Collaborative Research: Sequencing and Functional Genomics of Halobacterium

合作研究：盐杆菌的测序和功能基因组学

• 批准号: 0004124
• 负责人: Leroy Hood
• 金额: --
• 依托单位: Institute for Systems Biology
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2000
• 资助国家: 美国
• 起止时间: 2000-09-15 至 2001-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0004124&HistoricalAwards=false
• 关键词: Collaborative; Research; Sequencing; Functional; Genomics

The focus of the project is to sequence the genome of the Archaea Halobacterium sp. NRC-1, which contains a stable 2.0 Mbp circular chromosome and two large unstable plasmids, pNRC 100 and pNRC200, 191 and 300 kb, respectively. The NRC-1 chromosome and plasmid pNRC200 have been mapped at low resolution and two BAC (bacterial artificial chromosomal) libraries, each with over 15-fold representation, have been constructed. The plasmid pNRC100 has been sequenced in its entirety. The BAC-end sequence strategy developed for more complex genomes will be used to complete the NRC-1 genome sequencing. This will circumvent sequence assembly problems resulting from the presence of a large number of repeated sequences in the Halobacterium genome. The complete genome sequence will be analyzed using sequence-analysis programs from NCBI, the University of Washington and Genetics Computer Group software packages. Genes with homologues in other organisms will be analyzed by multiple sequence alignments and phylogenetic analysis, as well as through primary literature searches. Genomic analysis will focus on the relationship of halophiles to other Archaea, as well as to eubacteria and eukaryotes, the mechanism of adaptation to high salinity, and the acquisition of new metabolic capabilities such as aerobic respiration, by an Archaeon. This research has the potential to have a significant impact in the area of biotechnology, stress biology - specifically in the area of salt tolerance, and systematic biology.

该项目的重点是对嗜盐菌NRC-1的基因组进行测序，NRC-1含有一个稳定的2.0 Mbp环状染色体和两个大的不稳定质粒，pNRC 100和pNRC 200，分别为191和300 kb。NRC-1染色体和质粒pNRC 200已被定位在低分辨率和两个BAC（细菌人工染色体）文库，每个都有超过15倍的代表性，已建成。质粒pNRC 100已被完整测序。为更复杂的基因组开发的BAC末端测序策略将用于完成NRC-1基因组测序。这将避免由于盐杆菌基因组中存在大量重复序列而导致的序列组装问题。将使用NCBI、华盛顿大学和遗传学计算机组软件包的序列分析程序分析完整的基因组序列。与其他生物体同源的基因将通过多重序列比对和系统发育分析以及主要文献检索进行分析。基因组分析将侧重于嗜盐菌与其他微生物以及真细菌和真核生物的关系，适应高盐度的机制，以及获得新的代谢能力，如有氧呼吸。这项研究有可能在生物技术，胁迫生物学领域产生重大影响-特别是在耐盐性和系统生物学领域。