Physical modeling of ribosomes along messenger RNA: Estimating kinetic parameters from ribosome profiling experiments using a ballistic model.

Autor: Carole Chevalier, Jérôme Dorignac, Yahaya Ibrahim, Armelle Choquet, Alexandre David, Julie Ripoll, Eric Rivals, Frédéric Geniet, Nils-Ole Walliser, John Palmeri, Andrea Parmeggiani, Jean-Charles Walter

Publikováno v: PLoS Computational Biology, Vol 19, Iss 10, p e1011522 (2023)

Gene expression is the synthesis of proteins from the information encoded on DNA. One of the two main steps of gene expression is the translation of messenger RNA (mRNA) into polypeptide sequences of amino acids. Here, by taking into account mRNA deg

Externí odkaz: https://doaj.org/article/a7e1feaa93d8441d9ae32441095e80e9

Supercoiled DNA and non-equilibrium formation of protein complexes: A quantitative model of the nucleoprotein ParBS partition complex.

Autor: Jean-Charles Walter, Thibaut Lepage, Jérôme Dorignac, Frédéric Geniet, Andrea Parmeggiani, John Palmeri, Jean-Yves Bouet, Ivan Junier

Publikováno v: PLoS Computational Biology, Vol 17, Iss 4, p e1008869 (2021)

ParABS, the most widespread bacterial DNA segregation system, is composed of a centromeric sequence, parS, and two proteins, the ParA ATPase and the ParB DNA binding proteins. Hundreds of ParB proteins assemble dynamically to form nucleoprotein parS-

Externí odkaz: https://doaj.org/article/762706a798884c6385966aeca39de921

A conserved mechanism drives partition complex assembly on bacterial chromosomes and plasmids

Autor: Roxanne E Debaugny, Aurore Sanchez, Jérôme Rech, Delphine Labourdette, Jérôme Dorignac, Frédéric Geniet, John Palmeri, Andrea Parmeggiani, François Boudsocq, Véronique Anton Leberre, Jean‐Charles Walter, Jean‐Yves Bouet

Publikováno v: Molecular Systems Biology, Vol 14, Iss 11, Pp 1-15 (2018)

Abstract Chromosome and plasmid segregation in bacteria are mostly driven by ParABS systems. These DNA partitioning machineries rely on large nucleoprotein complexes assembled on centromere sites (parS). However, the mechanism of how a few parS‐bou

Externí odkaz: https://doaj.org/article/25c8f8de5f1a4f48807c129340a06156

Relaxation time asymmetry in stator dynamics of the bacterial flagellar motor

Autor: Jerome Dorignac, Jean-Charles Walter, Andrea Parmeggiani, María-José Franco-Oñate, Nils-Ole Walliser, Ashley L. Nord, Fred Geniet, John Palmeri, Ruben Perez-Carrasco

Publikováno v: Science Advances
Science Advances, 2022, 8 (12), pp.eabl8112. ⟨10.1126/sciadv.abl8112⟩

The bacterial flagellar motor (BFM) is the membrane-embedded rotary molecular motor which turns the flagellum that provides thrust to many bacterial species. This large multimeric complex, composed of a few dozen constituent proteins, has emerged as

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6ef461127179d3255cd11dec1aedc1c8
https://pubmed.ncbi.nlm.nih.gov/35319986

Competition between Born solvation, dielectric exclusion, and Coulomb attraction in spherical nanopores

Autor: Manoel Manghi, Théo Hennequin, John Palmeri

Publikováno v: Physical Review E : Statistical, Nonlinear, and Soft Matter Physics
Physical Review E : Statistical, Nonlinear, and Soft Matter Physics, American Physical Society, 2021, 104 (4), pp.044601. ⟨10.1103/PhysRevE.104.044601⟩
Physical Review E : Statistical, Nonlinear, and Soft Matter Physics, 2021, 104 (4), pp.044601. ⟨10.1103/PhysRevE.104.044601⟩

The recent measurement of a very low dielectric constant, $\epsilon$, of water confined in nanometric slit pores leads us to reconsider the physical basis of ion partitioning into nanopores. For confined ions in chemical equilibrium with a bulk of di

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::42ca43d21f5ba04a790750a98dc4bb9c
https://hal.archives-ouvertes.fr/hal-03350648