Intelligent De Novo Design of Novel Antimicrobial Peptides against Antibiotic-Resistant Bacteria Strains.

Tzu-Tang Lin, Li-Yen Yang, Chung-Yen Lin, Ching-Tien Wang, Chia-Wen Lai, Chi-Fong Ko, Yang-Hsin Shih, Shu-Hwa Chen
Author Information
  1. Tzu-Tang Lin: Institute of Information Science, Academia Sinica, Taipei 11529, Taiwan.
  2. Li-Yen Yang: Institute of Information Science, Academia Sinica, Taipei 11529, Taiwan.
  3. Chung-Yen Lin: Institute of Information Science, Academia Sinica, Taipei 11529, Taiwan. ORCID
  4. Ching-Tien Wang: Institute of Information Science, Academia Sinica, Taipei 11529, Taiwan.
  5. Chia-Wen Lai: Department of Agricultural Chemistry, National Taiwan University, Taipei 10617, Taiwan.
  6. Chi-Fong Ko: Department of Agricultural Chemistry, National Taiwan University, Taipei 10617, Taiwan.
  7. Yang-Hsin Shih: Department of Agricultural Chemistry, National Taiwan University, Taipei 10617, Taiwan. ORCID
  8. Shu-Hwa Chen: TMU Research Center of Cancer Translational Medicine, Taipei Medical University, Taipei 110301, Taiwan.

Abstract

Because of the growing number of clinical antibiotic resistance cases in recent years, novel antimicrobial peptides (AMPs) may be ideal for next-generation antibiotics. This study trained a Wasserstein generative adversarial network with gradient penalty (WGAN-GP) based on known AMPs to generate novel AMP candidates. The quality of the GAN-designed peptides was evaluated in silico, and eight of them, named GAN-pep 1-8, were selected by an AMP Artificial Intelligence (AI) classifier and synthesized for further experiments. Disc diffusion testing and minimum inhibitory concentration (MIC) determinations were used to identify the antibacterial effects of the synthesized GAN-designed peptides. Seven of the eight synthesized GAN-designed peptides displayed antibacterial activity. Additionally, GAN-pep 3 and GAN-pep 8 presented a broad spectrum of antibacterial effects and were effective against antibiotic-resistant bacteria strains, such as methicillin-resistant and carbapenem-resistant . GAN-pep 3, the most promising GAN-designed peptide candidate, had low MICs against all the tested bacteria. In brief, our approach shows an efficient way to discover AMPs effective against general and antibiotic-resistant bacteria strains. In addition, such a strategy also allows other novel functional peptides to be quickly designed, identified, and synthesized for validation on the wet bench.

Keywords

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Grants

  1. 108-2314-B-001-002/National Science and technology council, TAIWAN
  2. 108-2321-B-038-003/National Science and technology council, TAIWAN
  3. 110-2320-B-038-087/National Science and technology council, TAIWAN

MeSH Term

Anti-Bacterial Agents
Methicillin-Resistant Staphylococcus aureus
Antimicrobial Peptides
Antimicrobial Cationic Peptides
Artificial Intelligence
Microbial Sensitivity Tests
Bacteria

Chemicals

Anti-Bacterial Agents
Antimicrobial Peptides
Antimicrobial Cationic Peptides

Word Cloud

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