DC Field | Value | Language |
---|---|---|
dc.contributor.author | Yoon, Sung Ho | ko |
dc.contributor.author | Han, Mee-Jung | ko |
dc.contributor.author | Jeong, Haeyoung | ko |
dc.contributor.author | Lee, Choong Hoon | ko |
dc.contributor.author | Xia, Xiao-Xia | ko |
dc.contributor.author | Lee, Dae-Hee | ko |
dc.contributor.author | Shim, Ji Hoon | ko |
dc.contributor.author | Lee, SangYup | ko |
dc.contributor.author | Oh, Tae Kwang | ko |
dc.contributor.author | Kim, Jihyun F. | ko |
dc.date.accessioned | 2013-03-12T23:45:06Z | - |
dc.date.available | 2013-03-12T23:45:06Z | - |
dc.date.created | 2012-08-22 | - |
dc.date.created | 2012-08-22 | - |
dc.date.created | 2012-08-22 | - |
dc.date.issued | 2012-05 | - |
dc.identifier.citation | GENOME BIOLOGY, v.13, no.5 | - |
dc.identifier.issn | 1474-7596 | - |
dc.identifier.uri | http://hdl.handle.net/10203/103913 | - |
dc.description.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. | - |
dc.language | English | - |
dc.publisher | BIOMED CENTRAL LTD | - |
dc.title | Comparative multi-omics systems analysis of Escherichia coli strains B and K-12 | - |
dc.type | Article | - |
dc.identifier.wosid | 000308545500004 | - |
dc.identifier.scopusid | 2-s2.0-84861398402 | - |
dc.type.rims | ART | - |
dc.citation.volume | 13 | - |
dc.citation.issue | 5 | - |
dc.citation.publicationname | GENOME BIOLOGY | - |
dc.identifier.doi | 10.1186/gb-2012-13-5-r37 | - |
dc.contributor.localauthor | Lee, SangYup | - |
dc.contributor.nonIdAuthor | Yoon, Sung Ho | - |
dc.contributor.nonIdAuthor | Jeong, Haeyoung | - |
dc.contributor.nonIdAuthor | Lee, Choong Hoon | - |
dc.contributor.nonIdAuthor | Xia, Xiao-Xia | - |
dc.contributor.nonIdAuthor | Lee, Dae-Hee | - |
dc.contributor.nonIdAuthor | Shim, Ji Hoon | - |
dc.contributor.nonIdAuthor | Oh, Tae Kwang | - |
dc.contributor.nonIdAuthor | Kim, Jihyun F. | - |
dc.description.isOpenAccess | Y | - |
dc.type.journalArticle | Article | - |
dc.subject.keywordPlus | PROTEOME ANALYSIS | - |
dc.subject.keywordPlus | GENOME SEQUENCES | - |
dc.subject.keywordPlus | CARBON SOURCE | - |
dc.subject.keywordPlus | CELL | - |
dc.subject.keywordPlus | EXPRESSION | - |
dc.subject.keywordPlus | STRESS | - |
dc.subject.keywordPlus | PERMEABILITY | - |
dc.subject.keywordPlus | BL21(DE3) | - |
dc.subject.keywordPlus | ACETATE | - |
dc.subject.keywordPlus | REL606 | - |
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