Acquisition of Covaris E220 and Sciclone G3 systems for high throughput sequencin

收购 Covaris E220 和 Sciclone G3 系统以实现高通量测序

• 批准号: 8247630
• 负责人: LUCA COMAI
• 金额: $ 31.13万
• 依托单位: UNIVERSITY OF CALIFORNIA AT DAVIS
• 依托单位国家: 美国
• 财政年份: 2012
• 资助国家: 美国
• 起止时间: 2012-09-15 至 2013-09-14
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8247630
• 关键词: Address; Area; Biology; Capital; DNA; DNA Fragmentation; Devices; Equipment; Faculty; Genome; Health; Human; Human Resources; Investments; Libraries; Liquid substance; Performance; Preparation; Process; Production; Productivity; Research; Research Personnel; Resources; System; Technology; Uncertainty; cost; cost effective; instrument; next generation; tool

DESCRIPTION (provided by applicant): Acquisition of Covaris E220 and Sciclone G3 systems for high throughput sequencing library construction The advent of massively parallel sequencing technologies (next-generation sequencing) is with- out doubt the most significant advance in biology since the invention of PCR. The availability of ever-increasing sequencing capabilities at rapidly decreasing cost is changing the paradigm of scientific research. Many exciting scientific questions, particularly in the field of human health, can now be addressed through these emerging sequencing technologies. One such problem is the need for facile, routine preparation of multiple high-quality sequencing libraries that fit the criteria of the connected experimental scenarios and scientific questions. These libraries must be cost- effective, as well as free of contamination and processing errors. The interaction between UC Davis Genome Center and faculty from various biomedical departments has created a center of excellence focused in exploiting the power of next generation sequencers like Illumina, Pacific Biosciences, and Roche 454. Through a substantial investment of capital and human resources, the center has served as a technology hub for providing cutting edge tools and enabling excellence in research. There is one area, however, where the center lacks in equipment and therefore capabilities: high throughput library construction. However, currently the lack of a state-of-the-at high- throughput efficient sequencing library construction platform at the center is hindering the progress of researchers. To resolve this shortcoming, we propose the acquisition of the Covaris E220 high performance sonicator, a state-of-the art DNA fragmentation device that enables efficient and customizable production of size-selected DNA fragments. In addition, we propose the acquisition of the Sciclone G3 Liquid Handling Workstation by Caliper that enables the production of all types of next generation sequencing libraries. Together these two state-of-the-art instruments will facilitate the efficient utilization of existing sequencing resources at the center and greatly augment the productivity of the researchers of this proposal.

描述（由申请人提供）：获得Covaris E220和Sciclone G3系统用于高通量测序文库构建大规模平行测序技术（下一代测序）的出现无疑是自PCR发明以来生物学上最重要的进步。以迅速降低的成本获得不断增加的测序能力正在改变科学研究的范式。许多令人兴奋的科学问题，特别是在人类健康领域，现在可以通过这些新兴的测序技术来解决。其中一个问题是需要简便、常规地准备多个高质量的测序文库，这些文库符合相关实验场景和科学问题的标准。这些库必须具有成本效益，并且没有污染和处理错误。加州大学戴维斯分校基因组中心与来自各个生物医学部门的教师之间的互动创造了一个卓越的中心，专注于开发下一代测序仪的力量，如Illumina，太平洋生物科学和罗氏454。通过对资本和人力资源的大量投入，该中心已成为提供尖端工具和实现卓越研究的技术中心。然而，有一个领域，该中心缺乏设备，因此缺乏能力：高吞吐量的图书馆建设。然而，目前中心缺乏先进的高通量高效测序文库建设平台，阻碍了研究人员的进展。为了解决这一缺点，我们建议收购Covaris E220高性能超声波仪，这是一种最先进的DNA片段分割设备，可以高效和可定制地生产尺寸选择的DNA片段。此外，我们建议收购Caliper公司的Sciclone G3液体处理工作站，使其能够生产所有类型的下一代测序库。这两种最先进的仪器将促进中心现有测序资源的有效利用，并大大提高本提案研究人员的生产力。

项目成果

Quantitative characterization of all single amino acid variants of a viral capsid-based drug delivery vehicle.

• DOI: 10.1038/s41467-018-03783-y
• 发表时间: 2018-04-11
• 期刊: Nature communications
• 影响因子: 16.6
• 作者: Hartman EC;Jakobson CM;Favor AH;Lobba MJ;Álvarez-Benedicto E;Francis MB;Tullman-Ercek D
• 通讯作者: Tullman-Ercek D

Transcriptomic response of the Antarctic pteropod Limacina helicina antarctica to ocean acidification.

• DOI: 10.1186/s12864-017-4161-0
• 发表时间: 2017-10-23
• 期刊: BMC genomics
• 影响因子: 4.4
• 作者: Johnson KM;Hofmann GE
• 通讯作者: Hofmann GE

Transcriptional profiling of embryos lacking the lipoprotein receptor SR-B1 reveals a regulatory circuit governing a neurodevelopmental or metabolic decision during neural tube closure.

• DOI: 10.1186/s12864-018-5110-2
• 发表时间: 2018-10-05
• 期刊: BMC genomics
• 影响因子: 4.4
• 作者: Santander N;Lizama C;Murgas L;Contreras S;Martin AJM;Molina P;Quiroz A;Rivera K;Salas-Pérez F;Godoy A;Rigotti A;Busso D
• 通讯作者: Busso D

Reference genome of the Virginia rail, Rallus limicola.

• DOI: 10.1093/jhered/esad026
• 发表时间: 2023-06-22
• 期刊: The Journal of heredity

A highly contiguous genome assembly for the California quail (Callipepla californica).

• DOI: 10.1093/jhered/esad008
• 发表时间: 2023-06-22
• 期刊: The Journal of heredity
• 作者: Benham PM;Cicero C;Escalona M;Beraut E;Marimuthu MPA;Nguyen O;Nachman MW;Bowie RCK
• 通讯作者: Bowie RCK