Acquisition of Automated Genotyping and Sequencing Equipment

购置自动化基因分型和测序设备

• 批准号: 9601476
• 负责人: Martin Kreitman
• 金额: $ 22.39万
• 依托单位: University of Chicago
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 1996
• 资助国家: 美国
• 起止时间: 1996-09-01 至 1999-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=9601476&HistoricalAwards=false
• 关键词: Acquisition; Automated; Genotyping; Sequencing; Equipment

Unprecedented growth in the use of molecular methods by the ecology, population genetics, and plant molecular genetics groups in Hull Gourt, representing three biology departments, motivates this proposal for support of automated equipment for DNA sequencing and molecular genotyping. This growth has been propelled by three forces, the exciting scientific possibilities made accessible with sequence data - many of which are being charted for the first time by the proposed users, technological innovations in automated sequencing, and the strategic growth of the three biology groups at the University of Chicago. To further enhance research excellence and leadership, and to provide research training opportunities we have developed a plan for a "hands-on" multi-user facility that will contain equipment needed to carry out all steps in DNA sequencing and genotyping. The facility will include two new DNA sequencers and a workstation for automated sample processing, in addition to an existing ABI 373A sequencer. The facility will also have high capacity temperature cycling machines for carrying out sequencing reactions, centrifuges, and other equipment needed for this work. To accommodate the requirements for data editing, statistical analysis and database comparisons generated by the research, the facility will house four Macintosh PowerPC and two Silicon Graphics workstations. The computing speed afforded by these workstations will assure the group's leadership in the rapidly growing field of simulating molecular population genetics and evolutionary processes. It will also promote the synergistic interaction of complementing strengths - computation (population geneticists) and informatics (molecular geneticists). The facility will be managed by Dr. L-W Zen, under the supervision of Dr. M. Kreitman and a three person Instrument Policy Committee. These modern instruments will have broad impact on the University community. The 13 primary faculty users belong to si x graduate training programs, and currently have 22 postdoctoral research associates, 39 graduate students, and 26 undergraduates working in their labs, including 34 women and eight members of minority groups. The nine secondary users have 14 postdoctoral research associates, 28 graduate students and 13 undergraduates. All qualified users will have access to the sequencing facility 24 hours a day. More than one hundred undergraduates, over half of whom are women, will use the instrumentation annually through required courses, independent research, and other training opportunities. The University is an NSF REU site, and also supports summer undergraduate research with grants from Howard Hughes Medical Institute, the Pew Foundation, and the Biological Sciences Division. The Biological Sciences Division also participates in the Summer Research Opportunities Program (SROP) and the DBS Minority Summer Fellowship Program, both of which provide research opportunities for minorities. The use of naturally occurring DNA sequence variation in the analysis of biological processes is a common theme that unites the three areas of research represented by the primary users - molecular population genetics, molecular ecology, and plant molecular genetics. The ability to automate data acquisition is leading to dramatic scientific advances in all three areas of research, and at the same time is promoting interdisciplinary interaction on an unprecedented scale. Interdisciplinary research and graduate training have been hallmarks of the University of Chicago's educational philosophy. The recent growth of interdisciplinary evolutionary genetics and ecology groups in the Department of Ecology and Evolution, the creation of a developmental evolutionary genetics group in the Department of Organismal Biology and Anatomy, and the joint expansion of plant genetics by the departments of E&E and Molecular Genetics and Cell Biology (MGCB), all build on this philosophical foundation, and pro vide strategic opportunities for innovative new research. The successful recruitment of two senior faculty in molecular evolutionary genetics by the E&E department several years ago, M Kreitman and C-I Wu, have catalyzed the conversion of research by other groups to incorportate molecular approaches. At the same time, E&E has embarked on a strategic plan to develop research excellence in ecology by recruiting six faculty members, S PruettJones, M Leibold, E Simms, C Pfister, T Wootton and J Bergelson. Several are using molecular methods in their research, and J Bergelson's work is being acknowledged as defining a new field of molecular ecology. At the same time, MGCB has recruited into Hull Court two excellent plant molecular geneticists, B Keith and D Preuss, and is currently searching for a senior plant developmental geneticist, who will also be housed in Hull Court. Crucial to the fulfillment of research potential of these expanding groups is the development of a Genotyping and DNA Sequencing Facility, a point of convergence for all these research groups.

在船体古尔特，代表三个生物系的生态学，群体遗传学和植物分子遗传学小组使用分子方法的前所未有的增长，激发了这一建议，支持自动化设备的DNA测序和分子基因分型。这种增长是由三股力量推动的，一是序列数据带来的令人兴奋的科学可能性--其中许多是首次由拟议的用户绘制的，二是自动测序的技术创新，三是芝加哥大学三个生物学小组的战略增长。为了进一步提高研究的卓越性和领导力，并提供研究培训机会，我们制定了一个“动手”多用户设施的计划，该设施将包含进行DNA测序和基因分型所有步骤所需的设备。该设施将包括两个新的DNA测序仪和一个自动化样品处理工作站，除了现有的ABI 373 A测序仪。该设施还将拥有高容量的温度循环机器，用于进行测序反应，离心机和这项工作所需的其他设备。为了满足研究产生的数据编辑、统计分析和数据库比较的要求，该设施将容纳四台Macintosh PowerPC和两台Silicon Graphics工作站。这些工作站提供的计算速度将确保该小组在快速增长的分子群体遗传学和进化过程模拟领域的领导地位。它还将促进互补优势-计算（群体遗传学家）和信息学（分子遗传学家）-的协同作用。该机构将由L-W Zen博士管理，并在M. Kreitman和一个三人仪器政策委员会。 这些现代工具将对大学社区产生广泛影响。这13名初级教师用户属于六个研究生培训项目，目前有22名博士后研究助理，39名研究生和26名本科生在他们的实验室工作，其中包括34名女性和8名少数民族成员。9个二级用户中有14名博士后研究员，28名研究生和13名本科生。所有合格的用户都可以全天24小时使用测序设施。超过100名本科生，其中一半以上是女性，将通过必修课程，独立研究和其他培训机会每年使用仪器。该大学是一个NSF REU网站，并支持夏季本科生的研究与赠款金从霍华德休斯医学研究所，皮尤基金会和生物科学部。生物科学部还参加了夏季研究机会计划（SROP）和DBS少数民族夏季奖学金计划，这两个计划都为少数民族提供研究机会。 在生物过程分析中使用自然发生的DNA序列变异是一个共同的主题，它将主要用户代表的三个研究领域-分子群体遗传学，分子生态学和植物分子遗传学结合起来。自动化数据采集的能力正在所有三个研究领域带来巨大的科学进步，同时也在以前所未有的规模促进跨学科的互动。 跨学科研究和研究生培养一直是芝加哥大学教育理念的标志。最近在生态学和进化系跨学科进化遗传学和生态学小组的发展，在有机体生物学和解剖学系建立了一个发育进化遗传学小组，以及E& E和分子遗传学和细胞生物学（MGCB）系对植物遗传学的联合扩展，都建立在这个哲学基础上，并为创新研究提供战略机遇。 几年前，E E系成功地招聘了两名分子进化遗传学高级教师，M Kreitman和C-I Wu，催化了其他小组将研究转化为分子方法。与此同时，E E已经开始了一项战略计划，通过招募六名教师，S PruettJones，M Leibold，E Simms，C Pfister，T Wootton和J Bergelson来发展生态学研究。一些人在他们的研究中使用分子方法，J Bergelson的工作被公认为定义了分子生态学的新领域。与此同时，MGCB已招募到船体法院两名优秀的植物分子遗传学家，B基思和D普鲁斯，目前正在寻找一名高级植物发育遗传学家，谁也将被安置在船体法院。对这些不断扩大的研究小组的研究潜力的实现至关重要的是基因分型和DNA测序设施的发展，所有这些研究小组的汇合点。