Spatial patterns of transcriptional activity in the chromosome of Escherichia coli 英文参考文献.docVIP

Open Access Re rch 2004JeongetVoal.lumesea5, Issue 11, Article R86 Spatial patterns of transcriptional activity in the chromosome of Escherichia coli Kyeong Soo Jeong, Jaeyong Ahn and Arkady B Khodursky Address: Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, St. Paul, MN 55108, USA. Correspondence: Arkady B Khodursky. E-mail: khodu001@ Published: 27 October 2004 Genome Biology 2004, 5:R86 Received: 5 August 2004 Revised: 13 September 2004 Accepted: 29 September 2004 The electronic version of this article is the complete one and can be found online at /2004/5/11/R86 ? 2004 Jeong et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. SpatialaplponAgnthapatternselybsaisctoefrtiofhalectranscriptionalthrraonmscorsipotmioenanlactivitydacsthivoiwtyeindintthehEastcchromosomehspearitciahliapactotleirKnof1s2Escherichiaofretrvaenaslecdripantcoliioasymmetryn could be minotheduladistributionted pharmacofoltranscriptionalogically and genpatternsetically./ Abstract Background: Although genes on the chromosome are organized in a fixed order, the spatial correlations in transcription have not been systematically evaluated. We used a combination of genomic and signal processing techniques to investigate the properties of transcription in the genome of Escherichia coli K12 as a function of the position of genes on the chromosome. Results: Spectral analysis of transcriptional series revealed the existence of statistically significant patterns in the spatial series of transcriptional activity. These patterns could be classified into three categories: short-range, of up to 16 kilobases (kb); medium-range, over 100-125 kb; and long-range, over 600-800 kb. We show that the sign