Evolutionary analysis of protein diversification: model improvement, assessment and application to real data

蛋白质多样化的进化分析：模型改进、评估和实际数据应用

• 批准号: 298394-2009
• 负责人: Bielawski, Joseph
• 金额: $ 2.11万
• 依托单位: Dalhousie University
• 依托单位国家: 加拿大
• 项目类别: Discovery Grants Program - Individual
• 财政年份: 2011
• 资助国家: 加拿大
• 起止时间: 2011-01-01 至 2012-12-31
• 项目状态: 已结题
• 来源: https://www.nserc-crsng.gc.ca/ase-oro/Details-Detailles_eng.asp?id=480725
• 关键词: Evolutionary; analysis; protein; diversification; model

Proteins have an essential role to play in virtually all biological processes, participating in an extraordinarily diverse set of chemical reactions and physical tasks. Consequently, there is interest within a wide variety of research disciplines to understand the origin and evolution of the functional properties of proteins. Two problems are ever-present in the analysis of proteins: (i) estimating the evolutionary history of the gene sequences, and (ii) learning about the processes that have shaped the protein's function over time. Models of protein evolution, applied within a formal statistical framework, have proved to be a powerful means of addressing these problems. Under this research program, several different approaches will be employed to improve the realism of protein models. Our primary focus will be modeling the structure of the amino acid rate matrix and its variability among sites within a gene. We will assess the impact of putative improvements with respect to model-based inferences such as phylogenetics and the identification of positively selected sites.

蛋白质在几乎所有的生物过程中都扮演着重要的角色，参与各种各样的化学反应和物理任务。因此，有兴趣在各种各样的研究学科，以了解蛋白质的功能特性的起源和进化。 在蛋白质分析中始终存在两个问题：（i）估计基因序列的进化历史，以及（ii）了解随着时间的推移塑造蛋白质功能的过程。 蛋白质进化模型，在一个正式的统计框架内应用，已被证明是解决这些问题的一个强大的手段。在这项研究计划下，将采用几种不同的方法来提高蛋白质模型的真实性。 我们的主要重点将是建模的氨基酸速率矩阵的结构和它的变异性之间的网站在一个基因。我们将评估假定的改进对基于模型的推断的影响，如遗传学和积极选择的网站的识别。