Temporal Dynamic Transcriptome Landscape Reveals Regulatory Network During the Early Differentiation of Female Strobilus Buds in Ginkgo biloba.
Temporal Dynamic Transcriptome Landscape Reveals Regulatory Network During the Early Differentiation of Female Strobilus Buds in Ginkgo biloba.
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时间动态转录组景观揭示了银杏雌性球果芽早期分化过程中的调控网络
DOI：
10.3389/fpls.2022.863330
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发表时间：
2022
影响因子：
5.6
通讯作者：
中科院分区：
文献类型：
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作者：
生殖芽分化是种子植物繁殖成功的关键事件之一。然而，我们对裸子植物单性球果或单性球果生殖器官发育的遗传基础的了解仍然有限，对球果芽分化的调控网络知之甚少。本研究基于全转录组测序，分析了银杏雌芽分化早期基因、长链非编码rna （lncRNAs）和microRNAs （miRNAs）的时间动态格局。结果表明，在被子植物和裸子植物分化初期，Gb_19790 （GbFT）、Gb_13989 （GinNdly）和Gb_16301 （AG）三个基因的功能都是保守的。基因、lncrna和mirna的表达从胚珠初始分化到胚珠柄原基的扩大经历了实质性的变化。除蛋白质编码基因外，364个lncrna和15个mirna被确定具有功能。此外，我们还发现了一个由10,248对lncRNA-miRNA-mRNA组成的竞争性内源RNA （ceRNA）网络，该网络与排卵柄原基的发育高度相关。本研究以活化石银杏为研究系统，不仅揭示了开花相关基因的表达模式，而且对lncrna和mirna的调控网络，特别是ceRNA网络提供了新的认识，为进一步研究球果芽分化的潜在调控机制奠定了基础。
Reproductive bud differentiation is one of the most critical events for the reproductive success of seed plants. Yet, our understanding of genetic basis remains limited for the development of the reproductive organ of gymnosperms, namely, unisexual strobilus or cone, leaving its regulatory network largely unknown for strobilus bud differentiation. In this study, we analyzed the temporal dynamic landscapes of genes, long non-coding RNAs (lncRNAs), and microRNAs (miRNAs) during the early differentiation of female strobilus buds in Ginkgo biloba based on the whole transcriptome sequencing. Results suggested that the functions of three genes, i.e., Gb_19790 (GbFT), Gb_13989 (GinNdly), and Gb_16301 (AG), were conserved in both angiosperms and gymnosperms at the initial differentiation stage. The expression of genes, lncRNAs, and miRNAs underwent substantial changes from the initial differentiation to the enlargement of ovule stalk primordia. Besides protein-coding genes, 364 lncRNAs and 15 miRNAs were determined to be functional. Moreover, a competing endogenous RNA (ceRNA) network comprising 10,248 lncRNA-miRNA-mRNA pairs was identified, which was highly correlated with the development of ovulate stalk primordia. Using the living fossil ginkgo as the study system, this study not only reveals the expression patterns of genes related to flowering but also provides novel insights into the regulatory networks of lncRNAs and miRNAs, especially the ceRNA network, paving the way for future studies concerning the underlying regulation mechanisms of strobilus bud differentiation.
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影响因子：
--
作者：
Kalvari I;Nawrocki EP;Argasinska J;Quinones-Olvera N;Finn RD;Bateman A;Petrov AI
通讯作者：
Petrov AI
影响因子：
10.7
作者：
Huerta-Cepas J;Forslund K;Coelho LP;Szklarczyk D;Jensen LJ;von Mering C;Bork P
通讯作者：
Bork P
影响因子：
5.4
作者：
Kornienko AE;Guenzl PM;Barlow DP;Pauler FM
通讯作者：
Pauler FM
裸子植物和被子植物 MIKCc 型 MADS-Box 基因的进化分析
影响因子：
5.6
作者：
Chen F;Zhang X;Liu X;Zhang L
通讯作者：
Zhang L
影响因子：
4.9
作者：
Ishida, T;Aida, M;Tasaka, M
通讯作者：
Tasaka, M