Collaborative Research: PHANTOME: Phage ANnotation TOols and MEthods

合作研究：PHANTOME：噬菌体注释工具和方法

• 批准号: 0850105
• 负责人: Matthew Sullivan
• 金额: $ 27.94万
• 依托单位: University of Arizona
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2009
• 资助国家: 美国
• 起止时间: 2009-04-15 至 2013-03-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0850105&HistoricalAwards=false
• 关键词: Collaborative; Research; PHANTOME; Phage; ANnotation

Proposal Title: Collaborative Research: PHANTOME: PHage ANnotation TOolsand MEthodsInstitution: San Diego State University FoundationAbstract Date: 03/09/09Viruses are the most abundant biological entities on the planet. Since the mostabundant living organisms on Earth are bacteria, the majority of these viruses arephages, the viruses which infect bacteria. Through their diverse lifestyles and geneproducts, phages play important roles in horizontal gene exchange, in structuringnatural microbial communities, and in global biogeochemical cycles. Phages carrygenes for some of the deadliest toxins known and can also carry genes which conferadaptive advantages to the hosts they infect. Furthermore, phage genes and theproteins they encode are the outcome of evolution over eons, the products of which wewould be able to exploit if only we could decode the information in the phage DNAsequences. The number of available phage genome sequences is increasing rapidly; onthe other hand, they represent the largest global reservoir of uncharacterized geneticmaterial. Bioinformatic tools necessary for interpreting this data has lagged behind thegrowth in genome sequences. Grants to develop a platform and toolbox ofcomputational tools for phage genome analysis have been awarded to supportcollaborative research in the laboratories of Drs. Robert Edwards, Department ofComputer Sciences, San Diego State University, Mya Breitbart, College of MarineSciences, University of South Florida, Jeffrey Elhai, Biology Department, VirginiaCommonwealth University and Matthew Sullivan, Department of Ecology andEvolutionary Biology, University of Arizona. Dr. Elhai is an Associate Professor, theother three investigators are Assistant Professors. This collaborative project is creatingnew computational tools to establish a consistent nomenclature for phage genomes, toannotate phage sequences, both from completely sequenced phage genomes and fromenvironmental phage metagenome sequences. Most importantly, this project willengage a wide spectrum of researchers, regardless of their computational background,to access the wealth of information contained in phage genomes through familiargraphical interfaces. These collaborators have developed an extensive and far-reachingeducation plan that targets high school students, undergraduate students and graduatestudents. The students trained in the use of the tools will rotate into trainer roles via userforums and workshops. The postdocs will be working across all the labs and therebygain an unparalleled panoramic view of phage biology.NATIONAL SCIENCE FOUNDATIONProposal AbstractProposal:0850356 PI Name:Edwards, RobertPrinted from eJacket: 03/10/09 Page 1 of 1

提案标题：协作研究：幻象：噬菌体注释工具和方法固定：圣地亚哥州立大学基金会摘要日期：03/09/09VIRASE是地球上最丰富的生物学实体。由于地球上最丰富的生物是细菌，因此这些病毒中的大多数是感染细菌的病毒。通过它们的多种生活方式和遗传学，噬菌体在水平基因交换，结构性的微生物群落和全球生物地球化学周期中起着重要作用。噬菌体携带基因的一些已知的最致命的毒素，还可以携带与他们感染的宿主相关的基因。此外，它们编码的噬菌体基因和蛋白质是EON进化的结果，如果我们只能在噬菌体dnasequences中解码信息，那么我们将能够利用的产物。可用的噬菌体基因组序列的数量正在迅速增加。另一方面，它们代表了未表征遗传材料的最大全球储层。解释此数据所需的生物信息学工具落后于基因组序列的生长。授予了为噬菌体基因组分析的平台和工具箱的计算工具提供的赠款，以支持DRS实验室的研究。罗伯特·爱德华兹（Robert Edwards），圣地亚哥州立大学的委员会科学系，迈亚·布雷特巴特（Mya Breitbart），南佛罗里达大学海洋学学院，杰弗里·埃尔海（Jeffrey Elhai），生物学系，维尼亚奥莫诺卫生大学和马修·沙利文（Matthew Sullivan），亚利桑那大学生态学生物学和进化生物学系。 Elhai博士是一名副教授，Theother三名调查人员是助理教授。这个协作项目是创建新的计算工具，以建立噬菌体基因组的一致命名法，从完全测序的噬菌体基因组和源自环境噬菌体元素元素序列。最重要的是，该项目将通过熟悉的界面界面访问噬菌体基因组中包含的大量信息，无论其计算背景如何，都将为广泛的研究人员访问。这些合作者制定了一项广泛而深远的教学计划，针对高中生，本科生和毕业生。接受过工具的培训的学生将通过用户和研讨会旋转为培训师角色。 PostDocs将在所有实验室中工作，从而引发无与伦比的噬菌体生物学观点。国家科学基金会Propoposposal摘要摘要：0850356 PI名称：Edwards，Robertprint，从Ejacket发出：03/10/10/09 Page 1 1 of 1 of 1 of 1 of 1 of 1 of 1