Invariant distribution of promoter activities in Escherichia coli.
Cells need to allocate their limited resources to express a wide range of genes. To understand how Escherichia coli partitions its transcriptional resources between its different promoters, we employ a robotic assay using a comprehensive reporter strain library for E. coli to measure promoter activity on a genomic scale at high-temporal resolution and accuracy. This allows continuous tracking of promoter activity as cells change their growth rate from exponential to stationary phase in different media. We find a heavy-tailed distribution of promoter activities, with promoter activities spanning several orders of magnitude. While the shape of the distribution is almost completely independent of the growth conditions, the identity of the promoters expressed at different levels does depend on them. Translation machinery genes, however, keep the same relative expression levels in the distribution across conditions, and their fractional promoter activity tracks growth rate tightly. We present a simple optimization model for resource allocation which suggests that the observed invariant distributions might maximize growth rate. These invariant features of the distribution of promoter activities may suggest design constraints that shape the allocation of transcriptional resources.
Division of Biology, California Institute of Technology, Pasadena, California, United States of America. alonzo@caltech.edu
Alon
A
Zaslaver
Shai
S
Kaplan
Anat
A
Bren
Adrian
A
Jinich
Avi
A
Mayo
Erez
E
Dekel
Uri
U
Alon
Shalev
S
Itzkovitz
D000465:Algorithms; D003470:Culture Media / Q000378:metabolism; D004926:Escherichia coli / Q000235:genetics / Q000378:metabolism / Q000502:physiology*; D029968:Escherichia coli Proteins / Q000235:genetics / Q000378:metabolism; D005453:Fluorescence; D015964:Gene Expression Regulation, Bacterial / Q000502:physiology*; D016680:Genome, Bacterial; D005947:Glucose / Q000378:metabolism; D005990:Glycerol / Q000378:metabolism; D016014:Linear Models; D008957:Models, Genetic; D010957:Plasmids; D011401:Promoter Regions, Genetic / Q000502:physiology*; D012270:Ribosomes / Q000235:genetics / Q000378:metabolism
D003470:Culture Media; D029968:Escherichia coli Proteins; D005947:Glucose; D005990:Glycerol