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Technical Assessment: Metagenomics Approaches
7
Environmental
Samples
Bacteria
Community
DNA
Amplicon
(16S rRNA gene PCR)
Metagenomics
Targeted
(species)
Whole genome
(species)
FOR OFFICIAL USE ONLY
Technical Assessment: Sequencing Comparison
8
Targeted Methods (amplicon
or enrichment)
Shotgun Metagenomics
Cost
• Cheaper
• Expensive
Bioinformatics
• Signature selection and
PCR design
• Analysis
• Database construction
• Database screening
Bias
• All methods biased in some
way
• Based on target selected
• Need to minimize PCR or
hybridization bias
• Minimally biased
Focus
• Operational Suitability
• DHS S&T (research)