ArticlePLoS computational biology2013
Antimicrobial peptides design by evolutionary multiobjective optimization.
Article in PLoS computational biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed, 96 citations in OpenAlex.
- A hepcidin homolog fromVirulence · 2026Article
- A Localization-Based Motif Combination Approach To the Design of Antimicrobial Peptides Targeting Gram-Positive and Gram-Negative Bacteria.Probiotics and antimicrobial proteins · 2026Article
- Antimicrobial peptides-based strategies at the frontline in battling the escalating menace of methicillin-resistant Staphylococcus aureus biofilms.European journal of microbiology & immunology · 2026Review
- From Membrane Composition to Antimicrobial Strategies: Experimental and Computational Approaches to AMP Design and Selectivity.Small (Weinheim an der Bergstrasse, Germany) · 2026Review
- Designing of a novel chimeric antimicrobial peptide againstResearch in pharmaceutical sciences · 2025Article
- AI Methods for Antimicrobial Peptides: Progress and Challenges.Microbial biotechnology · 2025Review
- Enhancing Antimicrobial Peptide Activity through Modifications of Charge, Hydrophobicity, and Structure.International journal of molecular sciences · 2024Review
- Accelerating the Discovery and Design of Antimicrobial Peptides with Artificial Intelligence.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Recent Progress in the Discovery and Design of Antimicrobial Peptides Using Traditional Machine Learning and Deep Learning.Antibiotics (Basel, Switzerland) · 2022Review
- Identification of Bacterial Membrane Selectivity of Romo1-Derived Antimicrobial Peptide AMPR-22 via Molecular Dynamics.International journal of molecular sciences · 2022Article
- A review on antimicrobial peptides databases and the computational tools.Database : the journal of biological databases and curation · 2022Review
- Design of Membrane Active Peptides Considering Multi-Objective Optimization for Biomedical Application.Membranes · 2022Review
- Impact of ANN in Revealing of Viral Peptides.BioMed research international · 2022Article
- Engineering Selectively Targeting Antimicrobial Peptides.Annual review of biomedical engineering · 2021Review
- Machine learning designs non-hemolytic antimicrobial peptides.Chemical science · 2021Article
- Accelerated antimicrobial discovery via deep generative models and molecular dynamics simulations.Nature biomedical engineering · 2021Article
- The lexicon of antimicrobial peptides: a complete set of arginine and tryptophan sequences.Communications biology · 2021Article
- A Safe and Multitasking Antimicrobial Decapeptide: The Road from De Novo Design to Structural and Functional Characterization.International journal of molecular sciences · 2020Article
- Predicting Antimicrobial and Other Cysteine-Rich Peptides in 1267 Plant Transcriptomes.Antibiotics (Basel, Switzerland) · 2020Article
- Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Antimicrobial peptides (AMPs) are an abundant and wide class of molecules produced by many tissues and cell types in a variety of mammals, plant and animal species. Linear alpha-helical antimicrobial peptides are among the most widespread membrane-disruptive AMPs in nature, representing a particularly successful structural arrangement in innate defense. Recently, AMPs have received increasing attention as potential therapeutic agents, owing to their broad activity spectrum and their reduced tendency to induce resistance. The introduction of non-natural amino acids will be a key requisite in order to contrast host resistance and increase compound's life. In this work, the possibility to design novel AMP sequences with non-natural amino acids was achieved through a flexible computational approach, based on chemophysical profiles of peptide sequences. Quantitative structure-activity relationship (QSAR) descriptors were employed to code each peptide and train two statistical models in order to account for structural and functional properties of alpha-helical amphipathic AMPs. These models were then used as fitness functions for a multi-objective evolutional algorithm, together with a set of constraints for the design of a series of candidate AMPs. Two ab-initio natural peptides were synthesized and experimentally validated for antimicrobial activity, together with a series of control peptides. Furthermore, a well-known Cecropin-Mellitin alpha helical antimicrobial hybrid (CM18) was optimized by shortening its amino acid sequence while maintaining its activity and a peptide with non-natural amino acids was designed and tested, demonstrating the higher activity achievable with artificial residues.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.