SGER: The Transcriptome of Haloferax volcanii

25个完整的古生代基因组序列的获得为古生代的基因含量、代谢潜力和进化关联性提供了丰富的数据。这些数据还使人们有可能将基因组水平的查询，如转录的DNA阵列分析，与古生理学研究中的生化和遗传学方法结合起来。该项目将使用平铺DNA阵列来生成新陈代谢多功能性和实验上易于处理的模型古生物Haloferax Volcanii的转录活动图。一个由专家研究人员组成的国际社区将提供在各种条件下生长的细胞和特定突变菌株的RNA，以汇编描述这种有机体转录反应的数据库。这种方法的优点是，整个基因组，包括建议的编码区和基因间隔区，将被查询，提供一个公正和全面的转录活动图。实验完成后，结果将通过指定的公共网站向社区公布，以鼓励在分析这些数据方面的合作，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，即识别缺乏高度保守序列的小RNA编码基因，并计划将这些阵列用于分析核酸结合蛋白的DNA或RNA相互作用。最后，这些研究的数据将用于开发新的教学工具，通过与一所以本科为主的教学机构的同事不断互动，突出基因和平铺阵列在统计分析和数据解释方面的差异。

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.