Research PGR: Co-transcriptome networks to identify conserved and lineage specific plant resistance against a generalist pathogen

研究 PGR：共转录组网络，用于识别保守的和谱系特异性的植物对通用病原体的抗性

• 批准号: 2020754
• 负责人: Daniel Kliebenstein
• 金额: $ 164.07万
• 依托单位: University of California-Davis
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-08-01 至 2025-07-31
• 项目状态: 未结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2020754&HistoricalAwards=false
• 关键词: Research; PGR; Co; transcriptome; networks

To live and reproduce, any organism must prevent disease caused by pathogens like viruses, bacteria and fungi. Understanding the mechanisms controlling this battle between host and pathogens is necessary for understanding ecology and evolution and efforts to improve productivity in agricultural systems. These host-pathogens interactions span a wide range of systems from specialized where one host faces off with one pathogen to more general systems where a pathogen may attack a wide range of hosts. Most mechanistic knowledge is limited to the specialized systems and this project will work to deepen our knowledge of generalist host-pathogen systems. By using a fungal pathogen, Botrytis cinerea, that causes disease on nearly any plant, this project will test the diversity of plant defense mechanisms to a common attacker. Do plants defend themselves with a common defense system, novel individualized mechanisms or a blend of common and novel defense mechanisms? This information will improve our understanding of when evolution generates novel solutions versus slight tweaks to existing solutions to improve disease resistance. This knowledge can be used to understand how and when evolution of defense has occurred, improve crops resistance to disease and also help guide our efforts to engineer new biological systems. Theories of plant-pathogen interactions are molded by extensive research on host-specialist pathogen interactions controlled by lineage-specific large-effect genes. Those theories shape how plants are bred for disease resistance. However, large-effect models do not describe host-generalist pathogen interactions, dominated by numerous small to moderate effect genes distributed across diverse mechanisms. The polygenic nature of host-generalist interactions complicates the translation of any mechanistic insights from one host to another as mechanisms can be lineage specific or conserved. Identifying these conserved mechanisms will improve the ability translate mechanisms across species. This work will identify resistance mechanisms that are lineage specific versus conserved using a collection of the generalist pathogen Botrytis cinerea to measure lesion development across 16 dicot plant species representing eight rosid and asterid lineages. Incorporating a co-transcriptome approach, we will measure the host and pathogens transcriptome responses and identify conserved or lineage-specific regulatory networks. By developing rules to predict conserved and lineage-specific resistance mechanisms, this project will increase the ability to predictively translate scientific discoveries from one species to another. The identified conserved and lineage specific resistance mechanisms in Tomato, Lettuce and Arabidopsis will be validated for their influence on disease resistance via genome editing. This project will also provide an integrative introduction to STEM for first generation and transfer college students that are often overlooked in broader outreach efforts. They will be trained in modern quantitative analysis of gene networks to prepare them for future careers in industry or academics. This award was co-funded by the Plant Genome Research Program and the Plant Biotic Interactions Program in the Division of Integrative Organismal Systems.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.

为了生存和繁殖，任何生物都必须预防病毒，细菌和真菌等病原体引起的疾病。了解控制宿主和病原体之间这种战斗的机制对于理解生态学和进化以及提高农业系统生产率的努力是必要的。这些宿主行为的相互作用跨越了广泛的系统，从专门的系统中，一个宿主面对一种病原体到更通用的系统，病原体可能会攻击广泛的宿主。大多数机械知识仅限于专业系统，该项目将有助于加深我们对通才宿主 - 病原体系统的了解。通过使用几乎任何植物上疾病的真菌病原体辣椒粉，该项目将测试植物防御机制对普通攻击者的多样性。植物是通过共同的防御系统，新颖的个性化机制或共同和新颖的防御机制卫生的？这些信息将提高我们对进化何时产生新颖的解决方案的理解，而不是对现有解决方案的轻微调整，以改善疾病的抵抗力。这些知识可用于了解防御的进化以及何时发生，改善对疾病的抗性作物，也有助于指导我们为设计新的生物系统的努力。植物病原体相互作用的理论是通过对谱系特异性大效应基因控制的宿主特殊病原体相互作用的广泛研究来塑造的。这些理论塑造了如何繁殖植物以抗病。但是，大效应模型并未描述宿主将军病原体的相互作用，该病原体相互作用由分布在各种机制中的许多小到中度效应基因主导。宿主将军相互作用的多基因性质使任何机械洞察力从一个宿主到另一个宿主的翻译变得复杂，因为机制可能是特定的或保守的。 确定这些保守机制将提高能力转化跨物种的机制。这项工作将使用一系列通才病原体辣椒粉的集合来识别特定于谱系的抗性机制，以衡量16种代表八个ROSID和Asterid谱系的DICOT植物物种的病变发育。结合了共转录组方法，我们将测量宿主和病原体的转录组响应，并确定保守或谱系特定的调节网络。通过制定规则以预测保守和谱系特异性的抵抗机制，该项目将提高将科学发现从一种物种转化为另一种物种的能力。番茄，生菜和拟南芥中确定的保守和谱系特异性抗性机制将因其通过基因组编辑对抗病性的影响而得到验证。该项目还将为第一代和转学的大学生提供对STEM的综合介绍，这些学生在更广泛的外展工作中经常被忽视。他们将接受对基因网络的现代定量分析进行培训，以为它们的行业或学术界的未来职业做好准备。该奖项是由植物基因组研究计划和综合有机系统部门的植物生物互动计划共同资助的。该奖项反映了NSF的法定任务，并被认为是值得通过基金会的知识分子和更广泛的影响评论来通过评估来支持的。标准。