Comparing sediment preservation methods for genomic biomonitoring of coastal marine ecosystems

Verena Dully, Giulia Rech, Thomas A. Wilding, Anders Lanzén, Kate Mackichan, Iain Berrill, Thorsten Stoeck

Research output: Contribution to journalArticlepeer-review

Abstract

To avoid loss of genetic information in environmental DNA (eDNA) field samples, the preservation of nucleic acids during field sampling is a critical step. In the development of standard operating procedures (SOPs) for eDNA-based compliance monitoring, the effect of different routinely used sediment preservations on biological community structures serving as bioindicators has gone untested. We compared eDNA metabarcoding results of marine bacterial communities from sample aliquots that were treated with a nucleic acid preservation solution (treated samples) and aliquots that were frozen without further treatment (non-treated samples). Sediment samples were obtained from coastal locations subjected to different stressors (aquaculture, urbanization, industry). DNA extraction efficiency, bacterial community profiles, and measures of alpha- and beta-diversity were highly congruent between treated and non-treated samples. As both preservation methods provide the same relevant information to environmental managers and regulators, we recommend the inclusion of both methods into SOPs for biomonitoring in marine coastal environments
Original languageEnglish
Article number113129
Number of pages9
JournalMarine Pollution Bulletin
Volume173,
Issue number Part B
Early online date14 Nov 2021
DOIs
Publication statusPublished - 1 Dec 2021

Keywords

  • Biomonitoring
  • Environmental DNA
  • Coastal marine sediment
  • Bacterial communities
  • Sample preservation
  • Protocol standardization

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