Integrating AI and Taxonomy-Free Classification for Enhanced Microbiome Analysis of One Health Environments

Revolutionizing Microbiome Research for One Health

Scientific Background

In a world where human, animal, and environmental health are deeply interconnected, understanding microbiomes is crucial. The One Health concept highlights the need for integrated approaches to tackle global health challenges. This project is timely and vital as it aims to bridge the gaps in microbiome analysis, making it more accessible and accurate. By focusing applying AI approaches to 16S rRNA-based analysis, the project seeks to overcome the high costs and limitations of traditional shotgun sequencing, paving the way for better health outcomes across all species.

Research Methodology

The student will be at the forefront of innovative research, working within the Creevey lab at Queen's University Belfast (QUB) and collaborating with the Zheng lab at Ulster University (UU). The project involves linking pangenome profiles of available genomes to unique numerical identifiers from an existing database. The student will explore and implement various machine learning (ML) techniques, such as ensemble learning and graph-based approaches, to predict pangenomic profiles from these identifiers. Additionally, they will compare this new approach to existing methods and apply the models to real-world 16S rRNA data from diverse microbiomes, including agriculture, human, and wastewater environments.

Training

The successful candidate will gain hands-on experience in cutting-edge microbial genomics and AI methodologies. They will have access to extensive datasets, including terabytes of amplicon (16S rRNA) and shotgun sequencing data. The project offers a unique opportunity to develop skills in advanced ML techniques, data analysis, and microbiome research. Supported by the expertise of the Creevey and Zheng labs, the student will be well-equipped to make significant contributions to the field of One Health microbiomes, enhancing their career prospects in both academia and industry.

Join us in this exciting journey to revolutionize microbiome research and improve global health outcomes!

 

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