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。RichardMcCombie（冷泉港实验室）CO PI：Doreen Ware（冷泉港实验室）主要合作者：Robert A. Martienssen（Cold Spring Harbour Laboratory）基因组序列数据有望大大促进人们对基本植物科学的理解，以及催化植物繁殖的实践进步。 尽管基因组的“完整”，连续的“基本完美”序列是基因组项目中最有用的结果，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尺寸的基因组，基本完美序列在时间和成本方面都令人过高。但是，最近的技术进步和即将成为广泛可用的技术为植物基因组学提供了有吸引力的选择。 该项目试图使用下一代序列技术来鉴定三个密切相关的小麦祖细胞基因组（AA，AABB和含有含有物种的DD基因组）和六比小麦（中国春季）中的绝大多数基因。 使用Pacific Bio-Sciences测序技术，每个基因组将通过Illumina测序仪（配对端100个碱基读数）进行大约50倍的覆盖范围（配对端100个碱基读数）和约8 x-10x的覆盖范围。 此外，该项目将在Pacific Biosciences仪器上读取每个基因组的远程“频闪”，该仪器将相当于原始序列的大约2个terabase。 这些序列将由更广泛的科学界进行组装和注释，以最大程度地使用。 所有原始数据，组件和注释都将在生成并检查质量并在任何可能被追求的出版物之前就向公众发布。该项目的更广泛的影响是通过向更广泛的谷物研究界以及大量谷物基因组中绝大多数基因的组装和注释提供大约2个原始基因组序列数据来解决数据可用性问题。 预计访问这些数据将从根本上加速小麦的功能基因组学。该项目中生成的所有数据均可通过项目网站，GenBank和Iplant Cromportative（http://www.iplantcollaborative.org/）访问。 此外，项目更新将与国际小麦基因组测序联盟（IWGSC）协调，并在（http://www.wheatgenome.org/projects）和Graingenes（http://wheat.pw.pw.usda.gov/gg2/gg2/gg2/index/index.shtml）上提供。