دورية أكاديمية
A Biophysics Toolbox for Reliable Data Acquisition and Processing in Integrated Force-Confocal Fluorescence Microscopy.
العنوان: | A Biophysics Toolbox for Reliable Data Acquisition and Processing in Integrated Force-Confocal Fluorescence Microscopy. |
---|---|
المؤلفون: | Liu Z; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., van Veen E; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., Sánchez H; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., Solano B; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., Palmero Moya FJ; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., McCluskey KA; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., Ramírez Montero D; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., van Laar T; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands., Dekker NH; Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, 2629 HZ Delft, The Netherlands.; Clarendon Laboratory, Department of Physics, University of Oxford, Oxford OX1 3PU, U.K.; Kavli Institute of Nanoscience Discovery, University of Oxford, Dorothy Crowfoot Hodgkin Building, Oxford OX1 3QU, U.K. |
المصدر: | ACS photonics [ACS Photonics] 2024 Mar 18; Vol. 11 (4), pp. 1592-1603. Date of Electronic Publication: 2024 Mar 18 (Print Publication: 2024). |
نوع المنشور: | Journal Article |
اللغة: | English |
بيانات الدورية: | Publisher: American Chemical Society Country of Publication: United States NLM ID: 101634366 Publication Model: eCollection Cited Medium: Print ISSN: 2330-4022 (Print) Linking ISSN: 23304022 NLM ISO Abbreviation: ACS Photonics Subsets: PubMed not MEDLINE |
أسماء مطبوعة: | Original Publication: Washington, DC : American Chemical Society, [2014-] |
مستخلص: | Integrated single-molecule force-fluorescence spectroscopy setups allow for simultaneous fluorescence imaging and mechanical force manipulation and measurements on individual molecules, providing comprehensive dynamic and spatiotemporal information. Dual-beam optical tweezers (OT) combined with a confocal scanning microscope form a force-fluorescence spectroscopy apparatus broadly used to investigate various biological processes, in particular, protein:DNA interactions. Such experiments typically involve imaging of fluorescently labeled proteins bound to DNA and force spectroscopy measurements of trapped individual DNA molecules. Here, we present a versatile state-of-the-art toolbox including the preparation of protein:DNA complex samples, design of a microfluidic flow cell incorporated with OT, automation of OT-confocal scanning measurements, and the development and implementation of a streamlined data analysis package for force and fluorescence spectroscopy data processing. Its components can be adapted to any commercialized or home-built dual-beam OT setup equipped with a confocal scanning microscope, which will facilitate single-molecule force-fluorescence spectroscopy studies on a large variety of biological systems. Competing Interests: The authors declare no competing financial interest. (© 2024 The Authors. Published by American Chemical Society.) |
References: | Nat Methods. 2013 Sep;10(9):910-6. (PMID: 23934077) Methods Mol Biol. 2019;1886:163-189. (PMID: 30374867) Proc Natl Acad Sci U S A. 2022 Aug 16;119(33):e2206513119. (PMID: 35939666) FEBS Lett. 2006 Jan 23;580(2):505-9. (PMID: 16388805) Annu Rev Biochem. 2020 Jun 20;89:443-470. (PMID: 32569525) Phys Rev Lett. 2016 Jun 24;116(25):258102. (PMID: 27391755) Proc Natl Acad Sci U S A. 2014 Oct 28;111(43):15390-5. (PMID: 25313033) Sci Rep. 2017 Nov 21;7(1):15886. (PMID: 29162870) Science. 2012 Oct 5;338(6103):94-7. (PMID: 22983709) Science. 2007 Oct 12;318(5848):279-83. (PMID: 17932299) Proc Natl Acad Sci U S A. 2016 Feb 2;113(5):1232-7. (PMID: 26787848) Nat Commun. 2019 May 14;10(1):2159. (PMID: 31089141) Biophys J. 2024 Jan 2;123(1):31-41. (PMID: 37968907) Mol Cell. 2020 Jan 2;77(1):17-25.e5. (PMID: 31704183) Proc Natl Acad Sci U S A. 2022 Mar 15;119(11):e2116218119. (PMID: 35259021) Biosci Rep. 2017 Jul 21;37(4):. (PMID: 28694303) Nat Protoc. 2020 May;15(5):1585-1611. (PMID: 32235926) Mol Biol Cell. 2016 Nov 7;27(22):3601-3615. (PMID: 27654946) Nat Commun. 2023 Oct 23;14(1):6735. (PMID: 37872142) Science. 2015 Apr 17;348(6232):352-4. (PMID: 25883359) Chembiochem. 2007 Jun 18;8(9):994-9. (PMID: 17503420) Nat Rev Methods Primers. 2021;1:. (PMID: 34849486) Nucleic Acids Res. 2022 Jul 22;50(13):e77. (PMID: 35489063) Nano Lett. 2016 Jan 13;16(1):381-6. (PMID: 26632021) Front Mol Biosci. 2020 May 19;7:85. (PMID: 32509800) Nucleic Acids Res. 2023 Apr 24;51(7):e39. (PMID: 36861323) Cell Rep. 2022 Dec 6;41(10):111778. (PMID: 36476856) Rev Sci Instrum. 2013 Jul;84(7):073706. (PMID: 23902075) Sci Adv. 2020 Sep 18;6(38):. (PMID: 32948589) Proc Natl Acad Sci U S A. 2015 Sep 22;112(38):11870-5. (PMID: 26324940) Science. 1994 Sep 9;265(5178):1599-600. (PMID: 8079175) Nat Struct Mol Biol. 2017 May;24(5):484-490. (PMID: 28414321) Nat Methods. 2008 Jun;5(6):491-505. (PMID: 18511917) Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Oct;82(4 Pt 1):041914. (PMID: 21230320) Nat Struct Mol Biol. 2019 Mar;26(3):185-192. (PMID: 30804513) J Biol Chem. 2012 Oct 19;287(43):35912-21. (PMID: 22930752) Nat Methods. 2011 Apr;8(4):335-40. (PMID: 21336286) Nat Commun. 2022 Nov 25;13(1):7277. (PMID: 36433994) Nat Protoc. 2011 Nov 10;6(12):1929-41. (PMID: 22082987) Proc Natl Acad Sci U S A. 2019 Apr 2;116(14):6594-6601. (PMID: 30890636) Phys Chem Chem Phys. 2011 Apr 28;13(16):7263-72. (PMID: 21416086) Nature. 2022 Jan;601(7892):268-273. (PMID: 34937945) Cell. 1998 Jan 23;92(2):161-71. (PMID: 9458041) Proc Natl Acad Sci U S A. 1998 Jun 23;95(13):7402-5. (PMID: 9636161) Rev Sci Instrum. 2012 Sep;83(9):093708. (PMID: 23020384) Annu Rev Biochem. 2022 Jun 21;91:33-59. (PMID: 35287472) Proc Natl Acad Sci U S A. 2020 Dec 1;117(48):30354-30361. (PMID: 33199603) Biophys J. 1999 Jan;76(1 Pt 1):409-13. (PMID: 9876152) J Microsc. 2011 Nov;244(2):113-21. (PMID: 22004276) Nat Commun. 2023 Jun 20;14(1):3654. (PMID: 37339984) Nature. 2018 Mar 8;555(7695):265-268. (PMID: 29489749) Nature. 2020 Feb;578(7794):317-320. (PMID: 31996849) Nature. 1999 Jan 7;397(6714):50-3. (PMID: 9892352) Nat Commun. 2023 Apr 14;14(1):2082. (PMID: 37059705) Chem Rev. 2014 Mar 26;114(6):3087-119. (PMID: 24443844) Nat Commun. 2021 Mar 26;12(1):1908. (PMID: 33772005) Nat Commun. 2022 Oct 7;13(1):5921. (PMID: 36207294) Nature. 2023 Jul;619(7971):876-883. (PMID: 37468629) PLoS One. 2015 Feb 13;10(2):e0117722. (PMID: 25680069) Nat Methods. 2008 Aug;5(8):695-702. (PMID: 18641657) |
تواريخ الأحداث: | Date Created: 20240422 Latest Revision: 20240426 |
رمز التحديث: | 20240426 |
مُعرف محوري في PubMed: | PMC11027178 |
DOI: | 10.1021/acsphotonics.3c01739 |
PMID: | 38645993 |
قاعدة البيانات: | MEDLINE |
تدمد: | 2330-4022 |
---|---|
DOI: | 10.1021/acsphotonics.3c01739 |