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  • 1
    In: New Phytologist, Wiley, Vol. 233, No. 1 ( 2022-01), p. 496-504
    Abstract: Interactions between individual plant pathogens and their environment have been described many times. However, the relative contribution of different environmental parameters as controls of pathogen communities remains largely unknown. Here we investigate the importance of environmental factors, including geomorphology, climate, land use, soil and plant community composition, for a broad range of aboveground and belowground fungal, oomycete and bacterial plant pathogens. We found that plant community composition is the main driver of the composition and richness of plant pathogens after taking into account all other tested parameters, especially those related to climate and soil. In the face of future changes in climate and land use, our results suggest that changes in plant pathogen community composition and richness will primarily be mediated through changes in plant communities, rather than the direct effects of climate or soils.
    Type of Medium: Online Resource
    ISSN: 0028-646X , 1469-8137
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2022
    detail.hit.zdb_id: 208885-X
    detail.hit.zdb_id: 1472194-6
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  • 2
    In: Journal of Ecology, Wiley, Vol. 106, No. 1 ( 2018-01), p. 168-178
    Abstract: Partial mycoheterotrophy ( PMH ) is a nutritional mode in which plants utilize organic matter, i.e. carbon, both from photosynthesis and a fungal source. The latter reverses the direction of plant‐to‐fungus carbon flow as usually assumed in mycorrhizal mutualisms. Based on significant enrichment in the heavy isotope 13 C, a growing number of PMH orchid species have been identified. These PMH orchids are mostly associated with fungi simultaneously forming ectomycorrhizas with forest trees. In contrast, the much more common orchids that associate with rhizoctonia fungi, which are decomposers, have stable isotope profiles most often characterized by high 15 N enrichment and high nitrogen concentrations but either an insignificant 13 C enrichment or depletion relative to autotrophic plants. Using hydrogen stable isotope abundances recent investigations showed PMH in rhizoctonia‐associated orchids growing under light‐limited conditions. Hydrogen isotope abundances can be used as substitute for carbon isotope abundances in cases where autotrophic and heterotrophic carbon sources are insufficiently distinctive to indicate PMH . To determine whether rhizoctonia‐associated orchids growing in habitats with high irradiance feature PMH as a nutritional mode, we sampled 13 orchid species growing in montane meadows, four forest orchid species and 34 autotrophic reference species. We analysed δ 2 H, δ 13 C, δ 15 N and δ 18 O and determined nitrogen concentrations. Orchid mycorrhizal fungi were identified by DNA sequencing. As expected, we found high enrichments in 2 H, 13 C, 15 N and nitrogen concentrations in the ectomycorrhiza‐associated forest orchids, and the rhizoctonia‐associated Neottia cordata from a forest site was identified as PMH . Most orchids inhabiting sunny meadows lacked 13 C enrichment or were even significantly depleted in 13 C relative to autotrophic references. However, we infer PMH for the majority of these meadow orchids due to both significant 2 H and 15 N enrichment and high nitrogen concentrations. Pseudorchis albida was the sole autotrophic orchid in this study as it exhibited neither enrichment in any isotope nor a distinctive leaf nitrogen concentration. Synthesis . Our findings demonstrate that partial mycoheterotrophy is a trophic continuum between the extreme endpoints of autotrophy and full mycoheterotrophy, ranging from marginal to pronounced. In rhizoctonia‐associated orchids, partial mycoheterotrophy plays a far greater role than previously assumed, even in full light conditions.
    Type of Medium: Online Resource
    ISSN: 0022-0477 , 1365-2745
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2018
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    detail.hit.zdb_id: 2004136-6
    SSG: 12
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  • 3
    In: Fungal Ecology, Elsevier BV, Vol. 39 ( 2019-06), p. 192-200
    Type of Medium: Online Resource
    ISSN: 1754-5048
    Language: English
    Publisher: Elsevier BV
    Publication Date: 2019
    detail.hit.zdb_id: 2451111-0
    SSG: 12
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  • 4
    In: Molecular Ecology Resources, Wiley, Vol. 18, No. 5 ( 2018-09), p. 940-952
    Abstract: DNA ‐based techniques are increasingly used for measuring the biodiversity (species presence, identity, abundance and community composition) of terrestrial and aquatic ecosystems. While there are numerous reviews of molecular methods and bioinformatic steps, there has been little consideration of the methods used to collect samples upon which these later steps are based. This represents a critical knowledge gap, as methodologically sound field sampling is the foundation for subsequent analyses. We reviewed field sampling methods used for metabarcoding studies of both terrestrial and freshwater ecosystem biodiversity over a nearly three‐year period ( n  = 75). We found that 95% ( n  = 71) of these studies used subjective sampling methods and inappropriate field methods and/or failed to provide critical methodological information. It would be possible for researchers to replicate only 5% of the metabarcoding studies in our sample, a poorer level of reproducibility than for ecological studies in general. Our findings suggest greater attention to field sampling methods, and reporting is necessary in eDNA ‐based studies of biodiversity to ensure robust outcomes and future reproducibility. Methods must be fully and accurately reported, and protocols developed that minimize subjectivity. Standardization of sampling protocols would be one way to help to improve reproducibility and have additional benefits in allowing compilation and comparison of data from across studies.
    Type of Medium: Online Resource
    ISSN: 1755-098X , 1755-0998
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2018
    detail.hit.zdb_id: 2406833-0
    SSG: 12
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  • 5
    In: eLife, eLife Sciences Publications, Ltd, Vol. 9 ( 2020-05-19)
    Abstract: Living within the Earth’s soil are millions of insects, worms and other invertebrates, which help keep the ground healthy and fertile. There is a growing concern that changing land-use habits, such as agriculture and urban development, are causing these populations of invertebrates to decline. However, to what extent different types of land use negatively impact soil invertebrates is not clear. Healthy habitats often have a greater variety of species. This biodiversity can be measured in a number of ways, ranging from counting the number of species, to more complex approaches that calculate a species’ role in an ecosystem or how close it is to extinction. Finding a way to sensitively measure the biodiversity of soil invertebrates could further researcher’s understanding of how different types of land use are affecting these communities. A new method known as DNA metabarcoding has made it easier to distinguish between different species and calculate the biodiversity of entire populations. Now, Dopheide et al. have used this technique to study invertebrate communities from 75 sites across New Zealand which have been impacted by different land-use habits. This revealed that the most reliable and consistent way to uncover how land use affects soil invertebrates was to measure the rarity of species (i.e. the number of unique species present at each site). Dopheide et al. found that agriculture negatively affected soil invertebrates and that most types of invertebrates responded in a similar way. Horticulture – such as orchards and vineyards – had the most severe impact, with the lowest variety of species compared to grassland or forest. Other measurements of biodiversity, such as the number of different species, may underestimate the negative impact agriculture is having on invertebrate communities. The findings of Dopheide et al. highlight why developing strategies to preserve and restore these communities is so important. However, more work is needed to understand what specifically is causing biodiversity to decline and how this effect can be reversed.
    Type of Medium: Online Resource
    ISSN: 2050-084X
    Language: English
    Publisher: eLife Sciences Publications, Ltd
    Publication Date: 2020
    detail.hit.zdb_id: 2687154-3
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  • 6
    Online Resource
    Online Resource
    Wiley ; 2019
    In:  Molecular Ecology Vol. 28, No. 16 ( 2019-08), p. 3786-3798
    In: Molecular Ecology, Wiley, Vol. 28, No. 16 ( 2019-08), p. 3786-3798
    Abstract: Little is known about the diversity patterns of plant pathogens and how they change with land use at a broad scale. We employed DNA metabarcoding to describe the diversity and composition of putative plant pathogen communities in three substrates (soil, roots, and leaves) across five major land uses at a national scale. Almost all plant pathogen communities (fungi, oomycetes, and bacteria) showed strong responses to land use and substrate type. Land use category could explain up to 24% of the variance in composition between communities. Alpha‐diversity (richness) of plant pathogens was consistently lower in natural forests than in agricultural systems. In planted forests, there was also generally low pathogen alpha‐diversity in soil and roots, but alpha‐diversity in leaves was high compared with most other land uses. In contrast to alpha‐diversity, differences in within‐land use beta‐diversity of plant pathogens (the predictability of plant pathogen communities within land use) were subtle. Our results show that large‐scale patterns and distributions of putative plant pathogens can be determined using metabarcoding, allowing some of the first landscape level insights into these critically important communities.
    Type of Medium: Online Resource
    ISSN: 0962-1083 , 1365-294X
    URL: Issue
    RVK:
    Language: English
    Publisher: Wiley
    Publication Date: 2019
    detail.hit.zdb_id: 2020749-9
    detail.hit.zdb_id: 1126687-9
    SSG: 12
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  • 7
    In: MicrobiologyOpen, Wiley, Vol. 8, No. 7 ( 2019-07)
    Abstract: Plant pathogens such as rust fungi (Pucciniales) are of global economic and ecological importance. This means there is a critical need to reliably and cost‐effectively detect, identify, and monitor these fungi at large scales. We investigated and analyzed the causes of differences between next‐generation sequencing (NGS) metabarcoding approaches and traditional DNA cloning in the detection and quantification of recognized species of rust fungi from environmental samples. We found significant differences between observed and expected numbers of shared rust fungal operational taxonomic units (OTUs) among different methods. However, there was no significant difference in relative abundance of OTUs that all methods were capable of detecting. Differences among the methods were mainly driven by the method's ability to detect specific OTUs, likely caused by mismatches with the NGS metabarcoding primers to some Puccinia species. Furthermore, detection ability did not seem to be influenced by differences in sequence lengths among methods, the most appropriate bioinformatic pipeline used for each method, or the ability to detect rare species. Our findings are important to future metabarcoding studies, because they highlight the main sources of difference among methods, and rule out several mechanisms that could drive these differences. Furthermore, strong congruity among three fundamentally different and independent methods demonstrates the promising potential of NGS metabarcoding for tracking important taxa such as rust fungi from within larger NGS metabarcoding communities. Our results support the use of NGS metabarcoding for the large‐scale detection and quantification of rust fungi, but not for confirming the absence of species.
    Type of Medium: Online Resource
    ISSN: 2045-8827 , 2045-8827
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2019
    detail.hit.zdb_id: 2661368-2
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  • 8
    In: Frontiers in Environmental Science, Frontiers Media SA, Vol. 7 ( 2020-1-9)
    Type of Medium: Online Resource
    ISSN: 2296-665X
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2020
    detail.hit.zdb_id: 2741535-1
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  • 9
    In: New Phytologist, Wiley, Vol. 215, No. 4 ( 2017-09), p. 1314-1332
    Abstract: Invasions of alien plants are typically studied as invasions of individual species, yet interactions between plants and symbiotic fungi (mutualists and potential pathogens) affect plant survival, physiological traits, and reproduction and hence invasion success. Studies show that plant–fungal associations are frequently key drivers of plant invasion success and impact, but clear conceptual frameworks and integration across studies are needed to move beyond a series of case studies towards a more predictive understanding. Here, we consider linked plant–fungal invasions from the perspective of plant and fungal origin, simplified to the least complex representations or ‘motifs’. By characterizing these interaction motifs, parallels in invasion processes between pathogen and mutualist fungi become clear, although the outcomes are often opposite in effect. These interaction motifs provide hypotheses for fungal‐driven dynamics behind observed plant invasion trajectories. In some situations, the effects of plant–fungal interactions are inconsistent or negligible. Variability in when and where different interaction motifs matter may be driven by specificity in the plant–fungal interaction, the size of the effect of the symbiosis (negative to positive) on plants and the dependence (obligate to facultative) of the plant−fungal interaction. Linked plant–fungal invasions can transform communities and ecosystem function, with potential for persistent legacies preventing ecosystem restoration. Contents Summary 1314 I. Introduction 1315 II. Simplification of complex networks into interaction motifs 1316 III. Plant–fungal interactions and plant invasion dynamics 1322 IV. Predicting where plant–fungal interactions matter: plant−symbiont specificity, dependence and effect size 1323 V. Spatial context of linked plant–fungal invasions 1325 VI. Impacts of linked plant–fungal invasions on ecosystem processes 1326 VII. Management implications 1326 VIII. Conclusions 1327 Acknowledgements 1328 References 1328
    Type of Medium: Online Resource
    ISSN: 0028-646X , 1469-8137
    URL: Issue
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 208885-X
    detail.hit.zdb_id: 1472194-6
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