Single-molecule diffusion and conformational dynamics by spatial integration of temporal fluctuations

dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)
dc.contributor.authorSerag, Maged F.
dc.contributor.authorAbadi, Maram
dc.contributor.authorHabuchi, Satoshi
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentBioscience Program
dc.contributor.departmentSingle-Molecule Spectroscopy and Microscopy Research Group
dc.date.accessioned2014-11-06T07:21:30Z
dc.date.available2014-11-06T07:21:30Z
dc.date.issued2014-10-06
dc.date.published-online2014-10-06
dc.date.published-print2014-12
dc.description.abstractSingle-molecule localization and tracking has been used to translate spatiotemporal information of individual molecules to map their diffusion behaviours. However, accurate analysis of diffusion behaviours and including other parameters, such as the conformation and size of molecules, remain as limitations to the method. Here, we report a method that addresses the limitations of existing single-molecular localization methods. The method is based on temporal tracking of the cumulative area occupied by molecules. These temporal fluctuations are tied to molecular size, rates of diffusion and conformational changes. By analysing fluorescent nanospheres and double-stranded DNA molecules of different lengths and topological forms, we demonstrate that our cumulative-area method surpasses the conventional single-molecule localization method in terms of the accuracy of determined diffusion coefficients. Furthermore, the cumulative-area method provides conformational relaxation times of structurally flexible chains along with diffusion coefficients, which together are relevant to work in a wide spectrum of scientific fields.
dc.eprint.versionPublisher's Version/PDF
dc.identifier.citationSerag, M. F. et al. Single-molecule diffusion and conformational dynamics by spatial integration of temporal fluctuations. Nat. Commun. 5:5123 doi: 10.1038/ncomms6123 (2014).
dc.identifier.doi10.1038/ncomms6123
dc.identifier.issn2041-1723
dc.identifier.journalNature Communications
dc.identifier.pmcidPMC4205855
dc.identifier.pmid25283876
dc.identifier.urihttp://hdl.handle.net/10754/333764
dc.language.isoen
dc.publisherSpringer Nature
dc.relation.urlhttp://www.nature.com/doifinder/10.1038/ncomms6123
dc.rightsThis work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectPhysical sciences
dc.subjectAnalytical chemistry
dc.subjectBiophysics
dc.titleSingle-molecule diffusion and conformational dynamics by spatial integration of temporal fluctuations
dc.typeArticle
display.details.left<span><h5>License</h5>http://creativecommons.org/licenses/by/4.0/<br><br><h5>Type</h5>Article<br><br><h5>Authors</h5><a href="https://repository.kaust.edu.sa/search?query=orcid.id:0000-0002-6153-1089&spc.sf=dc.date.issued&spc.sd=DESC">Serag, Maged F.</a> <a href="https://orcid.org/0000-0002-6153-1089" target="_blank"><img src="https://repository.kaust.edu.sa/server/api/core/bitstreams/82a625b4-ed4b-40c8-865a-d6a5225a26a4/content" width="16" height="16"/></a><br><a href="https://repository.kaust.edu.sa/search?query=orcid.id:0000-0003-3802-8669&spc.sf=dc.date.issued&spc.sd=DESC">Abadi, Maram</a> <a href="https://orcid.org/0000-0003-3802-8669" target="_blank"><img src="https://repository.kaust.edu.sa/server/api/core/bitstreams/82a625b4-ed4b-40c8-865a-d6a5225a26a4/content" width="16" height="16"/></a><br><a href="https://repository.kaust.edu.sa/search?query=orcid.id:0000-0002-6663-2807&spc.sf=dc.date.issued&spc.sd=DESC">Habuchi, Satoshi</a> <a href="https://orcid.org/0000-0002-6663-2807" target="_blank"><img src="https://repository.kaust.edu.sa/server/api/core/bitstreams/82a625b4-ed4b-40c8-865a-d6a5225a26a4/content" width="16" height="16"/></a><br><br><h5>KAUST Department</h5><a href="https://repository.kaust.edu.sa/search?spc.sf=dc.date.issued&spc.sd=DESC&f.department=Biological and Environmental Sciences and Engineering (BESE) Division,equals">Biological and Environmental Sciences and Engineering (BESE) Division</a><br><a href="https://repository.kaust.edu.sa/search?spc.sf=dc.date.issued&spc.sd=DESC&f.department=Bioscience Program,equals">Bioscience Program</a><br><a href="https://repository.kaust.edu.sa/search?spc.sf=dc.date.issued&spc.sd=DESC&f.department=Single-Molecule Spectroscopy and Microscopy Research Group,equals">Single-Molecule Spectroscopy and Microscopy Research Group</a><br><br><h5>Online Publication Date</h5>2014-10-06<br><br><h5>Print Publication Date</h5>2014-12<br><br><h5>Date</h5>2014-10-06</span>
display.details.right<span><h5>Abstract</h5>Single-molecule localization and tracking has been used to translate spatiotemporal information of individual molecules to map their diffusion behaviours. However, accurate analysis of diffusion behaviours and including other parameters, such as the conformation and size of molecules, remain as limitations to the method. Here, we report a method that addresses the limitations of existing single-molecular localization methods. The method is based on temporal tracking of the cumulative area occupied by molecules. These temporal fluctuations are tied to molecular size, rates of diffusion and conformational changes. By analysing fluorescent nanospheres and double-stranded DNA molecules of different lengths and topological forms, we demonstrate that our cumulative-area method surpasses the conventional single-molecule localization method in terms of the accuracy of determined diffusion coefficients. Furthermore, the cumulative-area method provides conformational relaxation times of structurally flexible chains along with diffusion coefficients, which together are relevant to work in a wide spectrum of scientific fields.<br><br><h5>Citation</h5>Serag, M. F. et al. Single-molecule diffusion and conformational dynamics by spatial integration of temporal fluctuations. Nat. Commun. 5:5123 doi: 10.1038/ncomms6123 (2014).<br><br><h5>Publisher</h5><a href="https://repository.kaust.edu.sa/search?spc.sf=dc.date.issued&spc.sd=DESC&f.publisher=Springer Nature,equals">Springer Nature</a><br><br><h5>Journal</h5><a href="https://repository.kaust.edu.sa/search?spc.sf=dc.date.issued&spc.sd=DESC&f.journal=Nature Communications,equals">Nature Communications</a><br><br><h5>DOI</h5><a href="https://doi.org/10.1038/ncomms6123">10.1038/ncomms6123</a><br><br><h5>PubMed ID</h5><a href="https://www.ncbi.nlm.nih.gov/pubmed/25283876">25283876</a><br><br><h5>PubMed Central ID</h5><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4205855">PMC4205855</a><br><br><h5>Additional Links</h5>http://www.nature.com/doifinder/10.1038/ncomms6123</span>
kaust.personHabuchi, Satoshi
kaust.personSerag, Maged F.
kaust.personAbadi, Maram
orcid.authorSerag, Maged F.::0000-0002-6153-1089
orcid.authorAbadi, Maram::0000-0003-3802-8669
orcid.authorHabuchi, Satoshi::0000-0002-6663-2807
orcid.id0000-0002-6663-2807
orcid.id0000-0003-3802-8669
orcid.id0000-0002-6153-1089
refterms.dateFOA2018-06-14T03:48:00Z
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