Difference between revisions of "Stusti 2018"

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== Die Sprache der RNA: Von RNA-Schaltern zu CRISPR/ Cas ==
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= Die Sprache der RNA: Von RNA-Schaltern zu CRISPR/ Cas =
  
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* Riboswitches
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==  What makes RNA such a special molecule – specific chemical and structural features of RNA: Niklas Kehl ==
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<pubmed>   27607554      26655897
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<pubmed> 21930584</pubmed>
  
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  28121427      29618088
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== RNA synthesis – DNA and RNA dependent RNA polymerases and primase during transcription, replication and repair: Andrea Lehner ==
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    25794618    25794617
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<pubmed>  24219496 8156586 28979293 26109351</pubmed>
  
 +
== Ribozymes (catalytically active RNAs: Christian Thielscher) ==
 +
<pubmed>  21930582 22454536 14730013 10554775 21930585 6297745</pubmed>
  
 +
== The Ribosome - the role and function of ribosomal RNAs and the central dogma of molecular biology: Matthias Lenz ==
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<pubmed> 18292779 21930591 25500179</pubmed>
  
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  25848023
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== The Splicosome - the mechanism of mRNA splicing – alternative gene expression, genome size definition and phenotype plasticity: Christian Schneider ==
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    25571850
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<pubmed>  24452469,26682498 25798239 </pubmed>
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    25964329
 
  
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    26118534
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== Riboregulation and virulence, targeting by antibiotics: Theresia Eisele ==
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    26494285
 
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  28206750  28375729    28396576    28541183    28455443
 
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    29537923      27798597
 
−
 
 
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    29135333  29420816  28611182</pubmed>
 
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−
* Riboregulation and virulence, targeting by antibiotics
 
 
<pubmed>27651123      26416753
 
<pubmed>27651123      26416753
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   27120414
+
   27120414   27672192  28434876  28529506 28886688</pubmed>   
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   27672192  28434876  28529506 28886688</pubmed>   
 
−
 
 
−
* RNA-based second messengers
 
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<pubmed>28420751    25616065
 
−
 
 
−
    25682701
 
−
 
 
−
    25869574
 
−
 
 
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  26280533</pubmed> 
 
−
 
 
−
* Ribozymes
 
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<pubmed>27130889      27408700
 
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    27687155      27187488
 
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  27863022
 
  
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    28054987
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== Riboswitch modeling: Mark Sinzger ==
 +
<pubmed>19381267 28591515 27378291</pubmed>
  
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  28620029  28697848   28733144
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 +
== The RNA world and evolution: Roman Doll ==
 +
<pubmed>      25109990 25385129   25734234 25739364    26439358 17540026 29031737      28657884  19117371</pubmed>
  
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     28818345   28951565  26481500</pubmed>
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== RNA modification: Jan Michel Göring ==
 +
<pubmed>     26189113    26832457   27375676
 +
    28264529 28624569</pubmed>
  
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* Protein- or tRNA-controlled RNA switches
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== RNA degradation/processing: Lena Kricsfalussy-Hrabar ==
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<pubmed>25959893        24816551
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<pubmed>       26096689  28202538    19239894 </pubmed>
  
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25583497</pubmed>
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== Regulation by non-coding RNA: Maxin Drömer ==
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<pubmed>         18981470      24667238 </pubmed>
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* RNA thermometers
 
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<pubmed>25477380</pubmed>
 
−
   
 
  
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* The RNA world and evolution
+
== RNA dependent DNA Polymerases - from telomerase to retroviruses: Ansgar Stenzel==
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<pubmed>     17540026
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<pubmed>       18972389 26830230     28141967 </pubmed>  
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  29031737      28657884
 
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  19117371</pubmed>
 
  
 +
== CRISPR/Cas: Science – the bacterial “immune” system: Maximilian Schreier ==
 +
<pubmed>      29358495      29169146 28375731</pubmed>
  
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* RNA modification
+
== CRISPR/Cas: Application and groundbreaking  perspectives: Johann Liebeton ==
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<pubmed>     26832457  27375676
+
<pubmed>     26771484 </pubmed>
  
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    28264529
+
== Synthesis, maturation and function of tRNAs – The wobble hypothesis and specific codon usage as a molecular barrier for horizontal gene transfer: Artur Fornol ==
 +
<pubmed>    22016848 26186290 21957054 23166520 21930591</pubmed>
  
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  28624569</pubmed>
+
== Outlook: Finding function in mystery transcripts – eRNAs, long-non coding (lncRNA) and circular RNA (circRNA) ==
 +
<pubmed>      28533025 25561718 26883671 28485684 29182528 21925379</pubmed>
  
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* RNA degradation/ processing
+
== Outlook: RNA and SELEX – new prospects and applications for targeted interference with regulatory pathways ==
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<pubmed>         28202538
+
<pubmed> 17627883 19943183  </pubmed>
  
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</pubmed>
+
== RNA-based second messengers: Jörg Stülke ==
 +
<pubmed> 28420751    25616065 25682701    25869574 26280533</pubmed>
  
−
* CRISPR/Cas: Science
+
== Riboswitches: Jörg Stülke ==
−
<pubmed>        28375731</pubmed>
+
<pubmed>   27607554      26655897   28121427      29618088 25794618    25794617 25848023    24769284 25571850   25964329 25959893       24816551 25583497  26118534 26494285 28206750  28375729    28396576    28541183    28455443   29537923      27798597 29135333  29420816  28611182</pubmed>
  
 +
== RNA dependent RNA Polymerases – the RNA replicase ==
 +
<pubmed>          29439438     18268843 9878607 </pubmed>
  
 +
== The mysterious function and role of 6S-RNA and pRNA in bacteria ==
 +
<pubmed>    24786589  17383220 24742053 23457253</pubmed>
  
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* CRISPR/Cas: Application
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== RNA thermometers==
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<pubmed>       </pubmed>
+
<pubmed>25477380 27060146 </pubmed>

Latest revision as of 14:42, 27 July 2018

Contents

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

What makes RNA such a special molecule – specific chemical and structural features of RNA: Niklas Kehl


RNA synthesis – DNA and RNA dependent RNA polymerases and primase during transcription, replication and repair: Andrea Lehner


Ribozymes (catalytically active RNAs: Christian Thielscher)


The Ribosome - the role and function of ribosomal RNAs and the central dogma of molecular biology: Matthias Lenz


The Splicosome - the mechanism of mRNA splicing – alternative gene expression, genome size definition and phenotype plasticity: Christian Schneider


Riboregulation and virulence, targeting by antibiotics: Theresia Eisele


Riboswitch modeling: Mark Sinzger


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


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


RNA dependent DNA Polymerases - from telomerase to retroviruses: Ansgar Stenzel


CRISPR/Cas: Science – the bacterial “immune” system: Maximilian Schreier


CRISPR/Cas: Application and groundbreaking perspectives: Johann Liebeton


Synthesis, maturation and function of tRNAs – The wobble hypothesis and specific codon usage as a molecular barrier for horizontal gene transfer: Artur Fornol


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


Outlook: RNA and SELEX – new prospects and applications for targeted interference with regulatory pathways


RNA-based second messengers: Jörg Stülke


Riboswitches: Jörg Stülke


RNA dependent RNA Polymerases – the RNA replicase

Sangita Venkataraman, Burra V L S Prasad, Ramasamy Selvarajan
RNA Dependent RNA Polymerases: Insights from Structure, Function and Evolution.
Viruses: 2018, 10(2);
[PubMed:29439438] [WorldCat.org] [DOI] (I e)

Kenneth K S Ng, Jamie J Arnold, Craig E Cameron
Structure-function relationships among RNA-dependent RNA polymerases.
Curr Top Microbiol Immunol: 2008, 320;137-56
[PubMed:18268843] [WorldCat.org] [DOI] (P p)

E K O'Reilly, C C Kao
Analysis of RNA-dependent RNA polymerase structure and function as guided by known polymerase structures and computer predictions of secondary structure.
Virology: 1998, 252(2);287-303
[PubMed:9878607] [WorldCat.org] [DOI] (P p)


The mysterious function and role of 6S-RNA and pRNA in bacteria


RNA thermometers

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