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首页> 外文期刊>CBE Life Sciences Education >Using Comparative Genomics for Inquiry-Based Learning to Dissect Virulence of Escherichia coli O157:H7 and Yersinia pestis
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Using Comparative Genomics for Inquiry-Based Learning to Dissect Virulence of Escherichia coli O157:H7 and Yersinia pestis

机译：使用比较基因组学进行基于查询的学习，以解剖大肠杆菌O157：H7和鼠疫耶尔森氏菌的毒力

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Genomics and bioinformatics are topics of increasing interest in undergraduate biological science curricula. Many existing exercises focus on gene annotation and analysis of a single genome. In this paper, we present two educational modules designed to enable students to learn and apply fundamental concepts in comparative genomics using examples related to bacterial pathogenesis. Students first examine alignments of genomes of Escherichia coli O157:H7 strains isolated from three food-poisoning outbreaks using the multiple-genome alignment tool Mauve. Students investigate conservation of virulence factors using the Mauve viewer and by browsing annotations available at the A Systematic Annotation Package for Community Analysis of Genomes database. In the second module, students use an alignment of five Yersinia pestis genomes to analyze single-nucleotide polymorphisms of three genes to classify strains into biovar groups. Students are then given sequences of bacterial DNA amplified from the teeth of corpses from the first and second pandemics of the bubonic plague and asked to classify these new samples. Learning-assessment results reveal student improvement in self-efficacy and content knowledge, as well as students' ability to use BLAST to identify genomic islands and conduct analyses of virulence factors from E. coli O157:H7 or Y. pestis. Each of these educational modules offers educators new ready-to-implement resources for integrating comparative genomic topics into their curricula.
机译：基因组学和生物信息学是本科生生物科学课程越来越引起人们关注的主题。现有的许多练习着重于基因注释和单个基因组的分析。在本文中，我们介绍了两个教育模块，旨在使学生能够使用与细菌发病机理相关的示例来学习和应用比较基因组学中的基本概念。学生首先使用多基因组比对工具Mauve检查从三个食物中毒暴发中分离出的O157：H7大肠杆菌菌株的基因组比对。学生使用Mauve查看器并浏览“用于基因组社区分析的系统注释包”中的注释，研究毒力因子的保守性。在第二个模块中，学生使用五个鼠疫耶尔森菌基因组的比对来分析三个基因的单核苷酸多态性，以将菌株分类为生物变种组。然后向学生提供从鼠疫第一和第二次大流行的尸体牙齿中扩增的细菌DNA序列，并要求对这些新样本进行分类。学习评估结果显示，学生在自我效能和内容知识方面的进步，以及学生使用BLAST识别基因组岛和进行大肠杆菌O157：H7或鼠疫耶尔森氏菌致病因子分析的能力。这些教育模块中的每一个都为教育工作者提供了新的现成资源，用于将比较基因组学主题整合到他们的课程中。

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