Gene Discovery in the Cereals

谷物中的基因发现

• 批准号: 1032105
• 负责人: William McCombie
• 金额: $ 350万
• 依托单位: Cold Spring Harbor Laboratory
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-08-01 至 2015-07-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1032105&HistoricalAwards=false
• 关键词: Gene; Discovery; Cereals

PI: W. Richard McCombie (Cold Spring Harbor Laboratory) Co PI: Doreen Ware (Cold Spring Harbor Laboratory)Key Collaborator: Robert A. Martienssen (Cold Spring Harbor Laboratory)Genomic sequence data holds the promise of dramatically advancing both the understanding of basic plant science, and of catalyzing practical advances in plant breeding. While the "complete", contiguous, "base perfect" sequence of a genome is the most useful outcome of a genome project, it is not necessary for most applications. Furthermore, base perfect sequence is prohibitive in terms of both time and cost for very large genomes or large numbers of moderately sized genomes. However, recent technological advances and soon-to-be broadly available technologies provide an attractive option for plant genomics. This project seeks to use next generation sequence technologies to identify the vast majority of genes in three closely related progenitor genomes of wheat (AA, AABB, and DD genome containing species) and hexaploid wheat (Chinese spring). Each genome will be sequenced to about 50x coverage with Illumina sequencers (paired end 100 base reads) and to about 8x-10x coverage using the Pacific Bio-Sciences sequencing technology. In addition, the project will sequence each genome with long range "strobe" reads on the Pacific Biosciences instrument that will amount to about 2 terabases of raw sequence. The sequences will be assembled and annotated for maximum use by the broader scientific community. All raw data, assemblies, and annotations will be released to the public as soon as they are generated and quality checked and prior to any publication that might be pursued. The broader impact of this project is to solve the data availability problem by providing about 2 terabases of raw genome sequence data to the broader cereal research community as well as the assemblies and annotation of the vast majority of genes in a large number of cereal genomes. It is expected that access to these data will radically accelerate functional genomics in wheat. All data generated in this project can be accessed through the project website, GenBank, and through the iPlant Collaborative (http://www.iplantcollaborative.org/). In addition, project updates will be coordinated with the International Wheat Genome Sequencing Consortium (IWGSC) and made available at (http://www.wheatgenome.org/Projects) and at GrainGenes (http://wheat.pw.usda.gov/GG2/index.shtml).

PI：W.Richard McCombie(冷泉港实验室)公司PI：Doreen Ware(冷泉港实验室)主要合作者：罗伯特·A·马丁森(冷泉港实验室)基因组序列数据有望极大地促进对植物基础科学的理解，并推动植物育种的实际进展。虽然基因组的“完整”、连续、“碱基完美”的序列是基因组计划最有用的结果，但对于大多数应用来说，这并不是必需的。此外，对于非常大的基因组或大量中等大小的基因组来说，碱基完美序列在时间和成本方面都是令人望而却步的。然而，最近的技术进步和即将广泛应用的技术为植物基因组学提供了一个有吸引力的选择。该项目旨在利用下一代测序技术来鉴定小麦(AA、AABB和DD基因组所含物种)和六倍体小麦(中国春)三个紧密相关的祖先基因组中的绝大多数基因。每个基因组将使用Illumina测序仪进行测序，覆盖范围约为50倍(配对的末端100个碱基读取)，并使用太平洋生物科学测序技术进行约8-10倍的覆盖。此外，该项目还将在太平洋生物科学仪器上用长距离“选通”读数对每个基因组进行测序，其原始序列将达到大约2万亿个数据库。这些序列将被汇编和注释，以最大限度地被更广泛的科学界使用。所有原始数据、汇编和注释将在生成和质量检查后立即向公众发布，并在可能进行的任何发布之前发布。该项目更广泛的影响是通过向更广泛的谷物研究社区提供大约2TB的原始基因组序列数据以及大量谷物基因组中绝大多数基因的组装和注释来解决数据可用性问题。预计获得这些数据将从根本上加速小麦功能基因组学的研究。该项目中产生的所有数据都可以通过项目网站、GenBank和iPLANT Collaborative(http://www.iplantcollaborative.org/).)访问此外，项目更新将与国际小麦基因组测序联合会协调，并在(http://www.wheatgenome.org/Projects))和GrainGenes(http://wheat.pw.usda.gov/GG2/index.shtml).)上提供