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
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
Quantification of tRNA m < sup > 1 < /sup > A modification by templated-ligation qPCR
RNA. 2024 Mar 12:rna.079895.123. doi: 10.1261/rna.079895.123. Online ahead of print.ABSTRACTN1-methyladenosine (m1A) is a widespread modification in all eukaryotic, many archaeal, and some bacterial tRNAs. M1A is generally located in the T loop of cytosolic tRNA and between acceptor and D stems of mitochondrial tRNAs, it is involved in tertiary interaction that stabilizes tRNA. Human tRNA m1A levels are dynamically regulated that fine-tune translation and can also serve as biomarkers for infectious disease. Although many methods have been used to measure m1A, a PCR method to assess m1A levels quantitatively in specific tRN...
Source: RNA - March 12, 2024 Category: Genetics & Stem Cells Authors: Wen Zhang Hankui Chen Marek Sobczyk Daniel Krochmal Christopher D Katanski Mahdi Assari Amy Chen Yichen Hou Qing Dai Tao Pan Source Type: research
Quantification of tRNA m < sup > 1 < /sup > A modification by templated-ligation qPCR
RNA. 2024 Mar 12:rna.079895.123. doi: 10.1261/rna.079895.123. Online ahead of print.ABSTRACTN1-methyladenosine (m1A) is a widespread modification in all eukaryotic, many archaeal, and some bacterial tRNAs. M1A is generally located in the T loop of cytosolic tRNA and between acceptor and D stems of mitochondrial tRNAs, it is involved in tertiary interaction that stabilizes tRNA. Human tRNA m1A levels are dynamically regulated that fine-tune translation and can also serve as biomarkers for infectious disease. Although many methods have been used to measure m1A, a PCR method to assess m1A levels quantitatively in specific tRN...
Source: RNA - March 12, 2024 Category: Genetics & Stem Cells Authors: Wen Zhang Hankui Chen Marek Sobczyk Daniel Krochmal Christopher D Katanski Mahdi Assari Amy Chen Yichen Hou Qing Dai Tao Pan Source Type: research
Localization of RNAs to the Mitochondria - Mechanisms and Functions
RNA. 2024 Mar 6:rna.079999.124. doi: 10.1261/rna.079999.124. Online ahead of print.ABSTRACTThe mammalian mitochondrial proteome comprises over 1000 proteins, with the majority translated from nuclear-encoded messenger RNAs (mRNAs). Mounting evidence suggests many of these mRNAs are localized to the outer mitochondrial membrane (OMM) in a pre-or co-translational state. Upon reaching the mitochondrial surface, these mRNAs are locally translated to produce proteins that are co-translationally imported into mitochondria. Here, we summarize various mechanisms cells employ to localize RNAs, including transfer RNAs (tRNAs), to th...
Source: RNA - March 6, 2024 Category: Genetics & Stem Cells Authors: Surbhi Sharma Furqan M Fazal Source Type: research
Localization of RNAs to the Mitochondria - Mechanisms and Functions
RNA. 2024 Mar 6:rna.079999.124. doi: 10.1261/rna.079999.124. Online ahead of print.ABSTRACTThe mammalian mitochondrial proteome comprises over 1000 proteins, with the majority translated from nuclear-encoded messenger RNAs (mRNAs). Mounting evidence suggests many of these mRNAs are localized to the outer mitochondrial membrane (OMM) in a pre-or co-translational state. Upon reaching the mitochondrial surface, these mRNAs are locally translated to produce proteins that are co-translationally imported into mitochondria. Here, we summarize various mechanisms cells employ to localize RNAs, including transfer RNAs (tRNAs), to th...
Source: RNA - March 6, 2024 Category: Genetics & Stem Cells Authors: Surbhi Sharma Furqan M Fazal Source Type: research
Localization of RNAs to the Mitochondria - Mechanisms and Functions
RNA. 2024 Mar 6:rna.079999.124. doi: 10.1261/rna.079999.124. Online ahead of print.ABSTRACTThe mammalian mitochondrial proteome comprises over 1000 proteins, with the majority translated from nuclear-encoded messenger RNAs (mRNAs). Mounting evidence suggests many of these mRNAs are localized to the outer mitochondrial membrane (OMM) in a pre-or co-translational state. Upon reaching the mitochondrial surface, these mRNAs are locally translated to produce proteins that are co-translationally imported into mitochondria. Here, we summarize various mechanisms cells employ to localize RNAs, including transfer RNAs (tRNAs), to th...
Source: RNA - March 6, 2024 Category: Genetics & Stem Cells Authors: Surbhi Sharma Furqan M Fazal Source Type: research
Localization of RNAs to the Mitochondria - Mechanisms and Functions
RNA. 2024 Mar 6:rna.079999.124. doi: 10.1261/rna.079999.124. Online ahead of print.ABSTRACTThe mammalian mitochondrial proteome comprises over 1000 proteins, with the majority translated from nuclear-encoded messenger RNAs (mRNAs). Mounting evidence suggests many of these mRNAs are localized to the outer mitochondrial membrane (OMM) in a pre-or co-translational state. Upon reaching the mitochondrial surface, these mRNAs are locally translated to produce proteins that are co-translationally imported into mitochondria. Here, we summarize various mechanisms cells employ to localize RNAs, including transfer RNAs (tRNAs), to th...
Source: RNA - March 6, 2024 Category: Genetics & Stem Cells Authors: Surbhi Sharma Furqan M Fazal Source Type: research
Localization of RNAs to the Mitochondria - Mechanisms and Functions
RNA. 2024 Mar 6:rna.079999.124. doi: 10.1261/rna.079999.124. Online ahead of print.ABSTRACTThe mammalian mitochondrial proteome comprises over 1000 proteins, with the majority translated from nuclear-encoded messenger RNAs (mRNAs). Mounting evidence suggests many of these mRNAs are localized to the outer mitochondrial membrane (OMM) in a pre-or co-translational state. Upon reaching the mitochondrial surface, these mRNAs are locally translated to produce proteins that are co-translationally imported into mitochondria. Here, we summarize various mechanisms cells employ to localize RNAs, including transfer RNAs (tRNAs), to th...
Source: RNA - March 6, 2024 Category: Genetics & Stem Cells Authors: Surbhi Sharma Furqan M Fazal Source Type: research
A Role for SNU66 in Maintaining 5' Splice Site Identity During Spliceosome Assembly
RNA. 2024 Mar 5:rna.079971.124. doi: 10.1261/rna.079971.124. Online ahead of print.ABSTRACTIn spliceosome assembly, the 5' splice site is initially recognized by U1snRNA. U1 leaves the spliceosome during the assembly process, therefore other factors contribute to maintenance of 5' splice site identity as it is loaded into the catalytic site. Recent structural data suggest that human tri-snRNP 27K (SNRP27) M141 and SNU66 H734 interact to stabilize the U4/U6 quasi-pseudo knot at the base of the U6 snRNA ACAGAGA box in pre-B complex. Previously, we found that mutations in C. elegans at SNRP-27 M141 promote changes in alternat...
Source: RNA - March 5, 2024 Category: Genetics & Stem Cells Authors: Kenna Sarka Sol Katzman Alan M Zahler Source Type: research
Pervasive translation of Xrn1-sensitive unstable long non-coding RNAs in yeast
RNA. 2024 Mar 5:rna.079903.123. doi: 10.1261/rna.079903.123. Online ahead of print.ABSTRACTDespite being predicted to lack coding potential, cytoplasmic long non-coding (lnc)RNAs can associate with ribosomes. However, the landscape and biological relevance of lncRNAs translation remains poorly studied. In yeast, cytoplasmic Xrn1-sensitive lncRNAs (XUTs) are targeted by the Nonsense-Mediated mRNA Decay (NMD), suggesting a translation-dependent degradation process. Here, we report that XUTs are pervasively translated, which impacts their decay. We show that XUTs globally accumulate upon translation elongation inhibition, but...
Source: RNA - March 5, 2024 Category: Genetics & Stem Cells Authors: Sara Andjus Ugo Szachnowski Nicolas Vogt Stamatia Gioftsidi Isabelle Hatin David Cornu Chris Papadopoulos Anne Lopes Olivier Namy Maxime Wery Antonin Morillon Source Type: research
A Role for SNU66 in Maintaining 5' Splice Site Identity During Spliceosome Assembly
RNA. 2024 Mar 5:rna.079971.124. doi: 10.1261/rna.079971.124. Online ahead of print.ABSTRACTIn spliceosome assembly, the 5' splice site is initially recognized by U1snRNA. U1 leaves the spliceosome during the assembly process, therefore other factors contribute to maintenance of 5' splice site identity as it is loaded into the catalytic site. Recent structural data suggest that human tri-snRNP 27K (SNRP27) M141 and SNU66 H734 interact to stabilize the U4/U6 quasi-pseudo knot at the base of the U6 snRNA ACAGAGA box in pre-B complex. Previously, we found that mutations in C. elegans at SNRP-27 M141 promote changes in alternat...
Source: RNA - March 5, 2024 Category: Genetics & Stem Cells Authors: Kenna Sarka Sol Katzman Alan M Zahler Source Type: research
