dc.contributor.author | Delavaux, Camille S. | |
dc.contributor.author | Bever, James D. | |
dc.contributor.author | Karppinen, Erin M. | |
dc.contributor.author | Bainard, Luke D. | |
dc.date.accessioned | 2020-09-14T14:25:00Z | |
dc.date.available | 2020-09-14T14:25:00Z | |
dc.date.issued | 2020-03-31 | |
dc.identifier.citation | Delavaux, C.S., Bever, J.D., Karpinnen, E., Bainard, L. (2020) Keeping it cool: Soil sample cold pack storage and DNA shipment up to one month does not impact metabarcoding results. Ecology and Evolution DOI: 10.1002/ece3.6219 | en_US |
dc.identifier.uri | http://hdl.handle.net/1808/30729 | |
dc.description | A grant from the One-University Open Access Fund at the University of Kansas was used to defray the author's publication fees in this Open Access journal. The Open Access Fund, administered by librarians from the KU, KU Law, and KUMC libraries, is made possible by contributions from the offices of KU Provost, KU Vice Chancellor for Research & Graduate Studies, and KUMC Vice Chancellor for Research. For more information about the Open Access Fund, please see http://library.kumc.edu/authors-fund.xml. | en_US |
dc.description.abstract | With the advances of sequencing tools, the fields of environmental microbiology and soil ecology have been transformed. Today, the unculturable majority of soil microbes can be sequenced. Although these tools give us tremendous power and open many doors to answer important questions, we must understand how sample processing may impact our results and interpretations. Here, we test the impacts of four soil storage methods on downstream amplicon metabarcoding and qPCR analyses for fungi and bacteria. We further investigate the impact of thaw time on extracted DNA to determine a safe length of time during which this can occur with minimal impact on study results. Overall, we find that storage using standard cold packs with subsequent storage at −20°C is little different than immediate storage in liquid nitrogen, suggesting that the historical and current method is adequate. We further find evidence that storage at room temperature or with aid of RNAlater can lead to changes in community composition and in the case of RNAlater, lower gene copies. We therefore advise against these storage methods for metabarcoding analyses. Finally, we show that over 1 month, DNA extract thaw time does not impact diversity or qPCR metrics. We hope that this work will help researchers working with soil bacteria and fungi make informed decisions about soil storage and transport to ensure repeatability and accuracy of results and interpretations. | en_US |
dc.description.sponsorship | National Science Foundation (DEB- 1738041, OIA 1656006) | en_US |
dc.description.sponsorship | National Geographic Society (WW-036ER-17) | en_US |
dc.publisher | Wiley | en_US |
dc.rights | © 2020 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. This work is licensed under a Creative Commons Attribution 4.0 International License. | en_US |
dc.rights.uri | http://creativecommons.org/licenses/by/4.0/ | en_US |
dc.subject | Bacteria | en_US |
dc.subject | Fungi | en_US |
dc.subject | Metabarcoding | en_US |
dc.subject | Microbial biology | en_US |
dc.title | Keeping it cool: Soil sample cold pack storage and DNA shipment up to 1 month does not impact metabarcoding results | en_US |
dc.type | Article | en_US |
kusw.kuauthor | Delavaux, Camille S. | |
kusw.kuauthor | Bever, James D. | |
kusw.kudepartment | Ecology and Evolutionary Biology | en_US |
dc.identifier.doi | 10.1002/ece3.6219 | en_US |
dc.identifier.orcid | https://orcid.org/0000-0002-8340-2173 | en_US |
dc.identifier.orcid | https://orcid.org/0000-0001-8740-3272 | en_US |
kusw.oaversion | Scholarly/refereed, publisher version | en_US |
kusw.oapolicy | This item meets KU Open Access policy criteria. | en_US |
dc.rights.accessrights | openAccess | en_US |