microBEnet talk for #AAASMobe by @phylogenomics - March 27, 2014
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Talk by Jonathan Eisen about the "microbiology of the built environment network" for the meeting "Microbiomes of the Built Environment" in Washington, DC on March 27, 2014.
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microBEnet talk for #AAASMobe by @phylogenomics - March 27, 2014
- 1. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? microBEnet: microbiology of the Built Environment network ! Jonathan A. Eisen University of California, Davis ! March 27, 2014 #AAASMoBe meeting
- 2. 2010 • The Alfred P. Sloan Foundation announced calls for proposals for a new “Indoor Environment Program” • One project would be to 
 
 “… establish an interdisciplinary network of researchers and practitioners that will build the community, operate community web resources, and organize specialized workshops …”
- 8. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? Meetings & Workshops Citizen Science Digital & Social Media Information (Overload) Education Openness & Sharing microBEnet Goals • Knowledge dissemination • Networking • Catalyzing collaboration • Gap filling • Producing resources • Teaching openness
- 9. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? Meetings & Workshops Citizen Science Digital & Social Media Information (Overload) Education Openness & Sharing microBEnet Goals • 2011 Session at Indoor Air • 2011 Citizen Microbiology • 2012 Session at Lake Arrowhead Small Genomes • 2012 Session at Healthy Buildings • 2012 VAMPS/QIIME • 2013 Citizen Microbiology at ASM • 2013 QIIME Workshops • 2013 GSC13 • 2014 Publish or Perish
- 10. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? Meetings & Workshops Citizen Science Digital & Social Media Education Openness & Sharing microBEnet Future Plans/Ideas • Animals in the BE • Closed ecosystems • Eukaryotes in the BE • Culture collections and reference genomes • Building Science Education • Antimicrobials in the BE • Software Carpentry • Bioinformatics workshops • Ideas wanted
- 12. http:// www.google. com/ Digital and Social Science New Paper Blog Post Twitter Facebook Page LinkedIn GroupPubmed Commons Mendeley
- 13. http:// www.google. com/ Digital and Social Science New Paper Twitter Facebook Page LinkedIn GroupMendeley
- 17. http:// www.google. com/ Digital and Social Science Meeting Storify Twitter Facebook Page LinkedIn GroupBlog
- 21. http:// www.google. com/ Digital and Social Science New Paper Blog Post Twitter Facebook Page LinkedIn GroupPubmed Commons Mendeley
- 22. http:// www.google. com/ Social Reference Collections • 140 members • >877 papers • Curated Tags
- 23. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? Author Contacts Google Scholar Pages Tagging Blog Journal Club New People’s Starting Point RSS Feeds
- 24. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? Newman M E J PNAS 2004;101:5200-5205 Gaps in the Field Full Text DB Co-authorship Networks
- 27. http:// www.google. com/ BE Reference Genomes • 7 students • Cultured organisms isolated from a variety of built environments • Identify, sequence, assemble, annotate, publish a genome each • 5 papers published so far in Genome Announcements • All Data released • Student blog • Brachybacterium muris (Jonathon Lo): • Microbacterium sp (Zach Bendiks): • Curtobacterium flaccumfaciens (Jennifer Flanagan) • Dietzia sp (Amanda Diep): • Kocuria rosea (Jessica Doctor): • Leucobacter sp (Dakota Bevans, Hannah Holland-Moritz):
- 28. http:// www.google. com/ Swab to Genome Workflow Dunitz et al. in prep
- 29. http:// www.google. com/ Aquarium Biogeography • Biogeography and succession • Extensive chemical “metadata” collected • 16S surveys and metagenomics • Using MBE tools • Coordinated by Jenna Lang, David Coil, Matt Haggerty • Advice from Josh Neufeld & Laura Sauder • Papers in progress Undergraduates: •Sabreen Aulakh •Alex Alexiev •Akshay Sethi •Andrew Shaver •Jennifer Flanagan •Lakshmi Bharadwaj High School: •Kevin Yang •In collaboration with Kenneth Kubo at American River College !
- 32. http:// www.google. com/ The Rise of Citizen Science
- 34. http:// www.google. com/ Home Microbiome Slide from Jack Gilbert, PI on Project
- 35. http:// www.google. com/ Wild Life of Your Home Slide from Holly Menninger, CoPI on the project
- 38. http:// www.google. com/ Teaching and Spreading Openness • Open Access publishing • Repositories and preprints • Open Data release • Data and Metadata publishing • Open Source Software • CC licenses on digital products • Recording and posting talks, slides • Post publication peer review
- 40. http:// www.google. com/ http:// www.google.c om/imgres? https:// www.google.c om/url? Meetings & Workshops Citizen Science Digital & Social Media Information (Overload) Education Openness & Sharing What Next? Sustainability More BE/BS Press Forward Wikipedia Integration RewardsMatchmaking Network Analysis Protocols Training on use Reporter Guides