宁夏枸杞果实中miRNAs鉴定及调控作用分析

Identification of miRNAs and analysis of regulation roles for Lycium barbarum L. fruits

  • 摘要: 【目的】 鉴定宁夏枸杞果实中的miRNAs,分析miRNAs在果实发育过程中发挥的调控作用,为今后宁夏枸杞优质品种培育和高品质果实形成提供理论依据。【方法】 以宁夏枸杞3个发育时期(青果期、变色期和成熟期)果实为试验材料,使用Illumina HiSeq 2500平台进行miRNA测序,结合生物信息学方法鉴定潜在的miRNAs;比较宁夏枸杞果实不同发育时期miRNAs的表达量,通过方差分析筛选3个发育时期的差异表达miRNAs;利用GSTAr(v1.0)对差异表达miRNAs进行靶基因预测,对预测获得的靶基因进行GO功能注释和KEGG信号通路富集分析;采用实时荧光定量PCR进行验证。【结果】 从宁夏枸杞果实中鉴定出1013个miRNAs,包括51个已知miRNAs、386个保守miRNAs和576个新的miRNAs,长度为24 nt的miRNAs数量最多,保守性分析结果表明宁夏枸杞与大豆间高度相似的miRNAs数量最多。筛选出213个差异表达miRNAs,预测到848个靶基因。GO功能注释分析结果表明,靶基因主要富集在DNA模板转录调控、防御反应、细胞核、细胞质、蛋白质结合和DNA结合转录因子活性等条目。KEGG信号通路富集分析结果显示,植物—病原体互作、植物激素信号转导及类胡萝卜素生物合成等通路的靶基因富集显著。构建miRNA-靶基因-KEGG信号通路调控模型,发现一些重要的miRNA-靶基因模块发挥多种生物调控功能。实时荧光定量PCR验证结果表明获得的miRNA测序数据具有可靠性。【结论】 miRNAs及其靶基因在宁夏枸杞果实的发育过程中起重要调控作用,推测miR156-SPL、miR167-ARF、miR159-MYB、miR482-bHLH等miRNA-靶基因模块在宁夏枸杞果实的生长发育、胁迫应答、次生代谢物合成等方面发挥重要作用。

     

    Abstract: 【Objective】 This study aimed to identify the miRNAs in Lycium barbarum L. fruits and analyze their regulation roles during fruit development, providing theoretical basis for cultivation of superior varieties and formation of high-quality fruits of Lycium barbarum L. in the future. 【Method】 Lycium barbarum L. fruits at three developmental stages (green fruit stage, color turning stage, and maturity stage) were collected as materials. The Illumina HiSeq 2500 platform was used to perform miRNA sequencing, combined with bioinformatic methods to identify potential miRNAs. By compa-ring the expression of miRNAs of Lycium barbarum L. fruits at different developmental stages, differentially expressed miRNAs at the three developmental stages were screened using analysis of variance. GSTAr (v1.0) was employed to predict target genes of differentially expressed miRNAs and perform GO functional annotation and KEGG pathway enrichment analysis. The real-time fluorescence quantitative PCR was used for validation. 【Result】 A total of 1013 miRNAs were identified from the Lycium barbarum L. fruits, including 51 known miRNAs, 386 conservative miRNAs, and 576 novel miRNAs, with the number of miRNAs of 24 nt was the highest. Conservative analysis indicated that Lycium barbarum L. shared the largest number of highly similar miRNAs with soybean. A total of 213 differentially expressed miRNAs were screened, and 848 target genes were predicted. GO functional annotation analysis showed that the target genes were mainly enriched in terms including regulation of DNA-templated transcription, defense response, nucleus, cytoplasm, protein binding, and DNA-binding transcription factor activity. KEGG signaling pathway enrichment analysis revealed that target genes were significantly enriched in pathways including plant-pathogen interaction, plant hormone signal transduction, and carotenoid biosynthesis. A miRNA-target gene-KEGG signaling pathway regulatory model was established, and identify some important miRNA-target gene modules that performed multiple biological regulatory functions were identified. Real-time fluorescence quantitative PCR validation confirmed the reliability of the miRNA sequencing data. 【Conclusion】 miRNAs and their target genes play important regulation roles in the development of Lycium barbarum L. fruits, suggesting that miRNA-target gene modules such as miR156-SPL, miR167-ARF, miR159-MYB, and miR482-bHLH exert important functions in the growth and development, stress response, and secondary metabolite biosynthesis of Lycium barbarum L. fruits.

     

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