GLORIA

GEOMAR Library Ocean Research Information Access

X

Your email was sent successfully. Check your inbox.

An error occurred while sending the email. Please try again.

Proceed reservation?

Export
  • 1
    Online Resource
    Online Resource
    Multiple‐stressor effects on stream invertebrates: a mesocosm experiment manipulating nutrients, fine sediment and flow velocity
    Wiley ; 2016
    In:  Freshwater Biology Vol. 61, No. 4 ( 2016-04), p. 362-375
    Details
    In: Freshwater Biology, Wiley, Vol. 61, No. 4 ( 2016-04), p. 362-375
    Abstract: Land‐use changes have degraded ecosystems worldwide. A particular concern for freshwater biodiversity and ecosystem function are stressors introduced by intensified agriculture. Typically several stressors affect freshwater ecosystems simultaneously. However, the combined effects of these multiple stressors on streams and rivers are still poorly understood, yet of critical importance to improve freshwater management. We investigated responses of benthic macroinvertebrates to three globally important agricultural stressors affecting streams (nutrient enrichment, fine sediment deposition and reduced current velocity), using 64 stream mesocosms (full‐factorial 2 × 2 × 2 design, eight replicates of each treatment combination) established on the banks of the Breitenbach Stream (Hesse, Germany). The experiment ran for 1 month (16 days of colonisation, 14 days of manipulations), and all invertebrates in the mesocosms were collected at the end of this period. Fourteen of the 17 studied invertebrate response variables were affected by one or more stressors each. Negative effects on richness or abundance of pollution‐sensitive Ephemeroptera, Plecoptera and Trichoptera ( EPT ) taxa were particularly common. Overall, both sediment addition and stream flow velocity reduction had pervasive and strong effects. Responses to sediment addition were mostly negative, whereas decreased current velocity reduced several EPT metrics but increased the abundances of some of the other common taxa. Nutrient enrichment had few effects, but these were consistently negative. Combined stressor effects were mainly additive, with only two interactions found in total, both between reduced velocity and nutrients (on the crustacean Gammarus spp. and ceratopogonid midges). This finding implies that multiple‐stressor responses may be predicted from knowledge of single‐stressor effects in this stream community (unlike the often synergistic or antagonistic responses observed elsewhere). However, further taxon‐specific responses and interactions among stressors may have been obscured by limited taxonomic resolution, especially for the numerically dominant Chironomidae. Genetic approaches are required to address this limitation in the future.
    Type of Medium: Online Resource
    ISSN: 0046-5070 , 1365-2427
    URL: Issue
    URL: Article
    DOI: 10.1111/fwb.2016.61.issue-4
    DOI: 10.1111/fwb.12713
    Language: English
    Publisher: Wiley
    Publication Date: 2016
    detail.hit.zdb_id: 2020306-8
    detail.hit.zdb_id: 121180-8
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 2
    Online Resource
    Online Resource
    An automated modular heating solution for experimental flow‐through stream mesocosm systems
    Wiley ; 2023
    In:  Limnology and Oceanography: Methods
    Details
    In: Limnology and Oceanography: Methods, Wiley
    Abstract: Water temperature is a key environmental variable in stream ecosystems determining species distribution ranges, community composition, and ecological processes. In addition to global warming, direct anthropogenic impacts, for example through the influx of power plant cooling water or due to sun exposure after the removal of riparian vegetation, result in elevated water temperatures. However, temperature effects in stream ecosystems have mostly been tested in recirculating experimental systems, which can neither capture diurnal and seasonal variability in other environmental variables nor allow for entrainment of stream organisms. In contrast, open flow‐through systems, which are constantly supplied with stream water, offer a more realistic setting for stream ecological experiments, yet are difficult to implement. Here, we outline a heating module for the purpose of differential temperature regulation in a flow‐through mesocosm system by automatic control of warm water supply. We validated the functionality of the module in indoor trials as well as in an outdoor ExStream experimental mesocosm system. Furthermore, we tested the implications of different warm water temperatures for the survival of invertebrates drifting through the heating module to derive recommendations for the maximum warm water temperature for mixing with the natural water inflow. The module allows for controlled open flow‐through experiments in the field and the key components are flexible and scalable. Therefore, the module can be easily integrated into existing experimental flow‐through setups.
    Type of Medium: Online Resource
    ISSN: 1541-5856 , 1541-5856
    URL: Article
    DOI: 10.1002/lom3.10596
    Language: English
    Publisher: Wiley
    Publication Date: 2023
    detail.hit.zdb_id: 2161715-6
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 3
    Online Resource
    Online Resource
    A DNA barcode library for Germany′s mayflies, stoneflies and caddisflies (Ephemeroptera, Plecoptera and Trichoptera)
    Wiley ; 2017
    In:  Molecular Ecology Resources Vol. 17, No. 6 ( 2017-11), p. 1293-1307
    Details
    In: Molecular Ecology Resources, Wiley, Vol. 17, No. 6 ( 2017-11), p. 1293-1307
    Abstract: Mayflies, stoneflies and caddisflies (Ephemeroptera, Plecoptera and Trichoptera) are prominent representatives of aquatic macroinvertebrates, commonly used as indicator organisms for water quality and ecosystem assessments. However, unambiguous morphological identification of EPT species, especially their immature life stages, is a challenging, yet fundamental task. A comprehensive DNA barcode library based upon taxonomically well‐curated specimens is needed to overcome the problematic identification. Once available, this library will support the implementation of fast, cost‐efficient and reliable DNA ‐based identifications and assessments of ecological status. This study represents a major step towards a DNA barcode reference library as it covers for two‐thirds of Germany's EPT species including 2,613 individuals belonging to 363 identified species. As such, it provides coverage for 38 of 44 families (86%) and practically all major bioindicator species. DNA barcode compliant sequences (≥500 bp) were recovered from 98.74% of the analysed specimens. Whereas most species (325, i.e., 89.53%) were unambiguously assigned to a single Barcode Index Number ( BIN ) by its COI sequence, 38 species (18 Ephemeroptera, nine Plecoptera and 11 Trichoptera) were assigned to a total of 89 BINs. Most of these additional BIN s formed nearest neighbour clusters, reflecting the discrimination of geographical subclades of a currently recognized species. BIN sharing was uncommon, involving only two species pairs of Ephemeroptera. Interestingly, both maximum pairwise and nearest neighbour distances were substantially higher for Ephemeroptera compared to Plecoptera and Trichoptera, possibly indicating older speciation events, stronger positive selection or faster rate of molecular evolution.
    Type of Medium: Online Resource
    ISSN: 1755-098X , 1755-0998
    URL: Issue
    URL: Article
    DOI: 10.1111/men.2017.17.issue-6
    DOI: 10.1111/1755-0998.12683
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 2406833-0
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 4
    Online Resource
    Online Resource
    Cooking small and large portions of “biodiversity‐soup”: Miniaturized DNA metabarcoding PCRs perform as good as large‐volume PCRs
    Wiley ; 2021
    In:  Ecology and Evolution Vol. 11, No. 13 ( 2021-07), p. 9092-9099
    Details
    In: Ecology and Evolution, Wiley, Vol. 11, No. 13 ( 2021-07), p. 9092-9099
    Abstract: DNA metabarcoding is a powerful tool to assess arthropod diversity in environmental bulk samples such as Malaise trap, pitfall trap, or hand net samples. While comparative performance tests for different extraction protocols, primers, and Taq polymerases have been made, the effect of different PCR volumes on bulk sample metabarcoding performance is less explored. Although using small PCR volumes reduces overall costs, they may lead to decreased taxon recovery or higher replicate variability due to increased pipetting imprecision, PCR stochasticity (PCR drift), or inhibition when using high amounts of template community DNA. We here performed a simple DNA metabarcoding experiment to test if species detection and the consistency of technical replicates decrease with decreasing PCR volume in standard reaction tubes. We used a mock community sample consisting of different amounts of DNA from 35 arthropod species, and a Malaise trap sample composed of many thousand insect specimens. PCR volumes tested were 5, 10, 15, 20, 25, and 50 µl. Both samples were replicated 14 times in the first PCR step with two technical replicates each in the second PCR step. Our data show that small PCR volumes did neither have systematically lower species detection or richness values, nor lower consistency between PCR replicates. We therefore recommend low volumes primarily depending on handling constraints. Further, we emphasize the importance of sequencing depth for taxon recovery.
    Type of Medium: Online Resource
    ISSN: 2045-7758 , 2045-7758
    URL: Issue
    URL: Article
    DOI: 10.1002/ece3.v11.13
    DOI: 10.1002/ece3.7753
    Language: English
    Publisher: Wiley
    Publication Date: 2021
    detail.hit.zdb_id: 2635675-2
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 5
    Online Resource
    Online Resource
    It's raining species: Rainwash eDNA metabarcoding as a minimally invasive method to assess tree canopy invertebrate diversity
    Wiley ; 2023
    In:  Environmental DNA Vol. 5, No. 1 ( 2023-01), p. 3-11
    Details
    In: Environmental DNA, Wiley, Vol. 5, No. 1 ( 2023-01), p. 3-11
    Abstract: Forest canopies are highly diverse ecosystems, but despite several decades of intense research, there remain substantial gaps in our knowledge of their biodiversity and ecological interactions. One fundamental challenge in canopy research is the limited accessibility of the ecosystem. Consequently, previous studies have relied on the application of either highly invasive methods such as chemical knockdown, or on time‐consuming and expensive setups such as canopy walkways or cranes. Therefore, time‐ and cost‐efficient, ideally minimally invasive yet comprehensive applications are required to help close this knowledge gap. High‐throughput metabarcoding of environmental DNA (eDNA) collected from water, soil, or air provides a minimally invasive method for biodiversity assessment, yet its potential for canopy biodiversity monitoring has not been explored. Herein, we conducted metabarcoding of eDNA washed off the canopy via rainwater to explore its potential for biodiversity monitoring and ecological research. We placed four 1 m 2 rain samplers beneath the canopies of four different trees (beech, oak, larch, and pine) prior to a major rain event, filtered eDNA from the collected rainwater, and performed cytochrome c oxidase subunit I (COI) gene metabarcoding to profile the invertebrate community. Additionally, we collected and identified all specimens present in the rainwater to assess if eDNA only came from specimens physically present in the rainwater. We detected 50 invertebrate species by eDNA metabarcoding, of which 43 were not physically present in the water sample, thus likely representing true canopy biodiversity signals. Furthermore, we observed distinct species occurrence patterns corresponding to the four trees, suggesting that ecological patterns such as host specificity can potentially be assessed using the method. In conclusion, our study provides a proof of principle that rainwash eDNA metabarcoding offers a minimally invasive and comprehensive method for biodiversity monitoring in tree canopies.
    Type of Medium: Online Resource
    ISSN: 2637-4943 , 2637-4943
    URL: Issue
    URL: Article
    DOI: 10.1002/edn3.v5.1
    DOI: 10.1002/edn3.372
    Language: English
    Publisher: Wiley
    Publication Date: 2023
    detail.hit.zdb_id: 3001165-6
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 6
    Online Resource
    Online Resource
    Environmental DNA time series analysis of a temperate stream reveals distinct seasonal community and functional shifts
    Wiley ; 2024
    In:  River Research and Applications Vol. 40, No. 5 ( 2024-06), p. 850-862
    Details
    In: River Research and Applications, Wiley, Vol. 40, No. 5 ( 2024-06), p. 850-862
    Abstract: Environmental DNA (eDNA) extracted from water is routinely used in river biodiversity research, and via metabarcoding eDNA can provide comprehensive taxa lists with little effort and cost. However, eDNA‐based species detection in streams and rivers may be influenced by sampling season and other key factors such as water temperature and discharge. Research linking these factors and also informing on the potential of eDNA metabarcoding to detect shifts in ecological signatures, such as species phenology and functional feeding groups across seasons, is missing. To address this gap, we collected water samples every 2 weeks for 15 months at a long‐term ecological research (LTER) site and at three different positions in the river's cross section, specifically the water surface, riverbed, and riverbank. For these 102 samples, we analyzed macroinvertebrate species and molecular operational taxonomic unit (OTU) richness and temporal community turnover across seasons based on cytochrome c oxidase subunit I (COI) metabarcoding data. Using Generalized Additive Models, we found a significant influence of sampling season on species richness. Community turnover followed a cyclic pattern, reflecting the continuous change of the macroinvertebrate community throughout the year (“seasonal clock”). Although water temperature had no influence on the inferred species richness, higher discharge reduced the number of Annelida and Ephemeroptera species detectable with eDNA. Most macroinvertebrate taxa showed the highest species richness in spring, in particular merolimnic species with univoltine life cycles. Further, we detected an increase in the proportion of shredders in winter and parasites in summer. Our results show the usefulness of highly resolved eDNA metabarcoding time series data for ecological research and biodiversity monitoring in streams and rivers.
    Type of Medium: Online Resource
    ISSN: 1535-1459 , 1535-1467
    URL: Issue
    URL: Article
    DOI: 10.1002/rra.v40.5
    DOI: 10.1002/rra.4265
    Language: English
    Publisher: Wiley
    Publication Date: 2024
    detail.hit.zdb_id: 2074114-5
    SSG: 12
    SSG: 14
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 7
    Online Resource
    Online Resource
    Mosquito control actions affect chironomid diversity in temporary wetlands of the Upper Rhine Valley
    Wiley ; 2019
    In:  Molecular Ecology Vol. 28, No. 18 ( 2019-09), p. 4300-4316
    Details
    In: Molecular Ecology, Wiley, Vol. 28, No. 18 ( 2019-09), p. 4300-4316
    Abstract: The Upper Rhine Valley, a “hotspot of biodiversity” in Germany, has been treated with the biocide Bacillus thuringiensis var. israelensis (Bti) for mosquito control for decades. Previous studies discovered Bti nontarget effects in terms of severe chironomid abundance reductions. In this study, we investigated the impact of Bti on species level and addressed the community composition of the nontarget family Chironomidae by use of community metabarcoding. Chironomid emergence data were collected in three mosquito‐control relevant wetland types in the Upper Rhine Valley. For all three sites the chironomid species composition, based on operational taxonomic units (OTUs), was different to varying degrees in the Bti‐treated samples versus control samples, ranging from a significant 63% OTU reduction to an OTU replacement. We assumed that predatory chironomids are less prone to Bti than filter feeders, as the latter feed on floating particles leading to direct ingestion of Bti. However, a comparable percentage of predators and filter feeders (63% and 65%, respectively) was reduced in the Bti samples, suggesting that the feeding strategy is not the main driver for Bti sensitivity in chironomids. Finally, our data was compared to a three‐year‐old data set, indicating possible chironomid community recovery due to species recolonization a few years after the last Bti application. Considering the currently discussed worldwide insect decline we recommend a rethinking of the usage of the biocide Bti, and to prevent its ongoing application especially in nature protection reserves to enhance ecological resilience and to prevent boosting the current biodiversity loss.
    Type of Medium: Online Resource
    ISSN: 0962-1083 , 1365-294X
    URL: Issue
    URL: Article
    DOI: 10.1111/mec.v28.18
    DOI: 10.1111/mec.15214
    RVK:
    WA 15000
    Language: English
    Publisher: Wiley
    Publication Date: 2019
    detail.hit.zdb_id: 2020749-9
    detail.hit.zdb_id: 1126687-9
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
  • 8
    Online Resource
    Online Resource
    TaxonTableTools: A comprehensive, platform‐independent graphical user interface software to explore and visualise DNA metabarcoding data
    Wiley ; 2021
    In:  Molecular Ecology Resources Vol. 21, No. 5 ( 2021-07), p. 1705-1714
    Details
    In: Molecular Ecology Resources, Wiley, Vol. 21, No. 5 ( 2021-07), p. 1705-1714
    Abstract: DNA metabarcoding is increasingly used as a tool to assess biodiversity in research and environmental management. Powerful analysis software exists to process raw data. However, the translation of sequence read data into biological information and downstream analyses may be difficult for end users with limited expertise in bioinformatics. Thus, there is a growing need for easy‐to‐use, graphical user interface (GUI) software to analyse and visualise DNA metabarcoding data. Here, we present TaxonTableTools (TTT), a new platform‐independent GUI that aims to fill this gap by providing simple, reproducible analysis and visualisation workflows. At its base, TTT uses a "TaXon table", which is a data format that can be generated easily within TTT from two input files: a read table and a taxonomy table obtained using various published metabarcoding pipelines. TTT analysis and visualisation modules include Venn diagrams to compare taxon overlap among replicates, samples, or analysis methods. TTT analyses and visualises basic statistics, such as read proportion per taxon, as well as more sophisticated visualisations, such as interactive Krona charts for taxonomic data exploration. Various ecological analyses can be produced directly, including alpha or beta diversity estimates, and rarefaction analysis ordination plots. Metabarcoding data can be converted into formats required for traditional, taxonomy‐based analyses performed by regulatory bioassessment programs. In addition, TTT is able to produce html‐based interactive graphics that can be analysed in any web browser. The software comes with a manual and tutorial, is free and publicly available through GitHub ( https://github.com/TillMacher/TaxonTableTools ) or the Python package index ( https://pypi.org/project/taxontabletools/ ).
    Type of Medium: Online Resource
    ISSN: 1755-098X , 1755-0998
    URL: Issue
    URL: Article
    DOI: 10.1111/men.v21.5
    DOI: 10.1111/1755-0998.13358
    Language: English
    Publisher: Wiley
    Publication Date: 2021
    detail.hit.zdb_id: 2406833-0
    SSG: 12
    Location Call Number Limitation Availability
    BibTip Others were also interested in ...
    Online Resource
Close ⊗
This website uses cookies and the analysis tool Matomo. More information can be found here...