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Geochemical identification of potential DNA-hotspots and DNA-infrared fingerprints in lake sediments
Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.ORCID-id: 0000-0002-9505-9974
Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.ORCID-id: 0000-0003-2001-5077
Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.ORCID-id: 0000-0001-5634-8602
Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.ORCID-id: 0000-0003-3927-6197
2020 (Engelska)Ingår i: Applied Geochemistry, ISSN 0883-2927, E-ISSN 1872-9134, Vol. 122, artikel-id 104728Artikel i tidskrift (Refereegranskat) Published
Abstract [en]

DNA preserved in sedimentary materials can be used to study past ecosystem changes, such as species' colonization and extinction. It is believed that minerals, especially clay minerals, enhance the preservation of DNA. However, the role of minerals, as well as organic matter, on DNA sorption in heterogeneous sediments is still not clear. In this study, we examined the effect of mineral and organic matter on DNA binding in lake sediments. Bulk and size-fractionated sediments (0–4, 4–16, 16–64, and >64 μm), having different mineral and organic composition, were used to test DNA sorption; similar experiments were also run after the removal of sedimentary organic matter. Additionally, diffuse reflectance infrared spectroscopy (DRIFT) was used to determine the chemical changes caused by DNA sorption and subsequently produce a DNA-infrared (IR) fingerprint. Clay minerals were the main minerals to sorb DNA in the different samples. Moreover, mica promoted DNA sorption in all size fractions, while chlorite promoted DNA sorption in size fractions greater than 16 μm; clay-mineral and organo-mineral complexes caused a preference of certain clay minerals over others. Sedimentary organic matter affected DNA sorption by covering as well as by amplifying potential DNA binding sites, yet DNA sorption did not change significantly. DNA sorption showed IR spectral modifications mainly at ~1640, 1416, and 1231 cm−1. Interestingly, the DNA-IR fingerprint in the heterogeneous sediments was evident by those peaks after spectral subtraction. Finally, we proposed a simple model, based on sediment geochemistry, that can be used to determine potential DNA-hotspots in sediments.

Ort, förlag, år, upplaga, sidor
Elsevier, 2020. Vol. 122, artikel-id 104728
Nyckelord [en]
DNA sorption, Sediment grain size, Mineralogy, Clay minerals, Organic matter
Nationell ämneskategori
Geokemi
Identifikatorer
URN: urn:nbn:se:umu:diva-177774DOI: 10.1016/j.apgeochem.2020.104728ISI: 000587914200017Scopus ID: 2-s2.0-85089741678OAI: oai:DiVA.org:umu-177774DiVA, id: diva2:1512402
Forskningsfinansiär
Kempestiftelserna, JCK-1821Tillgänglig från: 2020-12-22 Skapad: 2020-12-22 Senast uppdaterad: 2023-03-23Bibliografiskt granskad

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Kanbar, Hussein JaafarOlajos, FredrikEnglund, GöranHolmboe, Michael

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Kanbar, Hussein JaafarOlajos, FredrikEnglund, GöranHolmboe, Michael
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