Characterization of microRNA-like RNAs associated with sclerotial development in Sclerotinia sclerotiorum

Xia, Zihao; Wang, Zehao; Kav, Nat N. V.; Ding, Chengsong; Liang, Yue

doi:10.1016/j.fgb.2020.103471

Cited by 19 publications

(18 citation statements)

References 72 publications

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“…The miRbase database ( 140 ), as well as all the fungal milRNA sequences from RNAcentral ( 141 ), were used to provide reference sequences from other species. To ensure the novelty of newly detected milRNAs, BLAST was used to compare them to the fungal milRNAs identified in several other studies, plus all the fungal milRNAs available in RNAcentral, requiring 95% minimum identity and query coverage ( 25 , 33 , 141 – 145 ). Nonstructural sRNA reads, previously mapped to the genomes with STAR, were counted with featureCounts, and the differentially expressed milRNAs were identified with DESeq2, with the same thresholds used for DEG analysis.…”

Section: Methodsmentioning

confidence: 99%

Role of Dicer-Dependent RNA Interference in Regulating Mycoparasitic Interactions

et al. 2021

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Section: Methodsmentioning

confidence: 99%

Role of Dicer-Dependent RNA Interference in Regulating Mycoparasitic Interactions

et al. 2021

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“…Apart from the low efficacy of commercial fungicides, the management of S. sclerotiorum is a difficult task due to the pathogen’s wide host range, and its persistent resting structures, called sclerotia. These are known to play important roles in fungal life and disease development cycles ( Xia et al, 2020 ; Tian et al, 2021 ). Sclerotia can produce apothecia and release spores, which can be transmitted by wind and rain, to infect plants under appropriate temperature and humidity conditions ( Clarkson et al, 2014 ; Becka et al, 2016 ).…”

Section: Introductionmentioning

confidence: 99%

Antifungal Mechanism and Efficacy of Kojic Acid for the Control of Sclerotinia sclerotiorum in Soybean

et al. 2022

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Sclerotinia stem rot, which is caused by the fungal pathogen Sclerotinia sclerotiorum, is a soybean disease that results in enormous economic losses worldwide. The control of S. sclerotiorum is a difficult task due to the pathogen’s wide host range and its persistent structures, called sclerotia. In addition, there is lack of soybean cultivars with medium to high levels of resistance to S. sclerotiorum. In this work, kojic acid (KA), a natural bioactive compound commonly used in cosmetic industry, was evaluated for the management of Sclerotinia stem rot. Interestingly, KA showed strong antifungal activity against S. sclerotiorum by inhibiting chitin and melanin syntheses and, subsequently, sclerotia formation. The antifungal activity of KA was not obviously affected by pH, but was reduced in the presence of metal ions. Treatment with KA reduced the content of virulence factor oxalic acid in S. sclerotiorum secretions. Preventive applications of 50 mM KA (7.1 mg/ml) completely inhibited S. sclerotiorum symptoms in soybean; whereas, in curative applications, the combination of KA with prochloraz and carbendazim improved the efficacy of these commercial fungicides. Taken together, the antifungal activity of KA against S. sclerotiorum was studied for the first time, revealing new insights on the potential application of KA for the control of Sclerotinia stem rot in soybean.

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“…1725 target genes of 128 known and 22 novel milRNAs were identified that are involved in various metabolic and developmental processes of fungi indicating that milRNAs are major regulators of the R. solani genome. The role of milRNAs in fungal growth and development has been recently described in Sclerotinia sclerotiorum [ 37 ]. A number of milRNAs were identified in the soil-borne fungal pathogen Verticillium dahlia causing wilt diseases in several agriculture crops.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Expression Profiling of Small RNAs in Indian Strain of Rhizoctonia solani AG1-1A Reveals Differential Regulation of milRNAs during Pathogenesis and Crosstalk of Gene Regulation

Prathi

Rani

Balachandran

et al. 2021

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Rhizoctonia solaniAG1-1A is a necrotrophic fungus that causes sheath blight disease in rice. The reliable resistant source against this phytopathogenic fungus is not available in the gene pool of rice. Better understanding of pathogen genomics and gene regulatory networks are critical to devise alternate strategies for developing resistance against this noxious pathogen. In this study, miRNA-like RNAs (milRNAs) of an Indian strain of R. solani were identified by deep sequencing of small RNAs. We identified 128 known and 22 novel milRNAs from 20,963,123 sequence reads. These milRNAs showed 1725 target genes in the fungal genome which include genes associated with growth, development, pathogenesis and virulence of R. solani. Notably, these fungal milRNAs showed their target genes in host (rice) genome also which were later verified by qRT-PCR. The host target genes are associated with auxin metabolism, hypersensitive response, defense genes, and genes related to growth and development of rice. Osa-vacuolar-sorting receptor precursor: Rhi-milR-13, Osa-KANADI1:Rhi-milR-124, Osa-isoflavone reductase: Rhi-milR-135, Osa-nuclear transcription factor Y:Rhi-milR-131, Osa-NB-ARC domain containing protein: Rhi-milR-18, and Osa-OsFBX438: Rhi-milR-142 are notable potential regulons of host target genes: fungal milRNAs that need to be investigated for better understanding of the crosstalk of RNAi pathways between R. solani and rice. The detailed expression analysis of 17 milRNAs by qRT-PCR was analysed during infection at different time points of inoculation, at different growth stages of the host, in four different genotypes of the host, and also in four different strains of fungi which revealed differential regulation of milRNAs associated with pathogenesis and virulence. This study highlights several important findings on fungal milRNAs which need to be further studied and characterized to decipher the gene expression and regulation of this economically important phytopathogen.

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Characterization of microRNA-like RNAs associated with sclerotial development in Sclerotinia sclerotiorum

Cited by 19 publications

References 72 publications

Role of Dicer-Dependent RNA Interference in Regulating Mycoparasitic Interactions

Role of Dicer-Dependent RNA Interference in Regulating Mycoparasitic Interactions

Antifungal Mechanism and Efficacy of Kojic Acid for the Control of Sclerotinia sclerotiorum in Soybean

Genome-Wide Expression Profiling of Small RNAs in Indian Strain of Rhizoctonia solani AG1-1A Reveals Differential Regulation of milRNAs during Pathogenesis and Crosstalk of Gene Regulation

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