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Publications

2021

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

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

2020

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

Ryckelynck M

Development and Applications of Fluorogen/Light-Up RNA Aptamer Pairs for RNA Detection and More Book Chapter

2166 , pp. 73-102, Methods in Molecular Biology, 2020.

Abstract | Links | BibTeX | Tags: aptamer, biosensing, Engineering, fluorogen, Functional screening, Live-cell imaging, RNA, RYCKELYNCK, SELEX, Unité ARN

Trachman 3rd R J, Cojocaru R, Wu D, Piszczek G, Ryckelynck M, Unrau P J, Ferré-D'Amaré A R

Structure-Guided Engineering of the Homodimeric Mango-IV Fluorescence Turn-on Aptamer Yields an RNA FRET Pair Journal Article

Structure, 28 (7), pp. 776-785.e773, 2020, ISBN: 32386573.

Abstract | Links | BibTeX | Tags: RNA aptamer RNA fluorescence RNA structure fluorescent dye structure-guided engineering, RYCKELYNCK, Unité ARN

Pernod K, Schaeffer L, Chicher J, Hok E, Rick C, Geslain R, Eriani G, Westhof E, Ryckelynck M, Martin F

The Nature of the Purine at Position 34 in tRNAs of 4-codon Boxes Is Correlated With Nucleotides at Positions 32 and 38 to Maintain Decoding Fidelity Journal Article

Nucleic Acids Res, 48 (11), pp. 6170-6183, 2020, ISBN: 32266934.

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

Bouhedda F, Fam K T, Collot M, Autour A, Marzi S, Klymchenko A, Ryckelynck M

A dimerization-based fluorogenic dye-aptamer module for RNA imaging in live cells Journal Article

Nat Chem Biol, 16 (1), pp. 69-76, 2020, ISBN: 31636432.

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

2019

Trachman 3rd R J, Autour A, Jeng S C Y, Abdolahzadeh A, Andreoni A, Cojocaru R, Garipov R, Dolgosheina E V, Knutson J R, Ryckelynck M, Unrau P J, Ferré-D'Amaré A R

Structure and functional reselection of the Mango-III fluorogenic RNA aptamer Journal Article

Nat Chem Biol, 15 (5), pp. 472-479, 2019, ISBN: 30992561.

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

Ryckelynck M

Development and engineering of artificial RNAs Journal Article

Methods, 161 , pp. 1-2, 2019, ISBN: 31195094.

Links | BibTeX | Tags: RYCKELYNCK, Unité ARN

Autour A, Bouhedda F, Cubi R, Ryckelynck M

Optimization of fluorogenic RNA-based biosensors using droplet-based microfluidic ultrahigh-throughput screening Journal Article

Methods, 161 , pp. 46-53, 2019, ISBN: 30902664.

Abstract | Links | BibTeX | Tags: Aptasensors Fluorogenic biosensors High-throughput screening Light-up aptamer Next generation sequencing RNA, RYCKELYNCK, Unité ARN

2018

Trachman 3rd R J, Abdolahzadeh A, Andreoni A, Cojocaru R, Knutson J R, Ryckelynck M, Unrau P J, Ferré-D'Amaré A R

Crystal Structures of the Mango-II RNA Aptamer Reveal Heterogeneous Fluorophore Binding and Guide Engineering of Variants with Improved Selectivity and Brightness Journal Article

Biochemistry, 57 (26), pp. 3544-3548, 2018, ISBN: 29768001.

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

Bouhedda F, Autour A, Ryckelynck M

Light-Up RNA Aptamers and Their Cognate Fluorogens: From Their Development to Their Applications Journal Article

Int J Mol Sci, 19 (1), pp. 44, 2018, ISBN: 29295531.

Abstract | Links | BibTeX | Tags: RNA biosensing fluorescence fluorogen fluorogenic dye gene expression monitoring in vitro evolution light-up aptamer live-cell imaging, RYCKELYNCK, Unité ARN

Autour A, Jeng S C Y, Cawte A D, Abdolahzadeh A, Galli A, Panchapakesan SSS., Rueda D, Ryckelynck M, Unrau P J

Fluorogenic RNA Mango aptamers for imaging small non-coding RNAs in mammalian cells Journal Article

Nat Commun, 9 (1), pp. 656, 2018, ISBN: 29440634.

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

2017

Autour A, Ryckelynck M

Ultrahigh-Throughput Improvement and Discovery of Enzymes Using Droplet-Based Microfluidic Screening Journal Article

Micromachines, 8 (4), pp. 128, 2017.

Abstract | Links | BibTeX | Tags: directed evolution, droplet-based microfluidics, enzyme improvement, high-throughput screening, RYCKELYNCK, single-cell, Unité ARN

Fernandez-Millan P, Autour A, Ennifar E, Westhof E, Ryckelynck M

Crystal structure and fluorescence properties of the iSpinach aptamer in complex with DFHBI Journal Article

RNA, 23 (12), pp. 1788-1795, 2017, ISBN: 28939697.

Abstract | Links | BibTeX | Tags: DFHBI Spinach crystal structure fluorescence fluorogenic RNA aptamer, ENNIFAR, RYCKELYNCK, Unité ARN, WESTHOF

2016

Autour A, Westhof E, Ryckelynck M

iSpinach: a fluorogenic RNA aptamer optimized for in vitro applications. Journal Article

Nucleic Acids Res, 44 (6), pp. 2491-2500, 2016, ISBN: 26932363.

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

Matsumura S, Kun A, Ryckelynck M, Coldren F, Szilagyi A, Jossinet F, Rick C, Nghe P, Szathmary E, Griffiths A D

Transient compartmentalization of RNA replicators prevents extinction due to parasites. Journal Article

Science, 354 (6317), pp. 1293-1296, 2016, ISBN: 27940874.

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

2015

Woronoff G, Ryckelynck M, Wessel J, Schicke O, Griffiths A, P. Soumillion

Activity-Fed Translation (AFT) Assay: A New High-Throughput Screening Strategy for Enzymes in Droplets. Journal Article

Chembiochem, 16 (9), pp. 1343-1349, 2015.

Abstract | Links | BibTeX | Tags: droplet-based microfluidics enzyme catalysis in vitro translation penicillin acylase protein expression, RYCKELYNCK, Unité ARN

Ryckelynck M, Baudrey S, Rick C, Marin A, Coldren F, Westhof E, Griffiths A D

Using droplet-based microfluidics to improve the catalytic properties of RNA under multiple-turnover conditions. Journal Article

RNA, 21 (3), pp. 458-469, 2015, ISBN: 25605963.

Abstract | Links | BibTeX | Tags: RNA droplet-based microfluidics high-throughput screening in vitro evolution ribozymes, RYCKELYNCK, Unité ARN, WESTHOF