Survival of environmental DNA in sediments: Mineralogic control on DNA taphonomy
Research output: Contribution to journal › Journal article › Research › peer-review
Standard
Survival of environmental DNA in sediments : Mineralogic control on DNA taphonomy. / Freeman, C. L.; Dieudonné, L.; Agbaje, O. B. A.; Žure, M.; Sanz, J. Q.; Collins, M.; Sand, K. K.
In: Environmental DNA, Vol. 5, No. 6, 2023, p. 1691-1705.Research output: Contribution to journal › Journal article › Research › peer-review
Harvard
APA
Vancouver
Author
Bibtex
}
RIS
TY - JOUR
T1 - Survival of environmental DNA in sediments
T2 - Mineralogic control on DNA taphonomy
AU - Freeman, C. L.
AU - Dieudonné, L.
AU - Agbaje, O. B. A.
AU - Žure, M.
AU - Sanz, J. Q.
AU - Collins, M.
AU - Sand, K. K.
N1 - Publisher Copyright: © 2023 The Authors. Environmental DNA published by John Wiley & Sons Ltd.
PY - 2023
Y1 - 2023
N2 - The extraction of environmental DNA (eDNA) from sediments is providing ground-breaking views of past ecosystems and biodiversity. Despite this rich source of information, it is still unclear which sediments favor preservation and why. Here, we used atomic force microscopy and molecular dynamics simulations to explore the DNA-mineral interaction to assess how mineralogy and interfacial geochemistry play a role in the preservation of environmental DNA on mineral substrates. We demonstrate that mineral composition, surface topography, and surface charge influence DNA adsorption behavior as well as preservation. Modeling and experimental data show that DNA damage can be induced by mineral binding if there is a strong driving force for adsorption. The study shows that knowledge of the mineralogical composition of a sediment and the environmental conditions can be useful for assessing if a deposit is capable of storing extracellular DNA and to what extent the DNA would be preserved. Our data adds to the understanding of eDNA taphonomy and highlights that, for some mineral systems, fragmented DNA may not represent old DNA.
AB - The extraction of environmental DNA (eDNA) from sediments is providing ground-breaking views of past ecosystems and biodiversity. Despite this rich source of information, it is still unclear which sediments favor preservation and why. Here, we used atomic force microscopy and molecular dynamics simulations to explore the DNA-mineral interaction to assess how mineralogy and interfacial geochemistry play a role in the preservation of environmental DNA on mineral substrates. We demonstrate that mineral composition, surface topography, and surface charge influence DNA adsorption behavior as well as preservation. Modeling and experimental data show that DNA damage can be induced by mineral binding if there is a strong driving force for adsorption. The study shows that knowledge of the mineralogical composition of a sediment and the environmental conditions can be useful for assessing if a deposit is capable of storing extracellular DNA and to what extent the DNA would be preserved. Our data adds to the understanding of eDNA taphonomy and highlights that, for some mineral systems, fragmented DNA may not represent old DNA.
KW - atomic force microscopy
KW - calcite
KW - DNA preservation
KW - eDNA
KW - interfacial geochemistry
KW - MD simulations
U2 - 10.1002/edn3.482
DO - 10.1002/edn3.482
M3 - Journal article
AN - SCOPUS:85177435747
VL - 5
SP - 1691
EP - 1705
JO - Environmental DNA
JF - Environmental DNA
SN - 2637-4943
IS - 6
ER -
ID: 374454756