In silico identification and computational characterization of endogenous small interfering RNAs from diverse grapevine tissues and stages

Xudong Zhu; Songtao Jiu; Xiaopeng Li; Kekun Zhang; Mengqi Wang; Chen Wang; Jinggui Fang

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자료유형: 학술저널

저자정보: Xudong Zhu (Nanjing Agricultural University) Songtao Jiu (Nanjing Agricultural University) Xiaopeng Li (Nanjing Agricultural University) Kekun Zhang (Nanjing Agricultural University) Mengqi Wang (Nanjing Agricultural University) Chen Wang (Nanjing Agricultural University) Jinggui Fang (Nanjing Agricultural University)

저널정보: 한국유전학회 Genes & Genomics Genes & Genomics Vol.40 No.8

발행연도: 2018.1

수록면: 801 - 817 (17page)

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Small interfering RNAs (siRNAs) are effectors of regulatory pathways underlying plant development, metabolism, and stress- and nutrient-signaling regulatory networks. The endogenous siRNAs are generally not conserved between plants; consequently, it is necessary and important to identify and characterize siRNAs from various plants. To address the nature and functions of siRNAs, and understand the biological roles of the huge siRNA population in grapevine (Vitis vinifera L.). The high-throughput sequencing technology was used to identify a large set of putative endogenous siRNAs from six grapevine tissues/organs. Subsequently, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis was performed to classify the target genes of siRNA. In total, 520,519 candidate siRNAs were identified and their expression profiles exhibited typical temporal characters during grapevine development. In addition, we identified two grapevine trans-acting siRNA (TAS) gene homologs (VvTAS3 and VvTAS4) and the derived trans-acting siRNAs (tasiRNAs) that could target grapevine auxin response factor (ARF) and myeloblastosis (MYB) genes. Furthermore, the GO and KEGG analysis of target genes showed that most of them covered a broad range of functional categories, especially involving in disease-resistance process. The large-scale and completely genome-wide level identification and characterization of grapevine endogenous siRNAs from the diverse tissues by high throughput technology revealed the nature and functions of siRNAs in grapevine.

참고문헌 (57)

참고문헌 신청

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