Heightened miR6024-NLR interactions facilitate necrotrophic pathogenesis in tomato

Dey, S. S.; Sarkar, Arijita; Chowdhury, Shreya; Singh, Rajesh; Mukherjee, Ananya; Ghosh, Zhumur; Kundu, Pallob

doi:10.1007/s11103-022-01270-z

Cited by 19 publications

(9 citation statements)

References 67 publications

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“…Most of known miRNAs and their function were consistent with previous work, such as miR156, miR159, miR171, miR5300, and miR6027 which were involved in plant immunity [ 9 , 34 , 35 , 36 ]. Some miRNAs could regulate R genes in plants directly, the miR482 family (stu-miR482a/d/e-3p and stu-miR482) mainly regulates NBS-LRR genes in eudicots, functioning as an essential component in plant disease resistance [ 37 ]; miR6024-3p regulates NLR genes to facilitate the disease caused by the necrotrophic pathogen [ 38 ]. In plants, high disease resistance often results in a reduction of growth.…”

Section: Discussionmentioning

confidence: 99%

Identification of miRNAs Involving Potato-Phytophthora infestans Interaction

Luo

Sun

et al. 2023

Plants

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sRNAs (small RNAs) play an important role in regulation of plant immunity against a variety of pathogens. In this study, sRNA sequencing analysis was performed to identify miRNAs (microRNAs) during the interaction of potato and Phytophthora infestans. Totally, 171 potato miRNAs were identified, 43 of which were annotated in the miRNA database and 128 were assigned as novel miRNAs in this study. Those potato miRNAs may target 878 potato genes and half of them encode resistance proteins. Fifty-three potato miRNAs may target 194 P. infestans genes. Three potato miRNAs (novel 72, 133, and 140) were predicted to have targets only in the P. infestans genome. miRNAs transient expression and P. infestans inoculation assay showed that miR396, miR166, miR6149-5P, novel133, or novel140 promoted P. infestans colonization, while miR394 inhibited colonization on Nicotiana benthamiana leaves. An artificial miRNA target (amiRNA) degradation experiment demonstrated that miR394 could target both potato gene (PGSC0003DMG400034305) and P. infestans genes. miR396 targets the multicystatin gene (PGSC0003DMG400026899) and miR6149-5p could shear the galactose oxidase F-box protein gene CPR30 (PGSC0003DMG400021641). This study provides new information on the aspect of cross-kingdom immune regulation in potato-P. infestans interaction at the sRNAs regulation level.

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Section: Discussionmentioning

confidence: 99%

Identification of miRNAs Involving Potato-Phytophthora infestans Interaction

Luo

Sun

et al. 2023

Plants

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“…In plants such as A. thaliana [ 54 ], soybean [ 55 ], and tomato [ 56 ], miRNAs can regulate plant immune responses to pathogens by targeting TNL genes. To determine whether RcTNL genes were targeted by miRNAs, 207 published M. domestica miRNA sequences were selected from the psRNATarget website to predict possible miRNA binding sites on the RcTNL genes [ 43 ].…”

Section: Resultsmentioning

confidence: 99%

Genome-Wide Identification and Expression Analysis of the TIR-NBS-LRR Gene Family and Its Response to Fungal Disease in Rose (Rosa chinensis)

Song

Chen

et al. 2023

Biology

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Roses, which are one of the world’s most important ornamental plants, are often damaged by pathogens, resulting in serious economic losses. As a subclass of the disease resistance gene family of plant nucleotide-binding oligomerization domain (NOD)-like receptors, TIR-NBS-LRR (TNL) genes play a vital role in identifying pathogen effectors and activating defense responses. However, a systematic analysis of the TNL gene family is rarely reported in roses. Herein, 96 intact TNL genes were identified in Rosa chinensis. Their phylogenies, physicochemical characteristics, gene structures, conserved domains and motifs, promoter cis-elements, microRNA binding sites, and intra- and interspecific collinearity relationships were analyzed. An expression analysis using transcriptome data revealed that RcTNL genes were dominantly expressed in leaves. Some RcTNL genes responded to gibberellin, jasmonic acid, salicylic acid, Botrytis cinerea, Podosphaera pannosa, and Marssonina rosae (M. rosae); the RcTNL23 gene responded significantly to three hormones and three pathogens, and exhibited an upregulated expression. Furthermore, the black spot pathogen was identified as M. rosae. After inoculating rose leaves, an expression pattern analysis of the RcTNL genes suggested that they act during different periods of pathogen infection. The present study lays the foundations for an in-depth investigation of the TNL gene function and the mining of disease resistance genes in roses.

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“…We validated seven SNPs on Solyc09g098100/LOC101055591, an NLB-LRR domain-containing R gene on chromosome 9 and very close in proximity (~ 55 kb in SL3.0 genome) to the well-characterized late blight-resistant locus of Ph-3 [ 15 ]. The putative role of Solyc09g098100 in the defense against Phytophthora was further strengthened by the interaction sites of sly-miR482d-3p [ 4 , 11 ], sly-miR5303 [ 23 ] and sly-miR6024 [ 24 ], which are well-known to have roles during Phytophthora and other fungal infections. The expression pattern showing upregulation of Solyc09g098100 and the presence of salicylic acid (SA) response element in the promoter region could indicate a salicylic acid-mediated response in the resistant plants.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome-Assisted SNP Marker Discovery for Phytophthora infestans Resistance in Solanum lycopersicum L.

Deb

Lucia

Ravi

et al. 2023

IJMS

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Late blight, caused by oomycetes Phytophthora infestans is one of the most challenging fungal diseases to manage in tomato plants (Solanum lycopersicum L.). Toward managing the disease, conventional breeding has successfully introgressed genetic loci conferring disease resistance from various wild relatives of tomato into commercial varieties. The cataloging of disease-associated SNP markers and a deeper understanding of disease-resistance mechanisms are needed to keep up with the demand for commercial varieties resistant against emerging pathogen strains. To this end, we performed transcriptome sequencing to evaluate the gene expression dynamics of tomato varieties, resistant and susceptible to Phytophthora infection. Further integrating the transcriptome dataset with large-scale public genomic data of varieties with known disease phenotypes, a panel of single nucleotide polymorphism (SNP) markers correlated with disease resistance was identified. These SNPs were then validated on 31 lines with contrasting phenotypes for late blight. The identified SNPs are located on genes coding for a putative cysteine-rich transmembrane module (CYSTM), Solyc09g098310, and a nucleotide-binding site–leucine-rich repeat protein, Solyc09g098100, close to the well-studied Ph-3 resistance locus known to have a role in plant immunity against fungal infections. The panel of SNPs generated by this study using transcriptome sequencing showing correlation with disease resistance across a broad set of plant material can be used as markers for molecular screening in tomato breeding.

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Heightened miR6024-NLR interactions facilitate necrotrophic pathogenesis in tomato

Cited by 19 publications

References 67 publications

Identification of miRNAs Involving Potato-Phytophthora infestans Interaction

Identification of miRNAs Involving Potato-Phytophthora infestans Interaction

Genome-Wide Identification and Expression Analysis of the TIR-NBS-LRR Gene Family and Its Response to Fungal Disease in Rose (Rosa chinensis)

Transcriptome-Assisted SNP Marker Discovery for Phytophthora infestans Resistance in Solanum lycopersicum L.

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