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Modélisation de la ségrégation et du positionnement
du génome bactérien
Auteur(s): Parmeggiani A.
(Autres publications)
, 2018
Résumé: Sur la description de la recherche effectuée sur la ségrégation et le positionnement de l'ADN bactérien.
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Looping and Clustering: a statistical physics approach to protein-DNA complexes in bacteria 
Auteur(s): Walter J.-C., Walliser N.-O., David G., Dorignac J., Geniet F., Palmeri J., Parmeggiani A., Wingreen Ned S., Broedersz Chase P.
(Affiches/Poster)
EMBO | EMBL Symposium: Cellular Mechanisms Driven by Liquid Phase Separation (Heidelberg, DE), 2018-05-14
Ref HAL: hal-01939915_v1
Exporter : BibTex | endNote
Résumé: The DNA shows a high degree of spatial and dynamical organization over a broad range of length scales. It interacts with different populations of proteins and can form protein-DNA complexes that underlie various biological processes, including chromosome segregation. A prominent example is the large ParB-DNA complex, an essential component of a widely spread mechanism for DNA segregation in bacteria. Recent studies suggest that DNA-bound ParB proteins interact with each other and condense into large clusters with multiple extruding DNA-loops.In my talk, I present the Looping and Clustering model [1], a simple statistical physics approach to describe how proteins assemble into a protein-DNA cluster with multiple loops. Our analytic model predicts binding profiles of ParB proteins in good agreement with data from high precision ChIP-sequencing – a biochemical technique to analyze the interaction between DNA and proteins at the level of the genome. The Looping and Clustering framework provides a quantitative tool that could be exploited to interpret further experimental results of ParB-like protein complexes and gain some new insights into the organization of DNA.
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A conserved mechanism drives partition complex assembly on bacterial chromosomes and plasmids
Auteur(s): Debaugny Roxanne, Sanchez Aurore, Rech Jérôme, Labourdette Delphine, Dorignac J., Geniet F., Palmeri J., Parmeggiani A., Boudsocq François, Le Berre Véronique, Walter J.-C., Bouet Jean-Yves
(Article) Publié:
Molecular Systems Biology, vol. 14 p.e8516 (2018)
Texte intégral en Openaccess : 
Ref HAL: hal-01926457_v1
PMID 30446599
DOI: 10.15252/msb.20188516
WoS: 000451579500003
Exporter : BibTex | endNote
14 Citations
Résumé: 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-bound ParB proteins nucleate the formation of highly concentrated ParB clusters remains unclear despite several proposed physico-mathematical models. We discriminated between these different models by varying some key parameters in vivo using the plasmid F partition system. We found that ‘Nucleation & caging’ is the only coherent model recapitulating in vivo data. We also showed that the stochastic self-assembly of partition complexes (i) does not directly involve ParA, (ii) results in a dynamic structure of discrete size independent of ParB concentration, and (iii) is not perturbed by active transcription but is by protein complexes. We refined the ‘Nucleation & Caging’ model and successfully applied it to the chromosomally-encoded Par system of Vibrio cholerae, indicating that this stochastic self-assembly mechanism is widely conserved from plasmids to chromosomes.
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Vladimir Lorman and the Physics of Unconventional Systems
Auteur(s): Parmeggiani A.
Conférence invité: Workshop on Physical Virology - ICTP (Trieste, IT, 2017-07-21)
Ref HAL: hal-01940219_v1
Exporter : BibTex | endNote
Résumé: A perspective of Vladimir Lorman's studies in theoretical and interdisciplinary physics
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