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  • Catalog of GenBank sequence read archive (SRA) entries of metagenomic DNA sequence analyses of bacterial and archaeal water column communities along the Eastern Beaufort Sea coast, North Slope, Alaska, 2012
  • Beaufort Lagoon Ecosystems LTER
    Baker, Kristina; Oregon State University
    Kellogg, Colleen TE; Hakai Institute
    McClelland, James W; The University of Texas at Austin
    Dunton, Kenneth H; The University of Texas at Austin
    Crump, Byron C; Oregon State University
  • 2021-03-24
  • Beaufort Lagoon Ecosystems LTER, K. Baker, C. Kellogg, J. McClelland, K. Dunton, and B. Crump. 2021. Catalog of GenBank sequence read archive (SRA) entries of metagenomic DNA sequence analyses of bacterial and archaeal water column communities along the Eastern Beaufort Sea coast, North Slope, Alaska, 2012 ver 1. Environmental Data Initiative. https://doi.org/DOI_PLACE_HOLDER (Accessed 2024-12-28).

  • In contrast to temperate systems, Arctic lagoons that span the Alaska Beaufort Sea coast face extreme seasonality. Nine months of ice cover up to ∼1.7 m thick is followed by a spring thaw that introduces an enormous pulse of freshwater, nutrients, and organic matter into these lagoons over a relatively brief 2–3 week period. Prokaryotic communities link these subsidies to lagoon food webs through nutrient uptake, heterotrophic production, and other biogeochemical processes, but little is known about how the genomic capabilities of these communities respond to seasonal variability. This study characterizes the metabolic capabilities of microbial communities across three seasons in two lagoons and one open coastal site along the eastern Alaska Beaufort Sea coast. We used metagenomic DNA sequence data of bacterial and archaeal water column communities to identify genes of relevant biogeochemical pathways.

    This data package catalogs sequence read archive (SRA) entries available through GenBank BioProject PRJNA642637 at https://www.ncbi.nlm.nih.gov/bioproject/PRJNA642637. This data package is associated with the following publication:

    Baker, Kristina D., Colleen T. E. Kellogg, James W. McClelland, Kenneth H. Dunton, and Byron C. Crump. “The Genomic Capabilities of Microbial Communities Track Seasonal Variation in Environmental Conditions of Arctic Lagoons.” Frontiers in Microbiology 12 (2021). https://doi.org/10.3389/fmicb.2021.601901.

    Environmental variables (physiochemical data from YSI and HOBO data loggers, as well as organic matter analysis and stable isotope data from discrete water samples) associated with this genomic dataset are available from the Arctic Data Center:

    Kenneth Dunton, Byron Crump, and James McClelland. Physical, chemical, and biological data from lagoons and open coastal waters in the nearshore environment of the eastern Alaska Beaufort Sea, 2011-2013. Arctic Data Center. doi:10.18739/A2DG13.

    To join the two datasets together, please use the provided site codes (column "site_name" here) and collection dates (column "collection_date" here) in each dataset. Note that the site codes in this package are without hyphens (e.g. JAA) while site codes in the above environmental data package have hyphens (e.g. JA-A).

    Instead of citing this package, which is a catalog, please cite the original GenBank data, journal article, or related Arctic Data Center dataset as appropriate. Citation guidance for the journal article and related Arctic Data Center dataset is available on the respective publishers' websites.

  • Geographic Coordinates
    • N: 70.13562, S: 70.13562, E: -143.6374, W: -143.6374
    • N: 70.10957, S: 70.08905, E: -143.4272, W: -143.6233
  • This data package is released to the public domain under Creative Commons CC0 1.0 “No Rights Reserved” (see: https://creativecommons.org/publicdomain/zero/1.0/). It may be distributed, remixed, and built upon. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. It is considered professional etiquette to provide attribution of the original work if this data package is shared or utilized in whole or by individual components. A generic citation is provided for this data package on the website of the repository where these data were obtained in the summary metadata page. Communication (and collaboration) with the creators of this data package is recommended to prevent duplicate research or publication. The consumer of these data ("Data User" herein) is urged to contact the authors of these data if any questions about methodology or results occur. The Data User should realize that these data may be actively used by others for ongoing research and that coordination may be necessary to prevent duplication or inappropriate use. Where appropriate, the Data User is encouraged to consider collaboration or co-authorship with the authors. The Data User should realize that misinterpretation may occur if data are used outside of the context of the original study. The Data User should be aware that periodic updates of this data package may be available from the website and it is the responsibility of the Data User to check for new versions of the data. While substantial efforts are made to ensure the accuracy of data and associated documentation, complete accuracy cannot be guaranteed. This data package (with its components) is made available “as is” and with no warranty of accuracy or fitness for use. The creators of this data package and the repository where these data were obtained shall not be liable for any damages resulting from misinterpretation, use or misuse of the data package or its components. Thank you.
  • DOI PLACE HOLDER
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