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miR2118 触发的相移 siRNAs 在野生和驯化非洲稻种的穗发育过程中呈现差异表达。

miR2118-triggered phased siRNAs are differentially expressed during the panicle development of wild and domesticated African rice species.

机构信息

IRD, UMR DIADE, 911, avenue Agropolis, BP64501, F-34394, Montpellier, Cedex 5, France.

LMI RICE, National Key Laboratory for Plant Cell Biotechnology, Agronomical Genetics Institute, Pham Van Dong road, Hanoi, Vietnam.

出版信息

Rice (N Y). 2016 Dec;9(1):10. doi: 10.1186/s12284-016-0082-9. Epub 2016 Mar 12.

DOI:10.1186/s12284-016-0082-9
PMID:26969003
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4788661/
Abstract

BACKGROUND

Rice exhibits a wide range of panicle structures. To explain these variations, much emphasis has been placed on changes in transcriptional regulation, but no large-scale study has yet reported on changes in small RNA regulation in the various rice species. To evaluate this aspect, we performed deep sequencing and expression profiling of small RNAs from two closely related species with contrasting panicle development: the cultivated African rice Oryza glaberrima and its wild relative Oryza barthii.

RESULTS

Our RNA-seq analysis revealed a dramatic difference between the two species in the 21 nucleotide small RNA population, corresponding mainly to miR2118-triggered phased siRNAs. A detailed expression profiling during the panicle development of O. glaberrima and O. barthii using qRT-PCRs and in situ hybridization, confirmed a delayed expression of the phased siRNAs as well as their lncRNA precursors and regulators (miR2118 and MEL1 gene) in O. glaberrima compared to O. barthii. We provide evidence that the 21-nt phasiRNA pathway in rice is associated with male-gametogenesis but is initiated in spikelet meristems.

CONCLUSION

Differential expression of the miR2118-triggered 21-nt phasiRNA pathway between the two African rice species reflects differential rates of determinate fate acquisition of panicle meristems between the two species.

摘要

背景

水稻表现出广泛的穗结构。为了解释这些变化，人们非常重视转录调控的变化，但迄今为止，还没有关于不同水稻物种中小 RNA 调控变化的大规模研究。为了评估这一方面，我们对两个亲缘关系密切但穗发育方式截然不同的物种进行了小 RNA 的深度测序和表达谱分析：栽培的非洲稻 Oryza glaberrima 和其野生近缘种 Oryza barthii。

结果

我们的 RNA-seq 分析表明，这两个物种在 21 核苷酸小 RNA 群体中存在显著差异，主要对应于 miR2118 触发的相控 siRNAs。使用 qRT-PCR 和原位杂交对 O. glaberrima 和 O. barthii 的穗发育过程进行详细的表达谱分析，证实了相控 siRNAs 及其 lncRNA 前体和调控因子（miR2118 和 MEL1 基因）在 O. glaberrima 中的表达延迟，而在 O. barthii 中则没有。我们提供的证据表明，水稻中的 21-nt phasiRNA 途径与雄性配子发生有关，但它是在小穗分生组织中启动的。

结论

这两个非洲稻种之间 miR2118 触发的 21-nt phasiRNA 途径的差异表达反映了两个物种之间穗分生组织决定命运获取的不同速率。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/b388ebc4bd76/12284_2016_82_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/90cf4fbe3f20/12284_2016_82_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/7717b9972fba/12284_2016_82_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/a6cb839a3abb/12284_2016_82_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/e303bc8cd975/12284_2016_82_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/b388ebc4bd76/12284_2016_82_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/90cf4fbe3f20/12284_2016_82_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/7717b9972fba/12284_2016_82_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/a6cb839a3abb/12284_2016_82_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/e303bc8cd975/12284_2016_82_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/de1b/4788661/b388ebc4bd76/12284_2016_82_Fig5_HTML.jpg

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