DNA barcodes from century-old type specimens using next-generation sequencing
Citation
Prosser S W J, deWaard J R, Miller S E, Hebert P D N (2017). DNA barcodes from century-old type specimens using next-generation sequencing. Institute of Biodiversity, Animal Health and Comparative Medicine, College of Medical, Veterinary and Life Sciences, University of Glasgow. Occurrence dataset https://doi.org/10.5883/ds-ngstypes accessed via GBIF.org on 2024-08-25.Description
Type specimens have high scientific importance because they provide the only certain connection between the application of a Linnean name and a physical specimen. Many other individuals may have been identified as a particular species, but their linkage to the taxon concept is inferential. Because type specimens are often more than a century old and have experienced conditions unfavourable for DNA preservation, success in sequence recovery has been uncertain. This study addresses this challenge by employing next-generation sequencing (NGS) to recover sequences for the barcode region of the cytochrome c oxidase 1 gene from small amounts of template DNA. DNA quality was first screened in more than 1800 century-old type specimens of Lepidoptera by attempting to recover 164-bp and 94-bp reads via Sanger sequencing. This analysis permitted the assignment of each specimen to one of three DNA quality categories – high (164-bp sequence), medium (94-bp sequence) or low (no sequence). Ten specimens from each category were subsequently analysed via a PCR-based NGS protocol requiring very little template DNA. It recovered sequence information from all specimens with average read lengths ranging from 458 bp to 610 bp for the three DNA categories. By sequencing ten specimens in each NGS run, costs were similar to Sanger analysis. Future increases in the number of specimens processed in each run promise substantial reductions in cost, making it possible to anticipate a future where barcode sequences are available from most type specimens.Taxonomic Coverages
Geographic Coverages
Bibliographic Citations
- Prosser, S. W. J., deWaard, J. R., Miller, S. E., & Hebert, P. D. N. (2015, October 26). DNA barcodes from century-old type specimens using next-generation sequencing. Molecular Ecology Resources. Wiley-Blackwell. https://doi.org/10.1111/1755-0998.12474 - http://doi.org/10.1111/1755-0998.12474
- Prosser, S. W. J., DeWaard, J. R., Miller, S. E., & Hebert, P. D. N. (2015). Data from: DNA barcodes from century-old type specimens using next generation sequencing (Version 1) [Data set]. Dryad Digital Repository. https://doi.org/10.5061/dryad.n1cg7 - http://dx.doi.org/10.5061/dryad.n1cg7
- DNA barcodes from century-old type specimens using next-generation sequencing. http://dx.doi.org/10.5883/DS-NGSTYPES - http://dx.doi.org/10.5883/DS-NGSTYPES
Contacts
Sean W. J. Prosseroriginator
Jeremy R. deWaard
originator
Scott E. Miller
originator
userId: http://orcid.org/0000-0002-4138-1378
Paul D. N. Hebert
originator
userId: http://orcid.org/0000-0002-3081-6700
Roderic D. M. Page
processor
University of Glasgow
email: Roderic.Page@glasgow.ac.uk
userId: http://orcid.org/0000-0002-7101-9767