Chapter 5 DNA Barcoding Amphibians and Reptiles

Parker M, Stones-Havas S, Starger C, Meyer C, Parker, Meaghan, Stones-Havas, Steven, Starger, Craig, Meyer, Christopher, Meaghan Parker, Steven Stones-Havas, Craig Starger, Christopher Meyer

In the field of molecular biology, laboratory information management systems (LIMSs) have been created to track workflows through a process pipeline. For the purposes of DNA barcoding, this workflow involves tracking tissues through extraction, PCR, cycle sequencing, and consensus assembly. Importantly, a LIMS that serves the DNA barcoding community must link required elements for public submissions (e.g., primers, trace files) that are generated in the molecular lab with specimen metadata. Here, we demonstrate an example workflow of a specimen's entry into the LIMS database to the publishing of the specimen's genetic data to a public database using Geneious bioinformatics software. Throughout the process, the connections between steps in the workflow are maintained to facilitate post-processing annotation, structured reporting, and fully transparent edits to reduce subjectivity and increase repeatability.