Analysis examples

Please feel free to add your example data analysis using mothur to the wiki and add the link below.

Pyrosequencing 16S rRNA sequence analysis

• Schloss's MiSeq SOP - Contributed by Pat Schloss
• Schloss's 454 SOP - Contributed by Pat Schloss - This is the method used in the Schloss et al. PLoS ONE paper.
• Costello stool analysis - Contributed by Pat Schloss [Only for historical reference]
• Sogin data analysis - Contributed by Pat Schloss [Only for historical reference]
• Pyrosequences from deep anoxic cenotes - Contributed by Jason Sahl [Only for historical reference]
• Characterizing community composition along a transect of hypersaline sediments - Contributed by Emily B. Hollister[Only for historical reference]

Sanger 16S rRNA sequence analysis

• Esophageal community analysis - Contributed by Pat Schloss[Only for historical reference]
• Marine community analysis - Contributed by Donovan Parks
• Agricultural soil community analysis - Contributed by Martin Hartmann
• The effects of eutrophication on the structure of bacterial biofilms - Contributed by David J Van Horn

Sanger 16S-ITS rRNA sequence analysis

• Forest soil community analysis - Contributed by Martin Hartmann

Protein-coding gene analysis

• Analysis of the aclB gene in a hot spring: a non-16S rRNA gene example - Contributed by Justine Hall
• Pyrosequencing of functional genes - basic data processing, comparing alignment strategies, and integrating mothur output with ARB - Contributed by Brian Oakley
• Analysis of coxL richness in relation to total community richness across a succession gradient on Kilauea Volcano - Contributed by Carolyn F. Weber

Viral sequence analysis

• Analyzing H1N1 swine-origin Influenza A isolates - Contributed by Donovan Parks

Other

• Limits of T-RFLP fingerprinting of microbial communities - Contributed by Blaz Stres (under construction)
• Finding/Extracting sequences and manipulating sequence names for analysis - Contributed by Ryan Lesniewski (under construction)