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Supplement: Development of a technology to certify engineered DNA molecules

补充：开发验证工程 DNA 分子的技术

基本信息

批准号：
10732196
负责人：
Jean M Peccoud
金额：
$ 16.49万
依托单位：
COLORADO STATE UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2022
资助国家：
美国
起止时间：
2022-09-15 至 2025-08-31
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10732196
关键词：
Address Affect Algorithms Antibiotic Resistance Architecture Bacterial Transformation Bar Codes Biological Biological Process Biological Sciences Biological Testing Biology Biomedical Research Biotechnology Cell Therapy Certification Circulation Clinical Research Code Communities Complex Computer Security Computer software Computers DNA DNA Sequence DNA cassette DNA purification Data Database Management Systems Development Documentation Electronics Elements Engineering Ensure Event Failure Fostering Funding Gene Expression Generations Genetic Genetic Engineering Genome engineering Individual Industry Investments Knowledge Label Libraries Link Liquid substance Methodology Methods Modification Molecular Mutate Mutation Names Outcome Performance Persons Pharmaceutical Preparations Plasmids Play Preparation Printing Process Production Property Publications Publishing Reaction Recombinants Recording of previous events Records Replication Origin Reporter Genes Reproducibility Research Resources Robot Role Running Safety Scheme Scientist Secure Security Self Correction Semiconductors Side Signal Transduction Software Engineering Standardization System Technology Technology Assessment Testing Tube United States National Institutes of Health Validation Variant Visualization software Writing bioinformatics pipeline combinatorial computer network cryptography design digital expression vector follow-up gene therapy genetic element improved innovation insertion/deletion mutation manufacture medical specialties new technology online resource research and development response success technology validation therapeutic protein tool vaccine development web site

项目摘要

PROJECT SUMMARY The open availability of authenticated, well-documented research materials is essential for scientific progress. Plasmids have become essential research tools to address almost any question in biology, and together with other forms of engineered DNA molecules, are essential for clinical research applications including gene therapy, vaccine development, and the production of recombinant drugs. Currently, the two common links between a plasmid and its documentation are the plasmid names and the plasmid sequence. Despite the central role that plasmids play in biomedical research and development, there is no guaranteed way to connect a physical plasmid in a tube to its documentation. A pipetting error, a labelling error, a spontaneous mutation, or an undocumented modification of the plasmid are some of the events that could result in a tube containing a different plasmid than what is indicated on the label. In addition, there is no standardized, secure approach to documenting the sequence, function, and lineage of a plasmid. As a result, there are widespread discrepancies between the physical sequences of the plasmids in circulation in the life science community and their supposed reference sequence. This situation creates reproducibility issues, slows down R&D efforts and raises significant security and safety issues for biotechnology applications. We are proposing to develop a new digital certificate technology, enabled by a web-based resource called MyPlasmid.org, that will provide a robust, physical link between engineered DNA molecules, their electronic documentation, and their authors. This technology will produce unique DNA sequences generated by cryptographic algorithms that can be inserted into an engineered DNA molecule. MyPlasmid.org will allow users to document their genetic designs by aggregating the documentation of individual genetic elements as well as combinations of elements. In addition, it will link the computer records of the engineered DNA sequence directly to the molecule itself and provide a method to retrieve documentation without a priori knowledge of the plasmid's identity. Short unique DNA sequences called certificates will be inserted between the functional blocks of engineered sequences. Unlike DNA barcodes, certificates will be computed by cryptographic algorithms using the DNA sequence itself and the author's identity as input so that users of engineered DNA molecules can verify the origin and integrity of certified DNA molecules. The technology described in this proposal is expected to foster a transition similar what has been observed in the semi-conductor industry where different stakeholders invest in the development of circuits that can be easily combined in larger designs that can then be manufactured by foundries not involved in the chip design. By ensuring that the sequence, origin, function, and lineage of engineered DNA molecules is accurately tracked and conveyed to all users, the proposed technology will improve the reproducibility, utility, and potential application of engineered DNA molecules in the life sciences.

项目总结

项目成果

期刊论文数量（1）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Hybrid Sequencing Facilitates Robust De Novo Plasmid Assembly.

混合测序有利于稳健的从头组装质粒。

DOI：
10.1101/2024.03.25.586694
发表时间：
2024
期刊：
bioRxiv : the preprint server for biology
影响因子：
0
作者：
Hernandez,SarahI;Berezin,Casey-Tyler;Miller,KatieM;Peccoud,SamuelJ;Peccoud,Jean
通讯作者：
Peccoud,Jean