https://researchdata.se/sv/catalogue Search results sv Amplicon Sequence Variants of 418bp of CO1 from mild lysed arthropod community samples collected with Malaise traps from the Insect Biome Atlas project (https://www.insectbiomeatlas.org/) in Sweden, as described in the IBA data paper (https://doi.org/10.1038/s41597-025-05151-0) . This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Occurrence data were compiled from the following IBA Figshare items: Processed ASV data from the Insect Biome Atlas Project v3: (https://figshare.scilifelab.se/articles/dataset/Processed_ASV_data_from_the_Insect_Biome_Atlas_Project/27202368/3) - cleaned_noise_filtered_cluster_taxonomy_MG.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067522) - spikeins_tax_MG.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067525) Amplicon sequence variants from the Insect Biome Atlas project v6: (https://figshare.scilifelab.se/articles/dataset/Amplicon_sequence_variants_from_the_Insect_Biome_Atlas_project/25480681/6) - CO1_asv_counts_MG.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/%2049727829) - CO1_asv_seqs_MG.fasta.gz (https://figshare.scilifelab.se/ndownloader/files/46381135) The following samples were excluded from this resource due to sequencing failure: P26762_1247, P26762_1333, P27359_1207, P27361_1307, P27361_1148; or lack of non-zero counts for annotated ASVs: P27359_2998, P27361_1125, P27360_1032. Thu, 24 Apr 2025 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-6u5rum https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-6u5rum Naturhistoriska riksmuseet Andreia Miraldo John Sundh Elzbieta Iwaszkiewicz-Eggebrecht Emma Granqvist Lokeshwaran Manoharan Piotr Łukasik Ayco J. M. Tack Anders F. Andersson Tomas Roslin Fredrik Ronquist Amplicon Sequence Variants of 418bp of CO1 from leaf litter arthropod communities collected at Malaise traps from the Insect Biome Atlas project (https://www.insectbiomeatlas.org/)  in Madagascar, as described in the IBA data paper (https://doi.org/10.1038/s41597-025-05151-0) . This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Occurrence data were compiled from the following IBA Figshare items: Processed ASV data from the Insect Biome Atlas Project v3: (https://figshare.scilifelab.se/articles/dataset/Processed_ASV_data_from_the_Insect_Biome_Atlas_Project/27202368/3) - cleaned_noise_filtered_cluster_taxonomy_MG.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067522) - spikeins_tax_MG.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067525) Amplicon sequence variants from the Insect Biome Atlas project v6: (https://figshare.scilifelab.se/articles/dataset/Amplicon_sequence_variants_from_the_Insect_Biome_Atlas_project/25480681/6) - CO1_asv_counts_MG.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/%2049727829) - CO1_asv_seqs_MG.fasta.gz (https://figshare.scilifelab.se/ndownloader/files/46381135) The following samples were excluded from this resource due to sequencing failure: P30904_2718, P30904_2719; or lack of non-zero counts for annotated ASVs: P30904_2599, P30904_2607, P30904_2592. Thu, 24 Apr 2025 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-pad7pc https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-pad7pc Naturhistoriska riksmuseet Andreia Miraldo John Sundh Elzbieta Iwaszkiewicz-Eggebrecht Emma Granqvist Lokeshwaran Manoharan Piotr Łukasik Ayco J. M. Tack Anders F. Andersson Tomas Roslin Fredrik Ronquist The 16S (V3–V4) metabarcoding results presented here are described in detail in our manuscript (http://biorxiv.org/content/10.1101/2024.08.14.607742) and originate from the following sampling efforts: 1. Bi-weekly sampling along the Swedish marine monitoring program across twelve locations in Baltic Proper, Kattegat, and Skagerrak. For all the locations, sampling was performed between February 2016 and March 2017. Additionally, one station (Släggö, Skagerrak) was sampled from August 2015.2. Weekly sampling at multiple depths (5, 10, and 15 meters in most cases) at Tångesund, Sweden (Skagerrak), performed in 2016 between August 22nd and October 10th.3. Three longitudinal transects in Skagerrak, performed in 2016 on August 18th, 4. Replicate samples collected at Släggö marine station (Skagerrak) on the same date (August 20th 2019) and stored as filters before DNA extraction for 1 week, 1 month, 3 months, or 6 months, in either -20⁰C or -80⁰C.The extracted DNA was stored at -20⁰C until mid-2023 when the amplicon sequencing was performed. All the contextual data has been obtained from the SharkWeb portal maintained by the Swedish Meteorological and Hydrological Institute. This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Wed, 23 Apr 2025 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-p8gzhs https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-p8gzhs Kungliga Tekniska högskolan Krzysztof Jurdzinski The 16S (V3–V4) metabarcoding results presented here are described in detail in our manuscript (http://biorxiv.org/content/10.1101/2024.08.14.607742) and originate from the following sampling efforts: 1. Bi-weekly sampling along the Swedish marine monitoring program across twelve locations in Baltic Proper, Kattegat, and Skagerrak. For all the locations, sampling was performed between February 2016 and March 2017. Additionally, one station (Släggö, Skagerrak) was sampled from August 2015.2. Weekly sampling at multiple depths (5, 10, and 15 meters in most cases) at Tångesund, Sweden (Skagerrak), performed in 2016 between August 22nd and October 10th.3. Three longitudinal transects in Skagerrak, performed in 2016 on August 18th, 4. Replicate samples collected at Släggö marine station (Skagerrak) on the same date (August 20th 2019) and stored as filters before DNA extraction for 1 week, 1 month, 3 months, or 6 months, in either -20⁰C or -80⁰C.The extracted DNA was stored at -20⁰C until mid-2023 when the amplicon sequencing was performed. All the contextual data has been obtained from the SharkWeb portal maintained by the Swedish Meteorological and Hydrological Institute. This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Wed, 23 Apr 2025 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-tfg6cf https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-tfg6cf Kungliga Tekniska högskolan Krzysztof Jurdzinski Amplicon Sequence Variants of 418bp of CO1 from soil and leaf litter arthropod communities collected at Malaise traps from the Insect Biome Atlas project (https://www.insectbiomeatlas.org/) in Sweden, as described in the IBA data paper (https://doi.org/10.1038/s41597-025-05151-0) . This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Occurrence data were compiled from the following IBA Figshare items: Processed ASV data from the Insect Biome Atlas Project v3: (https://figshare.scilifelab.se/articles/dataset/Processed_ASV_data_from_the_Insect_Biome_Atlas_Project/27202368/3) - cleaned_noise_filtered_cluster_taxonomy_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067528) - spikeins_tax_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067531) Amplicon sequence variants from the Insect Biome Atlas project v6: (https://figshare.scilifelab.se/articles/dataset/Amplicon_sequence_variants_from_the_Insect_Biome_Atlas_project/25480681/6) - co1_asv_counts_se.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/46381132) - co1_asv_seqs_se.fasta.gz (https://figshare.scilifelab.se/ndownloader/files/46381138) The following samples were excluded from this resource due to sequencing failure: P25259_1390, P25259_1407, P25259_1411, P25259_1420, P25259_1422, P25259_1423, P25259_1428, P25259_1431, P25259_1435, P25259_1436, P25259_1439, P25259_1440, P25259_1444, P25259_1452, P25259_1460, P25259_1467, P25259_1469, P25259_1476, P25259_1591, P25259_1594, P25259_1641, P25259_1649; or lack of non-zero counts for annotated ASVs: P25259_1438, P25259_1455, P25259_1471, P25259_1475, P25259_1586, P25259_1661, P25259_1742. Thu, 07 Nov 2024 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-783jyb https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-783jyb Naturhistoriska riksmuseet Andreia Miraldo John Sundh Elzbieta Iwaszkiewicz-Eggebrecht Emma Granqvist Lokeshwaran Manoharan Piotr Łukasik Ayco J. M. Tack Anders F. Andersson Tomas Roslin Fredrik Ronquist Amplicon Sequence Variants of 418bp of CO1 from the preservative ethanol of bulk arthropod samples collected with Malaise traps from the Insect Biome Atlas project (https://www.insectbiomeatlas.org/) in Sweden, as described in the IBA data paper (https://doi.org/10.1038/s41597-025-05151-0) . This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Occurrence data were compiled from the following IBA Figshare items: Processed ASV data from the Insect Biome Atlas Project v3: (https://figshare.scilifelab.se/articles/dataset/Processed_ASV_data_from_the_Insect_Biome_Atlas_Project/27202368/3) - cleaned_noise_filtered_cluster_taxonomy_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067528) - spikeins_tax_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067531) Amplicon sequence variants from the Insect Biome Atlas project v6: (https://figshare.scilifelab.se/articles/dataset/Amplicon_sequence_variants_from_the_Insect_Biome_Atlas_project/25480681/6) - co1_asv_counts_se.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/46381132) - co1_asv_seqs_se.fasta.gz (https://figshare.scilifelab.se/ndownloader/files/46381138) Thu, 07 Nov 2024 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-af5cwp https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-af5cwp Naturhistoriska riksmuseet Andreia Miraldo John Sundh Elzbieta Iwaszkiewicz-Eggebrecht Emma Granqvist Lokeshwaran Manoharan Piotr Łukasik Ayco J. M. Tack Anders F. Andersson Tomas Roslin Fredrik Ronquist Amplicon Sequence Variants of 418bp of CO1 from homogenized arthropod community samples collected with Malaise traps from the Insect Biome Atlas project (https://www.insectbiomeatlas.org/) in Sweden, as described in the IBA data paper (https://doi.org/10.1038/s41597-025-05151-0) . This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Occurrence data were compiled from the following IBA Figshare items: Processed ASV data from the Insect Biome Atlas Project v3: (https://figshare.scilifelab.se/articles/dataset/Processed_ASV_data_from_the_Insect_Biome_Atlas_Project/27202368/3) - cleaned_noise_filtered_cluster_taxonomy_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067528) - spikeins_tax_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067531) Amplicon sequence variants from the Insect Biome Atlas project v6: (https://figshare.scilifelab.se/articles/dataset/Amplicon_sequence_variants_from_the_Insect_Biome_Atlas_project/25480681/6) - co1_asv_counts_se.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/46381132) - co1_asv_seqs_se.fasta.gz (https://figshare.scilifelab.se/ndownloader/files/46381138) The following samples were excluded from this resource due to low read counts: P28409_1377, P28409_1378, P28409_1379, P28409_1380, P28409_1382, P28409_1383, P28410_1334, P28410_1392; or lack of non-zero counts for annotated ASVs: P27361_1636, P28410_1037, P28410_1049. Thu, 07 Nov 2024 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-awjycd https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-awjycd Naturhistoriska riksmuseet Andreia Miraldo John Sundh Elzbieta Iwaszkiewicz-Eggebrecht Emma Granqvist Lokeshwaran Manoharan Piotr Łukasik Ayco J. M. Tack Anders F. Andersson Tomas Roslin Fredrik Ronquist Amplicon Sequence Variants of 418bp of CO1 from mild lysed arthropod community samples collected with Malaise traps from the Insect Biome Atlas project (https://www.insectbiomeatlas.org/) in Sweden, as described in the IBA data paper (https://doi.org/10.1038/s41597-025-05151-0) . This dataset was published via the SBDI ASV portal (https://asv-portal.biodiversitydata.se/) , and has been updated from 'Metadata only' to 'Occurrence' type. Occurrence data were compiled from the following IBA Figshare items: Processed ASV data from the Insect Biome Atlas Project v3: (https://figshare.scilifelab.se/articles/dataset/Processed_ASV_data_from_the_Insect_Biome_Atlas_Project/27202368/3) - cleaned_noise_filtered_cluster_taxonomy_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067528) - spikeins_tax_SE.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/50067531) Amplicon sequence variants from the Insect Biome Atlas project v6: (https://figshare.scilifelab.se/articles/dataset/Amplicon_sequence_variants_from_the_Insect_Biome_Atlas_project/25480681/6) - co1_asv_counts_se.tsv.gz (https://figshare.scilifelab.se/ndownloader/files/46381132) - co1_asv_seqs_se.fasta.gz (https://figshare.scilifelab.se/ndownloader/files/46381138) The following samples were excluded from this resource due to sequencing failure: P23412_1633, P23412_1638, P23412_1641, P23412_1647; or lack of non-zero counts for annotated ASVs: P20863_1580, P23412_1318, P25061_1224, P25061_1440, P25061_1463, P25061_1711, P25061_1734, P25259_1134, P25259_1250. Thu, 07 Nov 2024 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-veahzb https://researchdata.se/sv/catalogue/dataset/gbif-sweden-10-15468-veahzb Naturhistoriska riksmuseet Andreia Miraldo John Sundh Elzbieta Iwaszkiewicz-Eggebrecht Emma Granqvist Lokeshwaran Manoharan Piotr Łukasik Ayco J. M. Tack Anders F. Andersson Tomas Roslin Fredrik Ronquist "That which we call a rose by any other name would smell as sweet.” Shakespeare has Juliet tell her Romeo that a name is just a convention without meaning, what counts is the reference, the 'thing itself', to which the property of smelling sweet pertains alone. Frege in his classical paper “Über Sinn und Bedeutung” was not so sure, he assumed names can be inherently meaningful, even without a known reference. And Wittgenstein later in Philosophical Investigations (PI) seems to deny the sheer arbitrariness of names and reject looking for meaning out of context, by pointing to our inability to just utter some random sounds and by that really implying e.g. the door. The word cannot simply be separated from its meaning, in the same way as the money from the cow that could be bought for them (PI 120). Scientific names of biota, in particular, are often descriptive of properties pertaining to the organism or species itself. On the other hand, in semantic web technology and Linked Open Data (LOD) there is an overall effort to replace names by their references, in the form of web links or Uniform Resource Identifiers (URIs). “Things, not strings” is the motto. But, even in view of the many "challenges with using names to link digital biodiversity information" that were extensively described in a recent paper, would it at all be possible or even desirable to replace scientific names of biota with URIs? Or would it be sufficient to just identify equivalence relationships between different variants of names of the same biota, having the same reference, and then just link them to the same “thing”, by means of a property sameAs(URI)? The Global Names Architecture (GNA) has a resolver of scientific names that is already doing that kind of work, linking names of biota such as Pinus thunbergii to global identifiers and URIs from other data sources, such as Encyclopedia of Life (EOL) and uBio Namebank. But there may be other challenges with going from a “natural language”, even from a not entirely coherent system of scientific names, to a semantic web ontology, a solution to some of which have been proposed recently by means of so called 'lexical bridges'. Sun, 01 Jan 2017 00:00:00 GMT https://researchdata.se/sv/catalogue/dataset/doi-10-7910-dvn-bamcsi https://researchdata.se/sv/catalogue/dataset/doi-10-7910-dvn-bamcsi Stockholms universitet Philipson, Joakim