Data from: Comparison of assessment parameters for identifying Key Biodiversity Areas
Data files
Jul 06, 2026 version files 113.50 GB
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1_R1_001.fastq.gz
4.83 GB
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1_R2_001.fastq.gz
4.99 GB
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10_R1_001.fastq.gz
3.28 GB
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10_R2_001.fastq.gz
3.42 GB
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11_R1_001.fastq.gz
4.77 GB
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11_R2_001.fastq.gz
4.93 GB
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13_R1_001.fastq.gz
4.34 GB
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13_R2_001.fastq.gz
4.54 GB
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15_R1_001.fastq.gz
4.97 GB
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15_R2_001.fastq.gz
5.20 GB
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2_R1_001.fastq.gz
4.44 GB
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2_R2_001.fastq.gz
4.63 GB
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3_R1_001.fastq.gz
6.36 GB
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3_R2_001.fastq.gz
6.59 GB
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4_R1_001.fastq.gz
7.26 GB
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4_R2_001.fastq.gz
7.50 GB
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5_R1_001.fastq.gz
4.65 GB
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5_R2_001.fastq.gz
4.76 GB
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6_R1_001.fastq.gz
4.25 GB
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6_R2_001.fastq.gz
4.32 GB
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7_R1_001.fastq.gz
3.84 GB
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7_R2_001.fastq.gz
3.95 GB
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8_R1_001.fastq.gz
2.80 GB
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8_R2_001.fastq.gz
2.88 GB
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AOO.dbf
426 B
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AOO.prj
402 B
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AOO.shp
4.18 KB
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AOO.shx
340 B
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Ariagona_SNPdataset.stru
7.24 MB
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Ariagona.jpg
3.12 MB
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coordinates.dbf
594 B
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coordinates.prj
402 B
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coordinates.shp
1.33 KB
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coordinates.shx
452 B
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localities.dbf
2.42 KB
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localities.prj
402 B
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localities.shp
912 B
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localities.shx
332 B
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potential_KBAs.dbf
1.60 KB
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potential_KBAs.prj
402 B
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potential_KBAs.shp
1.20 MB
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potential_KBAs.shx
252 B
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range.dbf
78 B
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range.prj
402 B
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range.shp
929.68 KB
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range.shx
108 B
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README.md
8.90 KB
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structure_cluster_proportion_in_each_potential_KBA.dbf
3.76 KB
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structure_cluster_proportion_in_each_potential_KBA.prj
402 B
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structure_cluster_proportion_in_each_potential_KBA.shp
1.20 MB
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structure_cluster_proportion_in_each_potential_KBA.shx
252 B
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suitable_habitat.dbf
1.85 KB
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suitable_habitat.prj
402 B
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suitable_habitat.shp
5.19 MB
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suitable_habitat.shx
1.52 KB
Abstract
The dataset comprises raw reads of ddRADseq libraries prepared for paired-end sequencing (2 x 150bp) and the final SNP dataset (5237 loci, 345 individuals) of Ariagona margaritae collected between 2009 and 2024 on Tenerife, La Gomera, and El Hierro. The final SNP was published as a .stru file. All raw reads from SNP sequencing were also published as fastq.gz files. Barcodes can be found in SuppTab. 7 of the associated article. A picture of a female adult of A. margaritae was published as a jpg. Furthermore, we included the coordinates as a .shp file in the same resolution as they were already published in SuppTab. 2 of the associated article. We also included all important polygons or points used to identify Key Biodiversity Areas (KBAs) based on the metrics: (ii) Area of occupancy (AOO), (iii) Extent of suitable habitat (ESH), (iv) Range, and (v) Locality. AOO, localities and the range were deposited as .shp files. The habitat model was deposited instead of the extent of suitable habitat, as ESH is easy to create by subtracting the range from the suitable habitat. It was also deposited as a .shp file. The structure cluster proportion in each potential KBA was deposited as a .shp file, so the Example Code in the Supplements of the associated article can be executed. The file contains polygons for each potential KBA and means of STRUCTURE cluster proportions across individuals sampled at each potential KBA. As already stated in the associated article we have organised the necessary permissions to collect data on the Canary islands. There were no ethics considerations necessary.
Dataset DOI: 10.5061/dryad.tmpg4f5dj
Description of the data and file structure
raw reads: DNA was extracted using the Qiagen DNeasy® Blood & Tissue kit (Hilden, Germany). ddRADseq libraries were prepared for paired-end sequencing on an Illumina NovaSeq platform (2 x 150bp) (Suchan et al. 2024). In contrast to the library preparation protocol, 24 different barcodes were used for 96 samples, which were assigned to four different Illumina indexes (SuppTab. 6 in associated publication). The raw reads were evaluated together with some raw reads of A. margaritae that have been already published (Gronefeld et al., 2026).
Gronefeld, S. C., López, H., Schmidt, R., and Hochkirch, A. 2026. Identifying Key Biodiversity Areas Based on Distinct Genetic Diversity. Molecular Ecology Resources 26(2):e70094. https://doi.org/10.1111/1755-0998.70094.
Suchan, T., Dufresnes, C., Schmidt, R., Ambu, J., Gippner, S., and Vences, M. 2024. ddRADseq for animal population genomics/phylogenomics. protocols.io. DOI: dx.doi.org/10.17504/protocols.io.kxygx3nzwg8j/v1.
To create Ariagona_SNPdataset: Stacks 2.6.6 was used to demultiplex, filter, trim raw reads to 65bp, and create an assembly and a catalogue of loci to finally identify SNPs (-M 3, -n 4, -p 22, -r 0.8, -write-single-snp, --min-maf 0.05) The 29 populations correspond to collection sites, which are at least 1 km apart and were calculated for the number of localities. Individuals with more than 40% missing data were removed. Afterwards, populations were recalculated.
sf objects were created using this code: (https://github.com/TheC0der856/Compare_KBA_Criteria).
Files and variables
File: Ariagona.jpg
Description: It is a picture of a female, mature Ariagona margaritae Kraus, 1892 (Tettigoniidae, Orthoptera) individual, collected in Icod in 2024 (SG213 oder SG214). The picture was taken within month of collection.
File: range.prj
Description: needed for range.shp, which is representing the updated range of Ariagona margaritae.
File: range.dbf
Description: needed for range.shp, which is representing the updated range of Ariagona margaritae.
File: range.shx
Description: needed for range.shp, which is representing the updated range of Ariagona margaritae.
File: suitable_habitat.dbf
Description: needed for suitable_habitat.shp, which is representing the suitable habitat for Ariagona margarita resulting from our habitat model.
File: suitable_habitat.prj
Description: needed for suitable_habitat.shp, which is representing the suitable habitat for Ariagona margarita resulting from our habitat model.
File: suitable_habitat.shp
Description: Representing the suitable habitat for Ariagona margarita resulting from our habitat model.
File: range.shp
Description: Representing the updated range of Ariagona margaritae.
File: suitable_habitat.shx
Description: needed for suitable_habitat.shp, which is representing the suitable habitat for Ariagona margarita resulting from our habitat model.
File: 1_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 1_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 2_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 2_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 3_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 3_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 4_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 4_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 5_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 5_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 6_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 6_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 7_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 7_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 8_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 8_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 10_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 10_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 11_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 11_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 13_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 13_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 15_R1_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: 15_R2_001.fastq.gz
Description: Raw reads of Ariagona margaritae.
File: Ariagona_SNPdataset.stru
Description: SNP dataset of Ariagona margaritae. 345 individuals, 5237 SNPs, diploid, one extra row with information on populations, 0 is representing missing data.
File: potential_KBAs.dbf
Description: needed for potential_KBAs.shp, which shows how we delinated potential KBAs we tested for identification with KBA criteria.
File: potential_KBAs.prj
Description: needed for potential_KBAs.shp, which shows how we delinated potential KBAs we tested for identification with KBA criteria.
File: potential_KBAs.shp
Description: The potential KBAs we tested for identification with KBA criteria.
File: potential_KBAs.shx
Description: needed for potential_KBAs.shp, which shows how we delinated potential KBAs we tested for identification with KBA criteria.
File: AOO.dbf
Description: needed for opening AOO.shp, which is showing the 2 x 2 km grids with occurrence points of Ariagona margaritae.
File: AOO.prj
Description: needed for opening AOO.shp, which is showing the 2 x 2 km grids with occurrence points of Ariagona margaritae.
File: AOO.shp
Description: showing the 2 x 2 km grids with occurrence points of Ariagona margaritae.
File: AOO.shx
Description: needed for opening AOO.shp, which is showing the 2 x 2 km grids with occurrence points of Ariagona margaritae.
File: localities.dbf
Description: needed to open localities.shp, which is showing all localities for Ariagona margaritae.
File: localities.prj
Description: needed to open localities.shp, which is showing all localities for Ariagona margaritae.
File: localities.shp
Description: showing all localities for Ariagona margaritae.
File: localities.shx
Description: needed to open localities.shp, which is showing all localities for Ariagona margaritae.
File: coordinates.dbf
Description: needed for opening coordinates.shp, which is showing all coordinates where Ariagona margaritae was found.
File: coordinates.prj
Description: needed for opening coordinates.shp, which is showing all coordinates where Ariagona margaritae was found.
File: coordinates.shp
Description: showing all coordinates where Ariagona margaritae was found.
File: coordinates.shx
Description: needed for opening coordinates.shp, which is showing all coordinates where Ariagona margaritae was found.
File: structure_cluster_proportion_in_each_potential_KBA.dbf
Description: This file is needed to open structure_cluster_proportion_in_each_potential_KBA.shp
File: structure_cluster_proportion_in_each_potential_KBA.prj
Description: This file is needed to open structure_cluster_proportion_in_each_potential_KBA.shp
File: structure_cluster_proportion_in_each_potential_KBA.shp
Description: This file shows the mean cluster proportion between all individuals occuring in the potential KBA. This file can be used for the example code in the Supplements of the Paper "Comparison of metrics for identifying Key Biodiversity Areas"
File: structure_cluster_proportion_in_each_potential_KBA.shx
Description: This file is needed to open structure_cluster_proportion_in_each_potential_KBA.shp
Code/software
https://github.com/TheC0der856/Compare_KBA_Criteria
See repository landing page for a description of these files.
