Guidelines for the Analysis of DNA Barcoding/Metabarcoding Sequencing Data and Interpretation of Publicly Available Databases

Natalie Damaso; Kyleen E Elwick; James M Robertson

doi:10.1007/978-1-0716-3581-0_25

Guidelines for the Analysis of DNA Barcoding/Metabarcoding Sequencing Data and Interpretation of Publicly Available Databases

Methods Mol Biol. 2024:2744:391-402. doi: 10.1007/978-1-0716-3581-0_25.

Authors

Natalie Damaso¹, Kyleen E Elwick², James M Robertson³

Affiliations

¹ Counter WMD Systems, Massachusetts Institute of Technology, Lincoln Laboratory, Lexington, MA, USA.
² Research & Support Unit, Laboratory Division, Federal Bureau of Investigation, Quantico, VA, USA.
³ Research & Support Unit, Laboratory Division, Federal Bureau of Investigation, Quantico, VA, USA. jmrobertson@fbi.gov.

PMID: 38683333
DOI: 10.1007/978-1-0716-3581-0_25

Abstract

This chapter describes procedures for the use of DNA sequence data to obtain and compare taxonomic identification using the public databases GenBank and Barcode of Life Data System (BOLD). The chapter begins by describing procedures used to prepare quality sequences for uploading into GenBank and BOLD. Next, steps used to query the DNA sequences against the public databases are described using GenBank BLAST and BOLD identification engines. Interpretation guidelines for the taxonomic identification assignments are presented. Finally, a procedure for evaluating the accuracy and reliability of sequences from GenBank and BOLD is provided.

Keywords: BOLD; GenBank; Sequence quality; Species identification; Taxonomic characterization.

MeSH terms

Computational Biology / methods
DNA Barcoding, Taxonomic* / methods
Databases, Genetic
Databases, Nucleic Acid*
Sequence Analysis, DNA / methods
Software