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Title: Genome-wide study of mRNA degradation and transcript elongation in Escherichia coli
Authors: Chen, Huiyi
Shiroguchi, Katsuyuki
Ge, Hao
Xie, Sunney Xiaoliang
Keywords: RNAP Elongation
DRNTU::Science::Biological sciences
mRNA Decay
Issue Date: 2015
Source: Chen, H., Shiroguchi, K., Ge, H., & Xie, S. X. (2015). Genome-wide study of mRNA degradation and transcript elongation in Escherichia coli. Molecular Systems Biology, 11, 781-. doi:10.15252/msb.20145794
Series/Report no.: Molecular Systems Biology
Abstract: An essential part of gene expression is the coordination of RNA synthesis and degradation, which occurs in the same cellular compartment in bacteria. Here, we report a genome‐wide RNA degradation study in Escherichia coli using RNA‐seq, and present evidence that the stereotypical exponential RNA decay curve obtained using initiation inhibitor, rifampicin, consists of two phases: residual RNA synthesis, a delay in the interruption of steady state that is dependent on distance relative to the mRNA's 5′ end, and the exponential decay. This gives a more accurate RNA lifetime and RNA polymerase elongation rate simultaneously genome‐wide. Transcripts typically have a single RNA decay constant along all positions, which is distinct between different operons, indicating that RNA stability is unlikely determined by local sequences. These measurements allowed us to establish a model for RNA processing involving co‐transcriptional degradation, providing quantitative description of the macromolecular coordination in gene expression in bacteria on a system‐wide level.
DOI: 10.15252/msb.20145794
Rights: © 2015 The Authors. This is an open access article under the terms of the Creative Commons Attribution 4.0 License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:SBS Journal Articles

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