In vivo structure of the Ty1 retrotransposon RNA genome.

Nucleic Acids Research
Angelika AndrzejewskaKatarzyna Pachulska-Wieczorek


Long terminal repeat (LTR)-retrotransposons constitute a significant part of eukaryotic genomes and influence their function and evolution. Like other RNA viruses, LTR-retrotransposons efficiently utilize their RNA genome to interact with host cell machinery during replication. Here, we provide the first genome-wide RNA secondary structure model for a LTR-retrotransposon in living cells. Using SHAPE probing, we explore the secondary structure of the yeast Ty1 retrotransposon RNA genome in its native in vivo state and under defined in vitro conditions. Comparative analyses reveal the strong impact of the cellular environment on folding of Ty1 RNA. In vivo, Ty1 genome RNA is significantly less structured and more dynamic but retains specific well-structured regions harboring functional cis-acting sequences. Ribosomes participate in the unfolding and remodeling of Ty1 RNA, and inhibition of translation initiation stabilizes Ty1 RNA structure. Together, our findings support the dual role of Ty1 genomic RNA as a template for protein synthesis and reverse transcription. This study also contributes to understanding how a complex multifunctional RNA genome folds in vivo, and strengthens the need for studying RNA structure in its natura...Continue Reading


Mar 1, 1985·Cell·J D BoekeG R Fink
May 1, 1987·Molecular and Cellular Biology·M NonetR Young
May 1, 1983·Proceedings of the National Academy of Sciences of the United States of America·R T ElderR W Davis
Mar 11, 2000·Molecular Biology of the Cell·M P AsheA B Sachs
Mar 24, 2005·Journal of the American Chemical Society·Edward J MerinoKevin M Weeks
Dec 16, 2005·PLoS Computational Biology·Markus Ringnér, Morten Krogh
Sep 26, 2006·Nature Structural & Molecular Biology·Barbara S SchuwirthAntón Vila-Sanjurjo
Aug 6, 2008·Molecular and Cellular Biology·Francisco Malagon, Torben Heick Jensen
Dec 26, 2008·Proceedings of the National Academy of Sciences of the United States of America·Katherine E DeiganKevin M Weeks
Apr 29, 2009·Bioinformatics·Kévin DartyYann Ponty
Aug 8, 2009·Nature·Joseph M WattsKevin M Weeks
Nov 17, 2009·FEBS Letters·Lawrence KleimanKarin Musier-Forsyth
Mar 17, 2010·BMC Bioinformatics·Jessica S Reuter, David H Mathews
Jun 18, 2010·Methods : a Companion to Methods in Enzymology·Justin T Low, Kevin M Weeks
Sep 3, 2010·Nature·Michael KerteszEran Segal
May 28, 2011·Accounts of Chemical Research·Kevin M Weeks, David M Mauger
Aug 19, 2011·Nature Reviews. Genetics·Yue WanHoward Y Chang
Mar 1, 2012·Nucleic Acids Research·Sita J LangeRolf Backofen
Aug 3, 2012·Journal of the American Chemical Society·Kady-Ann SteenKevin M Weeks
Sep 25, 2012·Traffic·Mary Ann CheckleyDavid J Garfinkel
Oct 25, 2012·Nucleic Acids Research·Katarzyna J PurzyckaDavid J Garfinkel
Nov 28, 2012·Nature Chemical Biology·Robert C SpitaleHoward Y Chang
Dec 12, 2012·PloS One·Martin CarrCasey M Bergman
Jul 17, 2014·Nature Methods·Nathan A SiegfriedKevin M Weeks
Mar 15, 2015·Cell·Vladimir PresnyakJeff Coller
Mar 17, 2015·Proceedings of the National Academy of Sciences of the United States of America·David M MaugerKevin M Weeks
Mar 25, 2015·Nature·Robert C SpitaleHoward Y Chang
Sep 10, 2015·Nucleic Acids Research·Kyle E WattersJulius B Lucks

❮ Previous
Next ❯

Related Concepts

Trending Feeds


Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Hereditary Sensory Autonomic Neuropathy

Hereditary Sensory Autonomic Neuropathies are a group of inherited neurodegenerative disorders characterized clinically by loss of sensation and autonomic dysfunction. Here is the latest research on these neuropathies.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Landau-Kleffner Syndrome

Landau Kleffner syndrome (LKS), also called infantile acquired aphasia, acquired epileptic aphasia, or aphasia with convulsive disorder, is a rare childhood neurological syndrome characterized by the sudden or gradual development of aphasia (the inability to understand or express language) and an abnormal electroencephalogram. Discover the latest research on LKS here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.


Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Regulation of Vocal-Motor Plasticity

Dopaminergic projections to the basal ganglia and nucleus accumbens shape the learning and plasticity of motivated behaviors across species including the regulation of vocal-motor plasticity and performance in songbirds. Discover the latest research on the regulation of vocal-motor plasticity here.