A keynote talk at iEVOBIO 2011 meeting - http://ievobio.org/. Has been a great meeting.

1. The role of grass-roots data sharing communities, standards and megasequencing projects in the genomics revolution Dawn Field NERC Centre for Ecology and Hydrology

3. PARADIGM SHIFT Nikos Kyrpides 1960-1990 16S RNA 1990-2010 Genomes 2010-2020 Pangenomes

4. GREAT CHALLENGES P. Chain et al. Science, 2009 Nikos Kyrpides 1995-2009 2010-2015 Finished 1000 3000 Draft 1000 10000

6. Nikos Kyrpides Culturable Unculturable

7. The trend is now increasingly geared towards ever more ambitious megasequencing projects...

9. And democratization of access to sequencing power... Just one example....

10. (~80) 41 metagenomes “ Global Ocean Survey” Sanger sequencing (Rusch et al, 2007) Metagenomics: Putting data generating capacity into perspective with an example from Bergen (1) 1 metagenome Sargasso Sea Sanger sequencing (Venter et al, 2005) (~120) 4 metagenomes & 4 metatranscriptomes Bergen mesocosm experiment Pyrosequencing (Gilbert et al, 2008) Gilbert JA, Field D, Huang Y, Edwards R, Li W, Gilna P, Joint I. (2008) Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities. PLoS ONE. Aug 22;3(8):e3042.

11. The Bergen ocean acidification study produced 19% of the reads produced in the GOS study and 5% of the total basepairs of sequence. Further evidence for the “Unknown Genome” and the Dark Matter of the Tree of Life

12. The Data - Flood - Tsunami - Deluge ?

13. the data bonanza

14. To exploit fully the promise of these data we need both scientific innovation and community agreement on how to provide appropriate stewardship of these resources for the benefit of all. Requires the evolution of our scientific, technological and sociological thinking....

15. SuperMarket The Genome Catalogue

16. DataMarket Norman Morrison

17. Packaging data

18. Labels for data <phenotype> <environmental context>

21. The Genomic Standards Consortium GSC 10 Argonne, 2010 GSC 11, Hinxton, 2010 Innovation through Collaboration GSC 12 Bremen, 2011 GSC 13 BGI 2012

24. Pelin Yilmaz et al 2011

27. Labels for data <MIGS> <MIMS>

29. Goal: International effort to sequence a reference genome for every cultured Archaeal and Bacterial organism (~9,000 microbes ) The Microbial Earth Project Phase I: Sequence one representative from every characterized microbial type species GEBA HMP

30. Source: Jack A. Gilbert Argonne National Labs http://earthmicrobiome.org

31. Field et al unpublished work on a Metadata Coverage Index (MCI) MCI > 50

32. GSC 5 at the EBI 2008

35. J Bacteriology PNAS Nature Science SIGS PLoS ONE Genome Research PLoS Genetics Nat Biotech BMC Genomics Total genome publications (1995 - 2011) Top ten journals publishing genome reports Total 1160 Genome publications in 60 peer reviewed publications Source - GenomesOnline Database May 28, 2011

36. Incentives for compliance

37. MIGS compliant marine phage genomes

38. GSC 9 at the JCVI – April 2010

40. Darwin Core GSC MIxS Peter Dawyndt Darwin core vs GSC MixS standard

41. Darwin Core GSC MIxS standard Taxon Identification Occurrence IPR related info Event Location GeologicalContext SamplingProtocol EnvironmentalConditions Darwin core vs GSC MixS standard Peter Dawyndt

45. Feast of the Mind

46. Labels for data <soil> <water>

47. http://environmentontology.org Member of OBO Foundry http://obofoundry.org

51. Field, et al 2009. Science . 326:234-236. http://biosharing.org

54. Feast of the Mind

57. Acknowledgements Coordination, workshops, working groups, infrastructure and exchange visits Additional workshop funds Local Hosts of GSC workshops Sponsors of GSC 9 and GSC 10 GSC Funding RCN4GSC