De Novo Assembly and Annotation for Goat Rumen Bacterial and Fungal Metagenomes
TimeTuesday, July 246:30pm - 8:30pm
DescriptionGoat’s rumen contains rich resources of microbes for the degradation of various lignocellulosic biomass. These microorganisms are responsible for breaking down those cellulosic polymers into simple sugar to be used by the host animals. To study those un-culturable microbes in the goat rumen and valuable genes involved in the biological processing, metagenome DNA was extracted from meat goat’s rumen fluid and paired-end sequencing was performed.
This work outlines our experience assembling and annotating this goat metagenomic data de novo. We describe our experience producing assemblies on both High Performance Computing Systems and Local Computing Clusters using different assembly and annotation methods. We discuss the tradeoffs encountered and compare and contrast the results using common metrics.
Our final objectives are the identification of microbial populations in the goat rumen microenvironment and the identification of useful genes from that environment that have the potential to be developed into useful industrial biomolecules. From this work we have identified several cellulose gene fragments that were cloned and deposited into the public database. We conclude that additional data would be beneficial to provide a more complete view of the goat rumen metagenomic community.