Stusti 2018

Die Sprache der RNA: Von RNA-Schaltern zu CRISPR/ Cas

The RNA world and evolution: Roman Doll

Ádám Kun, Ádám Radványi
The evolution of the genetic code: Impasses and challenges.
Biosystems: 2018, 164;217-225
[PubMed:29031737] [WorldCat.org] [DOI] (I p)

Thomas Fouqueau, Fabian Blombach, Finn Werner
Evolutionary Origins of Two-Barrel RNA Polymerases and Site-Specific Transcription Initiation.
Annu Rev Microbiol: 2017, 71;331-348
[PubMed:28657884] [WorldCat.org] [DOI] (I p)

Abe Pressman, Celia Blanco, Irene A Chen
The RNA World as a Model System to Study the Origin of Life.
Curr Biol: 2015, 25(19);R953-63
[PubMed:26439358] [WorldCat.org] [DOI] (I p)

Jessica C Bowman, Nicholas V Hud, Loren Dean Williams
The ribosome challenge to the RNA world.
J Mol Evol: 2015, 80(3-4);143-61
[PubMed:25739364] [WorldCat.org] [DOI] (I p)

Daniel Lundin, Gustav Berggren, Derek T Logan, Britt-Marie Sjöberg
The origin and evolution of ribonucleotide reduction.
Life (Basel): 2015, 5(1);604-36
[PubMed:25734234] [WorldCat.org] [DOI] (P e)

Paul G Higgs, Niles Lehman
The RNA World: molecular cooperation at the origins of life.
Nat Rev Genet: 2015, 16(1);7-17
[PubMed:25385129] [WorldCat.org] [DOI] (I p)

Markus Ralser
The RNA world and the origin of metabolic enzymes.
Biochem Soc Trans: 2014, 42(4);985-8
[PubMed:25109990] [WorldCat.org] [DOI] (I p)

Eugene V Koonin, Artem S Novozhilov
Origin and evolution of the genetic code: the universal enigma.
IUBMB Life: 2009, 61(2);99-111
[PubMed:19117371] [WorldCat.org] [DOI] (I p)

Yuri I Wolf, Eugene V Koonin
On the origin of the translation system and the genetic code in the RNA world by means of natural selection, exaptation, and subfunctionalization.
Biol Direct: 2007, 2;14
[PubMed:17540026] [WorldCat.org] [DOI] (I e)

RNA modification: Jan Michel Göring

Baixing Wu, Li Li, Ying Huang, Jinbiao Ma, Jinrong Min
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Curr Opin Struct Biol: 2017, 47;67-76
[PubMed:28624569] [WorldCat.org] [DOI] (I p)

Hiroyuki Hori
Transfer RNA methyltransferases with a SpoU-TrmD  (SPOUT) fold and their modified nucleosides in  tRNA.
Biomolecules: 2017, 7(1);
[PubMed:28264529] [WorldCat.org] [DOI] (I e)

Ajay K Rana, Serge Ankri
Reviving the RNA World: An Insight into the Appearance of RNA Methyltransferases.
Front Genet: 2016, 7;99
[PubMed:27375676] [WorldCat.org] [DOI] (P e)

Marcus Fislage, Lina Wauters, Wim Versées
Invited review: MnmE, a GTPase that drives a complex tRNA modification reaction.
Biopolymers: 2016, 105(8);568-79
[PubMed:26832457] [WorldCat.org] [DOI] (I p)

Clément Dégut, Luc Ponchon, Marcia Folly-Klan, Pierre Barraud, Carine Tisné
The m1A(58) modification in eubacterial tRNA: An overview of tRNA recognition and mechanism of catalysis by TrmI.
Biophys Chem: 2016, 210;27-34
[PubMed:26189113] [WorldCat.org] [DOI] (I p)

RNA degradation/processing: Lena Kricsfalussy-Hrabar

John C Zinder, Christopher D Lima
Targeting RNA for processing or destruction by the eukaryotic RNA exosome and its cofactors.
Genes Dev: 2017, 31(2);88-100
[PubMed:28202538] [WorldCat.org] [DOI] (I p)

Soraya Aït-Bara, Agamemnon J Carpousis
RNA degradosomes in bacteria and chloroplasts: classification, distribution and evolution of RNase E homologs.
Mol Microbiol: 2015, 97(6);1021-135
[PubMed:26096689] [WorldCat.org] [DOI] (I p)

Jonathan Houseley, David Tollervey
The many pathways of RNA degradation.
Cell: 2009, 136(4);763-76
[PubMed:19239894] [WorldCat.org] [DOI] (I p)

Regulation by non-coding RNA: Maxin Drömer

Yvonne Göpel, Muna A Khan, Boris Görke
Ménage à trois: post-transcriptional control of the key enzyme for cell envelope synthesis by a base-pairing small RNA, an RNase adaptor protein, and a small RNA mimic.
RNA Biol: 2014, 11(5);433-42
[PubMed:24667238] [WorldCat.org] [DOI] (I p)

Boris Görke, Jörg Vogel
Noncoding RNA control of the making and breaking of sugars.
Genes Dev: 2008, 22(21);2914-25
[PubMed:18981470] [WorldCat.org] [DOI] (P p)

Outlook: Finding function in mystery transcripts – eRNAs, long-non coding (lncRNA) and circular RNA (circRNA)

Shahnaz Haque, Lorna W Harries
Circular RNAs (circRNAs) in Health and Disease.
Genes (Basel): 2017, 8(12);
[PubMed:29182528] [WorldCat.org] [DOI] (P e)

Feng Liu
Enhancer-derived RNA: A Primer.
Genomics Proteomics Bioinformatics: 2017, 15(3);196-200
[PubMed:28533025] [WorldCat.org] [DOI] (I p)

Kuei-Yang Hsiao, H Sunny Sun, Shaw-Jenq Tsai
Circular RNA - New member of noncoding RNA with novel functions.
Exp Biol Med (Maywood): 2017, 242(11);1136-1141
[PubMed:28485684] [WorldCat.org] [DOI] (I p)

Yiwen Fang, Melissa J Fullwood
Roles, Functions, and Mechanisms of Long Non-coding RNAs in Cancer.
Genomics Proteomics Bioinformatics: 2016, 14(1);42-54
[PubMed:26883671] [WorldCat.org] [DOI] (I p)

Tae-Kyung Kim, Martin Hemberg, Jesse M Gray
Enhancer RNAs: a class of long noncoding RNAs synthesized at enhancers.
Cold Spring Harb Perspect Biol: 2015, 7(1);a018622
[PubMed:25561718] [WorldCat.org] [DOI] (I e)

Kevin C Wang, Howard Y Chang
Molecular mechanisms of long noncoding RNAs.
Mol Cell: 2011, 43(6);904-14
[PubMed:21925379] [WorldCat.org] [DOI] (I p)

Riboswitches: Jörg Stülke

Stefan Schwenk, Alexandra Moores, Irene Nobeli, Timothy D McHugh, Kristine B Arnvig
Cell-wall synthesis and ribosome maturation are co-regulated by an RNA switch in Mycobacterium tuberculosis.
Nucleic Acids Res: 2018, 46(11);5837-5849
[PubMed:29618088] [WorldCat.org] [DOI] (I p)

Laurène Bastet, Pierre Turcotte, Joseph T Wade, Daniel A Lafontaine
Maestro of regulation: Riboswitches orchestrate gene expression at the levels of translation, transcription and mRNA decay.
RNA Biol: 2018, 15(6);679-682
[PubMed:29537923] [WorldCat.org] [DOI] (I p)

Marc Vogel, Julia E Weigand, Britta Kluge, Manuel Grez, Beatrix Suess
A small, portable RNA device for the control of exon skipping in mammalian cells.
Nucleic Acids Res: 2018, 46(8);e48
[PubMed:29420816] [WorldCat.org] [DOI] (I p)

Etienne B Greenlee, Shira Stav, Ruben M Atilho, Kenneth I Brewer, Kimberly A Harris, Sarah N Malkowski, Gayan Mirihana Arachchilage, Kevin R Perkins, Madeline E Sherlock, Ronald R Breaker
Challenges of ligand identification for the second wave of orphan riboswitch candidates.
RNA Biol: 2018, 15(3);377-390
[PubMed:29135333] [WorldCat.org] [DOI] (I p)

James W Nelson, Ronald R Breaker
The lost language of the RNA World.
Sci Signal: 2017, 10(483);
[PubMed:28611182] [WorldCat.org] [DOI] (I e)

Hannah Steinert, Florian Sochor, Anna Wacker, Janina Buck, Christina Helmling, Fabian Hiller, Sara Keyhani, Jonas Noeske, Steffen Grimm, Martin M Rudolph, Heiko Keller, Rachel Anne Mooney, Robert Landick, Beatrix Suess, Boris Fürtig, Jens Wöhnert, Harald Schwalbe
Pausing guides RNA folding to populate transiently stable RNA structures for riboswitch-based transcription regulation.
Elife: 2017, 6;
[PubMed:28541183] [WorldCat.org] [DOI] (I e)

Joseph E Wedekind, Debapratim Dutta, Ivan A Belashov, Jermaine L Jenkins
Metalloriboswitches: RNA-based inorganic ion sensors that regulate genes.
J Biol Chem: 2017, 292(23);9441-9450
[PubMed:28455443] [WorldCat.org] [DOI] (I p)

Phillip J McCown, Keith A Corbino, Shira Stav, Madeline E Sherlock, Ronald R Breaker
Riboswitch diversity and distribution.
RNA: 2017, 23(7);995-1011
[PubMed:28396576] [WorldCat.org] [DOI] (I p)

Christopher P Jones, Adrian R Ferré-D'Amaré
Long-Range Interactions in Riboswitch Control of Gene Expression.
Annu Rev Biophys: 2017, 46;455-481
[PubMed:28375729] [WorldCat.org] [DOI] (I p)

Maja Etzel, Mario Mörl
Synthetic Riboswitches: From Plug and Pray toward Plug and Play.
Biochemistry: 2017, 56(9);1181-1198
[PubMed:28206750] [WorldCat.org] [DOI] (I p)

Svetlana V Harbaugh, Michael S Goodson, Kateri Dillon, Sarah Zabarnick, Nancy Kelley-Loughnane
Riboswitch-Based Reversible Dual Color Sensor.
ACS Synth Biol: 2017, 6(5);766-781
[PubMed:28121427] [WorldCat.org] [DOI] (I p)

Kyle E Watters, Eric J Strobel, Angela M Yu, John T Lis, Julius B Lucks
Cotranscriptional folding of a riboswitch at nucleotide resolution.
Nat Struct Mol Biol: 2016, 23(12);1124-1131
[PubMed:27798597] [WorldCat.org] [DOI] (I p)

Anna V Sherwood, Tina M Henkin
Riboswitch-Mediated Gene Regulation: Novel RNA Architectures Dictate Gene Expression Responses.
Annu Rev Microbiol: 2016, 70;361-74
[PubMed:27607554] [WorldCat.org] [DOI] (I p)

Aiming Ren, Yi Xue, Alla Peselis, Alexander Serganov, Hashim M Al-Hashimi, Dinshaw J Patel
Structural and Dynamic Basis for Low-Affinity, High-Selectivity Binding of L-Glutamine by the Glutamine Riboswitch.
Cell Rep: 2015, 13(9);1800-13
[PubMed:26655897] [WorldCat.org] [DOI] (I p)

Danielle Biscaro Pedrolli, Christian Kühm, Daniel C Sévin, Michael P Vockenhuber, Uwe Sauer, Beatrix Suess, Matthias Mack
A dual control mechanism synchronizes riboflavin and sulphur metabolism in Bacillus subtilis.
Proc Natl Acad Sci U S A: 2015, 112(45);14054-9
[PubMed:26494285] [WorldCat.org] [DOI] (I p)

Aiming Ren, Kanagalaghatta R Rajashankar, Dinshaw J Patel
Global RNA Fold and Molecular Recognition for a pfl Riboswitch Bound to ZMP, a Master Regulator of One-Carbon Metabolism.
Structure: 2015, 23(8);1375-1381
[PubMed:26118534] [WorldCat.org] [DOI] (I p)

Mingxu You, Jacob L Litke, Samie R Jaffrey
Imaging metabolite dynamics in living cells using a Spinach-based riboswitch.
Proc Natl Acad Sci U S A: 2015, 112(21);E2756-65
[PubMed:25964329] [WorldCat.org] [DOI] (I p)

Jinwei Zhang, Adrian R Ferré-D'Amaré
Structure and mechanism of the T-box riboswitches.
Wiley Interdiscip Rev RNA: 2015, 6(4);419-33
[PubMed:25959893] [WorldCat.org] [DOI] (I p)

James W Nelson, Narasimhan Sudarsan, Grace E Phillips, Shira Stav, Christina E Lünse, Phillip J McCown, Ronald R Breaker
Control of bacterial exoelectrogenesis by c-AMP-GMP.
Proc Natl Acad Sci U S A: 2015, 112(17);5389-94
[PubMed:25848023] [WorldCat.org] [DOI] (I p)

Michael Dambach, Melissa Sandoval, Taylor B Updegrove, Vivek Anantharaman, L Aravind, Lauren S Waters, Gisela Storz
The ubiquitous yybP-ykoY riboswitch is a manganese-responsive regulatory element.
Mol Cell: 2015, 57(6);1099-1109
[PubMed:25794618] [WorldCat.org] [DOI] (I p)

Kazuhiro Furukawa, Arati Ramesh, Zhiyuan Zhou, Zasha Weinberg, Tenaya Vallery, Wade C Winkler, Ronald R Breaker
Bacterial riboswitches cooperatively bind Ni(2+) or Co(2+) ions and control expression of heavy metal transporters.
Mol Cell: 2015, 57(6);1088-1098
[PubMed:25794617] [WorldCat.org] [DOI] (I p)

Anna V Sherwood, Frank J Grundy, Tina M Henkin
T box riboswitches in Actinobacteria: translational regulation via novel tRNA interactions.
Proc Natl Acad Sci U S A: 2015, 112(4);1113-8
[PubMed:25583497] [WorldCat.org] [DOI] (I p)

José A L da Silva
From the RNA world to the RNA/protein world: contribution of some riboswitch-binding species?
J Theor Biol: 2015, 370;197-201
[PubMed:25571850] [WorldCat.org] [DOI] (I p)

Tina M Henkin
The T box riboswitch: A novel regulatory RNA that utilizes tRNA as its ligand.
Biochim Biophys Acta: 2014, 1839(10);959-963
[PubMed:24816551] [WorldCat.org] [DOI] (P p)

Arati Ramesh, Wade C Winkler
Metabolite-binding ribozymes.
Biochim Biophys Acta: 2014, 1839(10);989-994
[PubMed:24769284] [WorldCat.org] [DOI] (P p)