The discovery and testing of novel antimicrobials for swine health - Ontario Pork - Completed Research
Sunday, May 26, 2024
    

Completed Research

Ontario Pork has a call for research proposals once a year. These projects were approved for funding by the board on recommendation of the research committee. If you have questions or need further information about the research posted here please contact Jessica Fox at [email protected]


Completed Research

The discovery and testing of novel antimicrobials for swine health

The discovery and testing of novel antimicrobials for swine health

Project 16-008 - Lead Researcher: Chris Gray

Dr. Chris Gray, University of Guelph
Novel antimicrobials for swine health

The main goal of the project has been to enhance the performance and reduce the toxicity of a novel synthetic AMP (HHC-36), employ machine learning (ML) methods for discovering new, more potent antimicrobial peptides and to determine the hemolytic activity of these AMPs.

To that end, we aimed at exploring the extent to which publicly available data on antimicrobial peptides (AMPs) can be utilized using the state of the art models and training algorithms in machine learning (ML) to yield predictors that can screen any peptide sequence for their antimicrobial activity. Within this project we collected datasets on some pathogens of interest to the pork industry, performed ML trainings on best of the available models for this purpose, optimized the design (hyperparameters) of these models and explored the limits of the training using the currently available data.

We determined the asymptotic limits of the training scores for the graph convolutional models we employed on the available data. Within a mostly uncharted territory, these training results set one of the very first machine learning results on quantitatively predicting antimicrobial activity of AMPs. What is more, our results show a clear correlation between the dataset size and the final training score.

These results set the stage for next round of studies, globally and within Canada, where targeted AMP library screening can be performed with the aim of usability by ML models.

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