Published August 15, 2017 | Version v1
Dataset Open

IBP-database and environmental IBP sequences for functional analysis of microalgae

Creators

  • 1. Polar Biological Oceanography, Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Am Handelshafen 12, Bremerhaven, Germany
  • 2. Computing Centre, Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Am Handelshafen 12, Bremerhaven, Germany
  • 3. Ecological Chemistry, Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Am Handelshafen 12, Bremerhaven, Germany
  • 4. School of Environmental Sciences, University of East Anglia, Norwich Research Park, Norwich NR4 7TJ, Norfolk, UK

Description

Database for analysis of ice binding protein (IBP) sequences (Uhlig et al. (2015)):

(1) DUF3494_seqs_Uniprot.fasta:  full length sequences with DUF3494 domain used for the calculation of the backbone tree in the phylogenetic placement

(2) env_IBPs.fasta: potential IBP sequences from one Arctic and five Antarctic sea ice metatranscriptomes (Sanger or 454)

(3) DUF3494_substree_fig2a_UniprotIDs.txt: UniProtIDs for subtree in Fig 2a

(4) DUF3494_confirmed_IBPactivity_UniprotIDs.txt: UniProtIDs for sequences with confirmed IBP function of the protein

If using this dataset please cite the following publication: Uhlig, C., Kilpert, F., Frickenhaus, S., Kegel, J.U., Krell, A., Mock, T., Valentin, K., Beszteri, B., (2015) The significance of antifreeze proteins for eukaryotic microbial communities of Arctic and Antarctic sea ice, The ISME Journal, 9, 2537–2540, doi:10.1038/ismej.2015.43

Notes

The work was funded by a doctoral fellowship of the German National Academic Foundation to CU. Financial support was provided by the PACES (Polar Regions and Coasts in a changing Earth System) research program of the Alfred Wegener Institute, within the Helmholtz Foundation Initiative in Earth and Environment, and by the Deutsche Forschungsgemeinschaft (DFG) through grant VA 105/13-1 and 2 to KV. The analyses performed by FK were funded under DFG grant FR2134/1-1. TM acknowledges the Natural Environment Research Council (NERC) for sequencing (Grant MGF (NBAF) 197).

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Additional details

Related works

Cites
10.1038/ismej.2015.43 (DOI)

References

  • Uhlig, C., Kilpert, F., Frickenhaus, S., Kegel, J.U., Krell, A., Mock, T., Valentin, K., Beszteri, B., (2015) The significance of antifreeze proteins for eukaryotic microbial communities of Arctic and Antarctic sea ice, The ISME Journal, 9, 2537–2540, doi:10.1038/ismej.2015.43