Collaborative Research: Deciphering complex phenotypes in bacteria aided by continuous genome shuffling and high throughput analytical technologies

生命系统的一个决定性特征是它们适应和进化。这种特性可用于生物技术，以产生具有所需特性和功能的微生物。然而，微生物系统的适应可能导致不稳定和性能损失。生物技术中微生物系统的性能最大化取决于对适应和进化机制的理解。这远不是一项微不足道的任务;它需要新的知识和方法来调查生物体基因（基因型）和特征（表型）之间的“差距”。该NSF奖项支持的研究重点是开发与所需复杂表型相关的细胞特性知识库。 这样的基础可用于研究基因型和观察到的表型之间的关系，以缩小微生物系统的这两种特性之间的差距，并使微生物工程能够应用于生物技术以及生物医学。 研究人员将招募高中和本科生，重点是代表性不足的学生，在生物技术领域进行研究。该项目的中心假设是存在与感兴趣的表型相关的细胞特性。 该假说是基于初步数据形成的，这些数据显示了特定环境中某些细胞特性和微生物适应性之间的相关性。提出的目标是：1）开发和表征重组熟练的E。重组频率增加的大肠杆菌，2）应用无性别菌株鉴定与复杂表型相关的细胞特性，和3）产生对多种环境应激因子具有耐受性的菌株。 这项工作的结果将阐明细胞特性如何与表型（例如对应激源的耐受性），基因型以及将基因型与表型联系起来的潜在分子机制相关。这种知识可以用于以合理的方式修改细胞特性，以增强对工业相关环境应激源的耐受性。该知识库将为生物技术界提供一个重要的资源，以促进合理的应变工程。该奖项反映了NSF的法定使命，并已被认为是值得通过使用基金会的知识价值和更广泛的影响审查标准进行评估的支持。

A defining trait of living systems is that they adapt and evolve. This trait can be used in biotechnology to produce microbes with desired properties and functions. However, adaptation of microbial systems can cause instability and loss of performance. Maximizing the performance of microbial systems in biotechnology rests on understanding the mechanisms of adaptation and evolution. This is far from being a trivial task; it requires new knowledge and methods to investigate the “gap” between an organism's genes (genotype) and characteristics (phenotype). The research supported by this NSF award focuses on the development of a knowledge base of cellular properties associated with desired complex phenotypes. Such a base could be used to study the relationship between genotype and the observed phenotype, to narrow the gap between these two properties of a microbial system, and to enable microbial engineering for applications in biotechnology as well as in biomedicine. The researchers will recruit high school and undergraduate students, with a focus on underrepresented students, to conduct research in the area of biotechnology. The central hypothesis of this project is that there exist cellular properties that are correlated with phenotypes-of-interest. The hypothesis is formed based on preliminary data that show correlations between certain cellular properties and microbial fitness in specific environments. The proposed objectives are: 1) to develop and characterize a recombination-proficient genderless strain of E. coli with increased recombination frequency, 2) to apply the genderless strain to identify cellular properties associated with complex phenotypes, and 3) to generate strains with tolerance to multiple environmental stressors. Results from this work will shed light on how cellular properties identified correlate with phenotypes (e.g. tolerance to stressors), genotype, and on the underlying molecular mechanisms that connect the genotype to the phenotype. This knowledge may be used to modify in a rational manner cellular properties to enhance tolerance to industrially-relevant environmental stressors. The knowledge base will provide an important resource for the biotechnology community to facilitate rational strain engineering.This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.