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in Long-term recovery of above-and belowground interactions in restored grasslands
f | 1 | { | f | 1 | { |
2 | "author": "[{\"affiliation\": \"WSL\", \"affiliation_02\": \"\", | 2 | "author": "[{\"affiliation\": \"WSL\", \"affiliation_02\": \"\", | ||
3 | \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | 3 | \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | ||
4 | \"validation\", \"curation\", \"publication\"], \"email\": | 4 | \"validation\", \"curation\", \"publication\"], \"email\": | ||
5 | \"carol.resch@wsl.ch\", \"given_name\": \"M. Carol\", \"identifier\": | 5 | \"carol.resch@wsl.ch\", \"given_name\": \"M. Carol\", \"identifier\": | ||
6 | \"0000-0003-1067-1142\", \"name\": \"Resch\"}, {\"affiliation\": | 6 | \"0000-0003-1067-1142\", \"name\": \"Resch\"}, {\"affiliation\": | ||
7 | \"WSL\", \"affiliation_02\": \"\", \"affiliation_03\": \"\", | 7 | \"WSL\", \"affiliation_02\": \"\", \"affiliation_03\": \"\", | ||
8 | \"data_credit\": [\"validation\", \"publication\", \"supervision\"], | 8 | \"data_credit\": [\"validation\", \"publication\", \"supervision\"], | ||
9 | \"email\": \"martin.schuetz@wsl.ch\", \"given_name\": \"Martin\", | 9 | \"email\": \"martin.schuetz@wsl.ch\", \"given_name\": \"Martin\", | ||
10 | \"identifier\": \"\", \"name\": \"Sch\\u00fctz\"}, {\"affiliation\": | 10 | \"identifier\": \"\", \"name\": \"Sch\\u00fctz\"}, {\"affiliation\": | ||
11 | \"Autonomous University of Madrid\", \"affiliation_02\": \"\", | 11 | \"Autonomous University of Madrid\", \"affiliation_02\": \"\", | ||
12 | \"affiliation_03\": \"\", \"email\": \"rochoahueso@gmail.com\", | 12 | \"affiliation_03\": \"\", \"email\": \"rochoahueso@gmail.com\", | ||
13 | \"given_name\": \"Raul\", \"identifier\": | 13 | \"given_name\": \"Raul\", \"identifier\": | ||
14 | \"https://www.researchgate.net/profile/Raul_Ochoa-Hueso2\", \"name\": | 14 | \"https://www.researchgate.net/profile/Raul_Ochoa-Hueso2\", \"name\": | ||
15 | \"Ochoa-Hueso\"}, {\"affiliation\": \"Swiss Federal Institute of | 15 | \"Ochoa-Hueso\"}, {\"affiliation\": \"Swiss Federal Institute of | ||
16 | Technology, Department of Environmental Systems Science\", | 16 | Technology, Department of Environmental Systems Science\", | ||
17 | \"affiliation_02\": \"\", \"affiliation_03\": \"\", \"data_credit\": | 17 | \"affiliation_02\": \"\", \"affiliation_03\": \"\", \"data_credit\": | ||
18 | [\"publication\", \"supervision\"], \"email\": | 18 | [\"publication\", \"supervision\"], \"email\": | ||
19 | \"nina.buchmann@usys.ethz.ch\", \"given_name\": \"Nina\", | 19 | \"nina.buchmann@usys.ethz.ch\", \"given_name\": \"Nina\", | ||
20 | \"identifier\": \"0000-0003-0826-2980\", \"name\": \"Buchmann\"}, | 20 | \"identifier\": \"0000-0003-0826-2980\", \"name\": \"Buchmann\"}, | ||
21 | {\"affiliation\": \"Swiss Federal Institute for Forest, Snow and | 21 | {\"affiliation\": \"Swiss Federal Institute for Forest, Snow and | ||
22 | Landscape Research WSL\", \"affiliation_02\": \"\", | 22 | Landscape Research WSL\", \"affiliation_02\": \"\", | ||
23 | \"affiliation_03\": \"\", \"data_credit\": \"publication\", \"email\": | 23 | \"affiliation_03\": \"\", \"data_credit\": \"publication\", \"email\": | ||
24 | \"beat.frey@wsl.ch\", \"given_name\": \"Beat\", \"identifier\": \"\", | 24 | \"beat.frey@wsl.ch\", \"given_name\": \"Beat\", \"identifier\": \"\", | ||
25 | \"name\": \"Frey\"}, {\"affiliation\": \"Swiss Federal Institute for | 25 | \"name\": \"Frey\"}, {\"affiliation\": \"Swiss Federal Institute for | ||
26 | Forest, Snow and Landscape Research WSL\", \"affiliation_02\": \"\", | 26 | Forest, Snow and Landscape Research WSL\", \"affiliation_02\": \"\", | ||
27 | \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | 27 | \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | ||
28 | \"publication\"], \"email\": \"ulrich.graf@wsl.ch\", \"given_name\": | 28 | \"publication\"], \"email\": \"ulrich.graf@wsl.ch\", \"given_name\": | ||
29 | \"Ulrich\", \"identifier\": \"\", \"name\": \"Graf\"}, | 29 | \"Ulrich\", \"identifier\": \"\", \"name\": \"Graf\"}, | ||
30 | {\"affiliation\": \"Department of Terrestrial Ecology, Netherland | 30 | {\"affiliation\": \"Department of Terrestrial Ecology, Netherland | ||
31 | Institute of Ecology (NIOO-KNAW)\", \"affiliation_02\": \"Laboratory | 31 | Institute of Ecology (NIOO-KNAW)\", \"affiliation_02\": \"Laboratory | ||
32 | of Nematology, Wageningen University\", \"affiliation_03\": \"\", | 32 | of Nematology, Wageningen University\", \"affiliation_03\": \"\", | ||
33 | \"data_credit\": \"publication\", \"email\": | 33 | \"data_credit\": \"publication\", \"email\": | ||
34 | \"W.vanderPutten@nioo.knaw.nl\", \"given_name\": \"Wim H.\", | 34 | \"W.vanderPutten@nioo.knaw.nl\", \"given_name\": \"Wim H.\", | ||
35 | \"identifier\": \"\", \"name\": \"van der Putten\"}, {\"affiliation\": | 35 | \"identifier\": \"\", \"name\": \"van der Putten\"}, {\"affiliation\": | ||
36 | \"Swiss Federal Institute for Forest, Snow and Landscape Research | 36 | \"Swiss Federal Institute for Forest, Snow and Landscape Research | ||
37 | WSL\", \"affiliation_02\": \"\", \"affiliation_03\": \"\", | 37 | WSL\", \"affiliation_02\": \"\", \"affiliation_03\": \"\", | ||
38 | \"data_credit\": [\"validation\", \"publication\"], \"email\": | 38 | \"data_credit\": [\"validation\", \"publication\"], \"email\": | ||
39 | \"stephan.zimmermann@wsl.ch\", \"given_name\": \"Stephan\", | 39 | \"stephan.zimmermann@wsl.ch\", \"given_name\": \"Stephan\", | ||
40 | \"identifier\": \"0000-0002-7085-0284\", \"name\": \"Zimmermann\"}, | 40 | \"identifier\": \"0000-0002-7085-0284\", \"name\": \"Zimmermann\"}, | ||
41 | {\"affiliation\": \"WSL\", \"affiliation_02\": \"\", | 41 | {\"affiliation\": \"WSL\", \"affiliation_02\": \"\", | ||
42 | \"affiliation_03\": \"\", \"data_credit\": [\"validation\", | 42 | \"affiliation_03\": \"\", \"data_credit\": [\"validation\", | ||
43 | \"curation\", \"publication\", \"supervision\"], \"email\": | 43 | \"curation\", \"publication\", \"supervision\"], \"email\": | ||
44 | \"anita.risch@wsl.ch\", \"given_name\": \"Anita C.\", \"identifier\": | 44 | \"anita.risch@wsl.ch\", \"given_name\": \"Anita C.\", \"identifier\": | ||
45 | \"0000-0003-0531-8336\", \"name\": \"Risch\"}]", | 45 | \"0000-0003-0531-8336\", \"name\": \"Risch\"}]", | ||
46 | "author_email": null, | 46 | "author_email": null, | ||
47 | "creator_user_id": "d30dde41-6b11-44de-9191-23cdd5bda0e9", | 47 | "creator_user_id": "d30dde41-6b11-44de-9191-23cdd5bda0e9", | ||
48 | "date": "[{\"date\": \"2017-07-01\", \"date_type\": \"collected\", | 48 | "date": "[{\"date\": \"2017-07-01\", \"date_type\": \"collected\", | ||
49 | \"end_date\": \"2018-08-31\"}]", | 49 | \"end_date\": \"2018-08-31\"}]", | ||
50 | "doi": "10.16904/envidat.252", | 50 | "doi": "10.16904/envidat.252", | ||
51 | "funding": "[{\"grant_number\": \"31003A_166654\", \"institution\": | 51 | "funding": "[{\"grant_number\": \"31003A_166654\", \"institution\": | ||
52 | \"Swiss National Science Foundation\", \"institution_url\": | 52 | \"Swiss National Science Foundation\", \"institution_url\": | ||
53 | \"https://p3.snf.ch/project-166654\"}]", | 53 | \"https://p3.snf.ch/project-166654\"}]", | ||
54 | "groups": [], | 54 | "groups": [], | ||
55 | "id": "9c4d0d64-3ddd-419d-a002-5a725b778274", | 55 | "id": "9c4d0d64-3ddd-419d-a002-5a725b778274", | ||
56 | "isopen": true, | 56 | "isopen": true, | ||
57 | "language": "en", | 57 | "language": "en", | ||
58 | "license_id": "odc-odbl", | 58 | "license_id": "odc-odbl", | ||
59 | "license_title": "ODbL with Database Contents License (DbCL)", | 59 | "license_title": "ODbL with Database Contents License (DbCL)", | ||
60 | "license_url": "https://opendefinition.org/licenses/odc-odbl", | 60 | "license_url": "https://opendefinition.org/licenses/odc-odbl", | ||
61 | "maintainer": "{\"affiliation\": \"WSL\", \"email\": | 61 | "maintainer": "{\"affiliation\": \"WSL\", \"email\": | ||
62 | \"anita.risch@wsl.ch\", \"given_name\": \"Anita C.\", \"identifier\": | 62 | \"anita.risch@wsl.ch\", \"given_name\": \"Anita C.\", \"identifier\": | ||
63 | \"0000-0003-0531-8336\", \"name\": \"Risch\"}", | 63 | \"0000-0003-0531-8336\", \"name\": \"Risch\"}", | ||
64 | "maintainer_email": null, | 64 | "maintainer_email": null, | ||
65 | "metadata_created": "2021-10-19T10:10:09.892034", | 65 | "metadata_created": "2021-10-19T10:10:09.892034", | ||
n | 66 | "metadata_modified": "2021-10-19T10:24:57.646696", | n | 66 | "metadata_modified": "2021-10-20T11:21:53.822268", |
67 | "name": | 67 | "name": | ||
68 | ecovery-of-above-and-belowground-interactions-in-restored-grasslands", | 68 | ecovery-of-above-and-belowground-interactions-in-restored-grasslands", | ||
69 | "notes": "This dataset contains all data, on which the following | 69 | "notes": "This dataset contains all data, on which the following | ||
70 | publication below is based.\r\n\r\n__Paper Citation:__\r\n\r\n_Resch, | 70 | publication below is based.\r\n\r\n__Paper Citation:__\r\n\r\n_Resch, | ||
71 | M.C., Sch\u00fctz, M., Ochoa-Hueso, R., Buchmann, N., Frey, B., Graf, | 71 | M.C., Sch\u00fctz, M., Ochoa-Hueso, R., Buchmann, N., Frey, B., Graf, | ||
72 | U., van der Putten, W.H., Zimmermann, S., Risch, A.C. (in review). | 72 | U., van der Putten, W.H., Zimmermann, S., Risch, A.C. (in review). | ||
73 | Long-term recovery of above- and belowground interactions in restored | 73 | Long-term recovery of above- and belowground interactions in restored | ||
74 | grassland after topsoil removal and seed addition. Journal of Applied | 74 | grassland after topsoil removal and seed addition. Journal of Applied | ||
75 | Ecology_\r\n\r\n__Please cite this paper together with the citation | 75 | Ecology_\r\n\r\n__Please cite this paper together with the citation | ||
76 | for the datafile.__\r\n\r\nStudy area and experimental design\r\nThe | 76 | for the datafile.__\r\n\r\nStudy area and experimental design\r\nThe | ||
77 | study was conducted in and around two nature reserves, Eigental and | 77 | study was conducted in and around two nature reserves, Eigental and | ||
78 | Altl\u00e4ufe der Glatt, which were located approximately 5 km apart | 78 | Altl\u00e4ufe der Glatt, which were located approximately 5 km apart | ||
79 | (47\u00b027\u00b4 to 47\u00b029\u00b4 N, 8\u00b037\u00b4 to | 79 | (47\u00b027\u00b4 to 47\u00b029\u00b4 N, 8\u00b037\u00b4 to | ||
80 | 8\u00b032\u00b4 E, 417 to 572 m a.s.l., Canton of Zurich, Switzerland; | 80 | 8\u00b032\u00b4 E, 417 to 572 m a.s.l., Canton of Zurich, Switzerland; | ||
81 | Figure S1 and S2, Table S1). Mean annual temperature and precipitation | 81 | Figure S1 and S2, Table S1). Mean annual temperature and precipitation | ||
82 | are 9.8 \u00b1 0.6 \u00b0C and 990 \u00b1 168 mm (Kloten climate | 82 | are 9.8 \u00b1 0.6 \u00b0C and 990 \u00b1 168 mm (Kloten climate | ||
83 | station 1988-2018; MeteoSchweiz, 2019). TFor this study, we used a | 83 | station 1988-2018; MeteoSchweiz, 2019). TFor this study, we used a | ||
84 | space-for-time approach based on eight restoration sites that were | 84 | space-for-time approach based on eight restoration sites that were | ||
85 | between 3 and 32 years old. We measured recovery and restoration | 85 | between 3 and 32 years old. We measured recovery and restoration | ||
86 | success by comparing the restored grasslands with intensively managed | 86 | success by comparing the restored grasslands with intensively managed | ||
87 | and semi-natural grasslands. Using a space-for-time approach requires | 87 | and semi-natural grasslands. Using a space-for-time approach requires | ||
88 | high similarities in historical properties of the site, such as soil | 88 | high similarities in historical properties of the site, such as soil | ||
89 | conditions and management regimes, to assure that temporal processes | 89 | conditions and management regimes, to assure that temporal processes | ||
90 | are appropriately represented by spatial patterns (Walker et al., | 90 | are appropriately represented by spatial patterns (Walker et al., | ||
91 | 2010). This was the case in our study. The restored sites had similar | 91 | 2010). This was the case in our study. The restored sites had similar | ||
92 | soil conditions (i.e., soil type, structure, water availability) as | 92 | soil conditions (i.e., soil type, structure, water availability) as | ||
93 | the targeted semi-natural grasslands, while they shared the same | 93 | the targeted semi-natural grasslands, while they shared the same | ||
94 | agricultural legacy with intensively managed grasslands, i.e., biomass | 94 | agricultural legacy with intensively managed grasslands, i.e., biomass | ||
95 | harvest and fertilization (manure and/or slurry) three to five times a | 95 | harvest and fertilization (manure and/or slurry) three to five times a | ||
96 | year as well as tillage. We randomly established three 5 m x 5 m | 96 | year as well as tillage. We randomly established three 5 m x 5 m | ||
97 | (25-m2) plots for plant identification and three 2 m x 2 m (4-m2) | 97 | (25-m2) plots for plant identification and three 2 m x 2 m (4-m2) | ||
98 | subplots for soil biotic and abiotic data collection at least 2 m away | 98 | subplots for soil biotic and abiotic data collection at least 2 m away | ||
99 | from the 25-m2 plots in each restoration site. Sites of similar age | 99 | from the 25-m2 plots in each restoration site. Sites of similar age | ||
100 | were grouped into four age classes: Y.4 (3 & 4 years after | 100 | were grouped into four age classes: Y.4 (3 & 4 years after | ||
101 | restoration), Y.18 (17 & 19 years), Y.24 (23 & 25 years), and Y.30 (27 | 101 | restoration), Y.18 (17 & 19 years), Y.24 (23 & 25 years), and Y.30 (27 | ||
102 | & 32 years). Six intensively managed (Initial) and six semi-natural | 102 | & 32 years). Six intensively managed (Initial) and six semi-natural | ||
103 | grassland (Target) sites complemented the experimental set-up, for a | 103 | grassland (Target) sites complemented the experimental set-up, for a | ||
104 | total of 36 plots. All plots were sampled under similar conditions, | 104 | total of 36 plots. All plots were sampled under similar conditions, | ||
105 | i.e., day of the year, air temperature, soil moisture, and time since | 105 | i.e., day of the year, air temperature, soil moisture, and time since | ||
106 | last rain event, in June/July 2017 (intensively managed and | 106 | last rain event, in June/July 2017 (intensively managed and | ||
107 | semi-natural plots) and 2018 (restored plots).\r\n\r\nCollection of | 107 | semi-natural plots) and 2018 (restored plots).\r\n\r\nCollection of | ||
108 | plants and selected soil biota data\r\nPlant species cover (in %) was | 108 | plants and selected soil biota data\r\nPlant species cover (in %) was | ||
109 | visually estimated in each 25-m2 plot in mid-June (Braun-Blanquet, | 109 | visually estimated in each 25-m2 plot in mid-June (Braun-Blanquet, | ||
110 | 1964; nomenclature: Lauber & Wagner, 1996). We calculated Shannon | 110 | 1964; nomenclature: Lauber & Wagner, 1996). We calculated Shannon | ||
111 | diversity and assessed plant community structure. We included soil | 111 | diversity and assessed plant community structure. We included soil | ||
112 | microbial (fungi, procaryotes) and nematodes in our study as they | 112 | microbial (fungi, procaryotes) and nematodes in our study as they | ||
113 | represent the majority of soil biotic diversity and abundance | 113 | represent the majority of soil biotic diversity and abundance | ||
114 | (Bardgett & van der Putten, 2014), cover various trophic levels of the | 114 | (Bardgett & van der Putten, 2014), cover various trophic levels of the | ||
115 | soil food web (Bongers & Ferris, 1999), and play key roles in soil | 115 | soil food web (Bongers & Ferris, 1999), and play key roles in soil | ||
116 | functioning and ecosystem processes (Bardgett & van der Putten, 2014). | 116 | functioning and ecosystem processes (Bardgett & van der Putten, 2014). | ||
117 | In particular, soil nematodes were found to be well suited belowground | 117 | In particular, soil nematodes were found to be well suited belowground | ||
118 | indicators to evaluate recovery/development after restoration (e.g. | 118 | indicators to evaluate recovery/development after restoration (e.g. | ||
119 | Frouz, et al. 2008; Kardol et al., 2009; Resch et al., 2019). We | 119 | Frouz, et al. 2008; Kardol et al., 2009; Resch et al., 2019). We | ||
120 | randomly collected ten soil cores (2.2 cm diameter x 12 cm depths; | 120 | randomly collected ten soil cores (2.2 cm diameter x 12 cm depths; | ||
121 | sampler from Giddings Machine Company, Windsor, USA) in the 4-m2 | 121 | sampler from Giddings Machine Company, Windsor, USA) in the 4-m2 | ||
122 | subplots to assess soil nematode and microbial (fungal, prokaryotic) | 122 | subplots to assess soil nematode and microbial (fungal, prokaryotic) | ||
123 | diversities and community structures. For soil nematodes, eight of the | 123 | diversities and community structures. For soil nematodes, eight of the | ||
124 | soil cores were combined and gently homogenized, placed in coolers and | 124 | soil cores were combined and gently homogenized, placed in coolers and | ||
125 | stored at 4 \u00b0C and transported to the laboratory (Netherlands | 125 | stored at 4 \u00b0C and transported to the laboratory (Netherlands | ||
126 | Institute of Ecology, NIOO, Wageningen, Netherlands) within three days | 126 | Institute of Ecology, NIOO, Wageningen, Netherlands) within three days | ||
127 | after collection. Free-living nematodes were extracted from 200 g of | 127 | after collection. Free-living nematodes were extracted from 200 g of | ||
128 | fresh soil using Oostenbrink elutriators (Oostenbrink, 1960). After | 128 | fresh soil using Oostenbrink elutriators (Oostenbrink, 1960). After | ||
129 | extraction, each sample was divided into three subsamples, two for | 129 | extraction, each sample was divided into three subsamples, two for | ||
130 | molecular identification and one to determine nematode abundance (see | 130 | molecular identification and one to determine nematode abundance (see | ||
131 | Resch et al., 2019). For the molecular work, two subsamples were | 131 | Resch et al., 2019). For the molecular work, two subsamples were | ||
132 | stored in 70% ethanol (final volume 10 mL each) and transported to the | 132 | stored in 70% ethanol (final volume 10 mL each) and transported to the | ||
133 | laboratory at the Swiss Federal Research Institute WSL (Birmensdorf, | 133 | laboratory at the Swiss Federal Research Institute WSL (Birmensdorf, | ||
134 | Switzerland). Each subsample was reduced to roughly 200 \u03bcL by | 134 | Switzerland). Each subsample was reduced to roughly 200 \u03bcL by | ||
135 | centrifugation and removal of the supernatant. The remaining ethanol | 135 | centrifugation and removal of the supernatant. The remaining ethanol | ||
136 | was vaporized (65 \u00b0C for 3 h). Thereafter, 180 \u03bcL ATL buffer | 136 | was vaporized (65 \u00b0C for 3 h). Thereafter, 180 \u03bcL ATL buffer | ||
137 | solution (Qiagen, Hilden, Germany) was immediately added and samples | 137 | solution (Qiagen, Hilden, Germany) was immediately added and samples | ||
138 | were stored at 4 \u00b0C until further processing. From these samples, | 138 | were stored at 4 \u00b0C until further processing. From these samples, | ||
139 | nematode metagenomic DNA was extracted using the DNeasy Blood & Tissue | 139 | nematode metagenomic DNA was extracted using the DNeasy Blood & Tissue | ||
140 | Kit (Qiagen, Hilden, Germany) according to the manufacturer`s | 140 | Kit (Qiagen, Hilden, Germany) according to the manufacturer`s | ||
141 | protocol, except for the incubation step which was run at 56 \u00b0C | 141 | protocol, except for the incubation step which was run at 56 \u00b0C | ||
142 | for 4 h. PCR amplification of the V6-V8 region of the eukaryotic | 142 | for 4 h. PCR amplification of the V6-V8 region of the eukaryotic | ||
143 | small-subunit (18S) was performed with 7.5 \u03bcL of genomic DNA | 143 | small-subunit (18S) was performed with 7.5 \u03bcL of genomic DNA | ||
144 | template (ca. 1 ng/\u03bcL) in 25 \u03bcL reactions containing 5 | 144 | template (ca. 1 ng/\u03bcL) in 25 \u03bcL reactions containing 5 | ||
145 | \u03bcL PCR reaction buffer, 2.5 mM MgCL2, 0.2 mM dNTPs, 0.8 \u03bcM | 145 | \u03bcL PCR reaction buffer, 2.5 mM MgCL2, 0.2 mM dNTPs, 0.8 \u03bcM | ||
146 | of each primer (NemF: Sapkota & Nicolaisen, 2015; 18Sr2b: Porazinska | 146 | of each primer (NemF: Sapkota & Nicolaisen, 2015; 18Sr2b: Porazinska | ||
147 | et al., 2009), 0.5 \u03bcL BSA, and 0.25 \u03bcL GoTaq G2 Hot Start | 147 | et al., 2009), 0.5 \u03bcL BSA, and 0.25 \u03bcL GoTaq G2 Hot Start | ||
148 | Polymerase (Promega Corporation, Madison, USA). Amplification was | 148 | Polymerase (Promega Corporation, Madison, USA). Amplification was | ||
149 | using an initial DNA denaturation step of 95 \u00b0C for 2 min, | 149 | using an initial DNA denaturation step of 95 \u00b0C for 2 min, | ||
150 | followed by 35 cycles at 94 \u00b0C for 40 sec, 58 \u00b0C for 40 sec, | 150 | followed by 35 cycles at 94 \u00b0C for 40 sec, 58 \u00b0C for 40 sec, | ||
151 | 72 \u00b0C for 1 min, and a final elongation step at 72 \u00b0C for 10 | 151 | 72 \u00b0C for 1 min, and a final elongation step at 72 \u00b0C for 10 | ||
152 | min. Filtering, dereplication, sample inference, chimera | 152 | min. Filtering, dereplication, sample inference, chimera | ||
153 | identification, and merging of paired-end reads was implemented using | 153 | identification, and merging of paired-end reads was implemented using | ||
154 | the DADA2 pipeline (v.1.12; Callahan et al., 2016) to finally assign | 154 | the DADA2 pipeline (v.1.12; Callahan et al., 2016) to finally assign | ||
155 | amplicon sequence variants (ASVs) as taxonomic units.\r\nWe combined | 155 | amplicon sequence variants (ASVs) as taxonomic units.\r\nWe combined | ||
156 | and homogenized the remaining two soil cores to assess soil microbes, | 156 | and homogenized the remaining two soil cores to assess soil microbes, | ||
157 | placed them in coolers (4 \u00b0C) and transported them to the | 157 | placed them in coolers (4 \u00b0C) and transported them to the | ||
158 | laboratory at WSL. Metagenomic DNA was extracted from 8 g sieved soil | 158 | laboratory at WSL. Metagenomic DNA was extracted from 8 g sieved soil | ||
159 | (2 mm) using the DNAeasy PowerMax Soil Kit (Qiagen, Hilden, Germany) | 159 | (2 mm) using the DNAeasy PowerMax Soil Kit (Qiagen, Hilden, Germany) | ||
160 | according to the manufacturer\u00b4s protocol. PCR amplification of | 160 | according to the manufacturer\u00b4s protocol. PCR amplification of | ||
161 | the V3-V4 region of the small-subunit (16S) of prokaryotes (i.e., | 161 | the V3-V4 region of the small-subunit (16S) of prokaryotes (i.e., | ||
162 | bacteria and archaea) and the ribosomal internal transcribed spacer | 162 | bacteria and archaea) and the ribosomal internal transcribed spacer | ||
163 | region (ITS2) of fungi was performed with 1 ng of template DNA using | 163 | region (ITS2) of fungi was performed with 1 ng of template DNA using | ||
164 | PCR primers and conditions as previously described (Frey et al., | 164 | PCR primers and conditions as previously described (Frey et al., | ||
165 | 2016). PCRs were run in triplicates, pooled and sent to the Genome | 165 | 2016). PCRs were run in triplicates, pooled and sent to the Genome | ||
166 | Quebec Innovation Centre (Montreal, QC, Canada) for barcoding using | 166 | Quebec Innovation Centre (Montreal, QC, Canada) for barcoding using | ||
167 | the Fluidigm Access Array technology (Fluidigm) and paired-end | 167 | the Fluidigm Access Array technology (Fluidigm) and paired-end | ||
168 | sequencing on the Illumina MiSeq v3 platform (Illumina Inc., San | 168 | sequencing on the Illumina MiSeq v3 platform (Illumina Inc., San | ||
169 | Diego, USA). Quality filtering, clustering into operational taxonomic | 169 | Diego, USA). Quality filtering, clustering into operational taxonomic | ||
170 | units (OTUs, 97% similarity cutoffs) and taxonomic assignment were | 170 | units (OTUs, 97% similarity cutoffs) and taxonomic assignment were | ||
171 | performed as previously described (Resch et al., 2021).Taxonomic | 171 | performed as previously described (Resch et al., 2021).Taxonomic | ||
172 | classification of nematode, prokaryotic and fungal sequences was | 172 | classification of nematode, prokaryotic and fungal sequences was | ||
173 | conducted querying against the most recent versions of PR2 (v.4.11.1; | 173 | conducted querying against the most recent versions of PR2 (v.4.11.1; | ||
174 | Guillou et al., 2013), SILVA (v.132; Quast et al., 2013), and UNITE | 174 | Guillou et al., 2013), SILVA (v.132; Quast et al., 2013), and UNITE | ||
175 | (v.8; Nilsson et al., 2019) reference sequence databases. Taxonomic | 175 | (v.8; Nilsson et al., 2019) reference sequence databases. Taxonomic | ||
176 | assignment cutoffs were set to confidence rankings \u2265 0.8 (below | 176 | assignment cutoffs were set to confidence rankings \u2265 0.8 (below | ||
177 | ranked as unclassified). Prokaryotic OTUs assigned to mitochondria or | 177 | ranked as unclassified). Prokaryotic OTUs assigned to mitochondria or | ||
178 | chloroplasts as well as OTUs or ASVs assigned to other than Fungi or | 178 | chloroplasts as well as OTUs or ASVs assigned to other than Fungi or | ||
179 | Nematoda were manually removed prior to data analysis. The three | 179 | Nematoda were manually removed prior to data analysis. The three | ||
180 | datasets were filtered to discard singletons and doubletons. Taxonomic | 180 | datasets were filtered to discard singletons and doubletons. Taxonomic | ||
181 | abundance matrices were rarefied to the lowest number of sequences per | 181 | abundance matrices were rarefied to the lowest number of sequences per | ||
182 | community to achieve parity of the total number of reads between | 182 | community to achieve parity of the total number of reads between | ||
183 | samples (Prokaryotes: 10,929 reads; Fungi: 18,337 reads; Nematodes: | 183 | samples (Prokaryotes: 10,929 reads; Fungi: 18,337 reads; Nematodes: | ||
184 | 6,662 reads). We calculated Shannon diversity and assessed community | 184 | 6,662 reads). We calculated Shannon diversity and assessed community | ||
185 | structures for soil nematodes, prokaryotes and fungi based on their | 185 | structures for soil nematodes, prokaryotes and fungi based on their | ||
186 | relative abundances of ASV or OTU at the taxon | 186 | relative abundances of ASV or OTU at the taxon | ||
187 | level.\r\n\r\nCollection of soil physical and chemical | 187 | level.\r\n\r\nCollection of soil physical and chemical | ||
188 | properties\r\nWe randomly collected one undisturbed soil core (5 cm | 188 | properties\r\nWe randomly collected one undisturbed soil core (5 cm | ||
189 | diameter, 12 cm depth) per 4-m2 subplot using a steel cylinder that | 189 | diameter, 12 cm depth) per 4-m2 subplot using a steel cylinder that | ||
190 | fit into the soil corer. The cylinders were capped to avoid | 190 | fit into the soil corer. The cylinders were capped to avoid | ||
191 | disturbance during transport and used to measure field capacity, rock | 191 | disturbance during transport and used to measure field capacity, rock | ||
192 | content and fine earth density as previously described (Resch et al., | 192 | content and fine earth density as previously described (Resch et al., | ||
193 | 2021). We randomly collected another three soil cores (5 cm diameter, | 193 | 2021). We randomly collected another three soil cores (5 cm diameter, | ||
194 | 12 cm depths) in each 4-m2 subplot to determine soil chemical | 194 | 12 cm depths) in each 4-m2 subplot to determine soil chemical | ||
195 | properties. The cores were pooled, dried at 60 \u00b0C for 48 h and | 195 | properties. The cores were pooled, dried at 60 \u00b0C for 48 h and | ||
196 | passed through a 2 mm sieve. We measured soil pH (CaCl2) on dried | 196 | passed through a 2 mm sieve. We measured soil pH (CaCl2) on dried | ||
197 | samples, total nitrogen (N) and organic carbon (C) concentration on | 197 | samples, total nitrogen (N) and organic carbon (C) concentration on | ||
198 | dried and fine-ground samples (\u2264 0.5 mm; for details see Resch et | 198 | dried and fine-ground samples (\u2264 0.5 mm; for details see Resch et | ||
199 | al., 2021). We calculated total N and organic C pools after correcting | 199 | al., 2021). We calculated total N and organic C pools after correcting | ||
200 | its concentration for soil depth, rock content and fine earth | 200 | its concentration for soil depth, rock content and fine earth | ||
201 | density.", | 201 | density.", | ||
202 | "num_resources": 8, | 202 | "num_resources": 8, | ||
203 | "num_tags": 12, | 203 | "num_tags": 12, | ||
204 | "organization": { | 204 | "organization": { | ||
205 | "approval_status": "approved", | 205 | "approval_status": "approved", | ||
206 | "created": "2018-04-20T09:51:26.756810", | 206 | "created": "2018-04-20T09:51:26.756810", | ||
207 | "description": "We are studying the distribution of and | 207 | "description": "We are studying the distribution of and | ||
208 | interactions among producers, consumers as well as decomposers and | 208 | interactions among producers, consumers as well as decomposers and | ||
209 | between these communities and their environment. We focus on food webs | 209 | between these communities and their environment. We focus on food webs | ||
210 | in real world ecosystems and thus mainly sample our data during | 210 | in real world ecosystems and thus mainly sample our data during | ||
211 | experimental field campaigns. Data collection under controlled | 211 | experimental field campaigns. Data collection under controlled | ||
212 | conditions in the greenhouse or experimental garden are, however, | 212 | conditions in the greenhouse or experimental garden are, however, | ||
213 | common add-ons hereby. We are mainly interested in the functioning of | 213 | common add-ons hereby. We are mainly interested in the functioning of | ||
214 | natural ecosystems and often conduct research in National Parks around | 214 | natural ecosystems and often conduct research in National Parks around | ||
215 | the world. Our main study area is, however, the Swiss National Park. | 215 | the world. Our main study area is, however, the Swiss National Park. | ||
216 | While working on basic research questions, we regularly consider | 216 | While working on basic research questions, we regularly consider | ||
217 | applied aspects that are related to protecting or conserving | 217 | applied aspects that are related to protecting or conserving | ||
218 | endangered ecosystems.\r\n\r\nExamples of research question of our | 218 | endangered ecosystems.\r\n\r\nExamples of research question of our | ||
219 | research group assesses are:\r\n\r\nHow is species loss related to | 219 | research group assesses are:\r\n\r\nHow is species loss related to | ||
220 | ecosystem processes and functions? Which species or species groups are | 220 | ecosystem processes and functions? Which species or species groups are | ||
221 | particularly relevant for ecosystem functioning? Which effects are | 221 | particularly relevant for ecosystem functioning? Which effects are | ||
222 | expected with the loss of such important species groups? How are | 222 | expected with the loss of such important species groups? How are | ||
223 | aboveground organisms interacting with belowground organisms? Which | 223 | aboveground organisms interacting with belowground organisms? Which | ||
224 | abiotic and biotic conditions favor diverse ecosystems? Is global | 224 | abiotic and biotic conditions favor diverse ecosystems? Is global | ||
225 | change (for example eutrophication, habitat fragmentation, climate) a | 225 | change (for example eutrophication, habitat fragmentation, climate) a | ||
226 | thread for diverse ecosystems? How can diverse ecosystems be | 226 | thread for diverse ecosystems? How can diverse ecosystems be | ||
227 | protected?", | 227 | protected?", | ||
228 | "id": "60e92a46-5f9b-4a06-a32e-6a5e04869486", | 228 | "id": "60e92a46-5f9b-4a06-a32e-6a5e04869486", | ||
229 | "image_url": "2018-07-10-090227.680797LogoWSL.svg", | 229 | "image_url": "2018-07-10-090227.680797LogoWSL.svg", | ||
230 | "is_organization": true, | 230 | "is_organization": true, | ||
231 | "name": "plant-animal-interactions", | 231 | "name": "plant-animal-interactions", | ||
232 | "state": "active", | 232 | "state": "active", | ||
233 | "title": "Plant-Animal Interactions", | 233 | "title": "Plant-Animal Interactions", | ||
234 | "type": "organization" | 234 | "type": "organization" | ||
235 | }, | 235 | }, | ||
236 | "owner_org": "60e92a46-5f9b-4a06-a32e-6a5e04869486", | 236 | "owner_org": "60e92a46-5f9b-4a06-a32e-6a5e04869486", | ||
237 | "private": false, | 237 | "private": false, | ||
238 | "publication": "{\"publication_year\": \"2021\", \"publisher\": | 238 | "publication": "{\"publication_year\": \"2021\", \"publisher\": | ||
239 | \"EnviDat\"}", | 239 | \"EnviDat\"}", | ||
t | 240 | "publication_state": "pub_pending", | t | 240 | "publication_state": "approved", |
241 | "related_datasets": "* Resch, M. Carol; Sch\u00fctz, Martin; Risch, | 241 | "related_datasets": "* Resch, M. Carol; Sch\u00fctz, Martin; Risch, | ||
242 | Anita C. (2019). Grassland restoration: nematodes and plant | 242 | Anita C. (2019). Grassland restoration: nematodes and plant | ||
243 | communities. EnviDat. doi:10.16904/envidat.65. \r\n\r\n* Resch, Monika | 243 | communities. EnviDat. doi:10.16904/envidat.65. \r\n\r\n* Resch, Monika | ||
244 | Carol; Sch\u00fctz, Martin; Buchmann, Nina; Frey, Beat; Graf, Ulrich; | 244 | Carol; Sch\u00fctz, Martin; Buchmann, Nina; Frey, Beat; Graf, Ulrich; | ||
245 | van der Putten, Wim H.; Zimmermann, Stephan; Risch, Anita C. (2020). | 245 | van der Putten, Wim H.; Zimmermann, Stephan; Risch, Anita C. (2020). | ||
246 | Restoring grassland multifunctionality. EnviDat. | 246 | Restoring grassland multifunctionality. EnviDat. | ||
247 | doi:10.16904/envidat.169. \r\n\r\n* Neff, Felix; Resch, M. Carol; | 247 | doi:10.16904/envidat.169. \r\n\r\n* Neff, Felix; Resch, M. Carol; | ||
248 | Marty, Anja; Rolley, Jacob D.; Sch\u00fctz, Martin; Risch, Anita C.; | 248 | Marty, Anja; Rolley, Jacob D.; Sch\u00fctz, Martin; Risch, Anita C.; | ||
249 | Gossner, Martin M. (2020). Grassland restoration: insects and insect | 249 | Gossner, Martin M. (2020). Grassland restoration: insects and insect | ||
250 | traits. EnviDat. doi:10.16904/envidat.142. ", | 250 | traits. EnviDat. doi:10.16904/envidat.142. ", | ||
251 | "related_publications": "* Resch, M.C., Sch\u00fctz, M., Graf, U., | 251 | "related_publications": "* Resch, M.C., Sch\u00fctz, M., Graf, U., | ||
252 | Wagenaar, R., van der Putten, W.H., Risch, A.C. 2019. Does topsoil | 252 | Wagenaar, R., van der Putten, W.H., Risch, A.C. 2019. Does topsoil | ||
253 | removal in grassland restoration benefit both soil nematode and plant | 253 | removal in grassland restoration benefit both soil nematode and plant | ||
254 | communities? Journal of Applied Ecology 56: 1782-1793.\r\n\r\n* Resch, | 254 | communities? Journal of Applied Ecology 56: 1782-1793.\r\n\r\n* Resch, | ||
255 | M. C., Sch\u00fctz, M., Buchmann, N., Frey, B., Graf, U., van der | 255 | M. C., Sch\u00fctz, M., Buchmann, N., Frey, B., Graf, U., van der | ||
256 | Putten, W. H., Zimmermann, S., Risch, A. C. 2021. Evaluating long-term | 256 | Putten, W. H., Zimmermann, S., Risch, A. C. 2021. Evaluating long-term | ||
257 | success in grassland restoration \u2013 an ecosystem | 257 | success in grassland restoration \u2013 an ecosystem | ||
258 | multifunctionality approach. Ecological Applications 31, | 258 | multifunctionality approach. Ecological Applications 31, | ||
259 | e02271.\r\n\r\n* Neff, F., Resch, M. C., Marty, A., Rolley, J. D., | 259 | e02271.\r\n\r\n* Neff, F., Resch, M. C., Marty, A., Rolley, J. D., | ||
260 | Sch\u00fctz, M., Risch, A. C, Gossner, M. M. Accepted. Long-term | 260 | Sch\u00fctz, M., Risch, A. C, Gossner, M. M. Accepted. Long-term | ||
261 | restoration success of insect herbivore communities in semi-natural | 261 | restoration success of insect herbivore communities in semi-natural | ||
262 | grasslands: a functional approach. Ecological Applications 30, | 262 | grasslands: a functional approach. Ecological Applications 30, | ||
263 | e02133.\r\n", | 263 | e02133.\r\n", | ||
264 | "relationships_as_object": [], | 264 | "relationships_as_object": [], | ||
265 | "relationships_as_subject": [], | 265 | "relationships_as_subject": [], | ||
266 | "resource_type": "dataset", | 266 | "resource_type": "dataset", | ||
267 | "resource_type_general": "dataset", | 267 | "resource_type_general": "dataset", | ||
268 | "resources": [ | 268 | "resources": [ | ||
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300 | "description": "Plot.ID\tconsecutive numbers for plots (in total | 300 | "description": "Plot.ID\tconsecutive numbers for plots (in total | ||
301 | 36 plots)\r\nTreatment\tOne restoration treatment and two reference | 301 | 36 plots)\r\nTreatment\tOne restoration treatment and two reference | ||
302 | treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) | 302 | treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) | ||
303 | combined with introduction of target plant species; | 303 | combined with introduction of target plant species; | ||
304 | Initial=intensively managed grasslands; Target= species-rich semi-wet | 304 | Initial=intensively managed grasslands; Target= species-rich semi-wet | ||
305 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | 305 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | ||
306 | restored grasslands: Treatment abbreviation + time since restoration; | 306 | restored grasslands: Treatment abbreviation + time since restoration; | ||
307 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | 307 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | ||
308 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | 308 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | ||
309 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | 309 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | ||
310 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | 310 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | ||
311 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | 311 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | ||
312 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | 312 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | ||
313 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | 313 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | ||
314 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | 314 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | ||
315 | (replicates) of plots per site (see Supporting Information Fig. | 315 | (replicates) of plots per site (see Supporting Information Fig. | ||
316 | S1)\r\nN.pool\tSoil nitrogen pool (June 2017); corrected for bulk | 316 | S1)\r\nN.pool\tSoil nitrogen pool (June 2017); corrected for bulk | ||
317 | density and 12 cm sampling depth [kg ha-1 12cm-1]\r\nCorg.pool\tSoil | 317 | density and 12 cm sampling depth [kg ha-1 12cm-1]\r\nCorg.pool\tSoil | ||
318 | organic carbon pool (June 2017); corrected for bulk density and 12 cm | 318 | organic carbon pool (June 2017); corrected for bulk density and 12 cm | ||
319 | sampling depth [kg ha-1 12cm-1]\r\npH\tsoil pH [CaCl2]\r\nBD\tBulk | 319 | sampling depth [kg ha-1 12cm-1]\r\npH\tsoil pH [CaCl2]\r\nBD\tBulk | ||
320 | density [g cm-3]\r\nFC\tField capacity [%]\r\nVeg.1\tprinciple | 320 | density [g cm-3]\r\nFC\tField capacity [%]\r\nVeg.1\tprinciple | ||
321 | coordinate axis 1 (vegetation)\r\nVeg.1\tprinciple coordinate axis 2 | 321 | coordinate axis 1 (vegetation)\r\nVeg.1\tprinciple coordinate axis 2 | ||
322 | (vegetation)\r\nNem.1\tprinciple coordinate axis 1 | 322 | (vegetation)\r\nNem.1\tprinciple coordinate axis 1 | ||
323 | (nematoda)\r\nNem.2\tprinciple coordinate axis 2 | 323 | (nematoda)\r\nNem.2\tprinciple coordinate axis 2 | ||
324 | (nematoda)\r\nFun.1\tprinciple coordinate axis 1 | 324 | (nematoda)\r\nFun.1\tprinciple coordinate axis 1 | ||
325 | (fungi)\r\nFun.2\tprinciple coordinate axis 2 | 325 | (fungi)\r\nFun.2\tprinciple coordinate axis 2 | ||
326 | (fungi)\r\nProk.1\tprinciple coordinate axis 1 | 326 | (fungi)\r\nProk.1\tprinciple coordinate axis 1 | ||
327 | (prokaryota)\r\nProk.2\tprinciple coordinate axis 2 | 327 | (prokaryota)\r\nProk.2\tprinciple coordinate axis 2 | ||
328 | (prokaryota)\r\nVeg.H\tShannon diversity | 328 | (prokaryota)\r\nVeg.H\tShannon diversity | ||
329 | (vegetation)\r\nNem.H\tShannon diversity (nematoda)\r\nFun.H\tShannon | 329 | (vegetation)\r\nNem.H\tShannon diversity (nematoda)\r\nFun.H\tShannon | ||
330 | diversity (fungi)\r\nProk.H\tShannon diversity (prokaryota)", | 330 | diversity (fungi)\r\nProk.H\tShannon diversity (prokaryota)", | ||
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358 | "description": "Plot.ID\tconsecutive numbers for plots (in total | 358 | "description": "Plot.ID\tconsecutive numbers for plots (in total | ||
359 | 36 plots)\r\nTreatment\tOne restoration treatment and two reference | 359 | 36 plots)\r\nTreatment\tOne restoration treatment and two reference | ||
360 | treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) | 360 | treatments. Topsoil+Propagules= Topsoil removal (upper 10-30 cm) | ||
361 | combined with introduction of target plant species; | 361 | combined with introduction of target plant species; | ||
362 | Initial=intensively managed grasslands; Target= species-rich semi-wet | 362 | Initial=intensively managed grasslands; Target= species-rich semi-wet | ||
363 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | 363 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | ||
364 | restored grasslands: Treatment abbreviation + time since restoration; | 364 | restored grasslands: Treatment abbreviation + time since restoration; | ||
365 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | 365 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | ||
366 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | 366 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | ||
367 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | 367 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | ||
368 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | 368 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | ||
369 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | 369 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | ||
370 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | 370 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | ||
371 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | 371 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | ||
372 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | 372 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | ||
373 | (replicates) of plots per site (see Supporting Information Fig. | 373 | (replicates) of plots per site (see Supporting Information Fig. | ||
374 | S1)\r\ncolumn I-LW\tPlant abundance per species (in total 327 plant | 374 | S1)\r\ncolumn I-LW\tPlant abundance per species (in total 327 plant | ||
375 | species) expressed as cover percentage estimation according to van der | 375 | species) expressed as cover percentage estimation according to van der | ||
376 | Maarel (vdM 1979; 7 classes: 1-7); nomenclature according to Lauber & | 376 | Maarel (vdM 1979; 7 classes: 1-7); nomenclature according to Lauber & | ||
377 | Wagner (1996)", | 377 | Wagner (1996)", | ||
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406 | for plots (in total 36 plots)\r\nTreatment\tOne restoration treatment | 406 | for plots (in total 36 plots)\r\nTreatment\tOne restoration treatment | ||
407 | and two reference treatments. Topsoil+Propagules= Topsoil removal | 407 | and two reference treatments. Topsoil+Propagules= Topsoil removal | ||
408 | (upper 10-30 cm) combined with introduction of target plant species; | 408 | (upper 10-30 cm) combined with introduction of target plant species; | ||
409 | Initial=intensively managed grasslands; Target= species-rich semi-wet | 409 | Initial=intensively managed grasslands; Target= species-rich semi-wet | ||
410 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | 410 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | ||
411 | restored grasslands: Treatment abbreviation + time since restoration; | 411 | restored grasslands: Treatment abbreviation + time since restoration; | ||
412 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | 412 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | ||
413 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | 413 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | ||
414 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | 414 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | ||
415 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | 415 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | ||
416 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | 416 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | ||
417 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | 417 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | ||
418 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | 418 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | ||
419 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | 419 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | ||
420 | (replicates) of plots per site (see Supporting Information Fig. | 420 | (replicates) of plots per site (see Supporting Information Fig. | ||
421 | S1)\r\n\t\r\nTaxonomy\t\r\nASV.ID\tunit number.letter code per | 421 | S1)\r\n\t\r\nTaxonomy\t\r\nASV.ID\tunit number.letter code per | ||
422 | amplicon sequence variant (in total 904)\r\nTaxonomic rank\tPhylum, | 422 | amplicon sequence variant (in total 904)\r\nTaxonomic rank\tPhylum, | ||
423 | Class, Order, Family, Genus, | 423 | Class, Order, Family, Genus, | ||
424 | Species\r\n\t\r\nAbundance\t\r\ncolumns\tPlot.ID (see | 424 | Species\r\n\t\r\nAbundance\t\r\ncolumns\tPlot.ID (see | ||
425 | Sample.data)\r\nrows\tASV.ID (see Taxonomy)\r\n\t\r\n\t\r\n\t", | 425 | Sample.data)\r\nrows\tASV.ID (see Taxonomy)\r\n\t\r\n\t\r\n\t", | ||
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454 | for plots (in total 36 plots)\r\nTreatment\tOne restoration treatment | 454 | for plots (in total 36 plots)\r\nTreatment\tOne restoration treatment | ||
455 | and two reference treatments. Topsoil+Propagules= Topsoil removal | 455 | and two reference treatments. Topsoil+Propagules= Topsoil removal | ||
456 | (upper 10-30 cm) combined with introduction of target plant species; | 456 | (upper 10-30 cm) combined with introduction of target plant species; | ||
457 | Initial=intensively managed grasslands; Target= species-rich semi-wet | 457 | Initial=intensively managed grasslands; Target= species-rich semi-wet | ||
458 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | 458 | to semi-dry grasslands\r\ntreat.yr\tTreatment abbreviation. For | ||
459 | restored grasslands: Treatment abbreviation + time since restoration; | 459 | restored grasslands: Treatment abbreviation + time since restoration; | ||
460 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | 460 | Initial + Target = NA\r\nyr.trt\tyear when topsoil was removed; | ||
461 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | 461 | Initial + Target = NA\r\nAge\ttime since restoration (sampling year | ||
462 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | 462 | 2018 - yr.trt); Initial + Target = NA\r\nAge.class\trestored sites of | ||
463 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | 463 | similar age grouped into four age classes. Y.4 = Year 3+4 (recently | ||
464 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | 464 | restored); Y.18 = Year 17+19 (mid-term); Y.24 = Year 23+25 | ||
465 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | 465 | (long-term); Y.30 = Year 27+32 (long-term); Initial + Target = | ||
466 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | 466 | NA\r\nCluster\tclustered spatial arrangment of sites in the field (see | ||
467 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | 467 | Supporting Information Fig. S1) \r\nSite\tclustered spatial arrangment | ||
468 | (replicates) of plots per site (see Supporting Information Fig. | 468 | (replicates) of plots per site (see Supporting Information Fig. | ||
469 | S1)\r\n\t\r\nTaxonomy\t\r\nOTU.ID\tconsecutive numbers for operational | 469 | S1)\r\n\t\r\nTaxonomy\t\r\nOTU.ID\tconsecutive numbers for operational | ||
470 | taxonomic units (OTUe 1-7794)\r\nTaxonomic rank\tDomain, Phylum, | 470 | taxonomic units (OTUe 1-7794)\r\nTaxonomic rank\tDomain, Phylum, | ||
471 | Class, Order, Family, Genus, | 471 | Class, Order, Family, Genus, | ||
472 | Species\r\n\t\r\nAbundance\t\r\ncolumns\tPlot.ID (see | 472 | Species\r\n\t\r\nAbundance\t\r\ncolumns\tPlot.ID (see | ||
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502 | grasslands; Initial = intensively managed grasslands; Target = | 502 | grasslands; Initial = intensively managed grasslands; Target = | ||
503 | species-rich semi-wet to semi-dry grasslands\r\nType\tInteractions | 503 | species-rich semi-wet to semi-dry grasslands\r\nType\tInteractions | ||
504 | type; A.A = abiotic.abiotic; A.B = abiotic.biotic; B.B = | 504 | type; A.A = abiotic.abiotic; A.B = abiotic.biotic; B.B = | ||
505 | biotic.biotic\r\nCorrelation\tnon-parametric Spearman rank | 505 | biotic.biotic\r\nCorrelation\tnon-parametric Spearman rank | ||
506 | correlations between biotic and abiotic parameters (ecological | 506 | correlations between biotic and abiotic parameters (ecological | ||
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535 | "description": "Treatment\tTreatment groups; Y.4-18 = restored | 535 | "description": "Treatment\tTreatment groups; Y.4-18 = restored | ||
536 | grasslands; Initial = intensively managed grasslands; Target = | 536 | grasslands; Initial = intensively managed grasslands; Target = | ||
537 | species-rich semi-wet to semi-dry | 537 | species-rich semi-wet to semi-dry | ||
538 | grasslands\r\nCorrelation\tnon-parametric Spearman rank | 538 | grasslands\r\nCorrelation\tnon-parametric Spearman rank | ||
539 | correlations\r\nVertex.1+2\tComparison between network components; | 539 | correlations\r\nVertex.1+2\tComparison between network components; | ||
540 | N.pool = total soil nitrogen pool [kg ha-1 12 cm-1]; Corg.pool = soil | 540 | N.pool = total soil nitrogen pool [kg ha-1 12 cm-1]; Corg.pool = soil | ||
541 | organic carbon pool [kg ha-1 12 cm-1], pH = soil pH [CaCl2]; BD = bulk | 541 | organic carbon pool [kg ha-1 12 cm-1], pH = soil pH [CaCl2]; BD = bulk | ||
542 | density [g cm-3]; FC = field capacity [%]\r\n\tPCoA 1 + 2 biotic | 542 | density [g cm-3]; FC = field capacity [%]\r\n\tPCoA 1 + 2 biotic | ||
543 | communities [Veg = vegetation; Nem = nematoda; Fun = fungi; Prok = | 543 | communities [Veg = vegetation; Nem = nematoda; Fun = fungi; Prok = | ||
544 | prokaryota]\r\nType\tInteractions type; A.A = abiotic.abiotic; A.B = | 544 | prokaryota]\r\nType\tInteractions type; A.A = abiotic.abiotic; A.B = | ||
545 | abiotic.biotic; B.B = biotic.biotic", | 545 | abiotic.biotic; B.B = biotic.biotic", | ||
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574 | nematoda, fungi, prokaryota)\r\nTreatment\tTreatment groups; Y.4-30= | 574 | nematoda, fungi, prokaryota)\r\nTreatment\tTreatment groups; Y.4-30= | ||
575 | restored grasslands (time since restoration); Initial=intensively | 575 | restored grasslands (time since restoration); Initial=intensively | ||
576 | managed grasslands (I)\r\nComparison\twithin- or between-community | 576 | managed grasslands (I)\r\nComparison\twithin- or between-community | ||
577 | Bray-Curtis dissimilarity distance | 577 | Bray-Curtis dissimilarity distance | ||
578 | comparison\r\nLabel\twithin-community distances of initial/restored | 578 | comparison\r\nLabel\twithin-community distances of initial/restored | ||
579 | grasslands: treatment abbreviation; between-communities distances of | 579 | grasslands: treatment abbreviation; between-communities distances of | ||
580 | initial/restored-to-target grasslands: treatment abbreviation plus | 580 | initial/restored-to-target grasslands: treatment abbreviation plus | ||
581 | Target (T; species-rich grasslands)\r\nmean\tMean distance to Target | 581 | Target (T; species-rich grasslands)\r\nmean\tMean distance to Target | ||
582 | (6 plots per treatment group)\r\nsd\tStandard deviation of distances | 582 | (6 plots per treatment group)\r\nsd\tStandard deviation of distances | ||
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623 | "id": "cb53f136-b0e5-418c-a3d3-cda8d0945ec6", | 623 | "id": "cb53f136-b0e5-418c-a3d3-cda8d0945ec6", | ||
624 | "name": "BIODIVERSITY", | 624 | "name": "BIODIVERSITY", | ||
625 | "state": "active", | 625 | "state": "active", | ||
626 | "vocabulary_id": null | 626 | "vocabulary_id": null | ||
627 | }, | 627 | }, | ||
628 | { | 628 | { | ||
629 | "display_name": "FUNGI", | 629 | "display_name": "FUNGI", | ||
630 | "id": "3b3fb186-f2d8-4f77-9ce4-a7df88e8832c", | 630 | "id": "3b3fb186-f2d8-4f77-9ce4-a7df88e8832c", | ||
631 | "name": "FUNGI", | 631 | "name": "FUNGI", | ||
632 | "state": "active", | 632 | "state": "active", | ||
633 | "vocabulary_id": null | 633 | "vocabulary_id": null | ||
634 | }, | 634 | }, | ||
635 | { | 635 | { | ||
636 | "display_name": "GRASSLAND", | 636 | "display_name": "GRASSLAND", | ||
637 | "id": "fa420fc0-5693-4358-bc61-4951b239457c", | 637 | "id": "fa420fc0-5693-4358-bc61-4951b239457c", | ||
638 | "name": "GRASSLAND", | 638 | "name": "GRASSLAND", | ||
639 | "state": "active", | 639 | "state": "active", | ||
640 | "vocabulary_id": null | 640 | "vocabulary_id": null | ||
641 | }, | 641 | }, | ||
642 | { | 642 | { | ||
643 | "display_name": "NEMATODES", | 643 | "display_name": "NEMATODES", | ||
644 | "id": "54e71617-a2c8-46d1-af90-ade02f8e5c67", | 644 | "id": "54e71617-a2c8-46d1-af90-ade02f8e5c67", | ||
645 | "name": "NEMATODES", | 645 | "name": "NEMATODES", | ||
646 | "state": "active", | 646 | "state": "active", | ||
647 | "vocabulary_id": null | 647 | "vocabulary_id": null | ||
648 | }, | 648 | }, | ||
649 | { | 649 | { | ||
650 | "display_name": "PLANTS", | 650 | "display_name": "PLANTS", | ||
651 | "id": "bbb54897-475a-4ae4-930f-98d06b621f4a", | 651 | "id": "bbb54897-475a-4ae4-930f-98d06b621f4a", | ||
652 | "name": "PLANTS", | 652 | "name": "PLANTS", | ||
653 | "state": "active", | 653 | "state": "active", | ||
654 | "vocabulary_id": null | 654 | "vocabulary_id": null | ||
655 | }, | 655 | }, | ||
656 | { | 656 | { | ||
657 | "display_name": "RESTORATION", | 657 | "display_name": "RESTORATION", | ||
658 | "id": "6d991907-cda7-4c60-9c79-ecd0056869a7", | 658 | "id": "6d991907-cda7-4c60-9c79-ecd0056869a7", | ||
659 | "name": "RESTORATION", | 659 | "name": "RESTORATION", | ||
660 | "state": "active", | 660 | "state": "active", | ||
661 | "vocabulary_id": null | 661 | "vocabulary_id": null | ||
662 | }, | 662 | }, | ||
663 | { | 663 | { | ||
664 | "display_name": "SOIL", | 664 | "display_name": "SOIL", | ||
665 | "id": "024cba10-0afd-4231-b6fc-7657536a5c05", | 665 | "id": "024cba10-0afd-4231-b6fc-7657536a5c05", | ||
666 | "name": "SOIL", | 666 | "name": "SOIL", | ||
667 | "state": "active", | 667 | "state": "active", | ||
668 | "vocabulary_id": null | 668 | "vocabulary_id": null | ||
669 | }, | 669 | }, | ||
670 | { | 670 | { | ||
671 | "display_name": "SOIL BIODIVERSITY", | 671 | "display_name": "SOIL BIODIVERSITY", | ||
672 | "id": "ad659a35-7f99-4b38-8dd0-137187960cdb", | 672 | "id": "ad659a35-7f99-4b38-8dd0-137187960cdb", | ||
673 | "name": "SOIL BIODIVERSITY", | 673 | "name": "SOIL BIODIVERSITY", | ||
674 | "state": "active", | 674 | "state": "active", | ||
675 | "vocabulary_id": null | 675 | "vocabulary_id": null | ||
676 | }, | 676 | }, | ||
677 | { | 677 | { | ||
678 | "display_name": "SOIL BIOLOGY", | 678 | "display_name": "SOIL BIOLOGY", | ||
679 | "id": "7a407b54-15dc-4c47-bce7-6e35e812f65e", | 679 | "id": "7a407b54-15dc-4c47-bce7-6e35e812f65e", | ||
680 | "name": "SOIL BIOLOGY", | 680 | "name": "SOIL BIOLOGY", | ||
681 | "state": "active", | 681 | "state": "active", | ||
682 | "vocabulary_id": null | 682 | "vocabulary_id": null | ||
683 | }, | 683 | }, | ||
684 | { | 684 | { | ||
685 | "display_name": "SOIL CHEMISTRY", | 685 | "display_name": "SOIL CHEMISTRY", | ||
686 | "id": "db9bbced-c332-45c7-a793-a5291d06923b", | 686 | "id": "db9bbced-c332-45c7-a793-a5291d06923b", | ||
687 | "name": "SOIL CHEMISTRY", | 687 | "name": "SOIL CHEMISTRY", | ||
688 | "state": "active", | 688 | "state": "active", | ||
689 | "vocabulary_id": null | 689 | "vocabulary_id": null | ||
690 | }, | 690 | }, | ||
691 | { | 691 | { | ||
692 | "display_name": "TOPSOIL REMOVAL", | 692 | "display_name": "TOPSOIL REMOVAL", | ||
693 | "id": "7096e3eb-a365-4229-9b22-e0f53fc9b10f", | 693 | "id": "7096e3eb-a365-4229-9b22-e0f53fc9b10f", | ||
694 | "name": "TOPSOIL REMOVAL", | 694 | "name": "TOPSOIL REMOVAL", | ||
695 | "state": "active", | 695 | "state": "active", | ||
696 | "vocabulary_id": null | 696 | "vocabulary_id": null | ||
697 | } | 697 | } | ||
698 | ], | 698 | ], | ||
699 | "title": "Long-term recovery of above-and belowground interactions | 699 | "title": "Long-term recovery of above-and belowground interactions | ||
700 | in restored grasslands", | 700 | in restored grasslands", | ||
701 | "type": "dataset", | 701 | "type": "dataset", | ||
702 | "url": null, | 702 | "url": null, | ||
703 | "version": "1.0" | 703 | "version": "1.0" | ||
704 | } | 704 | } |