Experimental and Computational Determination of Microbial Genotypes and Phenotypes

微生物基因型和表型的实验和计算测定

• 批准号: 1330800
• 负责人: Robert Edwards
• 金额: $ 80万
• 依托单位: San Diego State University Foundation
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2013
• 资助国家: 美国
• 起止时间: 2013-09-15 至 2018-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1330800&HistoricalAwards=false
• 关键词: Experimental; Computational; Determination; Microbial; Genotypes

Bacteria are all around us and affect our environment, producing, for example, 50% of the oxygen we breathe. Despite our advances in biotechnology, we still don't understand all of the functions that bacteria perform. Scientists are good at understanding the genetics of different bacteria, but more data is required to place the genetic data in a broader context. This project uses high-throughput techniques to understand all the different things that bacteria do in order to survive and grow. First, the growth of hundreds of different bacteria will be measured in hundreds of different growth conditions. This provides a database for all scientists to use so that they can compare the metabolic capacity of different types of bacteria. Second, new sequencing technology will be used to understand the bacteria at the genetic level. This includes identifying the genes that are being used by the bacteria during growth under different conditions. Third, new computational tools will be developed to allow scientists to analyze these complex data sets. The tools and data being generated will be available to the broader scientific community so that they can compare genotypes to phenotypes. Even though this work focuses on bacteria because they are easy to grow and manipulate, much of the data that will be generated applies to more complex organisms, including humans.Broader Impacts: San Diego State University (SDSU) is a Hispanic serving institute that has had the largest improvement in graduation rates in the nation. PI Edwards and Co-PI Dinsdale teach dynamic classes to students that introduce them to the newest sequencing technologies and data sets. Over 130 students have taken the DNA sequencing and analysis classes which introduce the students to practical aspects of DNA sequencing and data analysis using the newest technologies available. The students write scientific publications based on the work they do in classes. High school students are trained over the summer, and participate in the BRIDGES program that teaches community college students how to adapt to studying at SDSU. This project supports SDSU's work with K-12 education in San Diego, the Republic of Kiribati, Brazil, and Australia, as well as open days at San Diego State University and its Coastal and Marine Institute Laboratory.

细菌无处不在，影响着我们的环境，例如，产生我们呼吸的氧气的50%。尽管我们在生物技术方面取得了进步，但我们仍然不了解细菌的所有功能。科学家们擅长了解不同细菌的遗传学，但需要更多的数据才能将遗传数据置于更广泛的背景下。该项目使用高通量技术来了解细菌为了生存和生长所做的所有不同的事情。首先，将在数百种不同的生长条件下测量数百种不同细菌的生长。这为所有科学家提供了一个数据库，以便他们可以比较不同类型细菌的代谢能力。其次，新的测序技术将用于在基因水平上了解细菌。这包括识别细菌在不同条件下生长期间所使用的基因。第三，将开发新的计算工具，使科学家能够分析这些复杂的数据集。正在生成的工具和数据将提供给更广泛的科学界，以便他们可以比较基因型和表型。尽管这项工作主要集中在细菌上，因为它们很容易生长和操纵，但将产生的大部分数据适用于更复杂的生物体，包括人类。更广泛的影响：圣地亚哥州立大学（SDSU）是一所西班牙裔服务机构，在全国毕业率方面取得了最大的进步。PI Edwards和Co-PI Dinsdale为学生讲授动态课程，向他们介绍最新的测序技术和数据集。超过130名学生参加了DNA测序和分析课程，向学生介绍了使用最新技术进行DNA测序和数据分析的实践方面。学生们根据他们在课堂上所做的工作撰写科学出版物。高中生在夏天接受培训，并参加桥梁计划，教社区大学生如何适应在SDSU学习。 该项目支持SDSU在圣地亚哥，基里巴斯共和国，巴西和澳大利亚的K-12教育工作，以及圣地亚哥州立大学及其海岸和海洋研究所实验室的开放日。