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1240 entries « 1 of 25 »

2021

Vicens Q, Bochler A, Jobe A, Frank J, Hashem Y

Interaction Networks of Ribosomal Expansion Segments in Kinetoplastids Book Chapter

96 , pp. 433-450, Subcellular Biochemistry, 2021.

Abstract | Links | BibTeX | Tags: Eukaryotic translation, Expansion segment, Kinetoplastid parasite, Ribosomal RNA, Ribosome structure, Unité ARN

Bec G, Ennifar E

switchSENSE Technology for Analysis of DNA Polymerase Kinetics Book Chapter

Rederstorff, M (Ed.): 2247 , pp. 145-153, Springer Protocols, Humana Press, New York, NY, Small Non-Coding RNAs, 2021.

Abstract | BibTeX | Tags: Biosensor, DNA polymerase, ENNIFAR, HIV reverse transcriptase, Kinetics, switchSENSE technology, Unité ARN

Libre C, Seissler T, Guerrero S, Batisse J, Verriez C, Stupfler B, Gilmer O, Weber M M, Cimarelli A, Etienne L, Marquet R, Paillart J C

A conserved uORF impacts APOBEC3G translation and is essential for translational inhibition by the HIV-1 Vif protein Journal Article

bioRxiv, 2021.

Abstract | Links | BibTeX | Tags: MARQUET, PAILLART, Unité ARN

Lalaouna D, Fochesato S, Harir M, Ortet P, Schmitt-Kopplin P, Heulin T, Achouak W

Amplifying and Fine-Tuning Rsm sRNAs Expression and Stability to Optimize the Survival of Pseudomonas brassicacerum in Nutrient-Poor Environments Journal Article

Microorganisms, 9 (2), pp. 250, 2021.

Abstract | Links | BibTeX | Tags: GacA-dependent, nutritional stress, Pseudomonas brassicacearum, ROMBY, Rsm sRNAs, sRNAs stability, Unité ARN

Li G, Eriani G, Wang E D, Zhou X L

Distinct pathogenic mechanisms of various RARS1 mutations in Pelizaeus-Merzbacher-like disease Journal Article

Sci China Life Sci, pp. on press, 2021, ISBN: 33515434, (1869-1889 (Electronic) 1674-7305 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: aminoacyl-tRNA synthetase (aaRS), central nervous system (CNS), ERIANI, Protein Biosynthesis, translation initiation, tRNA, Unité ARN

Mercier N, Prévost K, Massé E, Romby P, Caldelari I, Lalaouna D

MS2-Affinity Purification Coupled with RNA Sequencing in Gram-Positive Bacteria Journal Article

J Vis Exp, pp. e61731, 2021.

Abstract | Links | BibTeX | Tags: ROMBY, Unité ARN

Catalan-Moreno A, Cela M, Menendez-Gil P, Irurzun N, Caballero C J, Caldelari I, Toledo-Arana A

RNA thermoswitches modulate Staphylococcus aureus adaptation to ambient temperatures Journal Article

Nucleic Acids Res, pp. on press, 2021, ISBN: 33660769, (1362-4962 (Electronic) 0305-1048 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: ROMBY, Unité ARN

Pitchai F, Chameettachal A, Vivet-Boudou V, Ali L M, Pillai V N, Krishnan A, Bernacchi S, Mustafa F, R Marquet, Rizvi T A

Identification of Pr78Gag binding sites on the Mason-Pfizer monkey virus genomic RNA packaging determinants Journal Article

J Mol Biol, 433 (10), pp. 166923, 2021.

Abstract | Links | BibTeX | Tags: MARQUET, Retroviruses Gag-RNA interactions Purines Footprinting hSHAPE, Unité ARN

Busienne C, Marquet R, Paillart J C, Bernacchi S

Post-Translational Modifications of Retroviral HIV-1 Gag Precursors: An Overview of Their Biological Role Journal Article

Int. J. Mol. Sci., 22 (6), pp. 2871, 2021.

Abstract | Links | BibTeX | Tags: HIV-1, MARQUET, PAILLART, post-translational modifications, Pr55Gag precursor, retroviral Gag precursors, retroviral life cycle, Unité ARN

Chameettachal A, Vivet-Boudou V, Pitchai F N, N Pillai V, Ali L M, Krishnan A, Bernacchi S, Mustafa F, Marquet R, Rizvi T A

A purine loop and the primer binding site are critical for the selective encapsidation of mouse mammary tumor virus genomic RNA by Pr77Gag Journal Article

Nucleic Acids Res, pp. in press, 2021.

BibTeX | Tags: MARQUET, PAILLART, Unité ARN

Westhof E, Leontis N B

An RNA-centric historical narrative around the Protein Data Bank Journal Article

J Biol Chem, pp. 100555, 2021, ISBN: 33744291, (1083-351X (Electronic) 0021-9258 (Linking) Journal Article Review).

Abstract | Links | BibTeX | Tags: Computational Biology, Databases, modelling, Protein Data Bank, RNA, Structural biology, Unité ARN, WESTHOF

Husser C, Dentz N, Ryckelynck M

Structure-Switching RNAs: From Gene Expression Regulation to Small Molecule Detection Journal Article

Small Structures, 2 (4), pp. 2000132, 2021.

Abstract | Links | BibTeX | Tags: biosensing, Gene Expression Regulation, riboswitches, RNA aptamers, RYCKELYNCK, Synthetic Biology, Unité ARN

Stupfler B, Verriez C, Gallois-Montbrun S, Marquet R, Paillart J C

Degradation-independent inhibition of APOBEC3G by HIV-1 Vif protein Journal Article

Viruses, 13 (4), pp. 617, 2021.

Abstract | Links | BibTeX | Tags: APOBEC3G, deamination, encapsidation, HIV, MARQUET, PAILLART, proteasome, RNP granules, Translation, ubiquitin, Unité ARN, vif

Chagot M E, Quinternet M, Manival X, Lebars I

Application of NMR Spectroscopy to Determine the 3D Structure of Small Non-Coding RNAs Journal Article

Methods Mol Biol, 2300 , pp. 251-266, 2021, ISBN: 33792884, (1940-6029 (Electronic) 1064-3745 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: 3D structure, dynamics, ENNIFAR, NMR, RNA, Unité ARN

Andre A C, Debande L, Marteyn B S

The selective advantage of facultative anaerobes relies on their unique ability to cope with changing oxygen levels during infection Journal Article

Cell Microbiol, pp. e13338, 2021, ISBN: 33813807, (1462-5822 (Electronic) 1462-5814 (Linking) Journal Article Review).

Abstract | Links | BibTeX | Tags: MARTEYN, Unité ARN

de Wijn R, Rollet K, Olieric V, Hennig O, Thome N, Nous C, Paulus C, Lorber B, Betat H, Morl M, Sauter C

Crystallization and Structural Determination of an Enzyme:Substrate Complex by Serial Crystallography in a Versatile Microfluidic Chip Journal Article

J Vis Exp, (169), 2021, ISBN: 33818565, (1940-087X (Electronic) 1940-087X (Linking) Journal Article Video-Audio Media).

Abstract | Links | BibTeX | Tags: FRUGIER, Unité ARN

Injarabian L, Skerniskyte J, Gianetto Q G, Witko-Sarsat V, Marteyn B S

Reducing neutrophil exposure to oxygen allows their basal state maintenance Journal Article

Immunol Cell Biol, pp. in press, 2021, ISBN: 33811670, (1440-1711 (Electronic) 0818-9641 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Activation, anoxia, hyperoxia, MARTEYN, neutrophils, Unité ARN, viability

Velours C, Aumont-Nicaise M, Uebel S, England P, Velazquez-Campoy A, Stroebel D, Bec G, Soule P, Quetard C, Ebel C, Roussel A, Charbonnier J B, Varela P F

Macromolecular interactions in vitro, comparing classical and novel approaches Journal Article

Eur Biophys J, pp. in press, 2021, ISBN: 33792745, (1432-1017 (Electronic) 0175-7571 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Artificial binders, Double-stranded DNA breaks repair factors, ENNIFAR, Macromolecular interactions, Molecular scale biophysics, Unité ARN

Alghoul F, Eriani G, Martin F

RNA Secondary Structure Study by Chemical Probing Methods Using DMS and CMCT Book Chapter

Rederstorff, M (Ed.): Methods Mol Biol, 2300 , pp. 241-250, Springer Protocols, Humana Press, New York, NY, 2021, ISBN: 978-1-0716-1385-6/ISSN, (1940-6029 (Electronic) 1064-3745 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Capillary electrophoresis, chemical probing, CMCT, DMS, ERIANI, Primer extension, QuSHAPE, RNA secondary structure, Unité ARN

Bouhedda F, Cubi R, Baudrey S, Ryckelynck M

microIVC-Seq: A Method for Ultrahigh-Throughput Development and Functional Characterization of Small RNAs Book Chapter

Rederstorff, M (Ed.): Small Non-Coding RNAs, 2300 , pp. 203-237, Springer Protocols, Humana Press, New York, NY, Small Non-Coding RNAs, 2021, ISBN: 978-1-0716-1385-6/ISSN, (1940-6029 (Electronic) 1064-3745 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Artificial RNAs, directed evolution, Droplet microfluidics, Functional screening, In vitro selection, RNA, RYCKELYNCK, RYCKELYNCK Artificial RNAs, Unité ARN

Skerniskyte J, Karazijaite E, Luciunaite A, Suziedeliene E

OmpA Protein-Deficient Acinetobacter baumannii Outer Membrane Vesicles Trigger Reduced Inflammatory Response Journal Article

Pathogens, 10 (4), pp. 407, 2021, ISBN: 33807410, (2076-0817 (Print) 2076-0817 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Acinetobacter baumannii, inflammasome, inflammation, Macrophages, MARTEYN, outer membrane vesicles, Unité ARN

Bereiter R, Himmelstoss M, Renard E, Mairhofer E, Egger M, Breuker K, Kreutz C, Ennifar E, Micura R

Impact of 3-deazapurine nucleobases on RNA properties Journal Article

Nucleic Acids Res, pp. in press, 2021, ISBN: 33856457, (1362-4962 (Electronic) 0305-1048 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Omar El R, Julien E, Biasch K, Guffroy B, Lioure B, Vallat L, Gross I, Domon-Dell C, Lanza F, Gachet C, Negroni M, Freund J N, Tavian M

CDX2 regulates ACE expression in blood development and leukemia cells Journal Article

Blood Adv, 5 (7), pp. 2012-2016, 2021, ISBN: 33843985, (2473-9537 (Electronic) 2473-9529 (Linking) Journal Article).

Links | BibTeX | Tags: NEGRONI, Unité ARN

Schenckbecher E, Bec G, Sakamoto T, Meyer B, Ennifar E

Biophysical Studies of the Binding of Viral RNA with the 80S Ribosome Using switchSENSE Journal Article

Methods Mol Biol, 2263 , pp. 341-350, 2021, ISBN: 33877606, (1940-6029 (Electronic) 1064-3745 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Biophysics, ENNIFAR, Kinetics, Ribosome, RNA, switchSENSE, Unité ARN

Toccafondi E, Lener D, Negroni M

HIV-1 Capsid Core: A Bullet to the Heart of the Target Cell Journal Article

Front Microbiol, 12 , pp. 652486, 2021, ISBN: 33868211, (1664-302X (Print) 1664-302X (Linking) Journal Article Review).

Abstract | Links | BibTeX | Tags: NEGRONI, Unité ARN

Velazquez-Campoy A, Claro B, Abian O, Horing J, Bourlon L, Claveria-Gimeno R, Ennifar E, England P, Chaires J B, Wu D, Piszczek G, Brautigam C, Tso S C, Zhao H, Schuck P, Keller S, Bastos M

A multi-laboratory benchmark study of isothermal titration calorimetry (ITC) using Ca(2+) and Mg(2+) binding to EDTA Journal Article

Eur Biophys J, pp. in press, 2021, ISBN: 33864101, (1432-1017 (Electronic) 0175-7571 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Benchmark study, Data treatment, ENNIFAR, Isothermal Titration Calorimetry (ITC), Ligand-binding, Sample preparation, Standard reaction, Unité ARN

Goettsch W, Beerenwinkel N, Deng L, Dolken L, Dutilh B E, Erhard F, Kaderali L, von Kleist M, Marquet R, Matthijnssens J, McCallin S, McMahon D, Rattei T, Rij Van R P, Robertson D L, Schwemmle M, Stern-Ginossar N, Marz M

ITN-VIROINF: Understanding (Harmful) Virus-Host Interactions by Linking Virology and Bioinformatics Journal Article

Viruses, 13 (5), 2021, ISBN: 33925452, (1999-4915 (Electronic) 1999-4915 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: MARQUET, Unité ARN

Cubi R, Bouhedda F, Collot M, Klymchenko A S, Ryckelynck M

microIVC-Useq: a microfluidic-assisted high-throughput functionnal screening in tandem with next generation sequencing and artificial neural network to rapidly characterize RNA molecules Journal Article

Rna, pp. in press, 2021, ISBN: 33952671, (1469-9001 (Electronic) 1355-8382 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Bioinformatics, droplet-based microfluidics, high-throughput screening, light-up RNA aptamer, RNA engineering, RYCKELYNCK, Unité ARN

Montavon T C, Baldaccini M, Lefevre M, Girardi E, Chane-Woon-Ming B, Messmer M, Hammann P, Chicher J, Pfeffer S

Human DICER helicase domain recruits PKR and modulates its antiviral activity Journal Article

PLoS Pathog, 17 (5), pp. e1009549, 2021, ISBN: 33984068, (1553-7374 (Electronic) 1553-7366 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: PFEFFER, PPSE, Unité ARN

Alghoul F, Laure S, Eriani G, Martin F

Translation inhibitory elements from Hoxa3 and Hoxa11 mRNAs use uORFs for translation inhibition Journal Article

Elife, 10 , 2021, ISBN: 34076576, (2050-084X (Electronic) 2050-084X (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: ERIANI, Unité ARN

Ramos-Morales E, Bayam E, Del-Pozo-Rodriguez J, Salinas-Giege T, Marek M, Tilly P, Wolff P, Troesch E, Ennifar E, Drouard L, Godin J D, Romier C

The structure of the mouse ADAT2/ADAT3 complex reveals the molecular basis for mammalian tRNA wobble adenosine-to-inosine deamination Journal Article

Nucleic Acids Res, pp. in press, 2021, ISBN: 34057470, (1362-4962 (Electronic) 0305-1048 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Ortet P, Fochesato S, Bitbol A F, Whitworth D E, Lalaouna D, Santaella C, Heulin T, Achouak W, Barakat M

Evolutionary history expands the range of signaling interactions in hybrid multikinase networks Journal Article

Sci Rep, 11 (1), pp. 11763, 2021, ISBN: 34083699.

Abstract | Links | BibTeX | Tags: ROMBY, Unité ARN

Himmelstoss M, Erharter K, Renard E, Ennifar E, Kreutz C, Micura R

2'-O-Trifluoromethylated RNA - a powerful modification for RNA chemistry and NMR spectroscopy Journal Article

Chem Sci, 11 (41), pp. 11322-11330, 2021, ISBN: 34094374, (2041-6520 (Print) 2041-6520 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Moya-Alvarez V, Koyembi J J, Kaye L M, Mbecko J R, Sanke-Waigana H, Djorie S G, Nyasenu Y T, Mad-Bondo D, Kongoma J B, Nakib S, Madec Y, Ulmann G, Neveux N, Sansonetti P J, Vray M, Marteyn B

Vitamin C levels in a Central-African mother-infant cohort: Does hypovitaminosis C increase the risk of enteric infections? Journal Article

Matern Child Nutr, pp. e13215, 2021, ISBN: 34137176, (1740-8709 (Electronic) 1740-8695 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: MARTEYN, Unité ARN

Giuliodori A M, Marzi S

Editorial: Interview With the Translational Apparatus: Stories of Intriguing Circuits and Mechanisms to Regulate Translation in Bacteria Journal Article

Front Microbiol, 12 , pp. 707354, 2021, ISBN: 34220790, (1664-302X (Print) 1664-302X (Linking) Editorial).

Links | BibTeX | Tags: ROMBY, Unité ARN

Marszalkowski M, Werner A, Feltens R, Helmecke D, Gossringer M, Westhof E, Hartmann R K

Comparative study on tertiary contacts and folding of RNase P RNAs from a psychrophilic, a mesophilic/radiation-resistant and a thermophilic bacterium Journal Article

Rna, 2021, ISBN: 34266994, (1469-9001 (Electronic) 1355-8382 (Linking) Journal Article).

Abstract | Links | BibTeX | Tags: Unité ARN, WESTHOF

2020

Thomès L, Lescure A

Mosaic evolution of the phosphopantothenate biosynthesis pathway in bacteria and archaea Journal Article

Genome Biology and Evolution, 13 (2), pp. evaa262, 2020.

Abstract | Links | BibTeX | Tags: Candidatus poribacteria, Coenzyme A, LESCURE, phosphopantothenate pathway, Unité ARN

Abaeva I S, Vicens Q, Bochler A, Soufari H, Simonetti A, Pestova T V, Hashem Y, Hellen C U T

The Halastavi árva Virus Intergenic Region IRES Promotes Translation by the Simplest Possible Initiation Mechanism Journal Article

Cell Reports, 33 (10), pp. 108476, 2020.

Abstract | Links | BibTeX | Tags: Cricket paralysis virus, Dicistrovirus, ENNIFAR, Halastavi árva virus; IRES, intergenic region, internal ribosomal entry site, pseudoknot, Ribosome, SERBP1, SERPINE1 mRNA binding protein 1, Unité ARN

Tidu A, Janvier A, Schaeffer L, Sosnowski P, Kuhn L, Hammann P, Westhof E, Eriani G, Martin F

The viral protein NSP1 acts as a ribosome gatekeeper for shutting down host translation and fostering SARS-CoV-2 translation Journal Article

RNA, 27 (3), pp. 253-264, 2020.

Abstract | Links | BibTeX | Tags: ERIANI, PPSE, Unité ARN

Auffinger P, Ennifar E, D'Ascenzo L

Deflating the RNA Mg 2+ bubble. Stereochemistry to the rescue! Journal Article

RNA, 27 (3), pp. 243-252, 2020.

Abstract | Links | BibTeX | Tags: cryo-EM, ENNIFAR, ionic atmosphere, solvent, Unité ARN, validation, X-Ray

Hennig O, Philipp S, Bonin S, Rollet K, Kolberg T, Jühling T, Betat H, Sauter C, Mörl M

Adaptation of the Romanomermis culicivorax CCA-Adding Enzyme to Miniaturized Armless tRNA Substrates Journal Article

International Journal of Molecular Sciences, 21 (23), pp. E9047, 2020.

Abstract | Links | BibTeX | Tags: CCA-adding enzyme, co-evolution, evolutionary plasticity, FRUGIER, minimalized armless tRNAs, tRNA nucleotidyltransferase, Unité ARN

Hayoun K, Geersens E, Laczny C C, Halder R, Sánchez Lázaro C, Manna A, Bringel F, Ryckelynck M, Muller Wilmesand P E E L, Alpha-Bazin B, Armengaud J, Vuilleumier S

Dichloromethane Degradation Pathway from Unsequenced Hyphomicrobium sp. MC8b Rapidly Explored by Pan-Proteomics Journal Article

Microorganisms, 8 (12), pp. E1876, 2020.

Abstract | Links | BibTeX | Tags: dcm genes, dehalogenation, dichloromethane, differential proteomics, genome sequencing, Hyphomicrobium, Nanopore, pan-proteomics, RYCKELYNCK, Unité ARN

Bernacchi S

Special Issue "Function and Structure of Viral Ribonucleoproteins Complexes" Journal Article

Viruses, 12 (12), pp. E1355, 2020.

Abstract | Links | BibTeX | Tags: MARQUET, PAILLART, Unité ARN

Li B, Cao Y, Westhof E, Miao Z

Advances in RNA 3D Structure Modeling Using Experimental Data Journal Article

Front Genet ., 11 (574485), 2020.

Abstract | Links | BibTeX | Tags: 3D shape, chemical probing, RNA structure, RNA-puzzles, structure prediction, Unité ARN, WESTHOF

Duvergé A, Negroni M

Pseudotyping Lentiviral Vectors: When the Clothes Make the Virus Journal Article

Viruses, 12 (11), pp. 1311, 2020.

Abstract | Links | BibTeX | Tags: envelope proteins, gene therapy, lentiviral vectors, NEGRONI, pseudotyping, Unité ARN

Ali L M, Pitchai F N, Vivet-Boudou V, Chameettachal A, Jabeen A, Pillai V N, Mustafa F, Marquet R, Rizvi T A

Role of Purine-Rich Regions in Mason-Pfizer Monkey Virus (MPMV) Genomic RNA Packaging and Propagation Journal Article

Frontiers in Microbiology, (11), pp. 595410, 2020.

Abstract | Links | BibTeX | Tags: base paired purines, MARQUET, Mason-Pfizer monkey virus, PAILLART, retroviruses, RNA packaging, RNA secondary structure, RNA-Gag interaction, SHAPE, single-stranded purines, Unité ARN

Abel S, Marchi M, Solier J, Finet S, Brillet K, Bonneté F

Structural insights into the membrane receptor ShuA in DDM micelles and in a model of gram-negative bacteria outer membrane as seen by SAXS and MD simulations Journal Article

Biochim Biophys Acta Biomembr, in press , 2020.

Abstract | Links | BibTeX | Tags: DDM, ENNIFAR, Membrane transporter ShuA, Molecular dynamics simulations, Outer membrane model, SEC-MALLS, SEC-SAXS, Unité ARN

Petitjean O, Girardi E, Ngondon RP, Lupashin V, Pfeffer S

Genome-Wide CRISPR-Cas9 Screen Reveals the Importance of the Heparan Sulfate Pathway and the Conserved Oligomeric Golgi Complex for Synthetic Double-Stranded RNA Uptake and Sindbis Virus Infection Journal Article

mSphere, 5 (6), pp. e00914-20, 2020.

Abstract | Links | BibTeX | Tags: complex oligomeric Golgi complex, CRISPR-Cas9 screen, double-stranded RNA, heparan-sulfate, PFEFFER, Transfection, Unité ARN, virus

Despons L, Martin F

How Many Messenger RNAs Can Be Translated by the START Mechanism? Journal Article

International Journal of Molecular Sciences, 21 (21), pp. 8373, 2020.

Abstract | Links | BibTeX | Tags: ERIANI, LESCURE, mRNA, Ribosome, secondary structures, START, translation initiation, Unité ARN

Wolff P, Villette C, Zumsteg J, Heintz D, Antoine L, Chane-Woon-Ming B, Droogmans L, Grosjean H, Westhof E

Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea Journal Article

RNA, 26 (12), pp. 1957-1975, 2020.

Abstract | Links | BibTeX | Tags: (hyper)thermophiles Archaea mass spectrometry modifications tRNA, ARN-MS, ENNIFAR, Unité ARN, WESTHOF

1240 entries « 1 of 25 »