eGenomics: Cataloguing Our Complete Genome Collection III

Field, Dawn; Garrity, George; Gray, Tanya; Selengut, Jeremy; Sterk, Peter; Thomson, Nick; Tatusova, Tatiana; Cochrane, Guy; Glöckner, Frank Oliver; Kottmann, Renzo; Lister, Allyson L.; Tateno, Yoshio; Vaughan, Robert

doi:https://doi.org/10.1155/2007/47304

International Journal of Genomics

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Meeting Report | Open Access

Volume 2007 | Article ID 047304 | https://doi.org/10.1155/2007/47304

eGenomics: Cataloguing Our Complete Genome Collection III

Dawn Field,¹George Garrity,²Tanya Gray,¹Jeremy Selengut,³Peter Sterk,⁴Nick Thomson,⁵Tatiana Tatusova,⁶Guy Cochrane,⁴Frank Oliver Glöckner,⁷Renzo Kottmann,⁷Allyson L. Lister,⁸and Yoshio Tateno⁹ et al.

Received28 Dec 2006

Accepted28 Dec 2006

Published30 Apr 2007

Abstract

This meeting report summarizes the proceedings of the “eGenomics: Cataloguing our Complete Genome Collection III” workshop held September 11–13, 2006, at the National Institute for Environmental eScience (NIEeS), Cambridge, United Kingdom. This 3rd workshop of the Genomic Standards Consortium was divided into two parts. The first half of the three-day workshop was dedicated to reviewing the genomic diversity of our current and future genome and metagenome collection, and exploring linkages to a series of existing projects through formal presentations. The second half was dedicated to strategic discussions. Outcomes of the workshop include a revised “Minimum Information about a Genome Sequence” (MIGS) specification (v1.1), consensus on a variety of features to be added to the Genome Catalogue (GCat), agreement by several researchers to adopt MIGS for imminent genome publications, and an agreement by the EBI and NCBI to input their genome collections into GCat for the purpose of quantifying the amount of optional data already available (e.g., for geographic location coordinates) and working towards a single, global list of all public genomes and metagenomes.

References

D. Field, G. Garrity, N. Morrison et al., “Meeting report: eGenomics: cataloguing our complete genome collection I,” Comparative and Functional Genomics, vol. 6, pp. 357–362, 2006.
View at: Google Scholar
J. B. H. Martiny and D. Field, “Ecological perspectives on the sequenced genome collection,” Ecology Letters, vol. 8, no. 12, pp. 1334–1345, 2005.
View at: Publisher Site | Google Scholar
D. Field, N. Morrison, J. Selengut, and P. Sterk, “Meeting report: eGenomics: cataloguing our complete genome collection II,” OMICS: A Journal of Integrative Biology, vol. 10, no. 2, pp. 100–104, 2006.
View at: Publisher Site | Google Scholar
S. L. Baldauf, D. Bhattacharya, J. Cockrill, P. Hugenholtz, J. Pawlowski, and A. G. B. Simpson, “The tree of life: an overview,” in Assembling the Tree of Life, J. Cracraft and M. J. Donoghue, Eds., pp. 43–75, Oxford University Press, Oxford, UK, 2004.
View at: Google Scholar
R. A. Edwards, B. Rodriguez-Brito, L. Wegley et al., “Using pyrosequencing to shed light on deep mine microbial ecology under extreme hydrogeologic conditions,” BMC Genomics, vol. 7, p. 57, 2006.
View at: Publisher Site | Google Scholar
R. Edwards, “Random Community Genomics,” 2006, http://phagesdsuedu/~rob/.
View at: Google Scholar
N. Morrison, G. Cochrane, N. Faruque et al., “Concept of sample in OMICS technology,” OMICS: A Journal of Integrative Biology, vol. 10, no. 2, pp. 127–137, 2006.
View at: Publisher Site | Google Scholar
D. Field and S.-A. Sansone, “A special issue on data standards,” OMICS: A Journal of Integrative Biology, vol. 10, no. 2, pp. 84–93, 2006.
View at: Publisher Site | Google Scholar
G. Garrity and C. Lyons, “Future-proofing biological nomenclature,” OMICS: A Journal of Integrative Biology, vol. 7, no. 1, pp. 31–33, 2003.
View at: Publisher Site | Google Scholar
T. Lombardot, R. Kottmann, H. Pfeffer et al., “Megx.net—database resources for marine ecological genomics,” Nucleic Acids Research, vol. 34, Database issue, pp. D390–D393, 2006.
View at: Publisher Site | Google Scholar
K. Liolios, N. Tavernarakis, P. Hugenholtz, and N. C. Kyrpides, “The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwide,” Nucleic Acids Research, vol. 34, Database issue, pp. D332–D334, 2006.
View at: Publisher Site | Google Scholar
P. L. Whetzel, R. R. Brinkman, H. C. Causton et al., “Development of FuGO: an ontology for functional genomics investigations,” OMICS: A Journal of Integrative Biology, vol. 10, no. 2, pp. 199–204, 2006.
View at: Publisher Site | Google Scholar
F. E. Angly, B. Felts, M. Breitbart et al., “The marine viromes of four oceanic regions,” PLoS Biology, vol. 4, no. 11, pp. 2121–2131, 2006.
View at: Publisher Site | Google Scholar
F. O. Glöckner, M. Kube, M. Bauer et al., “Complete genome sequence of the marine planctomycete Pirellula sp. strain 1,” Proceedings of the National Academy of Sciences of the United States of America, vol. 100, no. 14, pp. 8298–8303, 2003.
View at: Google Scholar
R. Rabus, A. Ruepp, T. Frickey et al., “The genome of Desulfotalea psychrophila, a sulfate-reducing bacterium from permanently cold Arctic sediments,” Environmental Microbiology, vol. 6, no. 9, pp. 887–902, 2004.
View at: Publisher Site | Google Scholar
M. Bauer, M. Kube, H. Teeling et al., “Whole genome analysis of the marine Bacteroidetes ‘Gramella forsetii’ reveals adaptations to degradation of polymeric organic matter,” Environmental Microbiology, vol. 8, no. 12, pp. 2201–2213, 2006.
View at: Publisher Site | Google Scholar

Copyright

Copyright © 2007 Dawn Field et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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