DNA组装技术的最新进展。
Recent advances in DNA assembly technologies.
作者信息
Chao Ran, Yuan Yongbo, Zhao Huimin
机构信息
Department of Chemical and Biomolecular Engineering, Institute for Genomic Biology, University of Illinois at Urbana-Champaig, Urbana, IL, USA.
Department of Chemical and Biomolecular Engineering, Institute for Genomic Biology, University of Illinois at Urbana-Champaig, Urbana, IL, USA
出版信息
FEMS Yeast Res. 2015 Feb;15(1):1-9. doi: 10.1111/1567-1364.12171. Epub 2015 Jan 14.
Abstract
DNA assembly is one of the most important foundational technologies for synthetic biology and metabolic engineering. Since the development of the restriction digestion and ligation method in the early 1970s, a significant amount of effort has been devoted to developing better DNA assembly methods with higher efficiency, fidelity, and modularity, as well as simpler and faster protocols. This review will not only summarize the key DNA assembly methods and their recent applications, but also highlight the innovations in assembly schemes and the challenges in automating the DNA assembly methods.
摘要
DNA组装是合成生物学和代谢工程中最重要的基础技术之一。自20世纪70年代初限制性消化和连接方法发展以来，人们投入了大量精力来开发效率更高、保真度更高、模块化更强以及协议更简单、更快的DNA组装方法。本综述不仅将总结关键的DNA组装方法及其近期应用，还将突出组装方案的创新以及DNA组装方法自动化面临的挑战。
相似文献
1
Recent advances in DNA assembly technologies.DNA组装技术的最新进展。
FEMS Yeast Res. 2015 Feb;15(1):1-9. doi: 10.1111/1567-1364.12171. Epub 2015 Jan 14.
2
Combinatorial metabolic pathway assembly approaches and toolkits for modular assembly.组合代谢途径组装方法和模块化组装工具包。
Metab Eng. 2021 Jan;63:81-101. doi: 10.1016/j.ymben.2020.12.001. Epub 2020 Dec 7.
3
Genome scale engineering techniques for metabolic engineering.用于代谢工程的基因组规模工程技术。
Metab Eng. 2015 Nov;32:143-154. doi: 10.1016/j.ymben.2015.09.013. Epub 2015 Oct 11.
4
[Perspective on the novel methods for DNA assembly].[关于DNA组装新方法的观点]
Sheng Wu Gong Cheng Xue Bao. 2013 Aug;29(8):1113-22.
5
YeastFab: High-Throughput Genetic Parts Construction, Measurement, and Pathway Engineering in Yeast.酵母基因元件构建平台：酵母中的高通量基因元件构建、测量及代谢途径工程
Methods Enzymol. 2018;608:277-306. doi: 10.1016/bs.mie.2018.05.003. Epub 2018 Jul 6.
6
Modularization of genetic elements promotes synthetic metabolic engineering.遗传元件的模块化促进了合成代谢工程。
Biotechnol Adv. 2015 Nov 15;33(7):1412-9. doi: 10.1016/j.biotechadv.2015.04.002. Epub 2015 Apr 11.
7
DNA Assembly with the DATEL Method.采用DATEL方法进行DNA组装。
Methods Mol Biol. 2018;1772:421-428. doi: 10.1007/978-1-4939-7795-6_24.
8
Recent applications of synthetic biology tools for yeast metabolic engineering.合成生物学工具在酵母代谢工程中的最新应用。
FEMS Yeast Res. 2015 Feb;15(1):1-10. doi: 10.1111/1567-1364.12185. Epub 2015 Jan 14.
9
Synthetic biology advances and applications in the biotechnology industry: a perspective.合成生物学在生物技术产业中的进展与应用：一个视角。
J Ind Microbiol Biotechnol. 2018 Jul;45(7):449-461. doi: 10.1007/s10295-018-2056-y. Epub 2018 Jun 18.
10
Toward metabolic engineering in the context of system biology and synthetic biology: advances and prospects.在系统生物学和合成生物学的背景下进行代谢工程：进展与展望。
Appl Microbiol Biotechnol. 2015 Feb;99(3):1109-18. doi: 10.1007/s00253-014-6298-y. Epub 2014 Dec 31.
引用本文的文献
1
CloneFast: A simple plasmid design and construction guide for labs venturing into synthetic biology.CloneFast：一份面向涉足合成生物学领域实验室的简单质粒设计与构建指南。
STAR Protoc. 2025 Aug 6;6(3):104025. doi: 10.1016/j.xpro.2025.104025.
2
Harnessing Small RNAs as Synthetic Post-transcriptional Regulators in Bacteria.利用小RNA作为细菌中的合成转录后调控因子
ACS Synth Biol. 2025 Jul 18;14(7):2405-2417. doi: 10.1021/acssynbio.5c00118. Epub 2025 Jul 8.
3
Barcode-free multiplex plasmid sequencing using Bayesian analysis and nanopore sequencing.使用贝叶斯分析和纳米孔测序进行无条形码多重质粒测序。
Elife. 2025 Apr 25;12:RP88794. doi: 10.7554/eLife.88794.
4
Optimizing Transcribed CRISPR-Cas9 Single-Guide RNA Libraries for Improved Uniformity and Affordability.优化转录的CRISPR-Cas9单导向RNA文库以提高均匀性和可承受性。
bioRxiv. 2025 Mar 24:2025.03.24.644170. doi: 10.1101/2025.03.24.644170.
5
Advancing microbiota therapeutics: the role of synthetic biology in engineering microbial communities for precision medicine.推进微生物群疗法：合成生物学在构建用于精准医学的微生物群落中的作用。
Front Bioeng Biotechnol. 2024 Dec 4;12:1511149. doi: 10.3389/fbioe.2024.1511149. eCollection 2024.
6
Transforming vaccinology.疫苗学的变革。
Cell. 2024 Sep 19;187(19):5171-5194. doi: 10.1016/j.cell.2024.07.021.
7
In Vivo DNA Assembly Using the PEDA Method.利用 PEDA 方法进行体内 DNA 组装。
Methods Mol Biol. 2024;2760:437-445. doi: 10.1007/978-1-0716-3658-9_24.
8
Biosystems Design to Accelerate C-to-CAM Progression.加速从碳源到生物基航空燃料转化进程的生物系统设计
Biodes Res. 2020 Oct 10;2020:3686791. doi: 10.34133/2020/3686791. eCollection 2020.
9
Barcode-free multiplex plasmid sequencing using Bayesian analysis and nanopore sequencing.使用贝叶斯分析和纳米孔测序进行无条形码多重质粒测序。
bioRxiv. 2025 Feb 13:2023.04.12.536413. doi: 10.1101/2023.04.12.536413.
10
Recent Advances in CRISPR-Cas Technologies for Synthetic Biology.CRISPR-Cas 技术在合成生物学中的最新进展。
J Microbiol. 2023 Jan;61(1):13-36. doi: 10.1007/s12275-022-00005-5. Epub 2023 Feb 1.
本文引用的文献
1
R2oDNA designer: computational design of biologically neutral synthetic DNA sequences.R2oDNA设计器：生物中性合成DNA序列的计算设计
ACS Synth Biol. 2014 Aug 15;3(8):525-8. doi: 10.1021/sb4001323. Epub 2014 Feb 11.
2
Rapid and reliable DNA assembly via ligase cycling reaction.通过连接酶循环反应实现快速可靠的DNA组装。
ACS Synth Biol. 2014 Feb 21;3(2):97-106. doi: 10.1021/sb4001992. Epub 2014 Jan 15.
3
Large-scale de novo DNA synthesis: technologies and applications.大规模从头 DNA 合成：技术与应用。
Nat Methods. 2014 May;11(5):499-507. doi: 10.1038/nmeth.2918.
4
Total synthesis of a functional designer eukaryotic chromosome.功能设计真核染色体的全合成。
Science. 2014 Apr 4;344(6179):55-8. doi: 10.1126/science.1249252. Epub 2014 Mar 27.
5
Activation and characterization of a cryptic polycyclic tetramate macrolactam biosynthetic gene cluster.激活并表征一个隐匿的多环四肽大环内酯生物合成基因簇。
Nat Commun. 2013;4:2894. doi: 10.1038/ncomms3894.
6
FairyTALE: a high-throughput TAL effector synthesis platform.童话：一个高通量转录激活样效应因子合成平台。
ACS Synth Biol. 2014 Feb 21;3(2):67-73. doi: 10.1021/sb400109p. Epub 2013 Nov 22.
7
Rapid metabolic pathway assembly and modification using serine integrase site-specific recombination.利用丝氨酸整合酶位点特异性重组快速构建和修饰代谢途径。
Nucleic Acids Res. 2014 Feb;42(4):e23. doi: 10.1093/nar/gkt1101. Epub 2013 Nov 12.
8
High-throughput, cost-effective verification of structural DNA assembly.高通量、经济高效的结构 DNA 组装验证。
Nucleic Acids Res. 2014 Feb;42(4):e22. doi: 10.1093/nar/gkt1088. Epub 2013 Nov 6.
9
One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy.一锅法 DNA 构建用于合成生物学：带接头的模块化重叠定向组装（MODAL）策略。
Nucleic Acids Res. 2014 Jan;42(1):e7. doi: 10.1093/nar/gkt915. Epub 2013 Oct 22.
10
DNA assembly techniques for next-generation combinatorial biosynthesis of natural products.用于下一代组合生物合成天然产物的 DNA 组装技术。
J Ind Microbiol Biotechnol. 2014 Feb;41(2):469-77. doi: 10.1007/s10295-013-1358-3. Epub 2013 Oct 15.
Zotero 插件