phytopathol.

115

147

View full text Add to dashboard Cite

As primary producers, plants are under constant pressure to defend themselves against potentially deadly pathogens and herbivores. In this review, we describe short- and long-term strategies that enable plants to cope with these stresses. Apart from internal immunological strategies that involve physiological and (epi)genetic modifications at the cellular level, plants also employ external strategies that rely on recruitment of beneficial organisms. We discuss these strategies along a gradient of increasing timescales, ranging from rapid immune responses that are initiated within seconds to (epi)genetic adaptations that occur over multiple plant generations. We cover the latest insights into the mechanistic and evolutionary underpinnings of these strategies and present explanatory models. Finally, we discuss how knowledge from short-lived model species can be translated to economically and ecologically important perennials to exploit adaptive plant strategies and mitigate future impacts of pests and diseases in an increasingly interconnected and changing world.

show abstract

Section: Py57ch23_tonmentioning

confidence: 99%

Section: Py57ch23_tonmentioning

confidence: 99%

Section: Py57ch23_tonmentioning

confidence: 99%

See 1 more Smart Citation

Surviving in a Hostile World: Plant Strategies to Resist Pests and Diseases

Wilkinson

Magerøy

Sánchez

et al. 2019

Annu. Rev. Phytopathol.

115

147

View full text Add to dashboard Cite

show abstract

“…Most of the detected TEs correspond to Helitron family. Indeed, researchers have identified both types of TEs associated with genetic and epigenetic variation located in proximity to disease resistance NBS-LRR genes (Kawakatsu et al ., 2016; Underwood et al ., 2017; Cambiagno et al ., 2018).…”

Section: Discussionmentioning

confidence: 99%

RdDM pathway is required forTobamovirus-induced symptomatology production

Leone

Zavallo

Venturuzzi

et al. 2020

Preprint

Self Cite

View full text Add to dashboard Cite

Small RNAs (sRNA) are important molecules for gene regulation in plants and play an essential role in plant-pathogen interactions. Researchers have evaluated the relationship between viral infections as well as the endogenous accumulation of sRNAs and the transcriptional changes associated with the production of symptoms, little is known about a possible direct role of epigenetics, mediated by 24-nt sRNAs, in the induction of these symptoms. • With the use of different RNA directed DNA methylation pathway mutants and triple demethylase mutants, here we demonstrate that the disruption of RdDM pathway during viral infection produced alterations in the plant transcriptomic changes (because of the infection) and in symptomatology.• This study represents the initial step in exposing that DNA methylation directed by endogenous sRNAs has an important role, uncoupled to defense, in the production of symptoms associated with plant-virus interactions. Significance statementThe crop yield losses induced by phytoviruses are mainly associated with the symptoms of the disease. DNA modifications as methylation, can modulate the information coded by the sequence, process named epigenetics. Viral infection can change the expression patterns of different genes linked to defenses and symptoms. This work represents the initial step to expose the role of epigenetic process, in the production of symptoms associated with plants-virus interactions.

show abstract

“…There is an increasing evidences of the impact that TEs have on the transcriptome on a given condition. For instance, TEs may have direct effects on genes, by providing them with new coding or regulatory sequences, an effect on the epigenetic status of the chromatin close to genes, and more subtle effects by imposing diverse evolutionary constraints to different chromosomal regions (Makarevitch et al, 2015;Vicient and Casacuberta, 2017;Cambiagno et al, 2018).…”

Section: Soybean Represents An Example Of a Thoroughly Annotated Tes mentioning

confidence: 99%

Genomic re-assessment of the transposable element landscape of the potato genome

Zavallo

Crescente

Gantuz

et al. 2019

Preprint

Self Cite

View full text Add to dashboard Cite

Transposable elements (TEs) are DNA sequences with the ability to auto-replicate and move throughout the host genome. TEs are major drivers in stress response and genome evolution. Given their significance, the development of clear and efficient TE annotation pipelines has become essential for many species. The latest de novo TE discovery tools, along with available TEs from Repbase and sRNA-seq data, allowed us to perform a reliable potato TEs detection, classification and annotation through an open-source and freely available pipeline (https://github.com/DiegoZavallo/TE_Discovery). Using a variety of tools, approaches and rules, our pipeline revealed that ca. 16% of the potato genome can be clearly annotated as TEs. Additionally, we described the distribution of the different types of TEs across the genome, where LTRs and MITEs present a clear clustering pattern in pericentromeric and subtelomeric/telomeric regions respectively. Finally, we analyzed the insertion age and distribution of LTR retrotransposon families which display a distinct pattern between the two major superfamilies. While older Gypsy elements concentrated around heterochromatic regions, younger Copia elements located predominantly on euchromatic regions. Overall, we delivered not only a reliable, ready-to-use potato TE annotation files, but also all the necessary steps to perform de novo detection for other species.Key MessageWe provide a comprehensive and reliable potato TE landscape, based on a wide variety of identification tools and integrative approaches, producing clear and ready-to-use outputs for the scientific community.

show abstract

Immune receptor genes and pericentromeric transposons as targets of common epigenetic regulatory elements

Cited by 36 publications

References 70 publications

Surviving in a Hostile World: Plant Strategies to Resist Pests and Diseases

Surviving in a Hostile World: Plant Strategies to Resist Pests and Diseases

RdDM pathway is required forTobamovirus-induced symptomatology production

Genomic re-assessment of the transposable element landscape of the potato genome

Contact Info

Product

Resources

About