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Figure 5. from Collecting and Preserving Marine and Freshwater Isopoda (Crustacea: Peracarida) - Biodiversity Data Journal 3: e4912 (12 May 2015) https://doi.org/10.3897/BDJ.3.e4912

Figure 5. - Kathy Omura holding whirl top bag containing sample which is ready to be filled with ethanol.

Figure 1. from Collecting and Preserving Marine and Freshwater Isopoda (Crustacea: Peracarida) - Biodiversity Data Journal 3: e4912 (12 May 2015) https://doi.org/10.3897/BDJ.3.e4912

Figure 1. - Storage and shipping box also holds dive gear on small boats, large and small photographic trays, 10-12 liter [3 gallon] bucket with modified screw top lid and stainless steel carabiner, mesh dive sack, aquarium fish net, brass-framed mermaid's bra net (240 µm mesh or 63 µm for meiofauna), geology hammer, paint scraper, stainless steel spoon, dive sausage and reel. Photo credit: N. D. Pentcheff.

Figure 4. from Collecting and Preserving Marine and Freshwater Isopoda (Crustacea: Peracarida) - Biodiversity Data Journal 3: e4912 (12 May 2015) https://doi.org/10.3897/BDJ.3.e4912

Figure 4. - N. Dean Pentcheff and Niel Bruce straining seawater containing isopods into mermaid's bra (netting). The bucket is swirled to suspend animals and quickly strained over the netting to retain them.

Supplementary file pwt: Collection sites for black flies from Turkish Thrace, 2002–2006. from Black flies (Diptera: Simuliidae) of Turkish Thrace, with a new record for Turkey - Biodiversity Data Journal 3: e4834 (22 April 2015) https://doi.org/10.3897/BDJ.3.e4834

Collection sites for black flies from Turkish Thrace, 2002–2006.

Figure 2. from Collecting and Preserving Marine and Freshwater Isopoda (Crustacea: Peracarida) - Biodiversity Data Journal 3: e4912 (12 May 2015) https://doi.org/10.3897/BDJ.3.e4912

Figure 2. - Plankton net (240 µm mesh), 25 x 25 cm [10 x 10 inches] 240 µm mesh plankton netting to use with funnel, numbered mesh draw-string collecting bags (28 x 46 cm [11 x 18 inches], 200 or 300 µm mesh, seams reinforced with sew-on edge binding), draw-string cotton sack 41 x 76 cm [16 x 30 inches] for larger bulkier samples, assorted screw-top vials and plastic eye dropper, stainless steel forceps (10 and 25 cm [6 and 10 inches] long), insect collecting forceps for picking up fast moving or fragile animals, leather garden gloves, Optivisor optical glass binocular magnifier (2 diopter, 1.5x), dive light, whirl top bags (2 sizes = 13 x 30 cm [5 x 12 inches] and 12 x 23 cm [4.5 x 9 inches]), fanny pack, and GPS. Photo credit: N. D. Pentcheff.

opencc-zeroMay 2022View details →

Genotyping-by-sequencing of Canada's Apple Biodiversity Collection

Canada's Apple Biodiversity Collection (ABC) is one of the most diverse collections of apples in the world, which was designed to enable genetic mapping. The ABC is located at the Agriculture and Agri-Food Canada (AAFC) Kentville Research and Development Centre in Nova Scotia, Canada. In addition to phenotypic descriptions of the ABC, sequencing the accessions in the collection provides a valuable resource not only for researchers working on the collection, but for those studying apples more broadly. With this in mind, we report and make publicly available genotyping-by-sequencing (GBS) data for over 1,000 apple accessions from the ABC. By using three SNP callers and imputation, we were able to genotype 278,231 SNPs from 1,175 diverse apple accessions from the ABC.

openother-pdAug 2022View details →

Collection of wing images for conservation of honey bees (Apis mellifera) biodiversity in Europe

Identification of honey bee (Apis mellifera) from various parts of the world is essential for protection of their biodiversity. The identification can be based on wing measurements which is inexpensive and easy available. In order to develop such identification there are required reference samples from various parts or the world. We provide collection of 26481 honey bee fore wing images from 13 countries in Europe: Austria (AT), Croatia (HR), Greece (GR), Moldova (MD), Montenegro (ME), Poland (PL), Portugal (PT), Romania (RO), Serbia (RS), Slovenia (SI), Spain (ES), Turkey (TR). For each country there are three files starting with the two letter country code (indicated earlier in the parentheses): XX-wing-images.zip, XX-raw-coordinates.csv and XX-data.csv, which contain wing images, raw landmark coordinates and geographic coordinates, respectively. Files with prefix EU contain combined data from all countries. The resolution of the wing images was provided in pixels per meter. If the resolution was not provided it is not known. In those cases only wing shape and not wing size can be analyzed.  For analysis of the dataset see: Oleksa, A., Căuia, E., Siceanu, A., Pu&scaron;kadija, Z., Kovačić, M., Pinto, M. A., Rodrigues, P. J., Hatjina, F., Charistos, L., Bouga, M., Pre&scaron;ern, J., Kandemir, İ., Ra&scaron;ić, S., Kusza, S., Tofilski, A. (2023). Honey bee (Apis mellifera) wing images: a tool for identification and conservation. GigaScience, 12, giad019. <a href="https://doi.org/10.1093/gigascience/giad019">https://doi.org/10.1093/gigascience/giad019</a> Oleksa, A., Căuia, E., Siceanu, A., Pu&scaron;kadija, Z., Kovačić, M., Pinto, M. A., Rodrigues, P. J., Hatjina, F., Charistos, L., Bouga, M., Pre&scaron;ern, J., Kandemir, I., Ra&scaron;ić, S., Kusza, S., Tofilski, A. (2023). Apis-wings-EU. WorkflowHub. <a href="https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.422.1">https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.422.1</a>

opencc-zeroApr 2024View details →

Data from: Orchid trade at the source: Epiphytic species with conspicuous flowers in low-elevation forests are more locally collected in a Philippine key biodiversity area

Orchids are the most heavily traded plant group globally, putting pressure on wild populations in many source countries like the Philippines. Despite its rich orchid diversity, there remains a notable gap in understanding the factors driving orchid trade within the country. To address this knowledge gap and support orchid conservation efforts, we utilized a five-year orchid diversity dataset extensively collected through floristic field and village garden surveys in one of the largest key biodiversity areas in the southern Philippines. We employed a trait-based approach to investigate ecological drivers of local orchid collection within this source area. Our results show that around 36% of local orchid diversity have predicted collection risks of ≥50%. Notably, locally collected orchid species exhibited multiple, large, and conspicuously colored flowers that are found in low-elevation forests and higher up in forest stratum. Elevational distribution and flower size emerged as the strongest predictors, potentially influencing collection preferences. Our analysis of predicted collection risks underscores the vulnerability of both threatened and non-threatened orchid species to local collection pressures. Moreover, we highlight the practical utility of our trait-based approach in predicting risks and informing management strategies for local orchid conservation. This research marks a significant step towards identifying ecological drivers influencing orchid trade at its source, providing insights that can inform targeted conservation strategies across many key biodiversity areas for this highly diverse, charismatic, and threatened plant family.

publicApr 2024View details →

Data from: Orchid trade at the source: Epiphytic species with conspicuous flowers in low-elevation forests are more locally collected in a Philippine key biodiversity area

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publicMay 2022View details →

Genotyping-by-sequencing of Canada’s Apple Biodiversity Collection

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opennotspecifiedDec 2010View details →

FIGURE 1 in An annotated list of fish parasites (Copepoda, Monogenea, Digenea, Cestoda and Nematoda) collected from Emperors and Emperor Bream (Lethrinidae) in New Caledonia further highlights parasite biodiversity estimates on coral reef fish

FIGURE 1. Species of Hatschekia collected from lethrinid hosts, all drawn to same scale. A. Hatschekia gracilis Yamaguti, 1954; B. Hatschekia new species 12; C. Hatschekia cf. elegans Kabata, 1991; D. Hatschekia new species 16; E. Hatschekia new species 13; F. Hatschekia new species 14, G. Hatschekia new species 15.

Figure 3. from Collecting and Preserving Marine and Freshwater Isopoda (Crustacea: Peracarida) - Biodiversity Data Journal 3: e4912 (12 May 2015) https://doi.org/10.3897/BDJ.3.e4912

Figure 3. - N. Dean Pentcheff removing live isopod specimens from a coral rubble washed sample.

Supplementary file pwt: United States vendors for commonly used supplies. from Collecting and Preserving Marine and Freshwater Isopoda (Crustacea: Peracarida) - Biodiversity Data Journal 3: e4912 (12 May 2015) https://doi.org/10.3897/BDJ.3.e4912

United States vendors for commonly used supplies.

opennotspecifiedDec 2017View details →

FIGURE 1 in Uncovering the hidden biodiversity of natural history collections: Insights from DNA barcoding and morphological characters of the Neotropical genus Orthocomotis Dognin (Lepidoptera: Tortricidae)

FIGURE 1. Phylogenetic tree constructed for Orthocomotis sp. (three species of the tribe Olethreutini were used as an outgroup). The tree was constructed on the basis of a comparison of sequences from the mitochondrial COI fragment using the neighbor joining method. Bootstrap values for neighbor joining, maximum parsimony, maximum likelihood, and posterior probabilities for Bayesian inference are presented. Bootstrap values smaller than 50% (posterior probabilities <0.50) are not shown. Dashes represent no bootstrap or posterior value at a given node. All positions containing gaps and missing data were eliminated. Phylogenetic analyses were conducted using MEGA 6.0 (NJ/MP/ML) and MrBayes 3.1.2 (BI). The analysis involved 65 nucleotide sequences. There were a total of 227 positions in the final dataset.

opennotspecifiedDec 2017View details →

FIGURE 2 in Uncovering the hidden biodiversity of natural history collections: Insights from DNA barcoding and morphological characters of the Neotropical genus Orthocomotis Dognin (Lepidoptera: Tortricidae)

FIGURE 2. Phylogenetic network constructed for Orthocomotis sp using 110 sequences from mitochondrial COI fragments. The neighbor-net method was used to infer splits within the alignment. Bootstrap values are presented.