Combinatorics of feedback in cellular uptake and metabolism of small molecules

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Combinatorics of feedback in cellular uptake and metabolism of small molecules. / Krishna, Sandeep; Semsey, Szabolcs; Sneppen, Kim.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 52, 26.12.2007, p. 20815-9.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Krishna, S, Semsey, S & Sneppen, K 2007, 'Combinatorics of feedback in cellular uptake and metabolism of small molecules', Proceedings of the National Academy of Sciences of the United States of America, vol. 104, no. 52, pp. 20815-9. https://doi.org/10.1073/pnas.0706231105

APA

Krishna, S., Semsey, S., & Sneppen, K. (2007). Combinatorics of feedback in cellular uptake and metabolism of small molecules. Proceedings of the National Academy of Sciences of the United States of America, 104(52), 20815-9. https://doi.org/10.1073/pnas.0706231105

Vancouver

Krishna S, Semsey S, Sneppen K. Combinatorics of feedback in cellular uptake and metabolism of small molecules. Proceedings of the National Academy of Sciences of the United States of America. 2007 Dec 26;104(52):20815-9. https://doi.org/10.1073/pnas.0706231105

Author

Krishna, Sandeep ; Semsey, Szabolcs ; Sneppen, Kim. / Combinatorics of feedback in cellular uptake and metabolism of small molecules. In: Proceedings of the National Academy of Sciences of the United States of America. 2007 ; Vol. 104, No. 52. pp. 20815-9.

Bibtex

@article{a1a57d6361914246a7d910d6667a448d,
title = "Combinatorics of feedback in cellular uptake and metabolism of small molecules",
abstract = "We analyze the connection between structure and function for regulatory motifs associated with cellular uptake and usage of small molecules. Based on the boolean logic of the feedback we suggest four classes: the socialist, consumer, fashion, and collector motifs. We find that the socialist motif is good for homeostasis of a useful but potentially poisonous molecule, whereas the consumer motif is optimal for nutrition molecules. Accordingly, examples of these motifs are found in, respectively, the iron homeostasis system in various organisms and in the uptake of sugar molecules in bacteria. The remaining two motifs have no obvious analogs in small molecule regulation, but we illustrate their behavior using analogies to fashion and obesity. These extreme motifs could inspire construction of synthetic systems that exhibit bistable, history-dependent states, and homeostasis of flux (rather than concentration).",
keywords = "Amino Acid Motifs, Biochemistry, Biological Transport, Carbohydrates, Escherichia coli, Feedback, Physiological, Gene Expression Regulation, Bacterial, Homeostasis, Metabolic Networks and Pathways, Metabolism, Models, Biological, Models, Statistical, Journal Article, Research Support, Non-U.S. Gov't",
author = "Sandeep Krishna and Szabolcs Semsey and Kim Sneppen",
year = "2007",
month = dec,
day = "26",
doi = "10.1073/pnas.0706231105",
language = "English",
volume = "104",
pages = "20815--9",
journal = "Proceedings of the National Academy of Sciences of the United States of America",
issn = "0027-8424",
publisher = "The National Academy of Sciences of the United States of America",
number = "52",

}

RIS

TY - JOUR

T1 - Combinatorics of feedback in cellular uptake and metabolism of small molecules

AU - Krishna, Sandeep

AU - Semsey, Szabolcs

AU - Sneppen, Kim

PY - 2007/12/26

Y1 - 2007/12/26

N2 - We analyze the connection between structure and function for regulatory motifs associated with cellular uptake and usage of small molecules. Based on the boolean logic of the feedback we suggest four classes: the socialist, consumer, fashion, and collector motifs. We find that the socialist motif is good for homeostasis of a useful but potentially poisonous molecule, whereas the consumer motif is optimal for nutrition molecules. Accordingly, examples of these motifs are found in, respectively, the iron homeostasis system in various organisms and in the uptake of sugar molecules in bacteria. The remaining two motifs have no obvious analogs in small molecule regulation, but we illustrate their behavior using analogies to fashion and obesity. These extreme motifs could inspire construction of synthetic systems that exhibit bistable, history-dependent states, and homeostasis of flux (rather than concentration).

AB - We analyze the connection between structure and function for regulatory motifs associated with cellular uptake and usage of small molecules. Based on the boolean logic of the feedback we suggest four classes: the socialist, consumer, fashion, and collector motifs. We find that the socialist motif is good for homeostasis of a useful but potentially poisonous molecule, whereas the consumer motif is optimal for nutrition molecules. Accordingly, examples of these motifs are found in, respectively, the iron homeostasis system in various organisms and in the uptake of sugar molecules in bacteria. The remaining two motifs have no obvious analogs in small molecule regulation, but we illustrate their behavior using analogies to fashion and obesity. These extreme motifs could inspire construction of synthetic systems that exhibit bistable, history-dependent states, and homeostasis of flux (rather than concentration).

KW - Amino Acid Motifs

KW - Biochemistry

KW - Biological Transport

KW - Carbohydrates

KW - Escherichia coli

KW - Feedback, Physiological

KW - Gene Expression Regulation, Bacterial

KW - Homeostasis

KW - Metabolic Networks and Pathways

KW - Metabolism

KW - Models, Biological

KW - Models, Statistical

KW - Journal Article

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

U2 - 10.1073/pnas.0706231105

DO - 10.1073/pnas.0706231105

M3 - Journal article

C2 - 18093927

VL - 104

SP - 20815

EP - 20819

JO - Proceedings of the National Academy of Sciences of the United States of America

JF - Proceedings of the National Academy of Sciences of the United States of America

SN - 0027-8424

IS - 52

ER -

ID: 163917699