ArticlePloS one2013
Relative amino acid composition signatures of organisms and environments.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed.
- Branched-chain amino acids and gut microbiota: coregulation and impact on neurological function via the gut-brain axis.Gut microbes · 2026Review
- A Scalable Design for Proximity-Inducing Molecules.bioRxiv : the preprint server for biology · 2026Article
- Single-cell heterotrophic activity in deep-ocean prokaryotic communities quantified by BONCAT and microautoradiography.ISME communications · 2026Article
- Branched-chain amino acids in muscle growth: mechanisms, physiological functions, and applications.Journal of animal science and biotechnology · 2025Review
- Comparative genomic analysis of underutilized legumes: insights into evolutionary relationships, genome evolution and stress tolerance.Biotechnology reports (Amsterdam, Netherlands) · 2025Article
- Distinct codon usage signatures reflecting evolutionary and pathogenic adaptation in the Acinetobacter baumannii complex.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2025Article
- Isolation of Underivatized Amino Acids for Radiocarbon Analysis Using a Porous Graphite Column.Analytical chemistry · 2025Article
- The molecular mechanisms of defensive-grade organic acid biosynthesis in ground beetles.Insect molecular biology · 2025Article
- OptimizedMicrobiology spectrum · 2025Article
- Genomic AT Bias Coupled with Amino Acid Metabolism Modulates Codon Usage.Journal of molecular evolution · 2025Article
- Residue-Specific Incorporation of Noncanonical Amino Acids in Auxotrophic Hosts:Chemical reviews · 2025Review
- Metabolic Adaptations and Therapies in Cardiac Hypoxia: Mechanisms and Clinical Implications/ Potential Strategies.JACC. Basic to translational science · 2025Review
- Does metabolic rate influence genome-wide amino acid composition in the course of animal evolution?Evolution letters · 2025Article
- Review
- 50 Years of Organoselenium Chemistry, Biochemistry and Reactivity: Mechanistic Understanding, Successful and Controversial Stories.Chemistry (Weinheim an der Bergstrasse, Germany) · 2024Review
- Identification of putative allosteric inhibitors of BCKDK via virtual screening and biological evaluation.Journal of enzyme inhibition and medicinal chemistry · 2024Article
- Omics data analysis reveals the system-level constraint on cellular amino acid composition.Synthetic and systems biotechnology · 2024Article
- Peptide and Protein Desulfurization with Diboron Reagents.Organic letters · 2024Article
- The MetaInvert soil invertebrate genome resource provides insights into below-ground biodiversity and evolution.Communications biology · 2023Article
- Metabolic exchanges are ubiquitous in natural microbial communities.Nature microbiology · 2023Review
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
backgroundIdentifying organism-environment interactions at the molecular level is crucial to understanding how organisms adapt to and change the chemical and molecular landscape of their habitats. In this work we investigated whether relative amino acid compositions could be used as a molecular signature of an environment and whether such a signature could also be observed at the level of the cellular amino acid composition of the microorganisms that inhabit that environment. METHODOLOGIES/PRINCIPAL
findingsTo address these questions we collected and analyzed environmental amino acid determinations from the literature, and estimated from complete genomic sequences the global relative amino acid abundances of organisms that are cognate to the different types of environment. Environmental relative amino acid abundances clustered into broad groups (ocean waters, host-associated environments, grass land environments, sandy soils and sediments, and forest soils), indicating the presence of amino acid signatures specific for each environment. These signatures correlate to those found in organisms. Nevertheless, relative amino acid abundance of organisms was more influenced by GC content than habitat or phylogeny.
conclusionsOur results suggest that relative amino acid composition can be used as a signature of an environment. In addition, we observed that the relative amino acid composition of organisms is not highly determined by environment, reinforcing previous studies that find GC content to be the major factor correlating to amino acid composition in living organisms.
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