Cargando…

Genome-wide analysis of the in vivo tRNA structurome reveals RNA structural and modification dynamics under heat stress

RNA structure plays roles in myriad cellular events including transcription, translation, and RNA processing. Genome-wide analyses of RNA secondary structure in vivo by chemical probing have revealed critical structural features of mRNAs and long ncRNAs. Here, we examine the in vivo secondary struct...

Descripción completa

Detalles Bibliográficos
Autores principales:	Yamagami, Ryota, Sieg, Jacob P., Assmann, Sarah M., Bevilacqua, Philip C.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	National Academy of Sciences 2022
Materias:	Biological Sciences
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9231505/ https://www.ncbi.nlm.nih.gov/pubmed/35696576 http://dx.doi.org/10.1073/pnas.2201237119

Ejemplares similares

Genome-wide RNA structurome reprogramming by acute heat shock globally regulates mRNA abundance
por: Su, Zhao, et al.
Publicado: (2018)

Tissue-specific changes in the RNA structurome mediate salinity response in Arabidopsis
por: Tack, David C., et al.
Publicado: (2020)

Intact RNA structurome reveals mRNA structure-mediated regulation of miRNA cleavage in vivo
por: Yang, Minglei, et al.
Publicado: (2020)

RNA Secondary Structurome Revealed Distinct Thermoregulation in Plasmodium falciparum
por: Qi, Yanwei, et al.
Publicado: (2022)

Recent advances in RNA structurome
por: Xu, Bingbing, et al.
Publicado: (2022)

Rice In Vivo RNA Structurome Reveals RNA Secondary Structure Conservation and Divergence in Plants
por: Deng, Hongjing, et al.
Publicado: (2018)

In vivo nuclear RNA structurome reveals RNA-structure regulation of mRNA processing in plants
por: Liu, Zhenshan, et al.
Publicado: (2021)

Probing the dynamic RNA structurome and its functions
por: Spitale, Robert C., et al.
Publicado: (2022)

Experimental demonstration and pan-structurome prediction of climate-associated riboSNitches in Arabidopsis
por: Ferrero-Serrano, Ángel, et al.
Publicado: (2022)

Transfer RNA Modification Enzymes from Thermophiles and Their Modified Nucleosides in tRNA
por: Hori, Hiroyuki, et al.
Publicado: (2018)

Application of mutational profiling: New functional analyses reveal the tRNA recognition mechanism of tRNA m(1)A22 methyltransferase
por: Yamagami, Ryota, et al.
Publicado: (2022)

An in silico map of the SARS-CoV-2 RNA Structurome
por: Andrews, Ryan J., et al.
Publicado: (2020)

A map of the SARS-CoV-2 RNA structurome
por: Andrews, Ryan J, et al.
Publicado: (2021)

The in vivo RNA structurome of the malaria parasite Plasmodium falciparum, a protozoan with an A/U-rich transcriptome
por: Dumetz, Franck, et al.
Publicado: (2022)

ChiRA: an integrated framework for chimeric read analysis from RNA-RNA interactome and RNA structurome data
por: Videm, Pavankumar, et al.
Publicado: (2021)

Reliable semi-synthesis of hydrolysis-resistant 3′-peptidyl-tRNA conjugates containing genuine tRNA modifications
por: Graber, Dagmar, et al.
Publicado: (2010)

Misactivation of multiple starvation responses in yeast by loss of tRNA modifications
por: Bruch, Alexander, et al.
Publicado: (2020)

tRNA queuosine modification is involved in biofilm formation and virulence in bacteria
por: Díaz-Rullo, Jorge, et al.
Publicado: (2023)

Structural basis for the selective methylation of 5-carboxymethoxyuridine in tRNA modification
por: Yoo, Jaehun, et al.
Publicado: (2023)

dStruct: identifying differentially reactive regions from RNA structurome profiling data
por: Choudhary, Krishna, et al.
Publicado: (2019)

Crystal structure of a 4-thiouridine synthetase–RNA complex reveals specificity of tRNA U8 modification
por: Neumann, Piotr, et al.
Publicado: (2014)

Elongator-dependent modification of cytoplasmic tRNA(Lys)(UUU) is required for mitochondrial function under stress conditions
por: Tigano, Marco, et al.
Publicado: (2015)

Accurate detection of RNA stem-loops in structurome data reveals widespread association with protein binding sites
por: Radecki, Pierce, et al.
Publicado: (2021)

RNA modifications stabilize the tertiary structure of tRNA(fMet) by locally increasing conformational dynamics
por: Biedenbänder, Thomas, et al.
Publicado: (2022)

Optimized photochemistry enables efficient analysis of dynamic RNA structuromes and interactomes in genetic and infectious diseases
por: Zhang, Minjie, et al.
Publicado: (2021)

Identification of a novel 5-aminomethyl-2-thiouridine methyltransferase in tRNA modification
por: Cho, Gyuhyeok, et al.
Publicado: (2023)

Structural conservation of an ancient tRNA sensor in eukaryotic glutaminyl-tRNA synthetase
por: Grant, Thomas D., et al.
Publicado: (2012)

Genome-wide Analysis of Aminoacylation (Charging) Levels of tRNA Using Microarrays
por: Zaborske, John, et al.
Publicado: (2010)

The tRNA discriminator base defines the mutual orthogonality of two distinct pyrrolysyl-tRNA synthetase/tRNA(Pyl) pairs in the same organism
por: Zhang, Haolin, et al.
Publicado: (2022)

A tRNA modification in Mycobacterium tuberculosis facilitates optimal intracellular growth
por: Tomasi, Francesca G, et al.
Publicado: (2023)

Structure-seq2: sensitive and accurate genome-wide profiling of RNA structure in vivo
por: Ritchey, Laura E., et al.
Publicado: (2017)

Required Elements in tRNA for Methylation by the Eukaryotic tRNA (Guanine-N(2)-) Methyltransferase (Trm11-Trm112 Complex)
por: Nishida, Yu, et al.
Publicado: (2022)

In vivo-like nearest neighbor parameters improve prediction of fractional RNA base-pairing in cells
por: Sieg, Jacob P, et al.
Publicado: (2023)

Single-read tRNA-seq analysis reveals coordination of tRNA modification and aminoacylation and fragmentation
por: Hernandez-Alias, Xavier, et al.
Publicado: (2022)

Structural basis for recognition of G-1-containing tRNA by histidyl-tRNA synthetase
por: Tian, Qingnan, et al.
Publicado: (2015)

Mycobacterium tuberculosis Phe-tRNA synthetase: structural insights into tRNA recognition and aminoacylation
por: Michalska, Karolina, et al.
Publicado: (2021)

Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest
por: Aharon-Hefetz, Noa, et al.
Publicado: (2020)

Genome recoding by tRNA modifications
por: Tuorto, Francesca, et al.
Publicado: (2016)

Overview of tRNA Modifications in Chloroplasts
por: Fages-Lartaud, Maxime, et al.
Publicado: (2022)

Fragment-based discovery of a new class of inhibitors targeting mycobacterial tRNA modification
por: Thomas, Sherine E, et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_ubu7bn63gugder4d5rdd6tmmfn