Dataset of 3D foraminifera to unravel environmental changes in the Baltic Sea entrance over the last 200 years

SND-ID: 2023-40

Creator/Principal investigator(s)

Constance Choquel - Lund University, Department of Geology orcid

Description

Dataset of 3D reconstructions of the foraminifer Elphidium clavatum (marine protist with a calcite shell) acquired at the Beamline BL 47XU, SPring-8 synchrotron facility (Japan). A voxel size of 0.5 µm was used. In total, 124 specimens of Elphidium clavatum were scanned. For each specimen are available: a collection of raw images ("cropped" folder), a collection of binary images ("mask" folder), a 3D reconstruction (STL file), and two snapshot images of the 3D reconstruction. Sediment cores were collected in 2013 during a cruise with R/V Skagerak at Öresund station DV, north of the Island of Ven (55°55.59′ N, 12°42.66′ E). From the sediment core, 16 sediment layers were selected, representing the last 200 years (i.e., roughly the years ~2013, ~2010, ~2005, ~2002, ~1993, ~1986, ~1978, ~1960, ~1939, ~1923, ~1906, ~1890, ~1873, ~1857, ~1840, and ~1807). Between five to ten Elphidium clavatum specimens were selected from each layer. The dataset is part of the study exploring 3D time series of microfossils recording environmental conditions in the Baltic Sea entrance from the period early industria

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Language

English

Research principal, contributors, and funding

Research principal

Lund University

Responsible department/unit

Geology department, Lund University

Contributor(s)

Behnaz Pirzamanbein - Lund University, Department of Statistics orcid

Laurie Charrieau - Alfred Wegener Institute, Marine Biogeosciences

Gerhard Schmiedl - University of Hamburg, Institute for Geology

Sha Ni - University of Hamburg, Institute for Geology

Dirk Müter - FORCE Technology, Brøndby, Denmark

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Funding 1

  • Funding agency: Swedish Research Council rorId
  • Funding agency's reference number: 2017-00671

Funding 2

  • Funding agency: Royal Physiographic Society of Lund rorId

Funding 3

  • Funding agency: Formas rorId
  • Funding agency's reference number: 2012-2140

Funding 4

  • Funding agency: Oscar and Lili Lamm Foundation rorId
Protection and ethical review

Data contains personal data

No

Method and time period

Time period(s) investigated

1807 – 2013

Species and taxons

foraminifera
elphidium clavatum

Geographic coverage

Geographic spread

Geographic location: Sweden, Skåne County, Öresund

Geographic description: Sediment cores were collected in 2013 during a cruise with R/V Skagerak at Öresund station DV, north of the Island of Ven (55°55.59′ N, 12°42.66′ E).

Publications


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Dataset
Dataset of 3D foraminifera to unravel environmental changes in the Baltic Sea entrance over the last 200 years

Download data

DV8_1993.zip (695.14 MB)
DV5_2002.zip (1.97 GB)
DV4_2005.zip (1.78 GB)
DV1_2013.zip (1.62 GB)
DV2_2010.zip (1.52 GB)
DV10_1986.zip (711.62 MB)
DV12_1978.zip (956.44 MB)
DV16_1960.zip (1.08 GB)
DV20_1939.zip (1.26 GB)
DV22_1923.zip (850.14 MB)
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Description

124 specimens of Elphidium clavatum from 16 sediment layers were scanned. For each specimen, the following files are available: a collection of raw images in TIF format ("cropped" folder), a collection of binary images in TIF format ("mask" folder), a 3D reconstruction in STL format, and two snapshot images of the 3D reconstruction in TIF or PNG format. A voxel size of 0.5 µm was used. The data for each specimen is stored in a folder named as follows: DV(sediment depth in cm)-sp(specimen number)

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Version 1

Citation

Constance Choquel. Lund University (2023). Dataset of 3D foraminifera to unravel environmental changes in the Baltic Sea entrance over the last 200 years. Swedish National Data Service. Version 1. https://doi.org/10.5878/285v-pt74

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Data format / data structure

Still image

3D

Creator/Principal investigator(s)

Constance Choquel - Lund University, Department of Geology orcid

License

Creative Commons  Attribution-ShareAlike 4.0 International (CC BY-SA 4.0)
Published: 2023-03-16