Molecular characterisation of plant disease resistance genes through novel Next-Generation Sequencing applications

通过新型下一代测序应用对植物抗病基因进行分子表征

• 批准号: 2468574
• 金额: --
• 依托单位: University of Dundee
• 依托单位国家: 英国
• 项目类别: Studentship
• 财政年份: 2020
• 资助国家: 英国
• 起止时间: 2020 至 无数据
• 项目状态: 未结题
• 来源: https://gtr.ukri.org/projects?ref=studentship-2468574
• 关键词: Molecular; characterisation; plant; disease; resistance

This PhD project will provide comprehensive training for the successful candidate in potato genetics (diploid and tetraploid) as well as plant-pathogen genomics/co-evolution. The student will generate and analyse state-of-the-art Next Generation Sequencing (NGS) data for the genetic mapping and the cloning of resistances effective against the late blight pathogen Phytophthora infestans in established segregating populations. In addition, the student will characterise the mode-of-action of already isolated functional resistance genes and their variants through cell-biological assays including report genes, pull-downs, confocal imaging, and effector recognition. The student will have the opportunity to develop NGS techniques with a focus on high-molecular DNA sequencing through Oxford Nanopore MinION.The student will be a full member of the Dundee Effector Consortium (DEC), which unites more than 50 researchers on all aspects (including computational genetics/genomics) of plant-pathogen co-evolution. DEC will provide a forum to gain experience in communicating results in a friendly environment and receiving critical but constructive feedback on progress and direction of the PhD. General Background: The data analyses will be focused on studying the interaction between Phytophthora infestans and potato. The oomycete pathogen P. infestans is a widespread and economically significant threat to global crop production. Phytophthora species are very destructive and can adapt rapidly to new selection pressures imposed by modern agriculture. On a molecular level pathogen avirulence or virulence to naturally occurring or deployed host disease resistances is determined by effectors. The effector recognition-based inducible plant defense response is often governed by nucleotide-binding, leucine-rich repeat (NLR) disease resistance proteins. We have successfully developed target enrichment sequencing for potato NLRs as well as pathogen effectors from P. infestans that determine recognition in the plants and therefore resistance. We have coined these novel methods RenSeq [1-2] and PenSeq.

该博士项目将为成功的候选人提供马铃薯遗传学（二倍体和四倍体）以及植物-病原体基因组学/协同进化方面的全面培训。该学生将生成和分析最先进的下一代测序（NGS）数据，用于在已建立的分离群体中对晚疫病病原体疫霉（Phytophthora infestans）有效的遗传制图和抗性克隆。此外，学生将通过细胞生物学分析，包括报告基因、拉下、共聚焦成像和效应器识别，描述已经分离的功能性抗性基因及其变体的作用模式。学生将有机会开发NGS技术，重点是通过Oxford Nanopore MinION进行高分子DNA测序。该学生将成为邓迪效应者联盟（DEC）的正式成员，该联盟联合了50多名研究人员，研究植物-病原体共同进化的各个方面（包括计算遗传学/基因组学）。DEC将提供一个论坛，以获得在友好环境中交流结果的经验，并接受有关博士学位进展和方向的关键但建设性的反馈。背景：数据分析将重点研究马铃薯与疫霉的相互作用。卵菌病原菌P. infestans是对全球作物生产的广泛和重大的经济威胁。疫霉具有很强的破坏性，能够迅速适应现代农业带来的新的选择压力。在分子水平上，病原体对自然发生或部署的宿主疾病抗性的毒性或毒性是由效应物决定的。基于效应识别的诱导植物防御反应通常由核苷酸结合的富亮氨酸重复（NLR）抗病蛋白控制。我们已经成功开发了马铃薯NLRs的目标富集测序，以及来自病原菌的病原菌效应物，用于确定植物的识别从而确定抗性。我们创造了这些新方法RenSeq[1-2]和PenSeq。