Enhancing DNA barcode reference libraries by harvesting terrestrial arthropods at the Smithsonian's National Museum of Natural History

• Published in: Biodiversity data journal Vol. 11; p. e100904
• Main Authors: Santos, Bernardo F, Miller, Meredith E, Miklasevskaja, Margarita, McKeown, Jaclyn T A, Redmond, Niamh E, Coddington, Jonathan A, Bird, Jessica, Miller, Scott E, Smith, Ashton, Brady, Seán G, Buffington, Matthew L, Chamorro, M Lourdes, Dikow, Torsten, Gates, Michael W, Goldstein, Paul, Konstantinov, Alexander, Kula, Robert, Silverson, Nicholas D, Solis, M Alma, deWaard, Stephanie L, Naik, Suresh, Nikolova, Nadya, Pentinsaari, Mikko, Prosser, Sean W J, Sones, Jayme E, Zakharov, Evgeny V, deWaard, Jeremy R
• Format: Journal Article
• Language: English
• Published: Bulgaria Pensoft Publishers 24.04.2023
• Subjects: Arthropoda; Arthropods; BINs; Biodiversity; COI; cox1; dark taxa; DNA barcoding; Genera; Genomes; Museums; natural history; Next-generation sequencing; Nucleotide sequence; OTUs; Taxonomy; BINs; dark taxa; National Museum of Natural History; OTUs; Centre for Biodiversity Genomics; CBG; USNM; cox1; COI; natural history collection; museum harvesting
• ISSN: 1314-2828; 1314-2836; 1314-2828
• DOI: 10.3897/BDJ.11.E100904

The use of DNA barcoding has revolutionised biodiversity science, but its application depends on the existence of comprehensive and reliable reference libraries. For many poorly known taxa, such reference sequences are missing even at higher-level taxonomic scales. We harvested the collections of the Smithsonian's National Museum of Natural History (USNM) to generate DNA barcoding sequences for genera of terrestrial arthropods previously not recorded in one or more major public sequence databases. Our workflow used a mix of Sanger and Next-Generation Sequencing (NGS) approaches to maximise sequence recovery while ensuring affordable cost. In total, COI sequences were obtained for 5,686 specimens belonging to 3,737 determined species in 3,886 genera and 205 families distributed in 137 countries. Success rates varied widely according to collection data and focal taxon. NGS helped recover sequences of specimens that failed a previous run of Sanger sequencing. Success rates and the optimal balance between Sanger and NGS are the most important drivers to maximise output and minimise cost in future projects. The corresponding sequence and taxonomic data can be accessed through the Barcode of Life Data System, GenBank, the Global Biodiversity Information Facility, the Global Genome Biodiversity Network Data Portal and the NMNH data portal.