Preservation of Aquatic Environmental DNA Using Cationic Detergents
ABSTRACT Environmental DNA (eDNA) analysis is a powerful tool for quantifying and assessing the diversity of organisms in the environment. Unfortunately, isolating eDNA from aquatic environments is challenging due to the difficulties associated with water collection, preservation of samples during t...
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| Format: | Article |
| Language: | English |
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Wiley
2024-11-01
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| Series: | Environmental DNA |
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| Online Access: | https://doi.org/10.1002/edn3.70038 |
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| author | Viresh Thamke Yared H. Bezabhe Jana Jass Per‐Erik Olsson |
| author_facet | Viresh Thamke Yared H. Bezabhe Jana Jass Per‐Erik Olsson |
| author_sort | Viresh Thamke |
| collection | DOAJ |
| description | ABSTRACT Environmental DNA (eDNA) analysis is a powerful tool for quantifying and assessing the diversity of organisms in the environment. Unfortunately, isolating eDNA from aquatic environments is challenging due to the difficulties associated with water collection, preservation of samples during transportation, and onsite filtration. These processes are expensive and time‐consuming and can lead to eDNA degradation. These difficulties can be addressed by preserving eDNA in the collected water. In this study, we assessed the effect of short‐ and long‐term water storage using three different cationic surfactants on the half‐life of zebrafish (Danio rerio) mitochondrial DNA (mtDNA) in mesocosm water. The surfactants used were benzalkonium chloride (BAC), cetylpyridinium chloride (CPC), and cetyltrimethylammonium bromide (CTAB). We observed that CPC and CTAB treatment extended the half‐life of mtDNA by 3–5 times. Analysis by quantitative polymerase chain reaction (qPCR) demonstrated a mtDNA retention rate of 17.6%, 26.3%, and 2.2% for CPC, CTAB, and BAC, respectively, compared to 0.1% in untreated water after 30 days. The preservation of mtDNA by cationic surfactants was attributed to their bactericidal and cytotoxic properties as well as their electrostatic interaction with DNA molecules, as observed by spectrofluorometric analysis and subsequent precipitation. Our results demonstrated an inexpensive and convenient method to protect eDNA in water and improve its extraction. |
| format | Article |
| id | doaj-art-f15dae005f5748d0bd9b0f60c5b45e2f |
| institution | Kabale University |
| issn | 2637-4943 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | Wiley |
| record_format | Article |
| series | Environmental DNA |
| spelling | doaj-art-f15dae005f5748d0bd9b0f60c5b45e2f2025-01-29T05:11:50ZengWileyEnvironmental DNA2637-49432024-11-0166n/an/a10.1002/edn3.70038Preservation of Aquatic Environmental DNA Using Cationic DetergentsViresh Thamke0Yared H. Bezabhe1Jana Jass2Per‐Erik Olsson3School of Science and Technology, Center of Life Science Biology Örebro University Örebro SwedenSchool of Science and Technology, Center of Life Science Biology Örebro University Örebro SwedenSchool of Science and Technology, Center of Life Science Biology Örebro University Örebro SwedenSchool of Science and Technology, Center of Life Science Biology Örebro University Örebro SwedenABSTRACT Environmental DNA (eDNA) analysis is a powerful tool for quantifying and assessing the diversity of organisms in the environment. Unfortunately, isolating eDNA from aquatic environments is challenging due to the difficulties associated with water collection, preservation of samples during transportation, and onsite filtration. These processes are expensive and time‐consuming and can lead to eDNA degradation. These difficulties can be addressed by preserving eDNA in the collected water. In this study, we assessed the effect of short‐ and long‐term water storage using three different cationic surfactants on the half‐life of zebrafish (Danio rerio) mitochondrial DNA (mtDNA) in mesocosm water. The surfactants used were benzalkonium chloride (BAC), cetylpyridinium chloride (CPC), and cetyltrimethylammonium bromide (CTAB). We observed that CPC and CTAB treatment extended the half‐life of mtDNA by 3–5 times. Analysis by quantitative polymerase chain reaction (qPCR) demonstrated a mtDNA retention rate of 17.6%, 26.3%, and 2.2% for CPC, CTAB, and BAC, respectively, compared to 0.1% in untreated water after 30 days. The preservation of mtDNA by cationic surfactants was attributed to their bactericidal and cytotoxic properties as well as their electrostatic interaction with DNA molecules, as observed by spectrofluorometric analysis and subsequent precipitation. Our results demonstrated an inexpensive and convenient method to protect eDNA in water and improve its extraction.https://doi.org/10.1002/edn3.70038ddPCRdecay rateeDNAhalf‐lifemtDNAqPCR |
| spellingShingle | Viresh Thamke Yared H. Bezabhe Jana Jass Per‐Erik Olsson Preservation of Aquatic Environmental DNA Using Cationic Detergents Environmental DNA ddPCR decay rate eDNA half‐life mtDNA qPCR |
| title | Preservation of Aquatic Environmental DNA Using Cationic Detergents |
| title_full | Preservation of Aquatic Environmental DNA Using Cationic Detergents |
| title_fullStr | Preservation of Aquatic Environmental DNA Using Cationic Detergents |
| title_full_unstemmed | Preservation of Aquatic Environmental DNA Using Cationic Detergents |
| title_short | Preservation of Aquatic Environmental DNA Using Cationic Detergents |
| title_sort | preservation of aquatic environmental dna using cationic detergents |
| topic | ddPCR decay rate eDNA half‐life mtDNA qPCR |
| url | https://doi.org/10.1002/edn3.70038 |
| work_keys_str_mv | AT vireshthamke preservationofaquaticenvironmentaldnausingcationicdetergents AT yaredhbezabhe preservationofaquaticenvironmentaldnausingcationicdetergents AT janajass preservationofaquaticenvironmentaldnausingcationicdetergents AT pererikolsson preservationofaquaticenvironmentaldnausingcationicdetergents |