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Reentrant DNA shells tune polyphosphate condensate size

The ancient, inorganic biopolymer polyphosphate (polyP) occurs in all three domains of life and affects myriad cellular processes. An intriguing feature of polyP is its frequent proximity to chromatin, and in the case of many bacteria, its occurrence in the form of magnesium-enriched condensates emb...

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Autores principales: Chawla, Ravi, Tom, Jenna K. A., Boyd, Tumara, Grotjahn, Danielle A., Park, Donghyun, Deniz, Ashok A., Racki, Lisa R.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10515899/
https://www.ncbi.nlm.nih.gov/pubmed/37745474
http://dx.doi.org/10.1101/2023.09.13.557044
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author Chawla, Ravi
Tom, Jenna K. A.
Boyd, Tumara
Grotjahn, Danielle A.
Park, Donghyun
Deniz, Ashok A.
Racki, Lisa R.
author_facet Chawla, Ravi
Tom, Jenna K. A.
Boyd, Tumara
Grotjahn, Danielle A.
Park, Donghyun
Deniz, Ashok A.
Racki, Lisa R.
author_sort Chawla, Ravi
collection PubMed
description The ancient, inorganic biopolymer polyphosphate (polyP) occurs in all three domains of life and affects myriad cellular processes. An intriguing feature of polyP is its frequent proximity to chromatin, and in the case of many bacteria, its occurrence in the form of magnesium-enriched condensates embedded in the nucleoid, particularly in response to stress. The physical basis of the interaction between polyP and DNA, two fundamental anionic biopolymers, and the resulting effects on the organization of both the nucleoid and polyP condensates remain poorly understood. Given the essential role of magnesium ions in the coordination of polymeric phosphate species, we hypothesized that a minimal system of polyP, magnesium ions, and DNA (polyP-Mg(2+)-DNA) would capture key features of the interplay between the condensates and bacterial chromatin. We find that DNA can profoundly affect polyP-Mg(2+) coacervation even at concentrations several orders of magnitude lower than found in the cell. The DNA forms shells around polyP-Mg(2+) condensates and these shells show reentrant behavior, primarily forming in the concentration range close to polyP-Mg(2+) charge neutralization. This surface association tunes both condensate size and DNA morphology in a manner dependent on DNA properties, including length and concentration. Our work identifies three components that could form the basis of a central and tunable interaction hub that interfaces with cellular interactors. These studies will inform future efforts to understand the basis of polyP granule composition and consolidation, as well as the potential capacity of these mesoscale assemblies to remodel chromatin in response to diverse stressors at different length and time scales.
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spelling pubmed-105158992023-09-23 Reentrant DNA shells tune polyphosphate condensate size Chawla, Ravi Tom, Jenna K. A. Boyd, Tumara Grotjahn, Danielle A. Park, Donghyun Deniz, Ashok A. Racki, Lisa R. bioRxiv Article The ancient, inorganic biopolymer polyphosphate (polyP) occurs in all three domains of life and affects myriad cellular processes. An intriguing feature of polyP is its frequent proximity to chromatin, and in the case of many bacteria, its occurrence in the form of magnesium-enriched condensates embedded in the nucleoid, particularly in response to stress. The physical basis of the interaction between polyP and DNA, two fundamental anionic biopolymers, and the resulting effects on the organization of both the nucleoid and polyP condensates remain poorly understood. Given the essential role of magnesium ions in the coordination of polymeric phosphate species, we hypothesized that a minimal system of polyP, magnesium ions, and DNA (polyP-Mg(2+)-DNA) would capture key features of the interplay between the condensates and bacterial chromatin. We find that DNA can profoundly affect polyP-Mg(2+) coacervation even at concentrations several orders of magnitude lower than found in the cell. The DNA forms shells around polyP-Mg(2+) condensates and these shells show reentrant behavior, primarily forming in the concentration range close to polyP-Mg(2+) charge neutralization. This surface association tunes both condensate size and DNA morphology in a manner dependent on DNA properties, including length and concentration. Our work identifies three components that could form the basis of a central and tunable interaction hub that interfaces with cellular interactors. These studies will inform future efforts to understand the basis of polyP granule composition and consolidation, as well as the potential capacity of these mesoscale assemblies to remodel chromatin in response to diverse stressors at different length and time scales. Cold Spring Harbor Laboratory 2023-09-15 /pmc/articles/PMC10515899/ /pubmed/37745474 http://dx.doi.org/10.1101/2023.09.13.557044 Text en https://creativecommons.org/licenses/by-nc-nd/4.0/This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator.
spellingShingle Article
Chawla, Ravi
Tom, Jenna K. A.
Boyd, Tumara
Grotjahn, Danielle A.
Park, Donghyun
Deniz, Ashok A.
Racki, Lisa R.
Reentrant DNA shells tune polyphosphate condensate size
title Reentrant DNA shells tune polyphosphate condensate size
title_full Reentrant DNA shells tune polyphosphate condensate size
title_fullStr Reentrant DNA shells tune polyphosphate condensate size
title_full_unstemmed Reentrant DNA shells tune polyphosphate condensate size
title_short Reentrant DNA shells tune polyphosphate condensate size
title_sort reentrant dna shells tune polyphosphate condensate size
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10515899/
https://www.ncbi.nlm.nih.gov/pubmed/37745474
http://dx.doi.org/10.1101/2023.09.13.557044
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