By Bethan Littleford-Colquhoun
A huge debt of gratitude to Beth for organizing a google drive folder that shares our strategy for initial processing of dietary DNA metabarcoding data. This directory provides template documents and code that we use to download paired-end read data from our dietary metabarcoding workflows, assemble forward and reverse reads, perform initial quality controls, and evaluate sequencing success. There is also a tutorial for how to upload sample data to SRA for archiving, which we have started to do routinely. Some details are specific to our dietary analysis sequencing workflow and/or the specific sequencing service that we use, plus we have particular sample naming schemes that we use, but it should be pretty straightforward to adapt for a variety of similar goals.
By Hannah Hoff
We have been doing a lot of plant DNA barcoding to build a library for the plants of the Greater Yellowstone Ecosystem. In the process, we have done some refinement to our lab's DNA barcoding protocols to increase clarity, efficiency, and reproducibility. Updated links to these protocols are available on the lab's wiki under the "Plant Barcoding" section for: trnL, rbcL, matK, and trnH-psbA markers.
Computational resources kindly contributed and explained by members of our community.