RNA preprints: W13/2019

Inhibition of arterivirus RNA synthesis by cyclophilin inhibitors is counteracted by mutations in replicase transmembrane subunits. Adriaan H. de Wilde, A. Linda Boomaars-van der Zanden, Anja W. M. de Jong, Montserrat Barcéna, Eric J. Snijder, Clara C. Posthuma

Codon Optimality Confers GC-Rich-Induced Stability to mRNAs in Humans. Fabian Hia, Sheng Fan Yang, Yuichi Shichino, Masanori Yoshinaga, Yasuhiro Murakawa, Alexis Vandenbon, Akira Fukao, Toshinobu Fujiwara, Markus Landthaler, Tohru Natsume, Shungo Adachi, Shintaro Iwasaki, Osamu Takeuchi

ANP32A and ANP32B are key factors in the Rev dependent CRM1 pathway for nuclear export of HIV-1 unspliced mRNA. Yujie Wang, Haili Zhang, Lei Na, Cheng Du, Zhenyu Zhang, Yong-Hui Zheng, Xiaojun Wang

MuStARD: a Deep Learning method for intra- and inter- species scanning identification of small RNA molecules. Georgios K Georgakilas, Andrea Grioni, Konstantinos G Liakos, Eliska Malanikova, Fotis C Plessas, Panagiotis Alexiou

DDX3 depletion selectively represses translation of structured mRNAs. Lorenzo Calviello, Srivats Venkataramanan, Karol J. Rogowski, Emanuel Wyler, Malvika Tejura, Bao Thai, Jacek Krol, Witold Filipowicz, Markus Landthaler, Stephen N. Floor

Metabolic labeling of RNAs uncovers hidden features and dynamics of the Arabidopsis thaliana transcriptome. Emese Xochitl Szabo, Philipp Reichert, Marie-Kristin Lehniger, Marilena Ohmer, Marcella de Francisco Amorim, Udo Gowik, Christian Schmitz-Linneweber, Sascha Laubinger

Cross-talk between m6A and m1A regulators, YTHDF2 and ALKBH3 fine-tunes mRNA expression. Nga Lao, Niall Barron

An RNA guanine quadruplex regulated pathway to TRAIL-sensitization by DDX21. Ewan K.S. McRae, Steven J. Dupas, Evan P. Booy, Ramanaguru S. Piragasam, Richard P. Fahlman, Sean A. McKenna

Efficient and specific oligo-based depletion of rRNA. Amelie J. Kraus, Benedikt G. Brink, T. Nicolai Siegel

Xrn1 activity broadly represses RNA polymerase II occupancy at mammalian but not viral promoters during herpesvirus infection. Ella N Hartenian, Britt A Glaunsinger

The PIWI/piRNA response is relaxed in a rodent that lacks mobilizing transposable elements. Michael W. Vandewege, Roy N. Patt II, Dana K. Merriman, David A. Ray, Federico G. Hoffmann

Time-resolved NMR monitoring of tRNA maturation. Pierre Barraud, Alexandre Gato, Matthias Heiss, Marjorie Catala, Stefanie Kellner, Carine Tisné

Splicing conservation signals in plant long non-coding RNAs. Jose Antonio Corona-Gomez, Irving Jair Garcia-Lopez, Peter F. Stadler, Selene L. Fernandez-Valverde

tailfindr: Alignment-free poly(A) length measurement for Oxford Nanopore RNA and DNA sequencing. Maximilian Krause, Adnan M. Niazi, Kornel Labun, Yamila N. Torres Cleuren, Florian S. Müller, Eivind Valen

The MITF-SOX10 regulated long non-coding RNA DIRC3 is a melanoma tumour suppressor. Elizabeth A Coe, Jennifer Y Tan, Michael Shapiro, Pakavarin Louphrasitthiphol, Andrew R Bassett, Ana C Marques, Colin R Goding, Keith W Vance

Synthetic 5’ UTRs can either up- or down-regulate expression upon RBP binding. Noa Katz, Roni Cohen, Oz Solomon, Beate Kaufmann, Orna Atar, Zohar Yakhini, Sarah Goldberg, Roee Amit

Efficiency of protein synthesis inhibition depends on tRNA and codon compositions. Sophia Rudorf

MiR-218: A Molecular Switch and Potential Biomarker of Susceptibility to Stress. Angelica Torres-Berrio, Dominique Nouel, Santiago Cuesta, Eric M. Parise, Jose Maria Restrepo-Lozano, Pier Larochelle, Eric J. Nestler, Cecilia Flores

Regulatory sites for known and novel splicing in human basal ganglia are enriched for disease-relevant information. Sebastian Guelfi, Karishma D’Sa, Juan Botía, Jana Vandrovcova, Regina H. Reynolds, David Zhang, Daniah Trabzuni, Leonoardo Collado-Torres, Andrew Thomason, Pedro Quijada Leyton, Sarah A. Gagliano, Mike A. Nalls, UK Brain Expression Consortium, Kerrin S. Small, Colin Smith, Adaikalavan Ramasamy, John Hardy, Michael E. Weale, Mina Ryten

Protein features for assembly of the RNA editing helicase 2 subcomplex (REH2C) in Trypanosome holo-editosomes. Vikas Kumar, Pawan K. Doharey, Shelly Gulati, Joshua Meehan, Mary G. Martinez, Karrisa Hughes, Blaine H.M. Mooers, Jorge Cruz-Reyes

The mRNA-bound proteome of Leishmania mexicana: novel genetic insight into an ancient parasite. Luis M. de Pablos, Tiago R. Ferreira, Adam A. Dowle, Sarah Forrester, Ewan Parry, Katherine Newling, Pegine B. Walrad

Extensive epitranscriptomic methylation of A and C residues on murine leukemia virus transcripts enhances viral gene expression. David G. Courtney, Andrea Chalem, Hal P. Bogerd, Brittany A. Law, Edward M. Kennedy, Christopher L. Holley, Bryan R. Cullen

MicroRNA levels in bone and blood change during bisphosphonate and teriparatide therapy in an animal model of postmenopausal osteoporosis. Roland Kocijan, Moritz Weigl, Susanna Skalicky, Elisabeth Geiger, James Ferguson, Gabriele Leinfellner, Patrick Heimel, Peter Pietschmann, Johannes Grillari, Heinz Redl, Matthias Hackl

Class I and II aminoacyl-tRNA synthetase tRNA groove discrimination created the first synthetase•tRNA cognate pairs and was therefore essential to the origin of genetic coding. Charles W. Carter Jr, Peter R. Wills

Pat1 activates late steps in mRNA decay by multiple mechanisms. Joseph H. Lobel, Ryan W Tibble, John D. Gross

Detection of Spacer Precursors Formed In Vivo During Primed CRISPR Adaptation. Anna A. Shiriaeva, Ekaterina Savitskaya, Kirill A. Datsenko, Irina O. Vvedenskaya, Iana Fedorova, Natalia Morozova, Anastasia Metlitskaya, Anton Sabantsev, Bryce E. Nickels, Konstantin Severinov, Ekaterina Semenova

RNase H1 and H2 are differentially regulated to eliminate RNA-DNA hybrids. Arianna Lockhart, Vanessa Borges Pires, Fabio Bento, Vanessa Kellner, Sarah Luke-Glaser, Brian Luke

An essential RNA-binding lysine residue in the Nab3 RRM domain undergoes mono and trimethylation. Kwan Yin Lee, Anand Chopra, Kyle Biggar, Marc D. Meneghini

Co-occurrence of multiple CRISPRs and cas clusters suggests epistatic interactions. Aude Bernheim, David Bikard, Marie Touchon, Eduardo PC Rocha

Ultrasound- and microbubble-mediated targeted delivery of therapeutic microRNA-loaded nanocarriers to deep liver and kidney tissues in pigs. Tommaso Di Ianni, Rajendran J.C. Bose, Uday K. Sukumar, Sunitha Bachawal, Huaijun Wang, Arsenii Telichko, Carl D. Herickhoff, Elise Robinson, Sam Baker, José G. Vilches-Moure, Stephen A. Felt, Sanjiv S. Gambhir, Ramasamy Paulmurugan, Jeremy D. Dahl

TDP-43 proteinopathy impairs neuronal mRNP granule mediated postsynaptic local translation and mRNA metabolism. Chia-En Wong, Kuen-Jer Tsai

Axonal transport of an insulin-like peptide mRNA promotes stress recovery in C. elegans. Rashmi Chandra, Lisa Li, Zahabiya Husain, Shashwat Mishra, Joy Alcedo

Two molecules of Has1 RNA helicase function simultaneously in the biogenesis of small and large ribosomal subunits. Sivakumar Vadivel Gnanasundram, Isabelle C Kos-Braun, Martin Koš

Ribosome profiling at isoform level reveals an evolutionary conserved impact of differential splicing on the proteome. Marina Reixachs-Sole, Jorge Ruiz-Orera, M. Mar Alba, Eduardo Eyras

Inhibition of the Dead Box RNA Helicase 3 prevents HIV-1 Tat and cocaine-induced neurotoxicity by targeting microglia activation. Marina Aksenova, Justin Sybrandt, Biyun Cui, Vitali Sikirzhytski, Hao Ji, Diana Odhiambo, Matthew D Lucius, Jill R Turner, Eugenia Broude, Edsel Pena, Sofia Lizzaraga, Jun Zhu, Ilya Safro, Michael D Wyatt, Michael Shtutman

Strand displacement: a fundamental mechanism in RNA biology? Fan Hong, Petr Šulc

Evolving methods for rational de novo design of functional RNA molecules. Stefan Hammer, Christian Günzel, Mario Mörl, Sven Findeiß

Advertisements

Leave a Reply

Fill in your details below or click an icon to log in:

WordPress.com Logo

You are commenting using your WordPress.com account. Log Out /  Change )

Google photo

You are commenting using your Google account. Log Out /  Change )

Twitter picture

You are commenting using your Twitter account. Log Out /  Change )

Facebook photo

You are commenting using your Facebook account. Log Out /  Change )

Connecting to %s