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鹰嘴豆种子发育过程中microRNA的全基因组分析揭示了它们在种子大小/重量决定中的功能相关性。

Genome-wide profiling of miRNAs during seed development reveals their functional relevance in seed size/weight determination in chickpea.

作者信息

Khemka Niraj, Singh Rajkumar Mohan, Garg Rohini, Jain Mukesh

机构信息

School of Computational & Integrative Sciences Jawaharlal Nehru University New Delhi India.

Department of Life Sciences School of Natural Sciences Shiv Nadar University Gautam Buddha Nagar Uttar Pradesh India.

出版信息

Plant Direct. 2021 Mar 12;5(3):e00299. doi: 10.1002/pld3.299. eCollection 2021 Mar.

DOI:10.1002/pld3.299
PMID:33738384
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7954459/
Abstract

MicroRNAs (miRNAs) are non-coding small RNAs that regulate gene expression at transcriptional and post-transcriptional levels. The role of miRNAs in seed development and seed size/weight determination is poorly understood in legumes. In this study, we profiled miRNAs at seven successive stages of seed development in a small-seeded and a large-seeded chickpea cultivar via small RNA sequencing. In total, 113 known and 243 novel miRNAs were identified. Gene ontology analysis revealed the enrichment of seed/reproductive/post-embryonic development and signaling pathways processes among the miRNA target genes. A large fraction of the target genes exhibited antagonistic correlation with miRNA expression. The sets of co-expressed miRNAs showing differential expression between the two cultivars were recognized. Known transcription factor (TF) encoding genes involved in seed size/weight determination, including , , , , and along with novel genes were found to be targeted by the predicted miRNAs. Differential expression analysis revealed higher transcript levels of members of and TF families and lower expression of their corresponding miRNAs in the large-seeded cultivar. At least 19 miRNAs known to be involved in seed development or differentially expressed between small-seeded and large-seeded cultivars at late-embryogenesis and/or mid-maturation stages were located within known quantitative trait loci (QTLs) associated with seed size/weight determination. Moreover, 41 target genes of these miRNAs were also located within these QTLs. Altogether, we revealed important roles of miRNAs in seed development and identified candidate miRNAs and their target genes that have functional relevance in determining seed size/weight in chickpea.

摘要

微小RNA（miRNA）是一类非编码小RNA，可在转录水平和转录后水平调控基因表达。在豆科植物中，miRNA在种子发育以及种子大小/重量决定方面的作用尚不清楚。在本研究中，我们通过小RNA测序分析了一个小粒和一个大粒鹰嘴豆品种种子发育连续七个阶段的miRNA。总共鉴定出113个已知miRNA和243个新miRNA。基因本体分析显示，miRNA靶基因中种子/生殖/胚后发育及信号通路过程显著富集。大部分靶基因与miRNA表达呈负相关。识别出了两个品种间差异表达的共表达miRNA集。发现参与种子大小/重量决定的已知转录因子（TF）编码基因，包括 、 、 、 、 以及新基因，均为预测的miRNA的靶标。差异表达分析显示，大粒品种中 和 TF家族成员的转录水平较高，而其相应miRNA的表达较低。至少19个已知参与种子发育或在胚胎后期和/或成熟中期在小粒和大粒品种间差异表达的miRNA位于与种子大小/重量决定相关的已知数量性状位点（QTL）内。此外，这些miRNA的41个靶基因也位于这些QTL内。总之，我们揭示了miRNA在种子发育中的重要作用，并鉴定出了在鹰嘴豆种子大小/重量决定中具有功能相关性的候选miRNA及其靶基因。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/4a125630432a/PLD3-5-e00299-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/e64e095b316a/PLD3-5-e00299-g006.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/cb0e198d467d/PLD3-5-e00299-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/4a125630432a/PLD3-5-e00299-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/e64e095b316a/PLD3-5-e00299-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/6ee36a638601/PLD3-5-e00299-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/4f9ba090dc1f/PLD3-5-e00299-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8b9/7954459/eaf7b193eac8/PLD3-5-e00299-g001.jpg
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本文引用的文献

1
PmiREN: a comprehensive encyclopedia of plant miRNAs.PmiREN：一个综合性的植物 miRNA 百科全书。
Nucleic Acids Res. 2020 Jan 8;48(D1):D1114-D1121. doi: 10.1093/nar/gkz894.
2
Molecular Networks of Seed Size Control in Plants.植物种子大小调控的分子网络。
Annu Rev Plant Biol. 2019 Apr 29;70:435-463. doi: 10.1146/annurev-arplant-050718-095851. Epub 2019 Feb 22.
3
miRDeep-P2: accurate and fast analysis of the microRNA transcriptome in plants.miRDeep-P2：植物 microRNA 转录组的精确和快速分析。
全球转录组和共表达网络分析揭示了控制花生种子大小/重量和/或油含量的关键基因。
Plants (Basel). 2023 Aug 31;12(17):3144. doi: 10.3390/plants12173144.
4
The developmental dynamics in cool season legumes with focus on chickpea.关注鹰嘴豆的冷季豆类的发育动态。
Plant Mol Biol. 2023 Apr;111(6):473-491. doi: 10.1007/s11103-023-01340-w. Epub 2023 Apr 4.
5
Comparative transcriptomics analysis of developing peanut ( L.) pods reveals candidate genes affecting peanut seed size.发育中的花生（L.）荚果的比较转录组学分析揭示了影响花生种子大小的候选基因。
Front Plant Sci. 2022 Sep 12;13:958808. doi: 10.3389/fpls.2022.958808. eCollection 2022.
6
Genome-wide analysis suggests the potential role of lncRNAs during seed development and seed size/weight determination in chickpea.全基因组分析表明 lncRNAs 在鹰嘴豆种子发育和种子大小/重量决定中的潜在作用。
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7
Identification of miRNA-mRNA Regulatory Modules Involved in Lipid Metabolism and Seed Development in a Woody Oil Tree ().鉴定与木本油料树的脂代谢和种子发育相关的 miRNA-mRNA 调控模块()。
Cells. 2021 Dec 27;11(1):71. doi: 10.3390/cells11010071.
8
Non-Coding RNAs in Legumes: Their Emerging Roles in Regulating Biotic/Abiotic Stress Responses and Plant Growth and Development.豆科植物中的非编码 RNA：在调节生物/非生物胁迫响应以及植物生长发育中的新兴作用。
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4
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7
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8
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