TIGR/JTC Large Scale Sequencing Production Center

描述（由申请人提供）：本申请中描述的大规模基因组测序生产中心（中心）的目标是：(1)为高优先级真核生物物种的研究提供大规模DNA测序和生物信息学方面的成熟专业知识，以始终如一地产生最高质量的草图和完成的基因组序列和注释；(2)快速发布基因组序列数据、序列轨迹、组装和相关注释到公共领域；(3)向科学界提供在本项资助下开发的试剂和软件；(4)研究和实施能够显著提高测序通量同时降低测序成本的新方法和技术。该中心将通过应用一个强大而复杂的大规模基因组测序和分析管道来实现这些目标，该管道由一组在该领域处于世界领先地位的研究人员开发，他们比任何其他测序中心都测序了更多的基因组。其中包括40多种微生物，13种寄生虫和真菌病原体，2种植物（拟南芥和水稻），2种昆虫（黑胃果蝇和冈比亚按蚊），4种哺乳动物（人类、小鼠、大鼠和狗），迄今为止总共超过1亿次测序反应和超过100亿个碱基对的组装基因组序列。本申请中描述的测序活动将在新成立的J. Craig Venter科学基金会联合技术中心（JTC）进行，该中心是TIGR的附属机构。JTC实验室旨在支持高通量生产管道，用于霰弹枪和BAC端测序项目，以及基于pcr的重测序和SNP发现，在第一年的运营中，每年测序反应水平为4500万次。JTC的设计目标是每年进行超过1.2亿次测序反应。TIGR/JTC测序生产中心的初始每通道成本低于0.94美元，每个碱基对的完成成本为0.0.001美元，在偏远年份显著降低。

DESCRIPTION (provided by applicant): The goals of the Large-Scale Genome Sequencing Production Center (Center) described in this application are to: (1) provide proven expertise in large-scale DNA sequencing and bioinformatics to the study of high priority eukaryotic species to consistently produce draft and finished genome sequences and annotation of the highest possible quality; (2) rapidly release genome sequence data, sequence traces, assemblies, and associated annotation to the public domain; (3) provide reagents and software developed under this grant to the scientific community; and (4) investigate and implement novel methods and technologies that can significantly increase sequencing throughput while decreasing sequencing costs. The Center will accomplish these goals through the application of a robust and sophisticated pipeline for large-scale genome sequencing and analysis that has been developed by a team of investigators that are world leaders in this field and have collectively sequenced more genomes than any other sequencing center. These include more than 40 microbial species, 13 parasitic and fungal pathogens, 2 plant species (Arabidopsis thaliana and rice), 2 insect species (Drosophila melanogaster and Anopheles gambiae), and 4 mammalian species (human, mouse, rat, and dog) to date, totaling more than 100 million sequencing reactions and over 10 billion base pairs of assembled genome sequence. Sequencing activities described in this application will be carried out at the newly created J. Craig Venter Science Foundation Joint Technology Center (JTC), a TIGR affiliate. The JTC laboratories have been designed to support high-throughput production pipelines for shotgun and BAC end sequencing projects and for PCR-based resequencing and SNP discovery at a level of 45 million sequencing reactions per year in its first year of operation. The JTC is designed to scale to over 120 million sequencing reactions per year. The initial per lane costs for the TIGR/JTC Sequencing Production Center are less than $0.94 and finishing costs are $.0.001 per basepair with significant reductions in the outlying years.