RNA Binding Protein Regulation and Cross-Talk in the Control of AU-rich mRNA Fate

García‐Mauriño, Sofía; Rivero-Rodríguez, Francisco; Velázquez‐Cruz, Alejandro; Hernández-Vellisca, Marian; Díaz-Quintana, Antonio; Rosa, Miguel Á. De la; Dı́az-Moreno, Irene

doi:10.3389/fmolb.2017.00071

Cited by 139 publications

(121 citation statements)

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“…Herein, we found that circ‐CCND1 could directly bind to HuR to potentiate CCND1 mRNA stability. HuR is a well‐known RNA‐binding protein that prevents mRNA decay via targeting the uridylate‐rich element (ARE, (A/U)UUU(A/U)) on the 3′‐UTR . A wealth of studies have demonstrated that HuR is ubiquitously expressed in eukaryotic organization and frequently elevated in human cancers, including LSCC .…”

Section: Discussionmentioning

confidence: 99%

“…HuR is a well-known RNA-binding protein that prevents mRNA decay via targeting the uridylate-rich element (ARE, (A/U)UUU(A/U)) on the 3′-UTR. 26 A wealth of studies have demonstrated that HuR is ubiquitously expressed in eukaryotic organization and frequently elevated in human cancers, including LSCC. 27 CCND1 is one of the best-known HuR targets, in which HuR increases the half-life of CCND1 by the ARE motif on CCND1 3′-UTR.…”

Section: Discussionmentioning

confidence: 99%

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circRNA circ‐CCND1 promotes the proliferation of laryngeal squamous cell carcinoma through elevating CCND1 expression via interacting with HuR and miR‐646

Zang

Wan

et al. 2020

J Cellular Molecular Medi

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Cyclin D1 (CCND1) is a well‐known proliferation promoter that accelerates G1/S transition in cancer. However, the underlying mechanism by which CCND1 is regulated is still largely unknown. In this study, we identified a novel circular RNA (circRNA) derived from CCND1 (circ‐CCND1, hsa_circ_0023303) as a key regulator for CCND1. circ‐CCND1 was found to be markedly up‐regulated in laryngeal squamous cell carcinoma (LSCC) and closely associated with aggressive clinical features and adverse prognosis. Depletion of circ‐CCND1 significantly inhibited LSCC cell proliferation in vitro and retarded tumour growth in vivo. Regarding the mechanism, circ‐CCND1 physically bound to human antigen R (HuR) protein to enhance CCND1 mRNA stability; on the other hand, circ‐CCND1 could act as an effective sponge for miR‐646 to alleviate the repression of miR‐646 on CCND1 mRNA. As a result, circ‐CCND1 post‐transcriptionally elevated CCND1 expression via coordinated avoidance of CCND1 mRNA decay, thereby promoting LSCC tumorigenesis. Taken together, our findings uncover the essential proliferation‐promoting role of circ‐CCND1 through regulation of the stability of CCND1 mRNA in LSCC. Targeting circ‐CCND1 may be a promising treatment for LSCC patients.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

circRNA circ‐CCND1 promotes the proliferation of laryngeal squamous cell carcinoma through elevating CCND1 expression via interacting with HuR and miR‐646

Zang

Wan

et al. 2020

J Cellular Molecular Medi

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“…Another well‐characterized ARE‐binding protein is HuR (Grammatikakis, Abdelmohsen, & Gorospe, ; López de Silanes, Zhan, Lal, Yang, & Gorospe, ). HuR is known to affect multiple posttranscriptional processes, including mRNA stability and translation (reviewed in García‐Mauriño et al, ; Grammatikakis et al, ). HuR has been shown to increase the stability of transcripts involved in carcinogenesis, cell proliferation and survival, and oxidative and genotoxic cellular response (Fan et al, ; Y. Li, Estep, & Karginov, ).…”

Section: Deadenylation: Rbps and Micrornasmentioning

confidence: 99%

Connections between 3′ end processing and DNA damage response: Ten years later

Murphy

Kleiman

2019

WIREs RNA

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Ten years ago we reviewed how the cellular DNA damage response (DDR) is controlled by changes in the functional and structural properties of nuclear proteins, resulting in a timely coordinated control of gene expression that allows DNA repair. Expression of genes that play a role in DDR is regulated not only at transcriptional level during mRNA biosynthesis but also by changing steady‐state levels due to turnover of the transcripts. The 3′ end processing machinery, which is important in the regulation of mRNA stability, is involved in these gene‐specific responses to DNA damage. Here, we review the latest mechanistic connections described between 3′ end processing and DDR, with a special emphasis on alternative polyadenylation, microRNA and RNA binding proteins‐mediated deadenylation, and discuss the implications of deregulation of these steps in DDR and human disease. This article is categorized under: RNA Processing > 3′ End Processing RNA‐Based Catalysis > Miscellaneous RNA‐Catalyzed Reactions RNA in Disease and Development > RNA in Disease

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“…Interactions between RNA-binding proteins (RBPs) and RNA are essential for the control of gene expression by regulating the processes of transcription, trafficking, decay and mRNA translation 1–7 . In this way, RNA-RBP crosstalk controls cell homeostasis and cell fate.…”

Section: Introductionmentioning

confidence: 99%

Unbiased dynamic characterization of RNA-protein interactions by OOPS

Queiroz

Smith

Villanueva

et al. 2018

Preprint

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27Current methods for the identification of RNA-protein interactions require a quantity and 28 quality of sample that hinders their application, especially for dynamic biological 29 systems or when sample material is limiting. Here, we present a new approach to enrich 30 RNA-Binding Proteins (RBPs): Orthogonal Organic Phase Separation (OOPS), which is 31 compatible with downstream proteomics and RNA sequencing. OOPS enables recovery 32 of RBPs and free protein, or protein-bound RNA and free RNA, from a single sample in 33 an unbiased manner. By applying OOPS to human cell lines, we extract the majority of 34 known RBPs, and importantly identify additional novel RBPs, including those from 35 previously under-represented cellular compartments. The high yield and unbiased 36 nature of OOPS facilitates its application in both dynamic and inaccessible systems. 37 Thus, we have identified changes in RNA-protein interactions in mammalian cells 38 following nocodazole cell-cycle arrest, and defined the first bacterial RNA-interactome. 39 Overall, OOPS provides an easy-to-use and flexible technique that opens new 40 opportunities to characterize RNA-protein interactions and explore their dynamic 41 behaviour. 42 43 44 59 conditions 13 . Moreover, the theoretical dependence on the presence of RNA polyA tails, 60 makes oligo(dT)-based capture methods incompatible for organisms with little or no 61 polyadenylation, such as prokaryotes, or for non-polyadenylated RNAs; thus introducing 62 bias in the RBPs identified. There have been recent attempts to address the oligo(dT) 63 limitations, but these have involved incorporation of modified nucleotides, which by itself 64 restricts its applicability and introduces a bias in transcription-dependent nucleoside-65 incorporation 14-16 . 66 67 2 To address these limitations, we have developed a method based on Acidic 68 Guanidinium Thiocyanate-Phenol-Chloroform (AGPC) phase partition, called 69 Orthogonal Organic Phase Separation (OOPS). AGPC purification permits the recovery 70 of RNA species in an unbiased manner 17,18 . In standard conditions, when lysing cells in 71 AGPC, two distinct phases are formed: RNA migrates to the upper aqueous phase and 72 proteins occupy the lower organic phase. Here, we utilise UV crosslinking at 254 nm to 73 generate RNA-protein adducts that combine the physicochemical properties of both 74 molecules and thus migrate to the aqueous-organic interface 19 . Isolation of the interface 75 allows specific recovery of either RBPs or PBRs by digesting the reciprocal component 76 of the adduct. 77 78 Here, we demonstrate the specificity and versatility of OOPS. Separation of free and 79 protein-bound RNA provides a way to quantify the proportion of RNA crosslinked to 80 protein, enabling precise optimisation of UV dosage. Furthermore, we show that OOPS 81 recovers all crosslinked-RNA (CL-RNA) and thus all crosslinked RBPs. To demonstrate 82 the versatility of OOPS, we analyse RNA-binding changes through cell-cycle 83 progression following noc...

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RNA Binding Protein Regulation and Cross-Talk in the Control of AU-rich mRNA Fate

Cited by 139 publications

References 100 publications

circRNA circ‐CCND1 promotes the proliferation of laryngeal squamous cell carcinoma through elevating CCND1 expression via interacting with HuR and miR‐646

circRNA circ‐CCND1 promotes the proliferation of laryngeal squamous cell carcinoma through elevating CCND1 expression via interacting with HuR and miR‐646

Connections between 3′ end processing and DNA damage response: Ten years later

Unbiased dynamic characterization of RNA-protein interactions by OOPS

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