A predictive model for transcriptional control of physiology in a free living cell

被引：237

作者：

Bonneau, Richard ^{[2
,5
]}

Facciotti, Marc T. ^{[1
]}

Reiss, David J. ^{[1
]}

Schmid, Amy K. ^{[1
]}

Pan, Min ^{[1
]}

Kaur, Amardeep ^{[1
]}

Thorsson, Vesteinn ^{[1
]}

Shannon, Paul ^{[1
]}

Johnson, Michael H. ^{[1
]}

Bare, J. Christopher ^{[1
]}

Longabaugh, William ^{[1
]}

Vuthoori, Madhavi ^{[1
]}

Whitehead, Kenia ^{[1
]}

Madar, Aviv ^{[2
]}

Suzuki, Lena ^{[4
]}

Mori, Tetsuya ^{[4
]}

Chang, Dong-Eun ^{[4
]}

DiRuggiero, Jocelyne ^{[3
]}

Johnson, Carl H. ^{[4
]}

Hood, Leroy ^{[1
]}

Baliga, Nitin S. ^{[1
,6
,7
]}

机构：

[1] Inst Syst Biol, Seattle, WA 98103 USA

[2] NYU, Ctr Genome & Syst Biol, New York, NY 10003 USA

[3] Univ Maryland, College Pk, MD 20742 USA

[4] Vanderbilt Univ, Nashville, TN 37240 USA

[5] NYU, Dept Comp Sci, Courant Inst Math Sci, New York, NY 10003 USA

[6] Univ Washington, Dept Microbiol, Seattle, WA 98195 USA

[7] Univ Washington, Dept Mol & Cellular Biol, Seattle, WA 98195 USA

来源：

CELL | 2007年 / 131卷 / 07期

基金：

美国国家科学基金会; 美国国家航空航天局; 美国国家卫生研究院;

关键词：

D O I：

10.1016/j.cell.2007.10.053

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The environment significantly influences the dynamic expression and assembly of all components encoded in the genome of an organism into functional biological networks. We have constructed a model for this process in Halobacterium salinarum NRC-1 through the data-driven discovery of regulatory and functional interrelationships among similar to 80% of its genes and key abiotic factors in its hypersaline environment. Using relative changes in 72 transcription factors and 9 environmental factors (EFs) this model accurately predicts dynamic transcriptional responses of all these genes in 147 newly collected experiments representing completely novel genetic backgrounds and environments-suggesting a remarkable degree of network completeness. Using this model we have constructed and tested hypotheses critical to this organism's interaction with its changing hypersaline environment. This study supports the claim that the high degree of connectivity within biological and EF networks will enable the construction of similar models for any organism from relatively modest numbers of experiments.

引用

页码：1354 / 1365

页数：12

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