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

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