RNA: Folding into Function

A special issue of Biomolecules (ISSN 2218-273X). This special issue belongs to the section "Molecular Structure and Dynamics".

Deadline for manuscript submissions: closed (1 December 2019) | Viewed by 3219

Special Issue Editor


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Guest Editor
Roy J. Carver Department of Biophysics, Biochemistry and Molecular Biology, Iowa State University, Ames, IA 50011, USA
Interests: bioinformatics; biochemistry; biology; RNA
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

All biological processes involve or are influenced by RNA, and all RNA biology involves or is influenced by RNA folding. This can involve specific intramolecular RNA secondary/tertiary structures that recognize regulatory factors, or non-specific “structuredness” that can affect the accessibility or relative location of RNA regulatory elements. Likewise, RNA intermolecular interactions (with other RNAs, DNAs or proteins) play critical roles in biology—this can also be affected by intramolecular folding within the interacting RNA molecule(s). The challenges of attaining knowledge about RNA folding into function are currently occupying a multitude of researchers across a wide array of disciplines, including bioinformatics, biochemistry, biophysics and molecular/cell biology. The complexity of this topic necessitates integrative multidisciplinary approaches, and the goal of this Special Issue of Biomolecules is to bring together contributions from top researchers in the field to provide a broad perspective and help draw connections between disparate knowledge domains. Submissions will include reviews of cutting-edge methods for predicting/determining RNA secondary and tertiary structure/dynamics and intermolecular interactions, as well as reviews of how RNA folding has informed our understanding of its function across a broad range of targets: spanning viruses/viroids, microorganisms, fungi, plants, and animals.

Dr. Walter Moss
Guest Editor

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Keywords

  • RNA
  • structure
  • prediction
  • noncoding RNA
  • folding
  • posttranscriptional control
  • gene expression
  • regulation
  • motif discovery
  • sequence analysis

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Published Papers (1 paper)

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Research

15 pages, 3975 KiB  
Article
A Novel Splice Variant of the Masculinizing Gene Masc with piRNA-Cleavage-Site Defect Functions in Female External Genital Development in the Silkworm, Bombyx mori
by Qin Zhao, Juan Li, Mao-Yu Wen, He Wang, Yao Wang, Kai-Xuan Wang, Qiu-Xing Wan and Xing-Fu Zha
Biomolecules 2019, 9(8), 318; https://doi.org/10.3390/biom9080318 - 30 Jul 2019
Cited by 11 | Viewed by 2945
Abstract
In the silkworm, the sex-determination primary signal Fem controls sex differentiation by specific binding of Fem-derived piRNA to the cleavage site in Masc mRNA, thus inhibiting Masc protein production in the female. In this study, we identified a novel splicing isoform of [...] Read more.
In the silkworm, the sex-determination primary signal Fem controls sex differentiation by specific binding of Fem-derived piRNA to the cleavage site in Masc mRNA, thus inhibiting Masc protein production in the female. In this study, we identified a novel splicing isoform of Masc, named Masc-S, which lacks the intact sequence of the cleavage site, encoding a C-terminal truncated protein. Results of RT-PCR showed that Masc-S was expressed in both sexes. Over-expression of Masc-S and Masc in female-specific cell lines showed that Masc-S could be translated against the Fem-piRNA cut. By RNA-protein pull-down, LC/MS/MS, and EMSA, we identified a protein BmEXU that specifically binds to an exclusive RNA sequence in Masc compared to Masc-S. Knockdown of Masc-S resulted in abnormal morphology in female external genital and increased expression of the Hox gene Abd-B, which similarly occurred by Bmexu RNAi. These results suggest that the splice variant Masc-S against Fem-piRNA plays an important role in female external genital development, of which function is opposite to that of full-length Masc. Our study provides new insights into the regulatory mechanism of sex determination in the silkworm. Full article
(This article belongs to the Special Issue RNA: Folding into Function)
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