SGMFQP:An Ontology-based Swine Gut Microbiota Federated Query Platform

TL;DR

This paper introduces SGMFQP, an ontology-based federated query platform that enables efficient, automated retrieval of swine gut microbiota data across multiple heterogeneous sources, aiding feed efficiency research.

Contribution

It presents a novel ontology-driven system with a template-based interface and a Datalog+-based engine for seamless, automated federated querying of swine microbiota data.

Findings

Demonstrated system efficiency on swine feeding scenarios

Enabled automated, multi-source data retrieval

Improved query accuracy and convenience

Abstract

Gut microbiota plays a crucial role in modulating pig development and health, and gut microbiota characteristics are associated with differences in feed efficiency. To answer open questions in feed efficiency analysis, biologists seek to retrieve information across multiple heterogeneous data sources. However, this is error-prone and time-consuming work since the queries can involve a sequence of multiple sub-queries over several databases. We present an implementation of an ontology-based Swine Gut Microbiota Federated Query Platform (SGMFQP) that provides a convenient, automated, and efficient query service about swine feeding and gut microbiota. The system is constructed based on a domain-specific Swine Gut Microbiota Ontology (SGMO), which facilitates the construction of queries independent of the actual organization of the data in the individual sources. This process is supported by a template-based query interface. A Datalog+-based federated query engine transforms the queries into sub-queries tailored for each individual data source, and an automated workflow orchestration mechanism executes the queries in each source database and consolidates the results. The efficiency of the system is demonstrated on several swine feeding scenarios.