scholarly journals In vivo involvement of mutated initiation factor IF1 in gene expression control at the translational level

FEBS Letters ◽  
2005 ◽  
Vol 579 (5) ◽  
pp. 995-1000 ◽  
Author(s):  
Victor V. Croitoru ◽  
Margarete Bucheli-Witschel ◽  
Leif A. Isaksson
2019 ◽  
Author(s):  
Robin A. Sorg ◽  
Clement Gallay ◽  
Jan-Willem Veening

AbstractStreptococcus pneumoniae can cause disease in various human tissues and organs, including the ear, the brain, the blood and the lung, and thus in highly diverse and dynamic environments. It is challenging to study how pneumococci control virulence factor expression, because cues of natural environments and the presence of an immune system are difficult to simulate in vitro. Here, we apply synthetic biology methods to reverse-engineer gene expression control in S. pneumoniae. A selection platform is described that allows for straightforward identification of transcriptional regulatory elements out of combinatorial libraries. We present TetR- and LacI-regulated promoters that show expression ranges of four orders of magnitude. Based on these promoters, regulatory networks of higher complexity are assembled, such as logic AND and IMPLY gates. Finally, we demonstrate single-copy genome-integrated toggle switches that give rise to bimodal population distributions. The tools described here can be used to mimic complex expression patterns, such as the ones found for pneumococcal virulence factors, paving the way for in vivo investigations of the importance of gene expression control on the pathogenicity of S. pneumoniae.


1986 ◽  
Vol 192 (4) ◽  
pp. 767-780 ◽  
Author(s):  
J.Scott Butler ◽  
Mathias Springer ◽  
Jacques Dondon ◽  
Monique Graffe ◽  
Marianne Grunberg-Manago

2021 ◽  
Author(s):  
David Aciole Barbosa ◽  
Alexandre Santos Simeone ◽  
Ana Carolina Humberto ◽  
Yara Natercia Lima Faustino de Maria ◽  
Regina Costa de Oliveira ◽  
...  

Abstract Previous genomic/transcriptomic analyses of Talaromyces marneffei (TM) unravelled relevant pathogenicity-related elements, as well as chromosomal regions potentially involved with the production of non-coding RNAs (ncRNAs), which have been parsimoniously reported in fungi. This manuscript describes a comprehensive pan-transcriptome assembly for TM that identifies a series of previously undetected genetic elements in this emerging pathogenic fungus. Our results confirm that ~58.28% of the 9,480 genes currently annotated in the TM genome are, in fact, transcribed in vivo and that ~23.6% of them may display alternative isomorphs. Moreover, we identified 585 transcripts that do not match any gene currently mapped in the genome, represented by 90 coding transcripts and 140 ncRNAs, including 48 long non-coding RNAs (lncRNAs). Overall, we expect that the novel elements described herein may contribute to improve the currently available Talaromyces databases and foster studies aiming at characterizing lncRNA-mediated gene expression control in fungi.


Author(s):  
Simone Rauch ◽  
Krysten A. Jones ◽  
Bryan Dickinson

RNA regulation is critical for gene expression control, but tools to temporally manipulate RNA regulatory mechanisms are lacking. Here, we present small molecule-inducible RNA-targeting effectors based on our previously developed CRISPR/Cas-inspired RNA targeting system (CIRTS), which can trigger RNA editing, degradation, or translation on target transcripts. We go on to show the inducible CIRTS editor can be deployed for RNA base editing in vivo, providing a new set of tools to probe RNA regulatory dynamics and control gene expression.


2020 ◽  
Author(s):  
Simone Rauch ◽  
Krysten A. Jones ◽  
Bryan Dickinson

RNA regulation is critical for gene expression control, but tools to temporally manipulate RNA regulatory mechanisms are lacking. Here, we present small molecule-inducible RNA-targeting effectors based on our previously developed CRISPR/Cas-inspired RNA targeting system (CIRTS), which can trigger RNA editing, degradation, or translation on target transcripts. We go on to show the inducible CIRTS editor can be deployed for RNA base editing in vivo, providing a new set of tools to probe RNA regulatory dynamics and control gene expression.


2019 ◽  
Vol 10 (1) ◽  
Author(s):  
Benjamin H. Weinberg ◽  
Jang Hwan Cho ◽  
Yash Agarwal ◽  
N. T. Hang Pham ◽  
Leidy D. Caraballo ◽  
...  

Abstract Site-specific DNA recombinases are important genome engineering tools. Chemical- and light-inducible recombinases, in particular, enable spatiotemporal control of gene expression. However, inducible recombinases are scarce due to the challenge of engineering high performance systems, thus constraining the sophistication of genetic circuits and animal models that can be created. Here we present a library of >20 orthogonal inducible split recombinases that can be activated by small molecules, light and temperature in mammalian cells and mice. Furthermore, we engineer inducible split Cre systems with better performance than existing systems. Using our orthogonal inducible recombinases, we create a genetic switchboard that can independently regulate the expression of 3 different cytokines in the same cell, a tripartite inducible Flp, and a 4-input AND gate. We quantitatively characterize the inducible recombinases for benchmarking their performances, including computation of distinguishability of outputs. This library expands capabilities for multiplexed mammalian gene expression control.


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