CAREER: Programming digital bits with DNA for barcoded nanoscale imaging applications

职业：使用 DNA 对数字位进行编程，用于条形码纳米级成像应用

• 批准号: 1453847
• 负责人: Shawn Douglas
• 金额: $ 40万
• 依托单位: University of California-San Francisco
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-02-01 至 2018-01-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1453847&HistoricalAwards=false
• 关键词: CAREER; Programming; digital; bits; DNA

Nontechnical explanation:Biomolecules are the tiny molecular building blocks out of which all living organisms are made. Understanding the structure and function of biomolecules is critical for advancement of our understanding of how life works, as well as emerging engineering disciplines that seek to repurpose biomolecules for technology development. Electron cryo-microscopy (cryo-EM) enables researchers to visualize the structure of biomolecules. One technical limitation of the technique is that biomolecules must be imaged one at a time because they are too small to tell apart when mixed together. It would be a significant advance if it were possible to attach "barcodes" to biomolecules so they could be imaged simultaneously and uniquely identified during data analysis. The goal of this project is to create and optimize such barcodes using DNA as a nano-scale programmable building material. If successful, the proposed approach should greatly increase the speed and impact of the cryo-EM technique.Technical description:Toward overcoming the throughput limitation of electron cryo-microscopy (cryo-EM), PI proposes to create DNA-based nanostructures that make use of modular, well-defined asymmetric features ("bits") that can be toggled between different states that enable sample multiplexing. The structural difference of toggling even a single bit is dramatic enough that different barcodes can be easily distinguished by EM, and sorted into distinct classes by standard image processing algorithms. PI proposes to validate this methodology by first performing structural studies of nanostructures bound to a protein that has already been imaged and described, and then extend this research to image and describe macromolecules that have not yet been visualized by other methods.

非技术性解释：生物分子是构成所有生物体的微小分子构件。了解生物分子的结构和功能对于我们理解生命如何运作以及寻求重新利用生物分子进行技术开发的新兴工程学科至关重要。电子冷冻显微镜（cryo-EM）使研究人员能够可视化生物分子的结构。该技术的一个技术限制是，生物分子必须一次成像一个，因为它们太小，混合在一起时无法区分。如果有可能将“条形码”附加到生物分子上，那么它们可以在数据分析期间同时成像并唯一识别，这将是一个重大的进步。该项目的目标是使用DNA作为纳米级可编程建筑材料来创建和优化此类条形码。如果成功的话，所提出的方法将大大提高冷冻-EM technique.Technical Description的速度和影响：为了克服电子冷冻显微镜（cryo-EM）的吞吐量限制，PI提出创建基于DNA的纳米结构，该纳米结构利用模块化的，定义明确的非对称特征（“位”），可以在不同的状态之间切换，使样品复用。即使是切换单个位的结构差异也足够引人注目，以至于不同的条形码可以通过EM轻松区分，并通过标准图像处理算法分类为不同的类别。PI建议通过首先对已经成像和描述的蛋白质结合的纳米结构进行结构研究来验证这种方法，然后将这项研究扩展到成像和描述尚未通过其他方法可视化的大分子。