SPARQL Reasoning Using An Aligned Ontology In Jena

If I have an aligned ontology in my hand that corresponds to a RDF graph in Jena, how can I issue SPARQL query to the RDF store through Jena such that inferences will be made with respect to the supplied ontology?(i.e my ontology file and RDF files are seperate, but I would like to use the knowledge in ontology for any SPARQL queries issued through Jena)