Bioinformatics Approaches Applied to the Discovery of Antifungal Peptides
Abstract
:1. Introduction
2. Results and Discussions
3. Materials and Methods
4. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Computational Resources | Utility | Discussion | References |
---|---|---|---|
APD | Reference site for AFPs | Complete database | [11] |
PlantAFP | Repository for plant-derived AFPs | Complete database | [17] |
Polarity Index | Identification of AFPs | More suitable for bacteria than fungi; efficiency > 90% | [20] |
In-house method | AFP classification and prediction | Positive validation assays performed in vitro for peptides with high antifungal prediction score (>0.95) | [22] |
In-house method | Identification of AFP sequences from P. brasiliensis and H. sapiens | Four highest-scoring peptides were selected in silico and checked in vitro; two peptides had weak antifungal activity against Candida albicans | [30] |
In-house method | Identification of AFP sequences from C. calcarifer | Antimicrobial activity against C. albicans found in three synthetic peptides | [33] |
In-house method | Discovery of AFPs produced naturally by prokaryotes and eukaryotes | Review of some AFPs produced in mammals, birds, insects, amphibians, and microbes based on their structural characterization | [42] |
Antifp | Class-specific prediction web server for AFPs | Differentiates with good accuracy between sequences that are very similar in identity but possess different activities | [45] |
PhytoAFP | Web prediction server | Prediction and design of plant-derived antifungal peptides | [6] |
In-house method | Mechanism-of-action analysis of antifungal agents | In silico assays (molecular docking and dynamics simulations) indicated that cell wall and membrane of C. albicans are targeted by Mo-CBP3-PepIII | [53] |
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Rodríguez-Cerdeira, C.; Molares-Vila, A.; Sánchez-Cárdenas, C.D.; Velásquez-Bámaca, J.S.; Martínez-Herrera, E. Bioinformatics Approaches Applied to the Discovery of Antifungal Peptides. Antibiotics 2023, 12, 566. https://doi.org/10.3390/antibiotics12030566
Rodríguez-Cerdeira C, Molares-Vila A, Sánchez-Cárdenas CD, Velásquez-Bámaca JS, Martínez-Herrera E. Bioinformatics Approaches Applied to the Discovery of Antifungal Peptides. Antibiotics. 2023; 12(3):566. https://doi.org/10.3390/antibiotics12030566
Chicago/Turabian StyleRodríguez-Cerdeira, Carmen, Alberto Molares-Vila, Carlos Daniel Sánchez-Cárdenas, Jimmy Steven Velásquez-Bámaca, and Erick Martínez-Herrera. 2023. "Bioinformatics Approaches Applied to the Discovery of Antifungal Peptides" Antibiotics 12, no. 3: 566. https://doi.org/10.3390/antibiotics12030566