Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways

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Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways. / Babu, Mohan; Díaz-Mejía, J Javier; Vlasblom, James; Gagarinova, Alla; Phanse, Sadhna; Graham, Chris; Yousif, Fouad; Ding, Huiming; Xiong, Xuejian; Nazarians-Armavil, Anaies; Alamgir, Md; Ali, Mehrab; Pogoutse, Oxana; Pe'er, Asaf; Arnold, Roland; Michaut, Magali; Parkinson, John; Golshani, Ashkan; Whitfield, Chris; Wodak, Shoshana J; Moreno-Hagelsieb, Gabriel; Greenblatt, Jack F; Emili, Andrew.

In: PLoS Genetics, Vol. 7, No. 11, 11.2011, p. e1002377.

Research output: Contribution to journalArticle

Harvard

Babu, M, Díaz-Mejía, JJ, Vlasblom, J, Gagarinova, A, Phanse, S, Graham, C, Yousif, F, Ding, H, Xiong, X, Nazarians-Armavil, A, Alamgir, M, Ali, M, Pogoutse, O, Pe'er, A, Arnold, R, Michaut, M, Parkinson, J, Golshani, A, Whitfield, C, Wodak, SJ, Moreno-Hagelsieb, G, Greenblatt, JF & Emili, A 2011, 'Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways', PLoS Genetics, vol. 7, no. 11, pp. e1002377. https://doi.org/10.1371/journal.pgen.1002377

APA

Babu, M., Díaz-Mejía, J. J., Vlasblom, J., Gagarinova, A., Phanse, S., Graham, C., Yousif, F., Ding, H., Xiong, X., Nazarians-Armavil, A., Alamgir, M., Ali, M., Pogoutse, O., Pe'er, A., Arnold, R., Michaut, M., Parkinson, J., Golshani, A., Whitfield, C., ... Emili, A. (2011). Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways. PLoS Genetics, 7(11), e1002377. https://doi.org/10.1371/journal.pgen.1002377

Vancouver

Author

Babu, Mohan ; Díaz-Mejía, J Javier ; Vlasblom, James ; Gagarinova, Alla ; Phanse, Sadhna ; Graham, Chris ; Yousif, Fouad ; Ding, Huiming ; Xiong, Xuejian ; Nazarians-Armavil, Anaies ; Alamgir, Md ; Ali, Mehrab ; Pogoutse, Oxana ; Pe'er, Asaf ; Arnold, Roland ; Michaut, Magali ; Parkinson, John ; Golshani, Ashkan ; Whitfield, Chris ; Wodak, Shoshana J ; Moreno-Hagelsieb, Gabriel ; Greenblatt, Jack F ; Emili, Andrew. / Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways. In: PLoS Genetics. 2011 ; Vol. 7, No. 11. pp. e1002377.

Bibtex

@article{78c76d3f70e2469d8ba154a8796650b1,
title = "Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways",
abstract = "As the interface between a microbe and its environment, the bacterial cell envelope has broad biological and clinical significance. While numerous biosynthesis genes and pathways have been identified and studied in isolation, how these intersect functionally to ensure envelope integrity during adaptive responses to environmental challenge remains unclear. To this end, we performed high-density synthetic genetic screens to generate quantitative functional association maps encompassing virtually the entire cell envelope biosynthetic machinery of Escherichia coli under both auxotrophic (rich medium) and prototrophic (minimal medium) culture conditions. The differential patterns of genetic interactions detected among > 235,000 digenic mutant combinations tested reveal unexpected condition-specific functional crosstalk and genetic backup mechanisms that ensure stress-resistant envelope assembly and maintenance. These networks also provide insights into the global systems connectivity and dynamic functional reorganization of a universal bacterial structure that is both broadly conserved among eubacteria (including pathogens) and an important target.",
keywords = "Cell Membrane, Culture Media, Drug Resistance, Epistasis, Genetic, Escherichia coli, Gene Expression Regulation, Bacterial, Gene-Environment Interaction, Membrane Proteins, Metabolic Networks and Pathways, Microscopy, Electron, Microtubule-Associated Proteins, Molecular Sequence Annotation, Oligonucleotide Array Sequence Analysis, Journal Article, Research Support, Non-U.S. Gov't",
author = "Mohan Babu and D{\'i}az-Mej{\'i}a, {J Javier} and James Vlasblom and Alla Gagarinova and Sadhna Phanse and Chris Graham and Fouad Yousif and Huiming Ding and Xuejian Xiong and Anaies Nazarians-Armavil and Md Alamgir and Mehrab Ali and Oxana Pogoutse and Asaf Pe'er and Roland Arnold and Magali Michaut and John Parkinson and Ashkan Golshani and Chris Whitfield and Wodak, {Shoshana J} and Gabriel Moreno-Hagelsieb and Greenblatt, {Jack F} and Andrew Emili",
year = "2011",
month = nov
doi = "10.1371/journal.pgen.1002377",
language = "English",
volume = "7",
pages = "e1002377",
journal = "PLoS Genetics",
issn = "1553-7390",
publisher = "Public Library of Science (PLOS)",
number = "11",

}

RIS

TY - JOUR

T1 - Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways

AU - Babu, Mohan

AU - Díaz-Mejía, J Javier

AU - Vlasblom, James

AU - Gagarinova, Alla

AU - Phanse, Sadhna

AU - Graham, Chris

AU - Yousif, Fouad

AU - Ding, Huiming

AU - Xiong, Xuejian

AU - Nazarians-Armavil, Anaies

AU - Alamgir, Md

AU - Ali, Mehrab

AU - Pogoutse, Oxana

AU - Pe'er, Asaf

AU - Arnold, Roland

AU - Michaut, Magali

AU - Parkinson, John

AU - Golshani, Ashkan

AU - Whitfield, Chris

AU - Wodak, Shoshana J

AU - Moreno-Hagelsieb, Gabriel

AU - Greenblatt, Jack F

AU - Emili, Andrew

PY - 2011/11

Y1 - 2011/11

N2 - As the interface between a microbe and its environment, the bacterial cell envelope has broad biological and clinical significance. While numerous biosynthesis genes and pathways have been identified and studied in isolation, how these intersect functionally to ensure envelope integrity during adaptive responses to environmental challenge remains unclear. To this end, we performed high-density synthetic genetic screens to generate quantitative functional association maps encompassing virtually the entire cell envelope biosynthetic machinery of Escherichia coli under both auxotrophic (rich medium) and prototrophic (minimal medium) culture conditions. The differential patterns of genetic interactions detected among > 235,000 digenic mutant combinations tested reveal unexpected condition-specific functional crosstalk and genetic backup mechanisms that ensure stress-resistant envelope assembly and maintenance. These networks also provide insights into the global systems connectivity and dynamic functional reorganization of a universal bacterial structure that is both broadly conserved among eubacteria (including pathogens) and an important target.

AB - As the interface between a microbe and its environment, the bacterial cell envelope has broad biological and clinical significance. While numerous biosynthesis genes and pathways have been identified and studied in isolation, how these intersect functionally to ensure envelope integrity during adaptive responses to environmental challenge remains unclear. To this end, we performed high-density synthetic genetic screens to generate quantitative functional association maps encompassing virtually the entire cell envelope biosynthetic machinery of Escherichia coli under both auxotrophic (rich medium) and prototrophic (minimal medium) culture conditions. The differential patterns of genetic interactions detected among > 235,000 digenic mutant combinations tested reveal unexpected condition-specific functional crosstalk and genetic backup mechanisms that ensure stress-resistant envelope assembly and maintenance. These networks also provide insights into the global systems connectivity and dynamic functional reorganization of a universal bacterial structure that is both broadly conserved among eubacteria (including pathogens) and an important target.

KW - Cell Membrane

KW - Culture Media

KW - Drug Resistance

KW - Epistasis, Genetic

KW - Escherichia coli

KW - Gene Expression Regulation, Bacterial

KW - Gene-Environment Interaction

KW - Membrane Proteins

KW - Metabolic Networks and Pathways

KW - Microscopy, Electron

KW - Microtubule-Associated Proteins

KW - Molecular Sequence Annotation

KW - Oligonucleotide Array Sequence Analysis

KW - Journal Article

KW - Research Support, Non-U.S. Gov't

U2 - 10.1371/journal.pgen.1002377

DO - 10.1371/journal.pgen.1002377

M3 - Article

C2 - 22125496

VL - 7

SP - e1002377

JO - PLoS Genetics

JF - PLoS Genetics

SN - 1553-7390

IS - 11

ER -