RNA preprints: W16/2019

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

Comparative transcriptomics analyses across species, organs and developmental stages reveal functionally constrained lncRNAs. Fabrice Darbellay, Anamaria Necsulea

miR-9 mediated noise optimization of the her6 oscillator is needed for cell state progression in the Zebrafish hindbrain. Ximena Soto, Veronica Biga, Jochen Kursawe, Robert Lea, Parnian Doostdar, Nancy Papalopulu

FIGARO: An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters. Michael M. Weinstein, Aishani Prem, Mingda Jin, Shuiquan Tang, Jeffrey M. Bhasin

Identification of circular RNAs in porcine sperm and their relation to sperm motility. Marta Gòdia, Anna Castelló, Martina Rocco, Betlem Cabrera, Joan E. Rodríguez-Gil, Armand Sánchez, Alex Clop

Accurate Prediction of Genome-wide RNA Secondary Structure Profile Based On Extreme Gradient Boosting. Yaobin Ke, Jiahua Rao, Huiying Zhao, Yutong Lu, Nong Xiao, Yuedong Yang

Characterization of Amino Acid Recognition in Aminoacyl-tRNA Synthetases. Florian Kaiser, Sarah Krautwurst, Sebastian Salentin, V. Joachim Haupt, Christoph Leberecht, Sebastian Bittrich, Dirk Labudde, Michael Schroeder

piRNA-guided co-transcriptional silencing coopts nuclear export factors. Martin H. Fabry, Filippo Ciabrelli, Marzia Munafò, Evelyn L. Eastwood, Emma Kneuss, Ilaria Falciatori, Federica A. Falconio, Gregory J. Hannon, Benjamin Czech

RNA-DNA hybrids support recombination-based telomere maintenance in fission yeast. Yan Hu, Henrietta W. Bennett, Na Liu, Martin Moravec, Jessica F. Williams, Claus M. Azzalin, Megan C. King

Distinct mechanisms of microRNA sorting into cancer cell-derived extracellular vesicle subtypes. Morayma M. Temoche-Diaz, Matthew J. Shurtleff, Ryan M. Nottingham, Jun Yao, Raj P. Fadadu, Alan M. Lambowitz, Randy Schekman

Music-listening regulates human microRNA transcriptome. Preethy S. Nair, Pirre Raijas, Minna Ahvenainen, Anju K. Philips, Liisa Ukkola-Vuoti, Irma Järvelä

Ifit1 regulates norovirus infection and enhances the interferon response in murine macrophage-like cells. Harriet V. Mears, Edward Emmott, Yasmin Chaudhry, Myra Hosmillo, Ian G. Goodfellow, Trevor R. Sweeney

piRNA-mediated silencing of an invading transposable element evolves rapidly through abundant beneficial de novo mutations. Shuo Zhang, Erin S. Kelleher

The nascent RNA binding complex SFiNX licenses piRNA-guided heterochromatin formation. Julia Batki, Jakob Schnabl, Juncheng Wang, Dominik Handler, Veselin I. Andreev, Christian E. Stieger, Maria Novatchkova, Lisa Lampersberger, Kotryna Kauneckaite, Karl Mechtler, Dinshaw J. Patel, Julius Brennecke

Long noncoding RNAs sustain high expression of exogenous Oct4 by sponging miRNA during reprogramming. Qingran Kong, Xiaolei Zhang, Jiaming Zhang, Kailun Zheng, Heng Zhang, Xixiang Pei, Zhi Yin, Duancheng Wen, Zhonghua Liu

The molecular aetiology of tRNA synthetase depletion: induction of a GCN4 amino acid starvation response despite homeostatic maintenance of charged tRNA levels. Matthew R. McFarland, Corina D. Keller, Brandon M. Childers, Holly Corrigall, Adélaïde Raguin, M. Carmen Romano, Ian Stansfield

Telomeric small RNAs in the genus Caenorhabditis. Stephen Frenk, Evan H. Lister-Shimauchi, Shawn Ahmed

Tissue and cell-type specific expression of a splice variant in the II-III cytoplasmic loop of Cacna1b. Bunda Alexandra, LaCarubba Brianna, Akiki Marie, Andrade Arturo

Endogenous RNAi pathway evolutionarily shapes the destiny of the antisense lncRNAs transcriptome. Ugo Szachnowski, Sara Andus, Dominika Foretek, Antonin Morillon, Maxime Wery

PopTargs: A database for studying population evolutionary genetics of human microRNA target sites. Andrea Hatlen, Mohab Helmy, Antonio Marco

The impact of population variation in the analysis of microRNA target sites. Mohab Helmy, Andrea Hatlen, Antonio Marco

baerhunter: An R package for the discovery and analysis of expressed non-coding regions in bacterial RNA-seq data. A. Ozuna, D. Liberto, R. M. Joyce, K.B. Arnvig, I. Nobeli

Discovery of functional alternatively spliced PKM transcripts in human cancers. Xiangyu Li, Cheng Zhang, Woonghee Kim, Muhammad Arif, Chunxia Gao, Andreas Hober, David Kotol, Linnéa Strandberg, Björn Forsström, Åsa Sivertsson, Per Oksvold, Morten Grøtli, Yusuke Sato, Haruki Kume, Seishi Ogawa, Jan Boren, Jens Nielsen, Mathias Uhlen, Adil Mardinoglu

Hallmarks of slow translation initiation revealed in mitochondrially localizing mRNA sequences. Thomas M. Poulsen, Kenichiro Imai, Martin C. Frith, Paul Horton

Comprehensive Classification of the RNaseH-like domain-containing Proteins in Plants. Shuai Li, Kunpeng Liu, Qianwen Sun

Targeted mRNA demethylation using an engineered dCas13b-ALKBH5 fusion protein. Jiexin Li, Zhuojia Chen, Feng Chen, Yuyi Ling, Yanxi Peng, Nan Luo, Hongsheng Wang

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RNA preprints: W15/2019

Native molecule sequencing by nano-ID reveals synthesis and stability of RNA isoforms. Kerstin C. Maier, Saskia Gressel, Patrick Cramer, Björn Schwalb

Sex-related perturbations in schizophrenia and bipolar disorder brains reflect microRNA-mediated cholinergic/neurokine interactions. Sebastian Lobentanzer, Geula Hanin, Jochen Klein, Hermona Soreq

Splice junction-centric approach to identify translated noncanonical isoforms in the human proteome. Edward Lau, Yu Han, Damon R. Williams, Rajani Shrestha, Joseph C. Wu, Maggie P. Y. Lam

In-Silico Analysis of nsSNPs Associated with CYP11B2 Gene. Anam Arooj, Muhammad Tariq Pervez, Zeeshan Gillani, Tahir Ali Chohan, M. Tayyab Chaudhry, Masroor Ellahi Babar, Asma Tufail Shah

RNA polymerase II plays an active role in the formation of gene loops through the Rpb4 subunit. Paula Allepuz-Fuster, Michael J. O’Brien, Noelia González-Polo, Bianca Pereira, Zuzer Dhoondia, Athar Ansari, Olga Calvo

The receptor-like kinases BAM1 and BAM2 promote the cell-to-cell movement of miRNA in the root stele to regulate xylem patterning. Pengfei Fan, Hua Wang, Hao Xue, Tabata Rosas-Diaz, Weihua Tang, Heng Zhang, Lin Xu, Rosa Lozano-Duran

Fidelity of Prespacer Capture and Processing is Governed by the PAM Mediated Interaction of Cas1-2 Adaptation complex in Escherichia coli. K.N.R. Yoganand, Manasasri Muralidharan, B. Anand

Tissue-specific changes in the RNA structurome mediate salinity response in Arabidopsis. David C. Tack, Zhao Su, Yunqing Yu, Philip C. Bevilacqua, Sarah M. Assmann

Crowder-induced Conformational Ensemble Shift in Escherichia Coli Prolyl-tRNA Synthetase. L. M. Adams, R. J. Andrews, Q. H. Hu, H. L. Schmit, S. Hati, S. Bhattacharyya

Focused screening reveals functional effects of microRNAs differentially expressed in colorectal cancer. Danuta Sastre, João Baiochi, Ildercilio Mota de Souza Lima, Josiane Lilian dos Santos Schiavinato, Dimas Tadeu Covas, Rodrigo Alexandre Panepucci

AGO1x prevents dsRNA-induced interferon signaling to promote breast cancer cell proliferation. Souvik Ghosh, Joao C Guimaraes, Manuela Lanzafame, Alexander Schmidt, Afzal Pasha Syed, Beatrice Dimitriades, Anastasiya Börsch, Shreemoyee Ghosh, Ana Luisa Correia, Johannes Danner, Gunter Meister, Luigi M. Terracciano, Salvatore Piscuoglio, Mihaela Zavolan

Endogenous TDP-43 prevents retrotransposons activation through Dicer-2 activity and the RNA silencing machinery in Drosophila neurons. Giulia Romano, Raffaella Klima, Fabian Feiguin

The Israeli Acute Paralysis Virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs. Francisco Acosta-Reyes, Ritam Neupane, Joachim Frank, Israel S. Fernández

CD4 T-cell transcriptome expression reversal of the lncRNA-mRNA co-expression network in elite controller vs. normal-process HIV patients. Chaoyu Chen, Xiangyun Lu, Nanping Wu

tRNA dissociation from EF-Tu after GTP hydrolysis and Pi release: primary steps and antibiotic inhibition. Malte Warias, Helmut Grubmüller, Lars V. Bock

Interplay between gene nucleotide composition bias and splicing. Sébastien Lemaire, Nicolas Fontrodona, Jean-Baptiste Claude, Hélène Polvèche, Fabien Aubé, Laurent Modolo, Cyril F. Bourgeois, Franck Mortreux, Didier Auboeuf

Comparison of different extraction kits to isolate microRNA from Galleria mellonella (wax moth) larvae infected with Metarhizium brunneum (ARSEF4556). Muneefah A. Alenezi, Tariq M. Butt, Daniel C. Eastwood

Extensive post-transcriptional buffering of gene expression in the response to oxidative stress in baker’s yeast. William R. Blevins, Teresa Tavella, Simone G. Moro, Bernat Blasco-Moreno, Adrià Closa-Mosquera, Juana Díez, Lucas B. Carey, M. Mar Albà

Exon-mediated activation of transcription starts. Ana Fiszbein, Keegan S. Krick, Christopher B. Burge

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 Peña, Sofia Lizarraga, Jun Zhu, Ilya Safro, Michael D Wyatt, Michael Shtutman

In silico analysis of coding SNPs and 3′-UTR associated miRNAs in DCAF17 gene that may affect the regulation and pathogenesis of Woodhouse-Sakati Syndrome. Abdelrahman H. Abdelmoneim, Asia M. Elrashied, Alaa I. Mohammed, Sara A. Mirghani, Rania E. Osman, Esraa O. Gadim, Mohamed A. Hassan

Developmentally regulated tcf7l2 splice variants mediate transcriptional repressor functions during eye formation. Rodrigo M. Young, Kenneth B. Ewan, Veronica P. Ferrer, Miguel L. Allende, Trevor C. Dale, Stephen W. Wilson

Comparative transcriptomics analyses across species, organs and developmental stages reveal functionally constrained lncRNAs. Fabrice Darbellay, Anamaria Necsulea

Nuclear RNA export factor variant initiates piRNA-guided co-transcriptional silencing. Kensaku Murano, Yuka W. Iwasaki, Hirotsugu Ishizu, Akane Mashiko, Aoi Shibuya, Shu Kondo, Shungo Adachi, Saori Suzuki, Kuniaki Saito, Tohru Natsume, Mikiko C. Siomi, Haruhiko Siomi

MiR-219 deficiency in Alzheimer’s disease contributes to neurodegeneration and memory dysfunction through post-transcriptional regulation of tau-kinase network. Mercedes Arnes, Yoon A. Kim, Jerome Lannes, Maria E. Alaniz, Joshua D. Cho, Brian D. McCabe, Ismael Santa-Maria

Global analyses of the dynamics of mammalian microRNA metabolism. Elena R. Kingston, David P. Bartel

Posttranscriptional regulation of ribosomal and multiresistance genes by the bacterial leader peptide peTrpL. Hendrik Melior, Siqi Li, Maximilian Stötzel, Konrad U. Förstner, Sandra Maaß, Rubina Schütz, Saina Azarderakhsh, Susanne Barth-Weber, Aleksei Shevkoplias, Kathrin Baumgardt, Zoe Chervontseva, John Ziebuhr, Christian H. Ahrens, Elena Evguenieva-Hackenberg

Altered levels of hsromega lncRNAs further enhance Ras signaling during ectopically activated Ras induced R7 differentiation in Drosophila. Mukulika Ray, Gunjan Singh, Subhash C. Lakhotia

A novel retroviral vector system to analyze expression from mRNA with retained introns using fluorescent proteins and flow cytometry. Patrick E.H. Jackson, Jing Huang, Monika Sharma, Sara K. Rasmussen, Marie-Louise Hammarskjold, David Rekosh

Daedalus and Gasz recruit Armitage to mitochondria, bringing piRNA precursors to the biogenesis machinery. Marzia Munafò, Vera Manelli, Federica A. Falconio, Ashley Sawle, Emma Kneuss, Evelyn L. Eastwood, Jun Wen Eugene Seah, Benjamin Czech, Gregory J. Hannon

Atrx deletion in neurons leads to sexually-dimorphic dysregulation of miR-137 and spatial learning and memory deficits. Renee J. Tamming, Vanessa Dumeaux, Luana Langlois, Jacob Ellegood, Lily R. Qiu, Yan Jiang, Jason P. Lerch, Nathalie G. Bérubé

In situ structure of rotavirus VP1 RNA-dependent RNA polymerase. Simon Jenni, Eric N. Salgado, Tobias Herrmann, Zongli Li, Timothy Grant, Nikolaus Grigorieff, Stefano Trapani, Leandro F. Estrozi, Stephen C. Harrison

A Pandas complex adapted for piRNA-guided transposon silencing. Kang Zhao, Sha Cheng, Na Miao, Ping Xu, Xiaohua Lu, Ming Wang, Yuhan Zhang, Xun Yuan, Weiwei Liu, Xin Lu, Xuan Ouyang, Peng Zhou, Jiaqi Gu, Yiqun Zhang, Ding Qiu, Shan Wang, Zhaohui Jin, Youzhong Wan, Jinbiao Ma, Ying Huang, Yang Yu

RNA preprints: W14/2019

Circular RNA circGTIC1 drives gastric TIC self-renewal to initiate gastric tumorigenesis and metastasis. Liyan Wang, Bin Li, Xuhua Xiao, Xiaoyuan Yi, Feifei He

Risk variant in miR-544a binding site in CCDC170 is associated with osteoporosis. Xinhong Liu, Yang Wang, Qin Tan, Yunqi He, Xin Zhao

mRNA Degradation Rates Are Coupled to Metabolic Status in Mycobacteria. Diego A. Vargas-Blanco, Ying Zhou, Luis Gutierrez Zamalloa, Tim Antonelli, Scarlet S. Shell

FilTar: Using RNA-Seq data to improve microRNA target prediction accuracy in animals. Thomas Bradley, Simon Moxon

A heterochromatin-specific RNA export pathway facilitates piRNA production. Mostafa F. ElMaghraby, Peter Refsing Andersen, Florian Pühringer, Katharina Meixner, Thomas Lendl, Laszlo Tirian, Julius Brennecke

Paternally-acting canonical RNA-directed DNA methylation pathway genes sensitize Arabidopsis endosperm to paternal genome dosage. P. R. V. Satyaki, Mary Gehring

Molecular determinants of metazoan tricRNA biogenesis. Casey A. Schmidt, Joseph D. Giusto, Alicia Bao, Anita K. Hopper, A. Gregory Matera

RNA base pairing complexity in living cells visualized by correlated chemical probing. Anthony M. Mustoe, Nicole Lama, Patrick S. Irving, Samuel W. Olson, Kevin M. Weeks

dSreg: A bayesian model to integrate changes in splicing and RNA binding protein activity. Carlos Martí-Gómez, Enrique Lara-Pezzi, Fátima Sánchez-Cabo

MicroRNAs expressed from FSHR and aromatase genes target important ovarian functions. Ilmatar Rooda, Birgitta Kaselt, Andres Salumets, Agne Velthut-Meikas

Fast and unbiased purification of RNA-protein complexes after UV cross-linking. Erika C Urdaneta, Benedikt M Beckmann

Codon Bias Confers Stability to mRNAs via ILF2 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

Quantitative Principles of cis-translational control by general mRNA sequence features in eukaryotes. Jingyi Jessica Li, Guo-Liang Chew, Mark D. Biggin

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

The RNA binding protein DAZL functions as repressor and activator of maternal mRNA translation during oocyte maturation. Cai-Rong Yang, Gabriel Rajkovic, Enrico Maria Daldello, Xuan G. Luong, Jing Chen, Marco Conti

The rs6505162 C>A polymorphism in the miRNA-423 gene exhibits a protective element of coronary artery in a southern Chinese population with Kawasaki disease. Jiawen Li, Jinxin Wang, Xiaoping Su, Zhiyong Jiang, Xing Rong, Xueping Gu, Huixian Qiu, Lanlan Zeng, Hao Zheng, Xiaoqiong Gu, Maoping Chu

SSD1 suppresses phenotypes induced by the lack of Elongator-dependent tRNA modifications. Fu Xu, Anders Bystrom, Marcus Johansson

The piRNA Response to Retroviral Invasion of the Koala Genome. Tianxiong Yu, Birgit S. Koppetsch, Keith Chappell, Sara Pagliarani, Stephen Johnston, Zhiping Weng, William E. Theurkauf

Drosophila ribosomal protein S5b is essential for oogenesis and interacts with distinct RNAs. Jian Kong, Hong Han, Julie Bergalet, Louis Philip Benoit Bouvrette, Greco Hernández, Nam Sung Moon, Hojatollah Vali, Éric Lécuyer, Paul Lasko

Interplay Between Short-range Attraction and Long-range Repulsion Controls Reentrant Liquid Condensation of Ribonucleoprotein-RNA Complexes. Ibraheem Alshareedah, Taranpreet Kaur, Jason Ngo, Hannah Seppala, Liz-Audrey Djomnang Kounatse, Wei Wang, Mahdi Muhammad Moosa, Priya R Banerjee

Translation and Transforming Activity of a Circular RNA from Human Papillomavirus. Jiawei Zhao, Eunice E Lee, Jiwoong Kim, Bahir Chamseddin, Rong Yang, Yang Xie, Xiaowei Zhan, Richard Wang

3′-UTR shortening disrupts ceRNA crosstalk of housekeeping genes resulting in subtype-specific breast cancer development. Fan Zhenjiang, Soyeon Kim, Brenda Diergaarde, Hyun Jung Park

In silico analysis of coding SNPs and 3′-UTR associated miRNAs in DCAF17 gene that may affect the regulation and pathogenesis of Woodhouse-Sakati Syndrome. abdelrahman hamza abdelmoneim Sr., Asia M Elrashied, Alaa I Mohammed, Sara A Mirghani, Rania E Osman, Esraa O Gadim, Mohamed A Salih

Alternative Polyadenylation Modifies Target Sites of MicroRNAs with Clinical Potential for Breast Cancer Progression. Soyeon Kim, Yulong Bai, Brenda Diergaarde, George C. Tseng, Hyun Jung Park

BPPart and BPMax: RNA-RNA Interaction Partition Function and Structure Prediction for the Base Pair Counting Model. Ali Ebrahimpour-Boroojeny, Sanjay Rajopadhye, Hamidreza Chitsaz

 

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