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Atmospheric Reaction Systems as Null-Models to Identify Structural Traces of Evolution in Metabolism
Umeå University, Faculty of Science and Technology, Department of Physics. (IceLab)ORCID iD: 0000-0003-2156-1096
Science for Life Laboratory Stockholm.
Umeå University, Faculty of Science and Technology, Department of Physics. (IceLab)
2011 (English)In: PLoS ONE, ISSN 1932-6203, Vol. 6, no 5, e19759- p.Article in journal (Refereed) Published
Abstract [en]

The metabolism is the motor behind the biological complexity of an organism. One problem of characterizing its large-scale structure is that it is hard to know what to compare it to. All chemical reaction systems are shaped by the same physics that gives molecules their stability and affinity to react. These fundamental factors cannot be captured by standard null-models based on randomization. The unique property of organismal metabolism is that it is controlled, to some extent, by an enzymatic machinery that is subject to evolution. In this paper, we explore the possibility that reaction systems of planetary atmospheres can serve as a null-model against which we can define metabolic structure and trace the influence of evolution. We find that the two types of data can be distinguished by their respective degree distributions. This is especially clear when looking at the degree distribution of the reaction network (of reaction connected to each other if they involve the same molecular species). For the Earth's atmospheric network and the human metabolic network, we look into more detail for an underlying explanation of this deviation. However, we cannot pinpoint a single cause of the difference, rather there are several concurrent factors. By examining quantities relating to the modular-functional organization of the metabolism, we confirm that metabolic networks have a more complex modular organization than the atmospheric networks, but not much more. We interpret the more variegated modular arrangement of metabolism as a trace of evolved functionality. On the other hand, it is quite remarkable how similar the structures of these two types of networks are, which emphasizes that the constraints from the chemical properties of the molecules has a larger influence in shaping the reaction system than does natural selection.

Place, publisher, year, edition, pages
Public Library of Science , 2011. Vol. 6, no 5, e19759- p.
Identifiers
URN: urn:nbn:se:umu:diva-43716DOI: 10.1371/journal.pone.0019759OAI: oai:DiVA.org:umu-43716DiVA: diva2:415543
Funder
Swedish Research Council, 2009-3536
Available from: 2011-05-08 Created: 2011-05-06 Last updated: 2013-09-06Bibliographically approved

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Holme, PetterLee, Sang Hoon
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