A platform for research: civil engineering, architecture and urbanism
A platform for research: civil engineering, architecture and urbanism
Development and validation of DNA metabarcoding for stream macroinvertebrate community assessment
To counteract the worldwide biodiversity decline in freshwater ecosystems due to human impact and ensure the sustainable use of essential ecosystem services (e.g. water and food supply) legally-binding frameworks have been launched, implementing biomonitoring of indicator groups to identify the need for restoration measures as well as to monitor changes and control success of actions taken. Monitoring of groups as taxonomically challenging as benthic macroinvertebrates is slow and cost-intensive requiring high taxonomic expertise but often only supplies an insufficient taxonomic resolution. In scientific approaches, DNA-based metabarcoding is increasingly used for biodiversity assessment especially in taxonomically difficult groups, outperforming morphology-based identification in speed, taxonomic resolution and efficiency. The method is therefore recommended to complement conventional standardised biomonitoring. Despite evident benefits of DNA metabarcoding, methodological limitations in sampling and laboratory processes still exist, requiring further developments while the method is already challenged by newly emerging methods based on whole genome approaches. The presented thesis aims at contributing to the optimization and application of DNA metabarcoding and at developing innovative methods. The main objectives are therefore separated in three parts which comprise I) methodological advancements in DNA metabarcoding, II) the application of DNA metabarcoding with regard to biomonitoring purposes and III) PCR-free methodological innovations to overcome limitations in DNA metabarcoding. Methodological developments focus on aquatic macroinvertebrate communities with known taxonomic composition (“mock communities”) and reveal DNA extraction from bulk sample fixative and subsequent DNA metabarcoding as a promising tool for diversity assessment of benthic macroinvertebrates, circumventing the yet applied costly step of sample sorting. Its application on field-generated samples successfully detects main species ...
Development and validation of DNA metabarcoding for stream macroinvertebrate community assessment
To counteract the worldwide biodiversity decline in freshwater ecosystems due to human impact and ensure the sustainable use of essential ecosystem services (e.g. water and food supply) legally-binding frameworks have been launched, implementing biomonitoring of indicator groups to identify the need for restoration measures as well as to monitor changes and control success of actions taken. Monitoring of groups as taxonomically challenging as benthic macroinvertebrates is slow and cost-intensive requiring high taxonomic expertise but often only supplies an insufficient taxonomic resolution. In scientific approaches, DNA-based metabarcoding is increasingly used for biodiversity assessment especially in taxonomically difficult groups, outperforming morphology-based identification in speed, taxonomic resolution and efficiency. The method is therefore recommended to complement conventional standardised biomonitoring. Despite evident benefits of DNA metabarcoding, methodological limitations in sampling and laboratory processes still exist, requiring further developments while the method is already challenged by newly emerging methods based on whole genome approaches. The presented thesis aims at contributing to the optimization and application of DNA metabarcoding and at developing innovative methods. The main objectives are therefore separated in three parts which comprise I) methodological advancements in DNA metabarcoding, II) the application of DNA metabarcoding with regard to biomonitoring purposes and III) PCR-free methodological innovations to overcome limitations in DNA metabarcoding. Methodological developments focus on aquatic macroinvertebrate communities with known taxonomic composition (“mock communities”) and reveal DNA extraction from bulk sample fixative and subsequent DNA metabarcoding as a promising tool for diversity assessment of benthic macroinvertebrates, circumventing the yet applied costly step of sample sorting. Its application on field-generated samples successfully detects main species ...
Development and validation of DNA metabarcoding for stream macroinvertebrate community assessment
Zizka, Vera Marie Alida (author) / Leese, Florian
2022-01-13
Theses
Electronic Resource
English
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