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      Plant community composition steers grassland vegetation via soil legacy effects

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          Abstract

          Soil legacy effects are commonly highlighted as drivers of plant community dynamics and species co‐existence. However, experimental evidence for soil legacy effects of conditioning plant communities on responding plant communities under natural conditions is lacking. We conditioned 192 grassland plots using six different plant communities with different ratios of grasses and forbs and for different durations. Soil microbial legacies were evident for soil fungi, but not for soil bacteria, while soil abiotic parameters did not significantly change in response to conditioning. The soil legacies affected the composition of the succeeding vegetation. Plant communities with different ratios of grasses and forbs left soil legacies that negatively affected succeeding plants of the same functional type. We conclude that fungal‐mediated soil legacy effects play a significant role in vegetation assembly of natural plant communities.

          Abstract

          Under natural conditions, plant communities with different composition drive microbe‐mediated soil legacy effects on subsequent vegetation. Specifically, the abundance of forbs and grasses in vegetation can result in soil communities that negatively affect plants belonging to the same respective group. This study shows that plant–soil feedbacks occur in the field and are – in part – driven by pathogenic soil fungi.

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          FEEDBACK IN THE PLANT-SOIL SYSTEM

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            Temporal variation in plant-soil feedback controls succession.

            Soil abiotic and biotic factors play key roles in plant community dynamics. However, little is known about how soil biota influence vegetation changes over time. Here, we show that the effects of soil organisms may depend on both the successional development of ecosystems and on the successional position of the plants involved. In model systems of plants and soils from different successional stages, we observed negative plant-soil feedback for early-successional plant species, neutral feedback for mid-successional species, and positive feedback for late-successional species. The negative feedback of early-successional plants was independent of soil origin, while late-successional plants performed best in late- and worst in early-successional soil. Increased performance of the subordinate, late-successional plants resulted in enhanced plant community diversity. Observed feedback effects were more related to soil biota than to abiotic conditions. Our results show that temporal variations in plant-soil interactions profoundly contribute to plant community assemblage and ecosystem development.
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              Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi

              Rapid development of high-throughput (HTS) molecular identification methods has revolutionized our knowledge about taxonomic diversity and ecology of fungi. However, PCR-based methods exhibit multiple technical shortcomings that may bias our understanding of the fungal kingdom. This study was initiated to quantify potential biases in fungal community ecology by comparing the relative performance of amplicon-free shotgun metagenomics and amplicons of nine primer pairs over seven nuclear ribosomal DNA (rDNA) regions often used in metabarcoding analyses. The internal transcribed spacer (ITS) barcodes ITS1 and ITS2 provided greater taxonomic and functional resolution and richness of operational taxonomic units (OTUs) at the 97% similarity threshold compared to barcodes located within the ribosomal small subunit (SSU) and large subunit (LSU) genes. All barcode-primer pair combinations provided consistent results in ranking taxonomic richness and recovering the importance of floristic variables in driving fungal community composition in soils of Papua New Guinea. The choice of forward primer explained up to 2.0% of the variation in OTU-level analysis of the ITS1 and ITS2 barcode data sets. Across the whole data set, barcode-primer pair combination explained 37.6–38.1% of the variation, which surpassed any environmental signal. Overall, the metagenomics data set recovered a similar taxonomic overview, but resulted in much lower fungal rDNA sequencing depth, inability to infer OTUs, and high uncertainty in identification. We recommend the use of ITS2 or the whole ITS region for metabarcoding and we advocate careful choice of primer pairs in consideration of the relative proportion of fungal DNA and expected dominant groups.
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                Author and article information

                Contributors
                robin.heinen@tum.de
                Journal
                Ecol Lett
                Ecol. Lett
                10.1111/(ISSN)1461-0248
                ELE
                Ecology Letters
                John Wiley and Sons Inc. (Hoboken )
                1461-023X
                1461-0248
                07 April 2020
                June 2020
                : 23
                : 6 ( doiID: 10.1111/ele.v23.6 )
                : 973-982
                Affiliations
                [ 1 ] Department of Terrestrial Ecology Netherlands Institute of Ecology P.O. Box 50 6700 AB Wageningen The Netherlands
                [ 2 ] Institute of Biology Section Plant Ecology and Phytochemistry Leiden University P.O. Box 9505 2300 RA Leiden The Netherlands
                [ 3 ] Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology Center for Agricultural Resources Research Institute of Genetic and Developmental Biology The Chinese Academy of Sciences 286 Huaizhong Road 050021 Shijiazhuang Hebei China
                [ 4 ]Present address: Lehrstuhl für Terrestrische Ökologie Landnutzung und Umwelt Technische Universität München Wissenschaftszentrum Weihenstephan für Ernährung Hans‐Carl‐von‐Carlowitz‐Platz 2 D‐85354 Freising Germany
                Author notes
                [*] [* ] Correspondence: E‐mail: r.heinen@ 123456nioo.knaw.nl and robin.heinen@ 123456tum.de

                [*]

                These authors contributed equally to this work.

                Author information
                https://orcid.org/0000-0001-9852-1020
                https://orcid.org/0000-0003-1398-2018
                https://orcid.org/0000-0002-7951-4818
                https://orcid.org/0000-0003-1609-1544
                https://orcid.org/0000-0002-2878-3479
                Article
                ELE13497
                10.1111/ele.13497
                7318629
                32266749
                8a9799de-b184-464f-9a8e-dac243b8d3dd
                © 2020 The Authors. Ecology Letters published by CNRS and John Wiley & Sons Ltd

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 10 December 2019
                : 13 January 2020
                : 28 February 2020
                Page count
                Figures: 3, Tables: 0, Pages: 10, Words: 7927
                Funding
                Funded by: Nederlandse Organisatie voor Wetenschappelijk Onderzoek , open-funder-registry 10.13039/501100003246;
                Award ID: 865.14.006
                Funded by: McGill University , open-funder-registry 10.13039/100008582;
                Funded by: the Dutch organization for Scientific Research
                Categories
                Letter
                Letters
                Custom metadata
                2.0
                June 2020
                Converter:WILEY_ML3GV2_TO_JATSPMC version:5.8.4 mode:remove_FC converted:26.06.2020

                Ecology
                field experiment,grassland,pathogens,plant-soil feedback,soil bacteria,soil fungi,soil legacy effects,soil microbiome

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