tailieunhanh - Báo cáo y học: " Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Minireview cung cấp cho các bạn kiến thức về ngành y đề tài: Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake. | Open Access Research Rapid accurate computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake Carleton L Kingsford Kunmi Ayanbule and Steven L Salzberg Address Center for Bioinformatics and Computational Biology University of Maryland College Park MD 20742 USA. Correspondence Carleton L Kingsford. Email carlk@ Published 21 February 2007 Genome Biology 2007 8 R22 doi 186 gb-2007-8-2-r22 The electronic version of this article is the complete one and can be found online at http 2007 8 2 R22 Received 14 September 2006 Revised 1 December 2006 Accepted 21 February 2007 2007 Kingsford et al. licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License http licenses by which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. Abstract Background In many prokaryotes transcription of DNA to RNA is terminated by a thymine-rich stretch of DNA following a hairpin loop. Detecting such Rho-independent transcription terminators can shed light on the organization of bacterial genomes and can improve genome annotation. Previous computational methods to predict Rho-independent terminators have been slow or limited in the organisms they consider. Results We describe TransTermHP a new computational method to rapidly and accurately detect Rho-independent transcription terminators. We predict the locations of terminators in 343 prokaryotic genomes representing the largest collection of predictions available. In Bacillus subtilis we can detect 93 of known terminators with a false positive rate of just 6 comparable to the best-known methods. Outside the Firmicutes division we find that Rho-independent termination plays a large role in the Neisseria and Vibrio genera the Pasteurellaceae including the Haemophilus genus and several other species.