The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures

Abstract Extracellular DNA, or eDNA, is recognised as a critical biofilm component; however, it is not understood how it forms networked matrix structures. Here, we isolate eDNA from static-culture Pseudomonas aeruginosa biofilms using ionic liquids to preserve its biophysical signatures of fluid vi...

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Autores principales:	Thomas Seviour, Fernaldo Richtia Winnerdy, Lan Li Wong, Xiangyan Shi, Sudarsan Mugunthan, Yong Hwee Foo, Remi Castaing, Sunil S. Adav, Sujatha Subramoni, Gurjeet Singh Kohli, Heather M. Shewan, Jason R. Stokes, Scott A. Rice, Anh Tuân Phan, Staffan Kjelleberg
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Microbial ecology QR100-130
Acceso en línea:	https://doaj.org/article/70e8aa33fa1741feb38ae9235c2d9402
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spelling	oai:doaj.org-article:70e8aa33fa1741feb38ae9235c2d94022021-12-02T13:18:03ZThe biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures10.1038/s41522-021-00197-52055-5008https://doaj.org/article/70e8aa33fa1741feb38ae9235c2d94022021-03-01T00:00:00Zhttps://doi.org/10.1038/s41522-021-00197-5https://doaj.org/toc/2055-5008Abstract Extracellular DNA, or eDNA, is recognised as a critical biofilm component; however, it is not understood how it forms networked matrix structures. Here, we isolate eDNA from static-culture Pseudomonas aeruginosa biofilms using ionic liquids to preserve its biophysical signatures of fluid viscoelasticity and the temperature dependency of DNA transitions. We describe a loss of eDNA network structure as resulting from a change in nucleic acid conformation, and propose that its ability to form viscoelastic structures is key to its role in building biofilm matrices. Solid-state analysis of isolated eDNA, as a proxy for eDNA structure in biofilms, reveals non-canonical Hoogsteen base pairs, triads or tetrads involving thymine or uracil, and guanine, suggesting that the eDNA forms G-quadruplex structures. These are less abundant in chromosomal DNA and disappear when eDNA undergoes conformation transition. We verify the occurrence of G-quadruplex structures in the extracellular matrix of intact static and flow-cell biofilms of P. aeruginosa, as displayed by the matrix to G-quadruplex-specific antibody binding, and validate the loss of G-quadruplex structures in vivo to occur coincident with the disappearance of eDNA fibres. Given their stability, understanding how extracellular G-quadruplex structures form will elucidate how P. aeruginosa eDNA builds viscoelastic networks, which are a foundational biofilm property.Thomas SeviourFernaldo Richtia WinnerdyLan Li WongXiangyan ShiSudarsan MugunthanYong Hwee FooRemi CastaingSunil S. AdavSujatha SubramoniGurjeet Singh KohliHeather M. ShewanJason R. StokesScott A. RiceAnh Tuân PhanStaffan KjellebergNature PortfolioarticleMicrobial ecologyQR100-130ENnpj Biofilms and Microbiomes, Vol 7, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Microbial ecology QR100-130
spellingShingle	Microbial ecology QR100-130 Thomas Seviour Fernaldo Richtia Winnerdy Lan Li Wong Xiangyan Shi Sudarsan Mugunthan Yong Hwee Foo Remi Castaing Sunil S. Adav Sujatha Subramoni Gurjeet Singh Kohli Heather M. Shewan Jason R. Stokes Scott A. Rice Anh Tuân Phan Staffan Kjelleberg The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures
description	Abstract Extracellular DNA, or eDNA, is recognised as a critical biofilm component; however, it is not understood how it forms networked matrix structures. Here, we isolate eDNA from static-culture Pseudomonas aeruginosa biofilms using ionic liquids to preserve its biophysical signatures of fluid viscoelasticity and the temperature dependency of DNA transitions. We describe a loss of eDNA network structure as resulting from a change in nucleic acid conformation, and propose that its ability to form viscoelastic structures is key to its role in building biofilm matrices. Solid-state analysis of isolated eDNA, as a proxy for eDNA structure in biofilms, reveals non-canonical Hoogsteen base pairs, triads or tetrads involving thymine or uracil, and guanine, suggesting that the eDNA forms G-quadruplex structures. These are less abundant in chromosomal DNA and disappear when eDNA undergoes conformation transition. We verify the occurrence of G-quadruplex structures in the extracellular matrix of intact static and flow-cell biofilms of P. aeruginosa, as displayed by the matrix to G-quadruplex-specific antibody binding, and validate the loss of G-quadruplex structures in vivo to occur coincident with the disappearance of eDNA fibres. Given their stability, understanding how extracellular G-quadruplex structures form will elucidate how P. aeruginosa eDNA builds viscoelastic networks, which are a foundational biofilm property.
format	article
author	Thomas Seviour Fernaldo Richtia Winnerdy Lan Li Wong Xiangyan Shi Sudarsan Mugunthan Yong Hwee Foo Remi Castaing Sunil S. Adav Sujatha Subramoni Gurjeet Singh Kohli Heather M. Shewan Jason R. Stokes Scott A. Rice Anh Tuân Phan Staffan Kjelleberg
author_facet	Thomas Seviour Fernaldo Richtia Winnerdy Lan Li Wong Xiangyan Shi Sudarsan Mugunthan Yong Hwee Foo Remi Castaing Sunil S. Adav Sujatha Subramoni Gurjeet Singh Kohli Heather M. Shewan Jason R. Stokes Scott A. Rice Anh Tuân Phan Staffan Kjelleberg
author_sort	Thomas Seviour
title	The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures
title_short	The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures
title_full	The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures
title_fullStr	The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures
title_full_unstemmed	The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures
title_sort	biofilm matrix scaffold of ps eudomonas aeruginosa contains g-quadruplex extracellular dna structures
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/70e8aa33fa1741feb38ae9235c2d9402
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The biofilm matrix scaffold of Ps eudomonas aeruginosa contains G-quadruplex extracellular DNA structures

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