Suppr超能文献

用于检测DNA中半甲基化CpG位点的工程亲和剂。

Engineering affinity agents for the detection of hemi-methylated CpG sites in DNA.

作者信息

Tarn B E, Sung K-J, Sikes H D

机构信息

Department of Chemical Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA.

出版信息

Mol Syst Des Eng. 2016 Oct 1;1(3):273-277. doi: 10.1039/C6ME00073H. Epub 2016 Sep 7.

Abstract

Wild-type methyl-CpG-binding domain (MBD) proteins specifically bind symmetrically methylated DNA sequences, and assays have been developed that use these proteins for profiling DNA methylation. Here, we use directed evolution in the yeast surface display format to identify a new protein variant that binds hemi-methylated CpG dinucleotides.

摘要

野生型甲基化CpG结合结构域(MBD)蛋白特异性结合对称甲基化的DNA序列,并且已经开发出利用这些蛋白对DNA甲基化进行分析的方法。在此,我们采用酵母表面展示形式的定向进化来鉴定一种能结合半甲基化CpG二核苷酸的新蛋白变体。

相似文献

1
Engineering affinity agents for the detection of hemi-methylated CpG sites in DNA.
Mol Syst Des Eng. 2016 Oct 1;1(3):273-277. doi: 10.1039/C6ME00073H. Epub 2016 Sep 7.
2
Characterization of Arabidopsis thaliana methyl-CpG-binding domain (MBD) proteins.
Plant J. 2003 Jun;34(5):565-72. doi: 10.1046/j.1365-313x.2003.01756.x.
3
Detection of CpG methylation level using methyl-CpG-binding domain-fused fluorescent protein.
Anal Methods. 2023 May 18;15(19):2294-2299. doi: 10.1039/d3ay00227f.
4
Mechanistic model for epigenetic maintenance by methyl-CpG-binding domain proteins.
bioRxiv. 2024 Sep 24:2024.09.22.614380. doi: 10.1101/2024.09.22.614380.
5
Recognition of hemi-methylated DNA by the SRA protein UHRF1 by a base-flipping mechanism.
Nature. 2008 Oct 9;455(7214):818-21. doi: 10.1038/nature07249. Epub 2008 Sep 3.
6
Mechanism of transcriptional regulation by methyl-CpG binding protein MBD1.
Mol Cell Biol. 2000 Jul;20(14):5107-18. doi: 10.1128/MCB.20.14.5107-5118.2000.
7
Structural Basis of MeCP2 Distribution on Non-CpG Methylated and Hydroxymethylated DNA.
J Mol Biol. 2017 May 19;429(10):1581-1594. doi: 10.1016/j.jmb.2017.04.009. Epub 2017 Apr 24.
8
Hybridization-based CpG methylation level detection using methyl-CpG-binding domain-fused luciferase.
Anal Bioanal Chem. 2023 May;415(12):2329-2337. doi: 10.1007/s00216-023-04657-z. Epub 2023 Mar 24.
9
Investigation of the interaction between MeCP2 methyl-CpG binding domain and methylated DNA by single molecule force spectroscopy.
Anal Chim Acta. 2020 Aug 8;1124:52-59. doi: 10.1016/j.aca.2020.05.029. Epub 2020 May 14.

引用本文的文献

1
Epigenetic CpG duplex marks probed by an evolved DNA reader via a well-tempered conformational plasticity.
Nucleic Acids Res. 2023 Jul 7;51(12):6495-6506. doi: 10.1093/nar/gkad134.
2
Evolved DNA Duplex Readers for Strand-Asymmetrically Modified 5-Hydroxymethylcytosine/5-Methylcytosine CpG Dyads.
J Am Chem Soc. 2022 Feb 23;144(7):2987-2993. doi: 10.1021/jacs.1c10678. Epub 2022 Feb 14.
3
Crystal structures of the EVE-HNH endonuclease VcaM4I in the presence and absence of DNA.
Nucleic Acids Res. 2021 Feb 22;49(3):1708-1723. doi: 10.1093/nar/gkaa1218.
4
An examination of critical parameters in hybridization-based epigenotyping using magnetic microparticles.
Biotechnol Prog. 2018 Nov;34(6):1589-1595. doi: 10.1002/btpr.2644. Epub 2018 Jul 27.

本文引用的文献

1
Using nanobiotechnology to increase the prevalence of epigenotyping assays in precision medicine.
Wiley Interdiscip Rev Nanomed Nanobiotechnol. 2017 Jan;9(1). doi: 10.1002/wnan.1407. Epub 2016 Apr 29.
2
Characterization and directed evolution of a methyl-binding domain protein for high-sensitivity DNA methylation analysis.
Protein Eng Des Sel. 2015 Dec;28(12):543-51. doi: 10.1093/protein/gzv046. Epub 2015 Sep 18.
3
Strategies for validation and testing of DNA methylation biomarkers.
Epigenomics. 2014;6(6):603-22. doi: 10.2217/epi.14.43.
4
Are we ready for a blood-based test to detect colon cancer?
Clin Chem. 2014 Sep;60(9):1141-2. doi: 10.1373/clinchem.2014.227132. Epub 2014 Jul 15.
5
Validation of a real-time PCR-based qualitative assay for the detection of methylated SEPT9 DNA in human plasma.
Clin Chem. 2014 Sep;60(9):1183-91. doi: 10.1373/clinchem.2013.221044. Epub 2014 Jun 17.
7
SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information.
Nucleic Acids Res. 2014 Jul;42(Web Server issue):W252-8. doi: 10.1093/nar/gku340. Epub 2014 Apr 29.
8
Multitarget stool DNA testing for colorectal-cancer screening.
N Engl J Med. 2014 Apr 3;370(14):1287-97. doi: 10.1056/NEJMoa1311194. Epub 2014 Mar 19.
9
DNA methylation profiling in the clinic: applications and challenges.
Nat Rev Genet. 2012 Oct;13(10):679-92. doi: 10.1038/nrg3270. Epub 2012 Sep 4.

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍。

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

文档翻译

学术文献翻译模型,支持多种主流文档格式。

立即体验