Comparative multi-omics systems analysis of Escherichia coli strains B and K-12 = 대장균 B형과 K형의 다중오믹스를 이용한 시스템 비교분석

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Title
Comparative multi-omics systems analysis of Escherichia coli strains B and K-12 = 대장균 B형과 K형의 다중오믹스를 이용한 시스템 비교분석
Author(s)
Sung Ho Yoon; M J Han; Haeyoung Jeong; C H Lee; X X Xia; Dae Hee Lee; J H Shim; S Y Lee; Tae Kwang Oh; J F Kim
Bibliographic Citation
Genome Biology, vol. 13, pp. R37-R37
Publication Year
2012
Abstract
Background: Elucidation of a genotype-phenotype relationship is critical to understand an organism at the whole-system level. Here, we demonstrate that comparative analyses of multi-omics data combined with a computational modeling approach provide a framework for elucidating the phenotypic characteristics of organisms whose genomes are sequenced.Results: We present a comprehensive analysis of genome-wide measurements incorporating multifaceted holistic data - genome, transcriptome, proteome, and phenome - to determine the differences between Escherichia coli B and K-12 strains. A genome-scale metabolic network of E. coli B was reconstructed and used to identify genetic bases of the phenotypes unique to B compared with K-12 through in silico complementation testing. This systems analysis revealed that E. coli B is well-suited for production of recombinant proteins due to a greater capacity for amino acid biosynthesis, fewer proteases, and lack of flagella. Furthermore, E. coli B has an additional type II secretion system and a different cell wall and outer membrane composition predicted to be more favorable for protein secretion. In contrast, E. coli K-12 showed a higher expression of heat shock genes and was less susceptible to certain stress conditions.Conclusions: This integrative systems approach provides a high-resolution system-wide view and insights into why two closely related strains of E. coli, B and K-12, manifest distinct phenotypes. Therefore, systematic understanding of cellular physiology and metabolism of the strains is essential not only to determine culture conditions but also to design recombinant hosts.
ISSN
1474-760X
Publisher
Springer-BMC
DOI
http://dx.doi.org/10.1186/gb-2012-13-5-r37
Type
Article
Appears in Collections:
Division of Research on National Challenges > Infectious Disease Research Center > 1. Journal Articles
Synthetic Biology and Bioengineering Research Institute > Synthetic Biology Research Center > 1. Journal Articles
Division of Biomedical Research > Metabolic Regulation Research Center > 1. Journal Articles
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