Screening and characterization of long noncoding RNAs involved in the albinism of Ananas comosus var. bracteatus leaves
Screening and characterization of long noncoding RNAs involved in the albinism of Ananas comosus var. bracteatus leaves
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凤梨白化病相关长链非编码 RNA 的筛选和表征
DOI：
10.1371/journal.pone.0225602
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发表时间：
2019-11
期刊：
影响因子：
3.7
通讯作者：
Ma Jun
中科院分区：
文献类型：
--
作者：
Lin Zhen;Xiong Yingyuan;Xue Yanbin;Mao Meiqin;Xiang Yixuan;He Yehua;Rafique Fatima;Hu Hao;Liu Jiawen;Li Xi;Sun Lingxia;Huang Zhuo;Ma Jun
长链非编码RNA（lncRNA）在植物生长发育、生物和非生物胁迫生理中起着重要的调控作用。揭示lncRNA在叶片白化病部位的调控机制对于理解菠萝嵌合体叶片的发育具有重要意义。具苞片的在这项研究中，总共鉴定了3，543个候选lncRNA，其中1，451个在完全绿色（CGr）和完全白色（CWh）叶片之间差异表达。与蛋白质编码基因相比，lncRNA往往具有较短的转录本、较低的表达水平和更高的表达特异性。预测的lncRNA靶标通过基因本体（GO）、同源群簇（COG）和京都基因和基因组百科全书（KEGG）数据库进行功能注释。构建lncRNA-mRNA相互作用网络，预测36个与叶绿素代谢相关的靶mRNA与86个lncRNA相互作用。其中，25个显著差异表达的lncRNAs与16个靶mRNA相互作用。基于lncRNA及其靶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）和血红素合酶（COX 10）的lncRNA被认为是叶绿素代谢的关键调节因子。本研究为A.丛毛变种bracteatus的研究，为了解叶白化的表观遗传调控机制做出了重要贡献。
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.
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影响因子：
46.9
作者：
Trapnell C;Williams BA;Pertea G;Mortazavi A;Kwan G;van Baren MJ;Salzberg SL;Wold BJ;Pachter L
通讯作者：
Pachter L
影响因子：
14.9
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影响因子：
16.6
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Abdel-Ghany SE;Hamilton M;Jacobi JL;Ngam P;Devitt N;Schilkey F;Ben-Hur A;Reddy AS
通讯作者：
Reddy AS
影响因子：
14.9
作者：
Moran VA;Perera RJ;Khalil AM
通讯作者：
Khalil AM
影响因子：
3.7
作者：
Li X;Kanakala S;He Y;Zhong X;Yu S;Li R;Sun L;Ma J
通讯作者：
Ma J