Dataset S2: Global Synechococcus pigment type distribution from metagenomes with co-located mixed layer depths and sea surface properties
Cite this dataset
Lovindeer, Raisha; Ustick, Lucas (2021). Dataset S2: Global Synechococcus pigment type distribution from metagenomes with co-located mixed layer depths and sea surface properties [Dataset]. Dryad. https://doi.org/10.7280/D1XQ2P
Dataset containing Synechococcus metagenomes separated into pigment type abundance and proportion of light-harvesting generalists (capable of chromatic acclimation) at each sample location. Data are combined from GO-SHIP, GEOTRACES and TARA Oceans with co-located mixed layer depths and sea surface properties calculated from cruise CTD data. Additionally, the dataset contains co-located mixed layer depth climatology from ARGO; and sea surface height, and one-degree adjacent sea surface gradients via satellite atilmetry from AVISO.
Data was processed as fully described in the accompanying article—the manuscript that accompanies this dataset. Briefly, Synechococcus pigment types were derived from mpeAB gene coverage using methods previously described by Grebert et al (PNAS, 2018). Metagenomes used were taken from GO-SHIP, GEOTRACES, and TARA Oceans data and physical oceanographic parameters were obtained for the same month and location of the Synechococcus gene sample. Mixed layer depths were calculated using a threshold method of 0.2 oC from a surface reference of 10 m.
The following datasets were used to derive Synechococcus gene coverage and calculate mixed layer depths: Bio-GO-SHIP metagenomes (https://doi:10.1038/s41597-021-00889-9) and GO-SHIP vertical profiles (https://cchdo.ucsd.edu), GEOTRACES metagenomes (https://doi.org/10.1038/sdata.2018.176) and GEOTRACES vertical profiles from IDP 2017 (https://doi.org/10.1016/j.chemgeo.2018.05.040); TARA Oceans metagenomes (https://doi.org/10.1126/science.1261359) and TARA Oceans vertical profiles (https://doi.org/10.1594/PANGAEA.836321). SSH was derived from AVISO L4 ADT (https://doi.org/10.5067/DYNTO-1D1M1) and sea surface gradients were calculated using the absolute difference in SSH of the nearest 1o grid to the Synechococcus gene location. Mixed layer depth climatology was calculated using ARGO data, available at https://doi.org/10.1002/2017GL073426 and http://mixedlayer.ucsd.edu.
Data in the file accompanies the paper Lovindeer, R., Ustick, L. J., Primeau, F., Martiny, A. C., & Mackey, K. R. M. (2021). Modeling ocean color niche selection by Synechococcus blue-green acclimaters. Journal of Geophysical Research: Oceans: 126 https://doi.org/10.1029/2021JC017434
Missing values are recorded as NaN. See accompanying README for details on the parameters.
Note that either standard deviation (STD) or standard error (STDERR) are reported in the dataset and are indicated in the column header.