RaMP: Collaborative: From genome assembly to genomic novelty to phenotype: an integrated training framework

RaMP：协作：从基因组组装到基因组新颖性再到表型：综合培训框架

• 批准号: 2217100
• 负责人: Elizabeth Jockusch
• 金额: $ 299.99万
• 依托单位: University of Connecticut
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-08-15 至 2026-07-31
• 项目状态: 未结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2217100&HistoricalAwards=false
• 关键词: RaMP; Collaborative; genome; assembly; genomic

Whole genome sequencing across the tree of life has shown that new genes arise frequently in evolution. However, relatively little is known about the function or evolutionary importance of these genes in the derivation of novel phenotypes. This project will recruit postbaccalaureate trainees to engage in a cohort project to describe the genomes of species that are not well studied and to identify potentially new genes in these genomes. In addition, trainees will engage in individual projects in a network of labs to characterize the function of novel genomic elements and their potential links to new traits in diverse taxa. These research projects will promote integrated research opportunities in molecular and computational biology. The program will support the training of a diverse set of 30 postbaccalaureate mentees, enriched for members from groups underrepresented in biology, for future success in STEM. Integral to the program are the broader impacts that include mentor training for PIs and co-mentors; training, mentoring, and networking opportunities; public outreach about genomes; and connections across departments, institutions, and industry. A major challenge in biology is determining how information encoded in the genome generates individual phenotypes and thus how differences in that information lead to unique phenotypic outcomes. Comparative genomic studies identified a highly conserved ‘toolkit’ of developmental genes that predates the diversification of major clades. One way that morphological novelty originates is through regulatory tinkering with these ancient toolkit genes. More recently, comparative studies have identified a profusion of new ‘taxon-restricted genes,’ which may also be important in the origin of phenotypic novelty. The functional characterization of genomic novelty in diverse taxa and diverse subfields of biology will be leveraged as the intellectual focal point for a new postbaccalaureate research training program. Individual research projects will address specific questions about the function of new genes in diverse taxa. Collectively, these projects address broader question about the role of new genes in evolution and development. Sequencing, assembly, and annotation of genomes will be done in collaboration with researchers at regional partner institutions. This project will help build a cross-institutional research network, provide trainees with bioinformatics training, and disseminate training materials for genomics. The training program will deploy individualized mentoring networks, cohort training workshops, professional development and networking opportunities, and interactions with PIs, mentors, peers and near-peers to help trainees identify and meet their professional goals.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.

整个生命树的整个基因组测序表明，新基因经常在进化中。但是，这些基因在新表型的推导中的功能或进化重要性知之甚少。该项目将招募后核后培训者参与一项队列项目，以描述研究二的物种的基因组并鉴定这些基因组中潜在的新基因。此外，受训者将在实验室网络中从事单个项目，以表征新型基因组元素的功能及其与潜水员分类单元中新特征的潜在联系。这些研究项目将促进分子和计算生物学的综合研究机会。该计划将支持培训30个后库后月经的潜水员，这些培训丰富了来自生物学中代表性不足的成员，以在STEM中取得成功。该计划不可或缺的是更广泛的影响，其中包括PIS和Copmentors的导师培训；培训，指导和网络机会；公众关于基因组的宣传；以及部门，机构和行业之间的联系。生物学的主要挑战是确定基因组中编码的信息如何产生单个表型，从而在该信息中的差异如何导致独特的表型结果。比较基因组研究确定了一个高度构成的发育基因的“工具包”，呈现了主要进化枝的多样化。形态新颖性起源的一种方法是通过调节这些古老的工具包进行调节。最近，比较研究确定了大量新的“分类限制基因”，这在表型新颖性的起源中也可能很重要。潜水类群和潜水员生物学子场基因组新颖性的功能特征将被借给新的后核后研究培训计划的智力焦点。单个研究项目将解决有关潜水类群新基因功能的特定问题。总的来说，这些项目解决了有关新基因在进化和发展中的作用的更广泛问题。基因组的测序，组装和注释将与区域合作伙伴机构的研究人员合作进行。该项目将有助于建立跨机构研究网络，为受训者提供生物信息学培训，并为基因组学传播培训材料。该培训计划将部署个性化的指导网络，队列培训研讨会，专业发展和网络机会以及与PIS，导师，同伴和近亲的互动，以帮助受训者确定并实现其专业目标。该奖项反映了NSF的法定任务，并通过使用该基金会的知识绩效和广泛的影响来评估NSF的法定任务，并被认为是宝贵的支持。