Crosstalk between epigenetic silencing and infection by tobacco rattle virus in <i>Arabidopsis</i>

Diezma-Navas, Laura; Pérez-González, Ana; Artaza, Haydeé; Alonso, Lola; Caro, Elena; Llave, César; Ruiz‐Ferrer, Virginia

doi:10.1111/mpp.12850

Cited by 31 publications

(39 citation statements)

References 67 publications

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“…In fact, DNA methylation mutants in several plants are lethal or severely compromise development, while most of them show light or no phenotype in arabidopsis . There was also little correlation between TE methyl regulation and expression during the infection, in agreement with studies showing that their induction under heat stress or virus infection is not associated with DNA methylation changes (Diezma-Navas et al, 2019;Pecinka et al, 2010). Nonetheless, some DEGs that were close to TEs having non-CpG DMRs were detected, indicating a possible co-regulation mechanism.…”

Section: Discussionsupporting

confidence: 84%

“…At 5 dpi, seven TEs belonging to the Gypsy and Copia families, usually concentrated in centromeric and pericentromeric regions (Underwood et al, 2017), respectively, were induced against the evolved isolate ( Figure 3B, Table S4). One of them, the Gypsy ATHILA2, is enriched in the centromere core that is transiently regulated by temperature shifts and viral infections (Diezma-Navas et al, 2019;Tittel-Elmer et al, 2010).…”

Section: Transcriptomic Responses To Tumv Infectionmentioning

confidence: 99%

“…At 12 dpi, however, both induction and repression of TE families was observed ( Figure 3B, Table S4). The induced elements were again mostly from Gypsy and Copia families, including AtCOPIA93/Evadé, a TE that is induced against bacterial and viral infections (Diezma-Navas et al, 2019;Zervudacki et al, 2018). The repressed TEs at 12 dpi, on the other hand, included the Helitron, Harbinger and Mutator (MuDR) families that are usually located close to genes ( Figure 3B, Table S4).…”

Section: Transcriptomic Responses To Tumv Infectionmentioning

confidence: 99%

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Viral fitness determines the magnitude of transcriptomic and epigenomic reprogramming of defense responses in plants

Corrêa

Sanz-Carbonell

Kogej

et al. 2019

Preprint

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SUMMARYAlthough epigenetic factors may influence the expression of defense genes in plants, their role in antiviral responses and the impact of viral adaptation and evolution in shaping these interactions are still poorly explored. We used two isolates of turnip mosaic potyvirus (TuMV) with varying degrees of adaptation to Arabidopsis thaliana to address these issues. One of the isolates was experimentally evolved in the plant and presented increased load and virulence relative to the ancestral isolate. The magnitude of the transcriptomic responses were larger for the evolved isolate and indicated a role of innate immunity systems triggered by molecular patterns and effectors in the infection process. Several transposable elements (TEs) located in different chromatin contexts and epigenetic-related genes were also affected. Correspondingly, mutant plants having loss or gain of repressive marks were, respectively, more tolerant and susceptible to TuMV, with a more efficient response against the ancestral isolate. In wild-type plants both isolates induced similar levels of cytosine methylation changes, including in and around TEs and stress-related genes. Results collectively suggested that apart from RNA silencing and basal immunity systems, DNA methylation and histone modification pathways may also be required for mounting proper antiviral defenses in plants and that the effectiveness of this type of regulation strongly depends on the degree of viral adaptation to the host.

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Section: Discussionsupporting

confidence: 84%

Section: Transcriptomic Responses To Tumv Infectionmentioning

confidence: 99%

Section: Transcriptomic Responses To Tumv Infectionmentioning

confidence: 99%

See 1 more Smart Citation

Viral fitness determines the magnitude of transcriptomic and epigenomic reprogramming of defense responses in plants

Corrêa

Sanz-Carbonell

Kogej

et al. 2019

Preprint

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“…DNA methylation regulates the expression of plant disease resistance genes to respond to the infection of RNA viruses [ 13 , 14 , 15 ]. For example, DNA (de)methylation altered the susceptibility/resistance of Arabidopsis plants to tobacco rattle virus (TRV) infection by regulating the expression of disease resistance genes [ 16 ]. Alfalfa mosaic virus (AMV) infection is controlled by m 6 A modification of its genomic RNAs through the interaction between viral CP and At ALKBH9B, an Arabidopsis thaliana protein with ssRNA m 6 A demethylase activity [ 17 ].…”

Section: Introductionmentioning

confidence: 99%

Alterations of Rice (Oryza sativa L.) DNA Methylation Patterns Associated with Gene Expression in Response to Rice Black Streaked Dwarf Virus

Zhang

et al. 2020

IJMS

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Rice black-streaked dwarf virus (RBSDV) causes severe yield losses in rice (Oryza sativa L.) in China. Studies have shown that the mechanisms of DNA methylation-mediated plant defense against DNA viruses and RNA viruses are different. However, in rice its function in response to infection of RBSDV, a double-stranded RNA virus, remains unclear. In this study, high-throughput single-base resolution bisulfite sequencing (BS-Seq) was carried out to analyze the distribution pattern and characteristics of cytosine methylation in RBSDV-infected rice. Widespread differences were identified in CG and non-CG contexts between the RBSDV-infected and RBSDV-free rice. We identified a large number of differentially methylated regions (DMRs) along the genome of RBSDV-infected rice. Additionally, the transcriptome sequencing analysis obtained 1119 differentially expressed genes (DEGs). Correlation analysis of DMRs-related genes (DMGs) and DEGs filtered 102 genes with positive correlation and 71 genes with negative correlation between methylation level at promoter regions and gene expression. Key genes associated with maintaining DNA methylation in rice were analyzed by RT-qPCR and indicated that OsDMT702 might be responsible for the global increase of DNA methylation level in rice under RBSDV stress. Our results suggest important roles of rice DNA methylation in response to RBSDV and provide potential target genes for rice antiviral immunity.

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“…In recent years, researchers have published several studies about the effects of DNA methylation on antiviral defense. The infection by TRV and Cucumber Mottled Green Mosaic Virus (CGMMV) in Arabidopsis and watermelon, respectively, produces a deregulation of key components of the RdDM machinery, thus evidencing an important role of methylation in antiviral defense (Diezma-Navas et al ., 2019; Sun et al ., 2019). Another study revealed a novel regulatory mechanism, whereby Cotton Leaf Curl Multan virus (CLCuMuV) C4 protein suppresses TGS and PTGS mediated by SAMS (a central enzyme in the methyl cycle), which leads to an improved viral infection in the plant (Ismayil et al ., 2018).…”

Section: Introductionmentioning

confidence: 99%

RdDM pathway is required forTobamovirus-induced symptomatology production

Leone

Zavallo

Venturuzzi

et al. 2020

Preprint

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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.

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Crosstalk between epigenetic silencing and infection by tobacco rattle virus in Arabidopsis

Cited by 31 publications

References 67 publications

Viral fitness determines the magnitude of transcriptomic and epigenomic reprogramming of defense responses in plants

Viral fitness determines the magnitude of transcriptomic and epigenomic reprogramming of defense responses in plants

Alterations of Rice (Oryza sativa L.) DNA Methylation Patterns Associated with Gene Expression in Response to Rice Black Streaked Dwarf Virus

RdDM pathway is required forTobamovirus-induced symptomatology production

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