Analysis of metabolic functionality and thermodynamic feasibility of a metagenomic sample from "El Coquito" hot spring

Maria A. Zamora, Andres Pinzón, Maria M. Zambrano, Silvia Restrepo, Linda J Broadbelt, Matthew Moura, Andrés Fernando González Barrios

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

The study of metagenomic samples is crucial for understanding microbial communities. In this study, genomic samples of the "El Coquito" hot spring were analysed to identify their metabolic functionality, the thermodynamic restrictions and the influence of biogeochemical cycles. The metabolic functionality was determined assigning reactions and enzymes to the metabolic routes. To determinate the reversibility of the reactions we used the group contribution method. We also performed a topological analysis of the network. We found a total amount of 1930 reactions and 130 metabolic pathways. It was determined that at a pH of 3 there was 256 irreversible reactions and that the reactions involved in energy metabolism belonged to Carbon Fixation, Nitrogen and ammonia assimilation, and sulphur reduction. We found that the "El Coquito" metabolic network is a free scale network and that the clustering coefficients vary if the thermodynamic restrictions are included.

Original languageEnglish (US)
Title of host publicationAdvances in Computational Biology - Proceedings of the 2nd Colombian Congress on Computational Biology and Bioinformatics CCBCOL 2013
PublisherSpringer Verlag
Pages287-293
Number of pages7
ISBN (Print)9783319015675
DOIs
StatePublished - Jan 1 2014
Event2nd Colombian Congress on Computational Biology and Bioinformatics, CCBCOL 2013 - Manizales, Colombia
Duration: Sep 25 2013Sep 27 2013

Publication series

NameAdvances in Intelligent Systems and Computing
Volume232
ISSN (Print)2194-5357

Other

Other2nd Colombian Congress on Computational Biology and Bioinformatics, CCBCOL 2013
CountryColombia
CityManizales
Period9/25/139/27/13

Keywords

  • Metabolic reconstruction
  • Network topology
  • Thermodynamic restrictions

ASJC Scopus subject areas

  • Control and Systems Engineering
  • Computer Science(all)

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