Introduction: mRNA epitranscriptomics
RNA. 2024 Mar 26:rna.079993.124. doi: 10.1261/rna.079993.124. Online ahead of print.NO ABSTRACTPMID:38531649 | DOI:10.1261/rna.079993.124 (Source: RNA)
Source: RNA - March 26, 2024 Category: Genetics & Stem Cells Authors: Kate Meyer Tao Pan Source Type: research
Recent developments, opportunities, and challenges in the study of mRNA pseudouridylation
RNA. 2024 Mar 26:rna.079975.124. doi: 10.1261/rna.079975.124. Online ahead of print.ABSTRACTPseudouridine is an abundant mRNA modification found in diverse organisms ranging from bacteria and viruses to multicellular plants and humans. New developments in pseudouridine profiling provide quantitative tools to map mRNA pseudouridylation sites. Sparse biochemical studies establish the potential for mRNA pseudouridylation to affect most stages of the mRNA life cycle from birth to death. This recent progress sets the stage for deeper investigations into the molecular and cellular functions of specific mRNA pseudouridines, inclu...
Source: RNA - March 26, 2024 Category: Genetics & Stem Cells Authors: Wendy V Gilbert Source Type: research
Adenosine deaminases that act on RNA, then and now
RNA. 2024 Mar 26:rna.079990.124. doi: 10.1261/rna.079990.124. Online ahead of print.ABSTRACTIn this article I recount my memories of key experiments that led to my entry into the RNA editing/modification field. I highlight initial observations made by the pioneers in the ADAR field, and how they fit into our current understanding of this family of enzymes. I discuss early mysteries that have now been solved, as well as those that still linger. Finally, I discuss important, outstanding questions and acknowledge my hope for the future of the RNA editing/modification field.PMID:38531651 | DOI:10.1261/rna.079990.124 (Source: RNA)
Source: RNA - March 26, 2024 Category: Genetics & Stem Cells Authors: Brenda L Bass Source Type: research
Structural and functional effects of inosine modification in mRNA
RNA. 2024 Mar 26:rna.079977.124. doi: 10.1261/rna.079977.124. Online ahead of print.ABSTRACTInosine (I), resulting from the deamination of adenosine (A), is a prominent modification in the human transcriptome. The enzymes responsible for the conversion of adenosine to inosine in human mRNAs are the ADARs (adenosine deaminases acting on RNA). Inosine modification introduces a layer of complexity to mRNA processing and function, as it can impact various aspects of RNA biology, including mRNA stability, splicing, translation, and protein binding. The relevance of this process is emphasized in the growing number of human disor...
Source: RNA - March 26, 2024 Category: Genetics & Stem Cells Authors: Herra G Mendoza Peter A Beal Source Type: research
2'- < em > O < /em > -Methylation (Nm) in RNA: Progress, Challenges, and Future Directions
RNA. 2024 Mar 26:rna.079970.124. doi: 10.1261/rna.079970.124. Online ahead of print.ABSTRACTRNA 2'-O-methylation (Nm) is highly abundant in noncoding RNAs including ribosomal RNA (rRNA), transfer RNA (tRNA), and small nuclear RNA (snRNA), and occurs in the 5' cap of virtually all messenger RNAs (mRNAs) in higher eukaryotes. More recently, Nm has also been reported to occur at internal sites in mRNA. High-throughput methods have been developed for the transcriptome-wide detection of Nm. However, these methods have mostly been applied to abundant RNAs such as rRNA, and the validity of the internal mRNA Nm sites detected with...
Source: RNA - March 26, 2024 Category: Genetics & Stem Cells Authors: Katherine I Zhou Chad V Pecot Christopher L Holley Source Type: research
ac4C: a fragile modification with stabilizing functions in RNA metabolism
RNA. 2024 Mar 26:rna.079948.124. doi: 10.1261/rna.079948.124. Online ahead of print.ABSTRACTIn recent years, concerted efforts to map and understand epitranscriptomic modifications in mRNA have unveiled new complexities in the regulation of gene expression. These studies cumulatively point to diverse functions in mRNA metabolism, spanning pre-mRNA processing, mRNA degradation, and translation. However, this emerging landscape is not without its intricacies and sources of discrepancies. Disparities in detection methodologies, divergent interpretations of functional outcomes, and the complex nature of biological systems acro...
Source: RNA - March 26, 2024 Category: Genetics & Stem Cells Authors: Sarah Schiffers Shalini Oberdoerffer Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | PMC:PMC10946427 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | PMC:PMC10946427 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | PMC:PMC10946427 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | PMC:PMC10946427 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | PMC:PMC10946427 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
Corrigendum: Phosphorylation of SRSF1 by SRPK1 regulates alternative splicing of tumor-related Rac1b in colorectal cells
RNA. 2024 Mar 18;30(4):463. doi: 10.1261/rna.079955.123.NO ABSTRACTPMID:38499291 | DOI:10.1261/rna.079955.123 (Source: RNA)
Source: RNA - March 18, 2024 Category: Genetics & Stem Cells Authors: V ânia Gonçalves Andreia Henriques Joana Pereira Ana Neves Costa Mary Pat Moyer Lu ís Ferreira Moita Margarida Gama-Carvalho Paulo Matos Peter Jordan Source Type: research
A scalable and cost-efficient rRNA depletion approach to enrich RNAs for molecular biology investigations
RNA. 2024 Mar 14:rna.079761.123. doi: 10.1261/rna.079761.123. Online ahead of print.ABSTRACTTranscriptomics analyses play pivotal roles in understanding the complex regulatory networks that govern cellular processes. The abundance of rRNAs, which account for 80-90% of total RNA in eukaryotes, limits the detection and investigation of other transcripts. While mRNAs and long non-coding RNAs have polyA(+) tails that are often used for positive selection, investigations of polyA(-) RNAs, such as circular RNAs, histone mRNAs, and small RNAs, typically require the removal of the abundant rRNAs for enrichment. Current approaches ...
Source: RNA - March 14, 2024 Category: Genetics & Stem Cells Authors: Amrita Singh Amy Xue Justin Tai Faith Mbadugha Prisca Obi Romario Mascarenhas Antariksh Tyagi Adamo Siena Y Grace Chen Source Type: research
A scalable and cost-efficient rRNA depletion approach to enrich RNAs for molecular biology investigations
RNA. 2024 Mar 14:rna.079761.123. doi: 10.1261/rna.079761.123. Online ahead of print.ABSTRACTTranscriptomics analyses play pivotal roles in understanding the complex regulatory networks that govern cellular processes. The abundance of rRNAs, which account for 80-90% of total RNA in eukaryotes, limits the detection and investigation of other transcripts. While mRNAs and long non-coding RNAs have polyA(+) tails that are often used for positive selection, investigations of polyA(-) RNAs, such as circular RNAs, histone mRNAs, and small RNAs, typically require the removal of the abundant rRNAs for enrichment. Current approaches ...
Source: RNA - March 14, 2024 Category: Genetics & Stem Cells Authors: Amrita Singh Amy Xue Justin Tai Faith Mbadugha Prisca Obi Romario Mascarenhas Antariksh Tyagi Adamo Siena Y Grace Chen Source Type: research
