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菠萝蜜叶白化病相关长非编码 RNA 的筛选与鉴定。

Screening and characterization of long noncoding RNAs involved in the albinism of Ananas comosus var. bracteatus leaves.

机构信息

College of Landscape Architecture of Sichuan Agricultural University, Chengdu, Sichuan, China.

Horticultural Biotechnology College of South China Agricultural University, Guangzhou, Guangdong, China.

出版信息

PLoS One. 2019 Nov 22;14(11):e0225602. doi: 10.1371/journal.pone.0225602. eCollection 2019.

DOI:10.1371/journal.pone.0225602
PMID:31756232
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6874346/
Abstract

Long noncoding RNAs (lncRNAs) have been reported to play key regulatory roles in plant growth, development, and biotic and abiotic stress physiology. Revealing the mechanism of lncRNA regulation in the albino portions of leaves is important for understanding the development of chimeric leaves in Ananas comosus var. bracteatus. In this study, a total of 3,543 candidate lncRNAs were identified, among which 1,451 were differentially expressed between completely green (CGr) and completely white (CWh) leaves. LncRNAs tend to have shorter transcripts, lower expression levels, and greater expression specificity than protein-coding genes. Predicted lncRNA targets were functionally annotated by the Gene Ontology (GO), Clusters of Orthologous Groups (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. A lncRNA-mRNA interaction network was constructed, and 36 target mRNAs related to chlorophyll metabolism were predicted to interact with 86 lncRNAs. Among these, 25 significantly differentially expressed lncRNAs putatively interacted with 16 target mRNAs. Based on an expression pattern analysis of the lncRNAs and their target mRNAs, the lncRNAs targeting magnesium chelatase subunit H (ChlH), protochlorophyllide oxidoreductase (POR), and heme o synthase (COX10) were suggested as key regulators of chlorophyll metabolism. This study provides the first lncRNA database for A. comosus var. bracteatus and contributes greatly to understanding the mechanism of epigenetic regulation of leaf albinism.

摘要

长链非编码 RNA（lncRNA）在植物生长、发育以及生物和非生物胁迫生理中发挥着关键的调节作用。揭示 lncRNA 在菠萝蜜叶白化部分的调控机制对于理解其嵌合叶的发育具有重要意义。本研究共鉴定了 3543 个候选 lncRNA，其中 1451 个在完全绿色（CGr）和完全白色（CWh）叶片之间存在差异表达。lncRNA 倾向于具有较短的转录本、较低的表达水平和更大的表达特异性，而不是蛋白质编码基因。预测的 lncRNA 靶标通过基因本体论（GO）、同源簇（COG）和京都基因与基因组百科全书（KEGG）数据库进行功能注释。构建了 lncRNA-mRNA 相互作用网络，预测了 36 个与叶绿素代谢相关的靶 mRNA 与 86 个 lncRNA 相互作用。其中，25 个差异显著表达的 lncRNA 可能与 16 个靶 mRNA 相互作用。基于 lncRNA 和其靶 mRNA 的表达模式分析，针对镁螯合酶亚基 H（ChlH）、原叶绿素氧化还原酶（POR）和血红素 o 合酶（COX10）的 lncRNA 被认为是叶绿素代谢的关键调节剂。本研究为菠萝蜜 var. bracteatus 提供了第一个 lncRNA 数据库，为理解叶白化的表观遗传调控机制做出了重要贡献。

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