Changes
On June 9, 2023 at 1:42:19 PM UTC, Merin Reji Chacko:
-
Renamed resource Bioinformatic Pipeline to Genomic data in Vertebrate and plant taxa recovered from 10 catchments in Vaud using an eDNA-metabarcoding approach
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Updated description of resource Genomic data in Vertebrate and plant taxa recovered from 10 catchments in Vaud using an eDNA-metabarcoding approach from
Raw data, primer descriptions and the final output dataset.
toFastq files, primer descriptions and the final output dataset.
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13 | \"thomas.keggin@usys.ethz.ch\", \"given_name\": \"Thomas\", | 13 | \"thomas.keggin@usys.ethz.ch\", \"given_name\": \"Thomas\", | ||
14 | \"identifier\": \"\", \"name\": \"Keggin\"}, {\"affiliation\": \"Unit | 14 | \"identifier\": \"\", \"name\": \"Keggin\"}, {\"affiliation\": \"Unit | ||
15 | of Land Change Science, Swiss Federal Research Institute WSL, | 15 | of Land Change Science, Swiss Federal Research Institute WSL, | ||
16 | Birmensdorf, Switzerland\", \"affiliation_02\": \"\", | 16 | Birmensdorf, Switzerland\", \"affiliation_02\": \"\", | ||
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24 | \"identifier\": \"\", \"name\": \"Richards\"}, {\"affiliation\": | 24 | \"identifier\": \"\", \"name\": \"Richards\"}, {\"affiliation\": | ||
25 | \"Landscape Ecology, Institute of Terrestrial Ecosystems, ETH | 25 | \"Landscape Ecology, Institute of Terrestrial Ecosystems, ETH | ||
26 | Z\\u00fcrich, 8049 Z\\u00fcrich, Switzerland\", \"affiliation_02\": | 26 | Z\\u00fcrich, 8049 Z\\u00fcrich, Switzerland\", \"affiliation_02\": | ||
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28 | \"supervision\"], \"email\": \"loic.pellissier@wsl.ch\", | 28 | \"supervision\"], \"email\": \"loic.pellissier@wsl.ch\", | ||
29 | \"given_name\": \"Loic\", \"identifier\": \"0000-0002-2289-8259\", | 29 | \"given_name\": \"Loic\", \"identifier\": \"0000-0002-2289-8259\", | ||
30 | \"name\": \"Pellissier\"}]", | 30 | \"name\": \"Pellissier\"}]", | ||
31 | "author_email": null, | 31 | "author_email": null, | ||
32 | "creator_user_id": "adc05669-b377-4101-b441-b9bcb92437df", | 32 | "creator_user_id": "adc05669-b377-4101-b441-b9bcb92437df", | ||
33 | "date": "[{\"date\": \"2020-06-22\", \"date_type\": \"collected\", | 33 | "date": "[{\"date\": \"2020-06-22\", \"date_type\": \"collected\", | ||
34 | \"end_date\": \"2020-06-26\"}]", | 34 | \"end_date\": \"2020-06-26\"}]", | ||
35 | "doi": "10.16904/envidat.409", | 35 | "doi": "10.16904/envidat.409", | ||
36 | "funding": "[{\"grant_number\": \"\", \"institution\": \"Swiss | 36 | "funding": "[{\"grant_number\": \"\", \"institution\": \"Swiss | ||
37 | Federal Office of the Environment (FOEN)\", \"institution_url\": | 37 | Federal Office of the Environment (FOEN)\", \"institution_url\": | ||
38 | \"https://www.bafu.admin.ch/bafu/en/home.html\"}]", | 38 | \"https://www.bafu.admin.ch/bafu/en/home.html\"}]", | ||
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42 | "language": "en", | 42 | "language": "en", | ||
43 | "license_id": "cc-by-sa", | 43 | "license_id": "cc-by-sa", | ||
44 | "license_title": "Creative Commons Attribution Share-Alike | 44 | "license_title": "Creative Commons Attribution Share-Alike | ||
45 | (CC-BY-SA)", | 45 | (CC-BY-SA)", | ||
46 | "license_url": "https://creativecommons.org/licenses/by-sa/4.0/", | 46 | "license_url": "https://creativecommons.org/licenses/by-sa/4.0/", | ||
47 | "maintainer": "{\"affiliation\": \"\", \"email\": | 47 | "maintainer": "{\"affiliation\": \"\", \"email\": | ||
48 | \"merin.rejichacko@gmail.com\", \"given_name\": \"Merin\", | 48 | \"merin.rejichacko@gmail.com\", \"given_name\": \"Merin\", | ||
49 | \"identifier\": \"\", \"name\": \"Reji Chacko\"}", | 49 | \"identifier\": \"\", \"name\": \"Reji Chacko\"}", | ||
50 | "maintainer_email": null, | 50 | "maintainer_email": null, | ||
51 | "metadata_created": "2023-06-06T19:26:17.207182", | 51 | "metadata_created": "2023-06-06T19:26:17.207182", | ||
n | 52 | "metadata_modified": "2023-06-09T08:55:44.052693", | n | 52 | "metadata_modified": "2023-06-09T13:42:19.189793", |
53 | "name": "catchment-biodiversity-vaud-edna", | 53 | "name": "catchment-biodiversity-vaud-edna", | ||
54 | "notes": "This dataset contains the results of a five-day field | 54 | "notes": "This dataset contains the results of a five-day field | ||
55 | excursion which the extent to which eDNA sampling can capture the | 55 | excursion which the extent to which eDNA sampling can capture the | ||
56 | diversity of a region with highly heterogeneous habitat patches across | 56 | diversity of a region with highly heterogeneous habitat patches across | ||
57 | a wide elevation gradient through multiple hydrological catchments of | 57 | a wide elevation gradient through multiple hydrological catchments of | ||
58 | the Swiss Alps. Using peristaltic pumps, we filtered 60 L of water at | 58 | the Swiss Alps. Using peristaltic pumps, we filtered 60 L of water at | ||
59 | five sites per catchment for a total volume of 1 800 L. Using an eDNA | 59 | five sites per catchment for a total volume of 1 800 L. Using an eDNA | ||
60 | metabarcoding approach focusing on vertebrates and plants, we detected | 60 | metabarcoding approach focusing on vertebrates and plants, we detected | ||
61 | 86 vertebrate taxa spanning 41 families and 263 plant taxa spanning 79 | 61 | 86 vertebrate taxa spanning 41 families and 263 plant taxa spanning 79 | ||
62 | families across ten catchments. This dataset includes two sets of | 62 | families across ten catchments. This dataset includes two sets of | ||
63 | data. The first (Bioinformatic Pipeline) includes all the necessary | 63 | data. The first (Bioinformatic Pipeline) includes all the necessary | ||
64 | data for the bioinformatic pipeline, whereas the second (Analysis | 64 | data for the bioinformatic pipeline, whereas the second (Analysis | ||
65 | Figures) contains tidied data and scripts for the reproduction of all | 65 | Figures) contains tidied data and scripts for the reproduction of all | ||
66 | figures/analyses in the article describing this study.", | 66 | figures/analyses in the article describing this study.", | ||
67 | "num_resources": 3, | 67 | "num_resources": 3, | ||
68 | "num_tags": 5, | 68 | "num_tags": 5, | ||
69 | "organization": { | 69 | "organization": { | ||
70 | "approval_status": "approved", | 70 | "approval_status": "approved", | ||
71 | "created": "2018-12-01T11:59:01.791513", | 71 | "created": "2018-12-01T11:59:01.791513", | ||
72 | "description": "Our laboratory aims at understanding and | 72 | "description": "Our laboratory aims at understanding and | ||
73 | forecasting the response of biodiversity to landscape changes. We | 73 | forecasting the response of biodiversity to landscape changes. We | ||
74 | investigate the historical responses of species to past changes such | 74 | investigate the historical responses of species to past changes such | ||
75 | as plate tectonics or the glaciations of the Quaternary and | 75 | as plate tectonics or the glaciations of the Quaternary and | ||
76 | contemporary responses to ongoing global changes. We develop spatial | 76 | contemporary responses to ongoing global changes. We develop spatial | ||
77 | mechanistic models of biodiversity that account for processes such as | 77 | mechanistic models of biodiversity that account for processes such as | ||
78 | dispersal and biotic interactions.", | 78 | dispersal and biotic interactions.", | ||
79 | "id": "153392ee-d556-4b16-a330-dedb177e87f9", | 79 | "id": "153392ee-d556-4b16-a330-dedb177e87f9", | ||
80 | "image_url": "2018-12-01-105921.8275952000px-LogoWSL.svg.png", | 80 | "image_url": "2018-12-01-105921.8275952000px-LogoWSL.svg.png", | ||
81 | "is_organization": true, | 81 | "is_organization": true, | ||
82 | "name": "landscape-ecology-group", | 82 | "name": "landscape-ecology-group", | ||
83 | "state": "active", | 83 | "state": "active", | ||
84 | "title": "Landscape Ecology", | 84 | "title": "Landscape Ecology", | ||
85 | "type": "organization" | 85 | "type": "organization" | ||
86 | }, | 86 | }, | ||
87 | "owner_org": "153392ee-d556-4b16-a330-dedb177e87f9", | 87 | "owner_org": "153392ee-d556-4b16-a330-dedb177e87f9", | ||
88 | "private": false, | 88 | "private": false, | ||
89 | "publication": "{\"publication_year\": \"2023\", \"publisher\": | 89 | "publication": "{\"publication_year\": \"2023\", \"publisher\": | ||
90 | \"EnviDat\"}", | 90 | \"EnviDat\"}", | ||
91 | "publication_state": "published", | 91 | "publication_state": "published", | ||
92 | "related_datasets": "Please see the publication (currently under | 92 | "related_datasets": "Please see the publication (currently under | ||
93 | revision) for a full summary of all datasets and papers associated | 93 | revision) for a full summary of all datasets and papers associated | ||
94 | with this present dataset.", | 94 | with this present dataset.", | ||
95 | "related_publications": "This dataset corrresponds to the study | 95 | "related_publications": "This dataset corrresponds to the study | ||
96 | described in the paper: Catchment-based sampling of river eDNA | 96 | described in the paper: Catchment-based sampling of river eDNA | ||
97 | integrates terrestrial and aquatic biodiversity of alpine landscapes | 97 | integrates terrestrial and aquatic biodiversity of alpine landscapes | ||
98 | (Under Revision).", | 98 | (Under Revision).", | ||
99 | "relationships_as_object": [], | 99 | "relationships_as_object": [], | ||
100 | "relationships_as_subject": [], | 100 | "relationships_as_subject": [], | ||
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102 | "resource_type_general": "dataset", | 102 | "resource_type_general": "dataset", | ||
103 | "resources": [ | 103 | "resources": [ | ||
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168 | datasets required to run the analyses. A README describes the columns | 168 | datasets required to run the analyses. A README describes the columns | ||
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194 | "spatial": | 194 | "spatial": | ||
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196 | "spatial_info": "Switzerland", | 196 | "spatial_info": "Switzerland", | ||
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234 | } | 234 | } | ||
235 | ], | 235 | ], | ||
236 | "title": "Vertebrate and plant taxa recovered from 10 catchments in | 236 | "title": "Vertebrate and plant taxa recovered from 10 catchments in | ||
237 | Vaud using an eDNA-metabarcoding approach", | 237 | Vaud using an eDNA-metabarcoding approach", | ||
238 | "type": "dataset", | 238 | "type": "dataset", | ||
239 | "url": null, | 239 | "url": null, | ||
240 | "version": "1.0" | 240 | "version": "1.0" | ||
241 | } | 241 | } |