Improving sustainable use of genetic resources in biodiversity archives
AffiliationUniv Arizona, Dept Ecol & Evolutionary Biol
MetadataShow full item record
CitationTuschhoff EJ, Hutter CR, Glor RE. 2020. Improving sustainable use of genetic resources in biodiversity archives. PeerJ 8:e8369 https://doi.org/10.7717/peerj.8369
RightsCopyright © 2020 Tuschhoff et al.
Collection InformationThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at email@example.com.
AbstractTissue sample databases housed in biodiversity archives represent a vast trove of genetic resources, and these tissues are often destructively subsampled and provided to researchers for DNA extractions and subsequent sequencing. While obtaining a sufficient quantity of DNA for downstream applications is vital for these researchers, it is also important to preserve tissue resources for future use given that the original material is destructively and consumptively sampled with each use. It is therefore necessary to develop standardized tissue subsampling and loaning procedures to ensure that tissues are being used efficiently. In this study, we specifically focus on the efficiency of DNA extraction methods by using anuran liver and muscle tissues maintained at a biodiversity archive. We conducted a series of experiments to test whether current practices involving coarse visual assessments of tissue size are effective, how tissue mass correlates with DNA yield and concentration, and whether the amount of DNA recovered is correlated with sample age. We found that tissue samples between 2 and 8 mg resulted in the most efficient extractions, with tissues at the lower end of this range providing more DNA per unit mass and tissues at the higher end of this range providing more total DNA. Additionally, we found no correlation between tissue age and DNA yield. Because we find that even very small tissue subsamples tend to yield far more DNA than is required by researchers for modern sequencing applications (including whole genome shotgun sequencing), we recommend that biodiversity archives consider dramatically improving sustainable use of their archived material by providing researchers with set quantities of extracted DNA rather than with the subsampled tissues themselves.
NoteOpen access journal
VersionFinal published version
- Opportunities and challenges for high-quality biodiversity tissue archives in the age of long-read sequencing.
- Authors: Blom MPK
- Issue date: 2021 Dec
- DNA extraction from archived hematoxylin and eosin-stained tissue slides for downstream molecular analysis.
- Authors: Ramesh PS, Madegowda V, Kumar S, Narasimha S, S R P, Manoli NN, Devegowda D
- Issue date: 2019 Nov 14
- Global Genome Biodiversity Network: saving a blueprint of the Tree of Life - a botanical perspective.
- Authors: Seberg O, Droege G, Barker K, Coddington JA, Funk V, Gostel M, Petersen G, Smith PP
- Issue date: 2016 Sep
- Determining the utility of veterinary tissue archives for retrospective DNA analysis.
- Authors: Abed FM, Dark MJ
- Issue date: 2016
- DNA sequencing of formalin-fixed crustaceans from archival research collections.
- Authors: France SC, Kocher TD
- Issue date: 1996 Dec