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Hydrobiid mudsnail image dataset: Raw stereomicroscope, processed, and segmented images of abundant brackish snails from a mesocosm experiment with multiple temperature treatments

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Titel: Hydrobiid mudsnail image dataset: Raw stereomicroscope, processed, and segmented images of abundant brackish snails from a mesocosm experiment with multiple temperature treatments
Autoren: MacNeil, Liam, Joly, Léa J, Ito, Maysa, Steinmann, Anna, Drakula, Maja, Wiegand, Hannes, Morsbach, Samuel, Karnatz, Josefine, Scotti, Marco
Verlagsinformationen: PANGAEA
Publikationsjahr: 2024
Bestand: PANGAEA - Data Publisher for Earth & Environmental Science (AWI Bremerhaven / MARUM Bremen)
Schlagwörter: AWISOM, AWI Sylt Outdoor Mesocosms, Computer vision, DAM sustainMare - iSeal: Trans- and interdisciplinary Social-ecological network analysis based on long-term monitoring, experimental data and stakeholders' assessment, File type, Gastropods, Identification, Image, specimens, specimens (File Size), specimens (MD5 Hash), specimens (Media Type), Image number/name, Image segmentation, iSeal, Magnification, MESO, mesocosm experiment, Method comment, Object Based Image Analysis, Research Mission of the German Marine Research Alliance (DAM): Protection and sustainable use of marine areas, Resolution, Sample code/label, Sampling date/time, experiment, Stereo microscope, Nikon, SMZ18, coupled with Microscope camera
Geographisches Schlagwort: LATITUDE: 55.022000 * LONGITUDE: 8.438250 * DATE/TIME START: 2022-03-30T00:00:00 * DATE/TIME END: 2022-06-20T00:00:00
Beschreibung: We examined the growth response of a brackish snail (Hydrobiidae) against multiple temperature treatments in a mesocosm located beside the Alfred Wegener Institute Wadden Sea Station on Sylt (55°01′19.2″N, 8°26′17.7″E). Bulk sediments were collected south of Pellworm (54° 31' 55.83"N, 8° 42' 40.36"E) at low tide on March 22, 2022, transferred to mesh-lined crates and introduced to mesocosm tanks (170 cm × 85 cm × 1800 L). Experimental warming treatments were conducted using three heaters per tank (Titanium heater 500 W, Aqua Medic, Bissendorf, Germany). The full specifications for the mesocosms are already published (Pansch et al., 2016). Throughout the experimental warming period, four sampling events (March 30, April 25, May 24, June 20) were conducted to core sediments. Sediment cores were washed and sieved (1mm mesh size) to disaggregate infauna. Individuals were separated for the common hydrobiid mudsnail, which were subsequently imaged in groups on a typical petri plate under stereomicroscopy. A semi-automatic object segmentation and size measurement approach was developed to rapidly differentiate and measure individuals from images. Segmentation was highly accurate and precise against manual length measurements (end-to-end; mm) collected in ImageJ for 4595 snails. Scaling the segmentation method across the full dataset estimated >40,000 snails and presented a complex species-specific response to warming. The enclosed dataset represents all raw, processed, and segmented images (n= 3201) produced by this study.
Publikationsart: dataset
Dateibeschreibung: text/tab-separated-values, 44814 data points
Sprache: English
Relation: MacNeil, Liam; Joly, Léa J; Ito, Maysa; Steinmann, Anna; Mehler, Knut; Scotti, Marco (2024): Sizing mudsnails: Applying superpixels to scale growth detection under ocean warming. Methods in Ecology and Evolution, 15(3), 544-554, https://doi.org/10.1111/2041-210X.14295; Pansch, Andreas; Winde, Vera; Asmus, Ragnhild; Asmus, Harald (2016): Tidal benthic mesocosms simulating future climate change scenarios in the field of marine ecology. Limnology and Oceanography-Methods, 14(4), 257-267, https://doi.org/10.1002/lom3.10086; https://doi.pangaea.de/10.1594/PANGAEA.957929; https://doi.org/10.1594/PANGAEA.957929
DOI: 10.1594/PANGAEA.957929
Verfügbarkeit: https://doi.pangaea.de/10.1594/PANGAEA.957929
https://doi.org/10.1594/PANGAEA.957929
Rights: CC-BY-4.0: Creative Commons Attribution 4.0 International ; Access constraints: unrestricted ; info:eu-repo/semantics/openAccess
Dokumentencode: edsbas.995F1652
Datenbank: BASE
Beschreibung
Abstract:We examined the growth response of a brackish snail (Hydrobiidae) against multiple temperature treatments in a mesocosm located beside the Alfred Wegener Institute Wadden Sea Station on Sylt (55°01′19.2″N, 8°26′17.7″E). Bulk sediments were collected south of Pellworm (54° 31' 55.83"N, 8° 42' 40.36"E) at low tide on March 22, 2022, transferred to mesh-lined crates and introduced to mesocosm tanks (170 cm × 85 cm × 1800 L). Experimental warming treatments were conducted using three heaters per tank (Titanium heater 500 W, Aqua Medic, Bissendorf, Germany). The full specifications for the mesocosms are already published (Pansch et al., 2016). Throughout the experimental warming period, four sampling events (March 30, April 25, May 24, June 20) were conducted to core sediments. Sediment cores were washed and sieved (1mm mesh size) to disaggregate infauna. Individuals were separated for the common hydrobiid mudsnail, which were subsequently imaged in groups on a typical petri plate under stereomicroscopy. A semi-automatic object segmentation and size measurement approach was developed to rapidly differentiate and measure individuals from images. Segmentation was highly accurate and precise against manual length measurements (end-to-end; mm) collected in ImageJ for 4595 snails. Scaling the segmentation method across the full dataset estimated >40,000 snails and presented a complex species-specific response to warming. The enclosed dataset represents all raw, processed, and segmented images (n= 3201) produced by this study.
DOI:10.1594/PANGAEA.957929