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Identification of Gossypium hirsutum miRNA targets in the genome of Cotton leaf curl Multan virus and betasatellite

机译:棉卷毛木尔坦病毒和β卫星基因组中陆地棉的miRNA靶标的鉴定

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摘要

Cotton leaf curl Multan virus (CLCuMV.) in association with betasatellite causes devastating cotton leaf curl disease in cotton plants. Bioinformatics approaches were applied to search cotton {Gossypium hirsutum) miRNA targets in the genomes of CLCuMV(DNA-A) and betasatellite (DNA p). A total of 18 nucleotide sequences representing full-length genome (DNA-A) of CLCuMV and 58 nucleotide sequences of full-length DNA p were screened against a set of 60 mature miRNAs of G. hirsutum. Efficacy of cotton miRNAs against putative viral mRNA targets having an antiviral activity was analyzed on the basis of complementarity of miRNA-mRNA target pairings, leading to either translational inhibition or endonucleolytic mRNA cleavage, or both. This study revealed 34 putative miRNA targets in DNA-A encoded proteins loci and 2 putative miRNA targets in PC/ gene of DNA p above threshold values. miRNAs, viz., miR168, miR169, miR390, miR395, miR399, miR414, miR779, miR2948, miR2950 and miR3476, were found to be the most potential and could target DNA-A with perfect or nearly perfect complementarity at multiple loci. Similarly, PC/ was targeted by 2 miRNAs, viz., miR398 and miR2950. Among them, miR168, miR169, miR398, miR399, miR779, miR2948 and miR2950 strongly cleaved the mRNA target sites, while miR390, miR414, and miR3476 were probably translational inhibitors. Though miRNA targets were available in different genes of DNA-A, majority of them were found in AC1 gene of DNA-A and satellite conserved region in DNA p.AC1 gene was significantly targeted by 14 miRNAs and PC/ by 2 miRNAs. Interestingly, miR2950 was capable of targeting mRNAs representing both DNA-A and DNA p. Artificially designed miR168, miR169, miR390, miR395, miR398, miR399, miR414, miR779, miR2948,miR2950 and miR3476 targeting DNA-A of CLCuV and pC/ gene of DNA p may have the potential to confer effective resistance against CLCuD infection in transformed cotton.
机译:棉叶卷曲木尔坦病毒(CLCuMV。)与β卫星结合会在棉花植物中造成毁灭性的棉叶卷曲病。应用生物信息学方法在CLCuMV(DNA-A)和β卫星(DNA p)基因组中搜索棉花(陆地棉)miRNA靶标。针对一组60个成熟的hirsutum miRNA,筛选了代表CLCuMV全长基因组(DNA-A)的18个核苷酸序列和全长DNA p的58个核苷酸序列。基于miRNA-mRNA靶标配对的互补性,分析了棉花miRNA对具有抗病毒活性的假定病毒mRNA靶标的功效,从而导致翻译抑制或核酸内切mRNA裂解,或两者兼而有之。这项研究揭示了DNA-A编码蛋白基因座中的34个推定的miRNA靶标和PC / DNA p基因中的2个推定的miRNA靶标高于阈值。发现miRNA,即miR168,miR169,miR390,miR395,miR399,miR414,miR779,miR2948,miR2950和miR3476具有最大潜力,并且可以在多个位点以完美或接近完美的互补性靶向DNA-A。同样,PC /被2个miRNA靶向,即miR398和miR2950。其中,miR168,miR169,miR398,miR399,miR779,miR2948和miR2950强烈切割了mRNA的靶位,而miR390,miR414和miR3476可能是翻译抑制剂。尽管在不同的DNA-A基因中都可以找到miRNA靶标,但大多数都在DNA-A的AC1基因中发现,并且在DNA p。卫星保守区中找到了AC.AC1基因被14个miRNA和PC /显着靶向了2个miRNA。有趣的是,miR2950能够靶向代表DNA-A和DNA p的mRNA。人工设计的靶向CLCuV的DNA-A的miR168,miR169,miR390,miR395,miR398,miR399,miR414,miR779,miR2948,miR2950和miR3476和DNA p的pC /基因可能具有赋予转基因棉花有效抵抗CLCuD感染的潜力。

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