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  • 1
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    Public Library of Science (PLoS)
    In:  PLoS ONE vol. 9 no. 12, pp. e115750-e115750
    Publication Date: 2024-01-12
    Keywords: Multidisciplinary
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
    Format: application/pdf
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  • 2
    Publication Date: 2024-01-12
    Description: Freshwater is an important resource, but at a great risk of species decline due to habitat loss, pollution and over-exploitation, and invasive alien species. European and national regulation dictate the monitoring of freshwater quality in the Water Framework Directive. The biological elements of these assessments focus on the organisms living in freshwater systems, such as fish, macroinvertebrates, and plants. Traditional monitoring of quality relies on labor-intensive and expensive collection and morphological identification of specimens. Recent developments in molecular techniques allow for easier identification through (meta)barcoding and species detection using environmental DNA (eDNA). This thesis explores the possibilities to integrate genetic tools into freshwater quality monitoring and impact assessments, by investigating the ability of DNA-based methods to approximate morphologically determined species occurrences and the influence of their abundance on quality ratios. Additionally, it examines the effects of replication strategies in eDNA sampling, and studies the implications of using eDNA monitoring across several trophic levels of the ecosystem in impact assessments. Combined with a growing body of literature, the findings in this thesis illustrate that molecular techniques will contribute to a better ecosystem understanding and allow for more effective monitoring and management of freshwater systems, safeguarding the ecosystem services provided to humankind.
    Keywords: DNA BARCODING ; DNA METABARCODING ; ECOTOXICOLOGY ; ENVIRONMENTAL DNA ; FRESHWATER ; IMPACT ASSESSMENT ; INDICATOR SPECIES ; MACROFAUNA
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/doctoralThesis
    Format: application/pdf
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  • 3
    Publication Date: 2024-04-02
    Description: Antibiotics are a contaminant class of worldwide concern as they are frequently detected in aquatic ecosystems. To better understand the impacts of antibiotics on aquatic ecosystems, we conducted an outdoor mesocosm experiment in which aquatic communities were exposed to different concentrations of the antibiotic sulfamethoxazole (0, 0.15, 1.5, 15 and 150 μg/L). These concentrations include mean (0.15 μg/L) and maximum detected concentrations (15 and 150 μg/L) in aquatic ecosystems worldwide. Sulfamethoxazole was applied once a week for eight consecutive weeks to 1530 L outdoor mesocosms in the Netherlands, followed by an eight-week recovery period. We evaluated phytoplankton-, bacterial- and invertebrate responses during and after sulfamethoxazole exposure and assessed impacts on organic matter decomposition. Contrary to our expectations, consistent treatment-related effects on algal and bacterial communities could not be demonstrated. In addition, sulfamethoxazole did not significantly affect zooplankton and macroinvertebrate communities. However, some effects on specific taxa were observed, with an increase in Mesostoma flatworm abundance (NOEC of 〈0.15 μg/ L). In addition, eDNA analyses indicated negative impacts on the insects Odonata at a sulfamethoxazole concentration of 15 μg/L. Overall, environmentally relevant sulfamethoxazole concentration did not result in direct or indirect impairment of entire aquatic communities and ecological processes in our mesocosms. However, several specific macroinvertebrate taxa demonstrated significant (in)direct effects from sulfamethoxazole. Comparison of the results with the literature showed inconsistent results between studies using comparable, environmentally relevant, concentrations. Therefore, our study highlights the importance of testing the ecological impacts of pharmaceuticals (such as sulfamethoxazole) across multiple trophic levels spanning multiple aquatic communities, to fully understand its potential ecological threats.
    Keywords: Sulfamethoxazole ; Mesocosm ; Communities ; eDNA ; Bioassays ; Ecosystem functioning
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
    Format: application/pdf
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  • 4
    Publication Date: 2024-01-12
    Description: We report initial results from an ongoing effort to build a library of DNA barcode sequences for Dutch spiders and investigate the utility of museum collections as a source of specimens for barcoding spiders. Source material for the library comes from a combination of specimens freshly collected in the field specifically for this project and museum specimens collected in the past. For the museum specimens, we focus on 31 species that have been frequently collected over the past several decades. A series of progressively older specimens representing these 31 species were selected for DNA barcoding. Based on the pattern of sequencing successes and failures, we find that smaller-bodied species expire before larger-bodied species as tissue sources for single-PCR standard DNA barcoding. Body size and age of oldest successful DNA barcode are significantly correlated after factoring out phylogenetic effects using independent contrasts analysis. We found some evidence that extracted DNA concentration is correlated with body size and inversely correlated with time since collection, but these relationships are neither strong nor consistent. DNA was extracted from all specimens using standard destructive techniques involving the removal and grinding of tissue. A subset of specimens was selected to evaluate nondestructive extraction. Nondestructive extractions significantly extended the DNA barcoding shelf life of museum specimens, especially small-bodied species, and yielded higher DNA concentrations compared to destructive extractions. All primary data are publically available through a Dryad archive and the Barcode of Life database.
    Keywords: Animal Science and Zoology ; Ecology ; Evolution ; Behavior and Systematics
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
    Format: application/pdf
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