ArticlePLoS computational biology2012
The impact of oxygen on metabolic evolution: a chemoinformatic investigation.
Article in PLoS computational biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- A synthetic ERFVII-dependent circuit in yeast sheds light on the regulation of early hypoxic responses of plants.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Physicochemical Foundations of Life that Direct Evolution: Chance and Natural Selection are not Evolutionary Driving Forces.Life (Basel, Switzerland) · 2020Article
- A power law distribution of metabolite abundance levels in mice regardless of the time and spatial scale of analysis.Scientific reports · 2018Article
- One step beyond a ribosome: The ancient anaerobic core.Biochimica et biophysica acta · 2016Review
- Shared Genetic Signals of Hypoxia Adaptation in Drosophila and in High-Altitude Human Populations.Molecular biology and evolution · 2016Article
- The proportion of genes in a functional category is linked to mass-specific metabolic rate and lifespan.Scientific reports · 2015Article
- PhIN: A Protein Pharmacology Interaction Network Database.CPT: pharmacometrics & systems pharmacology · 2015Article
- Computing the origin and evolution of the ribosome from its structure - Uncovering processes of macromolecular accretion benefiting synthetic biology.Computational and structural biotechnology journal · 2015Review
- Nonenzymatic Reactions above Phospholipid Surfaces of Biological Membranes: Reactivity of Phospholipids and Their Oxidation Derivatives.Oxidative medicine and cellular longevity · 2015Review
- A calibrated chronology of biochemistry reveals a stem line of descent responsible for planetary biodiversity.Frontiers in genetics · 2014Article
- Limited influence of oxygen on the evolution of chemical diversity in metabolic networks.Metabolites · 2013Article
- Structural phylogenomics reveals gradual evolutionary replacement of abiotic chemistries by protein enzymes in purine metabolism.PloS one · 2013Article
- Current understanding of the formation and adaptation of metabolic systems based on network theory.Metabolites · 2012Article
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Authors and funding
6 authors.
Funding
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Abstract
The appearance of planetary oxygen likely transformed the chemical and biochemical makeup of life and probably triggered episodes of organismal diversification. Here we use chemoinformatic methods to explore the impact of the rise of oxygen on metabolic evolution. We undertake a comprehensive comparative analysis of structures, chemical properties and chemical reactions of anaerobic and aerobic metabolites. The results indicate that aerobic metabolism has expanded the structural and chemical space of metabolites considerably, including the appearance of 130 novel molecular scaffolds. The molecular functions of these metabolites are mainly associated with derived aspects of cellular life, such as signal transfer, defense against biotic factors, and protection of organisms from oxidation. Moreover, aerobic metabolites are more hydrophobic and rigid than anaerobic compounds, suggesting they are better fit to modulate membrane functions and to serve as transmembrane signaling factors. Since higher organisms depend largely on sophisticated membrane-enabled functions and intercellular signaling systems, the metabolic developments brought about by oxygen benefit the diversity of cellular makeup and the complexity of cellular organization as well. These findings enhance our understanding of the molecular link between oxygen and evolution. They also show the significance of chemoinformatics in addressing basic biological questions.
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