Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i>
The spread of non-native species threatens biodiversity and exacerbates societal challenges like food security. To address this, effective conservation programs require detection methods that are easy to implement, accurate, and non-invasive. Over the past 15 years, environmental DNA (eDNA) techniqu...
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2024-11-01
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| author | Théo Deremarque Rodolphe Elie Gozlan Ravo Ravaozafindrasoa Giuliano Mucci Lucie Delalex Jean-Michel Foissy Michaël Cagnant Mathieu Clair Justina Givens Fabienne Justy Alice Valentini Delphine Nicolas Pascal Contournet Claire Tetrel Marc Thibault Marine Combe |
| author_facet | Théo Deremarque Rodolphe Elie Gozlan Ravo Ravaozafindrasoa Giuliano Mucci Lucie Delalex Jean-Michel Foissy Michaël Cagnant Mathieu Clair Justina Givens Fabienne Justy Alice Valentini Delphine Nicolas Pascal Contournet Claire Tetrel Marc Thibault Marine Combe |
| author_sort | Théo Deremarque |
| collection | DOAJ |
| description | The spread of non-native species threatens biodiversity and exacerbates societal challenges like food security. To address this, effective conservation programs require detection methods that are easy to implement, accurate, and non-invasive. Over the past 15 years, environmental DNA (eDNA) techniques have gained popularity, surpassing traditional sampling methods. In this context, our study focused on tracking the invasive host–pathogen complex <i>Pseudorasbora parva</i> and <i>Sphaerothecum destruens</i> using eDNA metabarcoding. We collected water samples from freshwater canals over five months in the Camargue region, and once in Corsica Island, both in southern France. Total DNA was extracted from filtered water samples, and PCR-amplicons were sequenced using Illumina or Nanopore technologies. Our results revealed a high detection rate of <i>P. parva</i> in lentic ecosystems, aligning with habitat preferences of this small freshwater fish. Additionally, the detection rate in Camargue increased in May and June, likely due to the peak of the spawning season, which leads to more DNA being released into the environment (i.e., concentration and interaction of individuals). While eDNA successfully detected this invasive fish, we were unable to detect its cryptic fungal parasite, <i>S. destruens</i>, highlighting the challenges of identifying intracellular and cryptic fungal pathogens through eDNA methods. |
| format | Article |
| id | doaj-art-5089f0db33da4fc7bdde2927e02fbde0 |
| institution | Kabale University |
| issn | 2410-3888 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Fishes |
| spelling | doaj-art-5089f0db33da4fc7bdde2927e02fbde02024-12-27T14:25:53ZengMDPI AGFishes2410-38882024-11-0191247710.3390/fishes9120477Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i>Théo Deremarque0Rodolphe Elie Gozlan1Ravo Ravaozafindrasoa2Giuliano Mucci3Lucie Delalex4Jean-Michel Foissy5Michaël Cagnant6Mathieu Clair7Justina Givens8Fabienne Justy9Alice Valentini10Delphine Nicolas11Pascal Contournet12Claire Tetrel13Marc Thibault14Marine Combe15ISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceOffice Français de la Biodiversité, Direction Interrégionale Provence-Alpes-Côte d’Azur et Corse, Bâtiment A—Les Jardins de la Duranne, 510 rue René DESCARTES, 13592 Aix-en-Provence, FranceOffice Français de la Biodiversité, Direction Interrégionale Provence-Alpes-Côte d’Azur et Corse, Bâtiment A—Les Jardins de la Duranne, 510 rue René DESCARTES, 13592 Aix-en-Provence, FranceOffice Français de la Biodiversité, Direction Interrégionale Provence-Alpes-Côte d’Azur et Corse, Bâtiment A—Les Jardins de la Duranne, 510 rue René DESCARTES, 13592 Aix-en-Provence, FranceOffice Français de la Biodiversité, Direction Interrégionale Provence-Alpes-Côte d’Azur et Corse, Bâtiment A—Les Jardins de la Duranne, 510 rue René DESCARTES, 13592 Aix-en-Provence, FranceISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceSPYGEN, 73370 Le Bourget-du-Lac, FranceTour du Valat, Research Institute for the Conservation of Mediterranean wetlands, Le Sambuc, 13200 Arles, FranceTour du Valat, Research Institute for the Conservation of Mediterranean wetlands, Le Sambuc, 13200 Arles, FranceOffice Français de la Biodiversité, Direction Interrégionale PACA Corse, Service Appui aux Acteurs et Mobilisation des Territoires, Domaine des Grandes Cabanes, 13460 Saintes-Maries-de-la-Mer, FranceTour du Valat, Research Institute for the Conservation of Mediterranean wetlands, Le Sambuc, 13200 Arles, FranceISEM, University of Montpellier, CNRS, IRD, Montpellier, FranceThe spread of non-native species threatens biodiversity and exacerbates societal challenges like food security. To address this, effective conservation programs require detection methods that are easy to implement, accurate, and non-invasive. Over the past 15 years, environmental DNA (eDNA) techniques have gained popularity, surpassing traditional sampling methods. In this context, our study focused on tracking the invasive host–pathogen complex <i>Pseudorasbora parva</i> and <i>Sphaerothecum destruens</i> using eDNA metabarcoding. We collected water samples from freshwater canals over five months in the Camargue region, and once in Corsica Island, both in southern France. Total DNA was extracted from filtered water samples, and PCR-amplicons were sequenced using Illumina or Nanopore technologies. Our results revealed a high detection rate of <i>P. parva</i> in lentic ecosystems, aligning with habitat preferences of this small freshwater fish. Additionally, the detection rate in Camargue increased in May and June, likely due to the peak of the spawning season, which leads to more DNA being released into the environment (i.e., concentration and interaction of individuals). While eDNA successfully detected this invasive fish, we were unable to detect its cryptic fungal parasite, <i>S. destruens</i>, highlighting the challenges of identifying intracellular and cryptic fungal pathogens through eDNA methods.https://www.mdpi.com/2410-3888/9/12/477biological invasionsfungal parasitesbiodiversityfreshwater |
| spellingShingle | Théo Deremarque Rodolphe Elie Gozlan Ravo Ravaozafindrasoa Giuliano Mucci Lucie Delalex Jean-Michel Foissy Michaël Cagnant Mathieu Clair Justina Givens Fabienne Justy Alice Valentini Delphine Nicolas Pascal Contournet Claire Tetrel Marc Thibault Marine Combe Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i> Fishes biological invasions fungal parasites biodiversity freshwater |
| title | Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i> |
| title_full | Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i> |
| title_fullStr | Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i> |
| title_full_unstemmed | Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i> |
| title_short | Ease and Limitations in Using Environmental DNA to Track the Spread of Invasive Host–Parasite Complexes: A Case Study of the Freshwater Fish <i>Pseudorasbora parva</i> and the Cryptic Fungal Parasite <i>Sphaerothecum destruens</i> |
| title_sort | ease and limitations in using environmental dna to track the spread of invasive host parasite complexes a case study of the freshwater fish i pseudorasbora parva i and the cryptic fungal parasite i sphaerothecum destruens i |
| topic | biological invasions fungal parasites biodiversity freshwater |
| url | https://www.mdpi.com/2410-3888/9/12/477 |
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