Topical Collection "Post-Transcriptional Gene Regulation by Ribonucleoprotein Complexes"

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A topical collection in International Journal of Molecular Sciences (ISSN 1422-0067). This collection belongs to the section "Biochemistry, Molecular Biology and Biophysics".

Editor

Collection Editor
Dr. Kotb Abdelmohsen
Laboratory of Molecular Biology and Immunology; National Institute on Aging-Intramural Research Program; National Institutes of Health; Baltimore, MD USA
E-Mail: abdelmohsenk@grc.nia.nih.gov
Interests: cancer; aging; post-transcriptional gene regulation; cell signaling; oxidative stress; RNA-binding proteins; mRNA stability; mRNA translation; long non-coding RNAs; micro-RNA (miRNA)

Topical Collection Information

Dear Colleagues,

Post-transcriptional gene regulation by Ribonucleoprotein complexes. Ribonucleoprotein complexes are widely present in eukaryotic cells representing protein interactions with coding and non-coding RNAs. In the last few years we observed a great advance in identifying the precise protein-bound RNA sequences through the technology of RNA sequencing. These interactions are major regulators of post-transcriptional gene expression.  They control RNA splicing, mRNA export, stability and translation. They regulate microRNA (miRNA) processing through binding to primary, precursor, and mature sequences. RNA-binding proteins also bind long non-coding RNAs (lncRNAs) to guide them through their interactions with mRNA to regulate mRNA stability or translation.

The goal of this collection is to introduce the recent advances in the area of post-transcriptional gene regulation through RNA-protein interactions. The issue will generally focus on RNA-binding proteins and their effects on mRNA stability, translation and subcellular localization. The mechanisms and biological consequences of assembly of ribonucleoprotein complexes in which non-coding RNAs (lncRNAs and miRNAs) are the binding partners will be also addressed in this issue. Authors are also encouraged to review the recent progress in large-scale experimental approaches such as deep sequencing of total RNA and PAR-CLIP (photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation) of protein-bound RNAs. It is also important to review the new developments and challenges in computational methods that identify and characterize protein-bound cis-regulatory RNA sequences.

Dr. Kotb Abdelmohsen
Collection Editor

Manuscript Submission Information

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Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1600 CHF (Swiss Francs).

Keywords

  • post-transcriptional gene regulation
  • transcriptome
  • RNA-binding proteins
  • mRNA stability
  • mRNA translation
  • RNA metabolism
  • RNA export
  • long non-coding RNAs
  • Micro-RNA (miRNA)
  • PAR-CLIP
  • deep sequencing

Published Papers (17 papers)

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2015  ( 1 paper )


2014  ( 2 papers )


2013  ( 14 papers )


2015
by , , ,  and
Int. J. Mol. Sci. 2015, 16(4), 7112-7132; doi:10.3390/ijms16047112
Received: 29 December 2014 / Revised: 11 March 2015 / Accepted: 23 March 2015 / Published: 30 March 2015
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2014
by ,  and
Int. J. Mol. Sci. 2014, 15(12), 23377-23388; doi:10.3390/ijms151223377
Received: 26 October 2014 / Revised: 5 December 2014 / Accepted: 11 December 2014 / Published: 16 December 2014
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by  and
Int. J. Mol. Sci. 2014, 15(8), 14492-14504; doi:10.3390/ijms150814492
Received: 10 July 2014 / Revised: 8 August 2014 / Accepted: 15 August 2014 / Published: 20 August 2014
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2013
by  and
Int. J. Mol. Sci. 2013, 14(12), 23402-23419; doi:10.3390/ijms141223402
Received: 13 September 2013 / Revised: 11 November 2013 / Accepted: 13 November 2013 / Published: 28 November 2013
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by ,  and
Int. J. Mol. Sci. 2013, 14(11), 22906-22932; doi:10.3390/ijms141122906
Received: 22 September 2013 / Revised: 13 November 2013 / Accepted: 13 November 2013 / Published: 20 November 2013
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Int. J. Mol. Sci. 2013, 14(11), 22117-22131; doi:10.3390/ijms141122117
Received: 18 July 2013 / Revised: 21 October 2013 / Accepted: 28 October 2013 / Published: 8 November 2013
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by , , , ,  and
Int. J. Mol. Sci. 2013, 14(11), 21705-21726; doi:10.3390/ijms141121705
Received: 6 September 2013 / Revised: 17 October 2013 / Accepted: 22 October 2013 / Published: 1 November 2013
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by , , , ,  and
Int. J. Mol. Sci. 2013, 14(10), 20256-20281; doi:10.3390/ijms141020256
Received: 29 July 2013 / Revised: 6 September 2013 / Accepted: 16 September 2013 / Published: 11 October 2013
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by ,  and
Int. J. Mol. Sci. 2013, 14(10), 20079-20111; doi:10.3390/ijms141020079
Received: 5 July 2013 / Revised: 13 September 2013 / Accepted: 18 September 2013 / Published: 9 October 2013
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by , ,  and
Int. J. Mol. Sci. 2013, 14(9), 19202-19229; doi:10.3390/ijms140919202
Received: 3 July 2013 / Revised: 17 August 2013 / Accepted: 6 September 2013 / Published: 18 September 2013
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by ,  and
Int. J. Mol. Sci. 2013, 14(9), 18999-19024; doi:10.3390/ijms140918999
Received: 12 August 2013 / Revised: 2 September 2013 / Accepted: 4 September 2013 / Published: 16 September 2013
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by ,  and
Int. J. Mol. Sci. 2013, 14(9), 18009-18023; doi:10.3390/ijms140918009
Received: 25 June 2013 / Revised: 21 August 2013 / Accepted: 26 August 2013 / Published: 3 September 2013
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by , , ,  and
Int. J. Mol. Sci. 2013, 14(8), 17204-17220; doi:10.3390/ijms140817204
Received: 11 July 2013 / Revised: 31 July 2013 / Accepted: 9 August 2013 / Published: 20 August 2013
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by , , ,  and
Int. J. Mol. Sci. 2013, 14(8), 17111-17121; doi:10.3390/ijms140817111
Received: 1 July 2013 / Revised: 5 August 2013 / Accepted: 7 August 2013 / Published: 19 August 2013
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by  and
Int. J. Mol. Sci. 2013, 14(8), 16168-16183; doi:10.3390/ijms140816168
Received: 9 July 2013 / Revised: 23 July 2013 / Accepted: 25 July 2013 / Published: 5 August 2013
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by , ,  and
Int. J. Mol. Sci. 2013, 14(8), 15785-15809; doi:10.3390/ijms140815785
Received: 1 July 2013 / Revised: 15 July 2013 / Accepted: 18 July 2013 / Published: 30 July 2013
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by , ,  and
Int. J. Mol. Sci. 2013, 14(5), 9018-9036; doi:10.3390/ijms14059018
Received: 28 January 2013 / Revised: 7 April 2013 / Accepted: 15 April 2013 / Published: 25 April 2013
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Planned Papers

The below list represents only planned manuscripts. Some of these manuscripts have not been received by the Editorial Office yet. Papers submitted to MDPI journals are subject to peer-review.

Title: RNA binding protein-mediated alternative splicing in regulation of adipocyte differentiation
Author: Lin Jung-Chun
Abstract: lternative splicing is realized as a common phenomenon with the advent of whole transcriptome analysis, or next generation sequencing. Over 90% of human genes have been demonstrated to undergo at least one alternative splicing event. Alternative splicing is an effective mechanism to spatiotemporally expand the protein diversity, which influences the cell fate and tissue development. The first focus of this review is to highlight the recent studies which demonstrate the effect of alternative splicing on the differentiation of adipocyte. Moreover, the employment of evolving high throughput approaches, including mRNA-Seq and CLIP-Seq, on profiling adipogenic transcriptome is next addressed

Title: RNA binding proteins involved in post-transcriptional regulation of HIV-1 RNA metabolism
Authors: Jeffrey D. Levengood, Niyati Jain, Christopher E. Morgan and Blanton S. Tolbert
Abstract: RNA binding proteins (RBPs) constitute a large family of trans factors that regulate eukaryotic post-transcriptional processes. During the lifecycle of the Human Immunodeficiency Virus 1 (HIV-1), gene expression is mediated via the dynamic assembly/disassembly of RBPs with conserved RNA elements. Many of these protein-RNA interactions are essential to HIV-1 replication and as such they are considered novel targets for therapeutic intervention. Here, we will review the current understanding of how RBPs regulate select HIV-1 post-transcriptional pathways. We will also discuss techniques for elucidating genome-wide viral RNA-protein interactions, along with the structural methods that reveal additional molecular-level insights.

Title: Regulation of the miRNA pathway by RNA binding proteins
Author: Gyorgy Hutvagner
Abstract: miRNAs are small RNAs that are key regulators of eukaryotic gene expression. miRNA maturation and miRNA-mediated gene regulation are controlled at multiple steps by auxiliary factors. Among them, RNA binding proteins are key factors to facilitate or inhibit general or specific miRNA processing and interfere with miRNA targeting. Here we collected the RNA binding proteins that interact with the miRNA pathway and review their function in miRNA processing and miRNA-mediated gene regulation.

Last update: 23 March 2015

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