Integrated small RNA, mRNA, and degradome sequencing reveals the important role of miRNAs in the interactions between parasitic plant Cuscuta australis and its host Trifolium repens

2021 ◽  
Vol 289 ◽  
pp. 110458
Author(s):  
Li Zhou ◽  
Qiu-Wei Lu ◽  
Bei-Fen Yang ◽  
Lyuben Zagorchev ◽  
Jun-Min Li
Keyword(s):  
Small Rna ◽  
Trifolium Repens ◽  
Parasitic Plant ◽  
Degradome Sequencing

scholarly journals Emerging role of a novel small non-coding regulatory RNA: tRNA-derived small RNA

ExRNA ◽  
2019 ◽  
Vol 1 (1) ◽  
Author(s):  
Fangfang Jin ◽  
Zhigang Guo
Keyword(s):  
Small Rna ◽  
Current Knowledge ◽  
Future Research ◽  
Regulatory Rna ◽  
Biological Functions ◽  
Research Directions ◽  
Non Coding Rna ◽  
Future Research Directions ◽  
Non Coding Rnas

Abstract The discovery of small non-coding RNAs, such as miRNA and piRNA, has dramatically changed our understanding of the role RNA plays in organisms. Recent studies show that a novel small non-coding RNA generated from cleavage of tRNA or pre-tRNA, called tRNA-derived small RNA (tsRNA), serves as a new regulator of gene expression. tsRNA has been determined participate in regulating some specific physiological and pathological processes. Although knowledge regarding the biological roles of miRNA and piRNA is expanding, whether tsRNAs play similar roles remains poorly understood. Here, we review the current knowledge regarding the mechanisms of action and biological functions of tsRNAs in intracellular, extracellular and intergenerational inheritance, and highlight the potential application of tsRNAs in human diseases, and present the current problems and future research directions.

scholarly journals Role of exosomal small RNA in prostate cancer metastasis

2018 ◽  
Vol Volume 10 ◽  
pp. 4029-4038 ◽  
Author(s):  
Fei Zhan ◽  
Jingling Shen ◽  
Ruitao Wang ◽  
Liang Wang ◽  
Yao Dai ◽  
...  
Keyword(s):  
Prostate Cancer ◽  
Small Rna ◽  
Cancer Metastasis ◽  
Prostate Cancer Metastasis

scholarly journals Multiple roles of PIWIL1 in mouse neocorticogenesis

2017 ◽  
Author(s):  
Barbara Viljetic ◽  
Liyang Diao ◽  
Jixia Liu ◽  
Zeljka Krsnik ◽  
Sagara H.R. Wijeratne ◽  
...  
Keyword(s):  
Cell Cycle ◽  
Small Rna ◽  
Radial Glia ◽  
Multiple Roles ◽  
Small Rna Sequencing ◽  
Knock Out ◽  
Deep Layers ◽  
Pirna Pathway ◽  
The Brain

AbstractPIWI-interacting RNAs (piRNAs) and their associated PIWI proteins play an important role in repressing transposable elements in animal germlines. However, little is known about the function of PIWI proteins and piRNAs in the developing brain. Here, we investigated the role of an important PIWI family member, Piwi-like protein 1 (Piwil1; also known as Miwi in mouse) in the developing mouse neocortex. Using a Piwil1 knock-out (Piwil1 KO) mouse strain, we found that Piwil1 is essential for several steps of neocorticogenesis, including neocortical cell cycle, neuron migration and dendritogenesis. Piwil1 deletion resulted in increased cell cycle re-entry at embryonic day 17 (E17) when predominantly intracortically projecting neurons are being produced. Prenatal Piwil1 deletion increased the number of Pax6+ radial glia at postnatal day 0 (P0). Furthermore, Piwil1 deletion disrupted migration of Satb2+ neurons within deep layers at E17, P0 and P7. Satb2+ neurons showed increased co-localization with Bcl11b (also known as Ctip2), marker of subcortically projecting neurons. Piwil1 knockouts had disrupted neocortical circuitry represented by thinning of the corpus callosum and altered dendritogenesis. We further investigated if Piwil1 deletion disrupted expression levels of neocortical piRNAs by small RNA-sequencing in neocortex. We did not find differential expression of piRNAs in the neocortices of Piwil1 KO, while differences were observed in other Piwil1 KO tissues. This result suggests that Piwil1 may act independently of piRNAs and have novel roles in higher cognitive centers, such as neocortex. In addition, we report a screen of piRNAs derived from tRNA fragments in developing neocortices. Our result is the first report of selective subsets of piRNAs and tRNA fragments in developing prenatal neocortices and helps clarify some outstanding questions about the role of the piRNA pathway in the brain.

scholarly journals Small RNA and transcriptome sequencing reveal the role of miR-199a-3p in inflammatory processes in cystic fibrosis airways

2018 ◽  
Vol 245 (4) ◽  
pp. 410-420 ◽  
Author(s):  
Pauline Bardin ◽  
Emmeline Marchal-Duval ◽  
Florence Sonneville ◽  
Sabine Blouquit-Laye ◽  
Nathalie Rousselet ◽  
...  
Keyword(s):  
Cystic Fibrosis ◽  
Small Rna ◽  
Transcriptome Sequencing ◽  
Inflammatory Processes

Small RNA, transcriptome, and degradome sequencing to identify salinity stress responsive miRNAs and target genes in Dunaliella salina

2018 ◽  
Vol 31 (2) ◽  
pp. 1175-1183 ◽  
Author(s):  
Xiangnan Gao ◽  
Yuting Cong ◽  
Jinrong Yue ◽  
Zhenyu Xing ◽  
Yuan Wang ◽  
...  
Keyword(s):  
Salinity Stress ◽  
Small Rna ◽  
Dunaliella Salina ◽  
Target Genes ◽  
Degradome Sequencing

Role of small RNA in regulating plant viral pathogenesis

2020 ◽  
pp. 177-190
Author(s):  
Lovepreet Kaur ◽  
Mohit Sharma ◽  
Shiwani Guleria Sharma
Keyword(s):  
Small Rna ◽  
Viral Pathogenesis

scholarly journals sRNA/L1 retrotransposition: using siRNAs and miRNAs to expand the applications of the cell culture-based LINE-1 retrotransposition assay

2020 ◽  
Vol 375 (1795) ◽  
pp. 20190346 ◽  
Author(s):  
Pablo Tristan-Ramos ◽  
Santiago Morell ◽  
Laura Sanchez ◽  
Belen Toledo ◽  
Jose L. Garcia-Perez ◽  
...  
Keyword(s):  
Cell Culture ◽  
Gene Regulation ◽  
Small Rna ◽  
Host Factors ◽  
Fanconi Anaemia ◽  
Reporter Assay ◽  
Long Interspersed Elements ◽  
Essential Tool ◽  
Conventional Cell

The cell culture-based retrotransposition reporter assay has been (and is) an essential tool for the study of vertebrate Long INterspersed Elements (LINEs). Developed more than 20 years ago, this assay has been instrumental in characterizing the role of LINE-encoded proteins in retrotransposition, understanding how ribonucleoprotein particles are formed, how host factors regulate LINE mobilization, etc. Moreover, variations of the conventional assay have been developed to investigate the biology of other currently active human retrotransposons, such as Alu and SVA. Here, we describe a protocol that allows combination of the conventional cell culture-based LINE-1 retrotransposition reporter assay with short interfering RNAs (siRNAs) and microRNA (miRNAs) mimics or inhibitors, which has allowed us to uncover specific miRNAs and host factors that regulate retrotransposition. The protocol described here is highly reproducible, quantitative, robust and flexible, and allows the study of several small RNA classes and various retrotransposons. To illustrate its utility, here we show that siRNAs to Fanconi anaemia proteins (FANC-A and FANC-C) and an inhibitor of miRNA-20 upregulate and downregulate human L1 retrotransposition, respectively. This article is part of a discussion meeting issue ‘Crossroads between transposons and gene regulation’.

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