Data Mining of Groundwater to Identify MAGs with Methane, Propane and Toluene Monooxygenases
- Department of Civil and Environmental Engineering, Michigan State University, East Lansing, MI, USA
Whole genome sequencing datasets, involving more than 600 groundwater samples, from nine countries, were analyzed to identify metagenome assembled genomes (MAGs) containing full operons for propane monooxygenase, soluble methane monooxygease, toluene monooxygenase and particulate ammonia/methane monooxygenase. The enzymes encoded by these genes are a focus of interest because of their ability to degrade common groundwater contaminants. Due to the large amount of data, sequence analyses involved more than 80 individual KBase narratives. The approach followed the KBase tutorial called "Metagenome-Assembled Genome Extraction from a Compost Microbiome Enrichment" The generated MAGs were exported from each individual narrative into separate summary KBase narratives for each monooxygenase. Three KBase narratives were generated for particulate ammonia/methane monooxygenase, due to the large number of MAGs identified.
- Research Organization:
- U.S. Department of Energy Systems Biology Knowledgebase (KBASE)
- Sponsoring Organization:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- DOE Contract Number:
- AC02-05CH11231; AC02-06CH11357; AC05-00OR22725; AC02-98CH10886
- OSTI ID:
- 3013398
- Report Number(s):
- 242870
- Country of Publication:
- United States
- Language:
- English
Similar Records
KBase Silver Case Study: Determining Media Formulation Requirements for Isolation of Microbiome Constituents
Genome Extraction from Shotgun Metagenome Sequence Data