132ea214ae8baea2b79cdf61e859590d ramos-llorens-et-al-2024-pyampa-a-high-throughput-prediction-and-optimization-tool-for-antimicrobial-peptides.pdf ff2d543f365ea69066e22c0d7ddf329b27722382 ramos-llorens-et-al-2024-pyampa-a-high-throughput-prediction-and-optimization-tool-for-antimicrobial-peptides.pdf 65e1124106f997abf1a3e6c49d5b8adf059cf80fa37db541055f98735fe5222e ramos-llorens-et-al-2024-pyampa-a-high-throughput-prediction-and-optimization-tool-for-antimicrobial-peptides.pdf Title: PyAMPA: a high-throughput prediction and optimization tool for antimicrobial peptides Subject: mSystems 2024.9:e01358-23 Keywords: antimicrobial peptide Author: Marc Ramos-Llorens, Roberto Bello-Madruga, Javier Valle, David Andreu, Marc Torrent Creator: Antenna House XSL Formatter V7.4 R1 Linux : 7.4.1.63121 (2023-12-20T11:05+09) Producer: Antenna House PDF Output Library 7.4.1889; modified using iText 4.2.0 by 1T3XT CreationDate: Fri Jul 12 08:08:19 2024 CEST ModDate: Thu Feb 20 19:34:05 2025 CET Custom 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CYQVUH+MyriadPro-Regular Flags: Nonsymbolic FontBBox: -157, -250, 1126, 952 FontFile3: true EncodingDictionary: Differences: true ToUnicode: true Font: BaseFont: CYQVUH+MyriadPro-Semibold FontSubset: true FirstChar: 32 LastChar: 130 FontDescriptor: FontName: CYQVUH+MyriadPro-Semibold Flags: Nonsymbolic FontBBox: -161, -250, 1198, 973 FontFile3: true EncodingDictionary: Differences: true ToUnicode: true XMP: application/pdfPyAMPA: a high-throughput prediction and optimization tool for antimicrobial peptidesmSystems01358-23Marc Ramos-LlorensRoberto Bello-MadrugaJavier ValleDavid AndreuMarc TorrentMarc Ramos-LlorensRoberto Bello-MadrugaJavier ValleDavid AndreuMarc TorrentAmerican Society for MicrobiologyCopyright © 2024 Ramos-Llorens et al.This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.20242023The alarming rise of antibiotic-resistant bacterial infections is driving efforts to develop alternatives to conventional antibiotics. In this context, antimicrobial peptides (AMPs) have emerged as promising candidates for their ability to target a broad range of microorganisms. However, the development of AMPs with optimal potency, selectivity, and/or stability profiles remains a challenge. To address it, computational tools for predicting AMP properties and designing novel peptides have gained increasing attention. PyAMPA is a novel platform for AMP discovery. It consists of five modules, namely AMPScreen, AMPValidate, AMPSolve, AMPMutate, and AMPOptimize, that allow high-throughput proteome inspection, candidate screening, and optimization through point-mutation and genetic algorithms. The platform also offers additional tools for predicting and evaluating AMP properties, including antimicrobial and cytotoxic activity, and peptide half-life. By providing innovative and accessible inroads into AMP motifs in proteomes, PyAMPA will enable advances in AMP development and potential translation into clinically useful molecules. 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