SGER: The Transcriptome of Haloferax volcanii

SGER：Haloferax volcanii 的转录组

• 批准号: 0620005
• 负责人: Charles Daniels
• 金额: $ 14.86万
• 依托单位: Ohio State University Research Foundation -DO NOT USE
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-06-01 至 2008-11-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0620005&HistoricalAwards=false
• 关键词: SGER; Transcriptome; Haloferax; volcanii

The availability of 25 completed Archaea genomic sequences has provided a wealth of data on the gene content, the metabolic potential and the evolutionary relatedness of Archaea. These data have also made it possible to combine genome level enquiries, such as DNA array analysis of transcription, with biochemical and genetic approaches in the study of archaeal physiology. This project will use tiled DNA arrays to generate a map of the transcription activity for the metabolically versatile and experimentally tractable model archaeon, Haloferax volcanii. An international community of expert researchers will provide RNAs from cells grown under a variety of conditions, and from specific mutant strains, to assemble a library of data describing the transcription response of this organism. This approach has the advantage that the entire genome, both proposed coding and intergenic regions, will be queried providing an unbiased and comprehensive map of transcription activity. Results will be released to the community upon completion of the experiments through a designated public web site to encourage collaboration in the analyses of these data and to foster future experimentation with this organism. The tiled DNA array method will also address a new emerging problem, the identification small RNA-encoding genes that lack highly conserved sequences, and plans are proposed to use these arrays in the analyses of the DNA or RNA interactions of nucleic acid binding proteins. Finally, data from these studies will be used to develop new teaching tools, highlighting differences in statistical analyses and data interpretation for gene-based and tiled arrays, through ongoing interactions with colleagues at a predominately undergraduate teaching institution.

25个完整的古细菌基因组序列的可用性为古细菌的基因含量、代谢潜力和进化相关性提供了丰富的数据。这些数据也使得将基因组水平的查询（如转录的DNA阵列分析）与古细菌生理学研究中的生化和遗传方法相结合成为可能。该项目将使用平铺DNA阵列来生成代谢多样和实验可处理的模型古菌，火山盐古菌的转录活性图。一个国际专家研究团体将提供在各种条件下生长的细胞的rna，以及来自特定突变菌株的rna，以组装一个描述该生物体转录反应的数据库。这种方法的优点是，整个基因组，包括提出的编码区和基因间区，将被查询，提供一个公正和全面的转录活性图。实验完成后，结果将通过指定的公共网站向社会公布，以鼓励合作分析这些数据，并促进未来对这种生物的实验。平铺DNA阵列方法还将解决一个新出现的问题，即鉴定缺乏高度保守序列的小RNA编码基因，并计划在核酸结合蛋白的DNA或RNA相互作用的分析中使用这些阵列。最后，这些研究的数据将用于开发新的教学工具，通过与本科生为主的教学机构的同事进行持续的互动，突出在基于基因和平铺阵列的统计分析和数据解释方面的差异。