At the AAAS Meeting in Vancouver in February there was a session focusing on “The Earth Microbiome Project” and related topics. The session was organized by Jack Gilbert and had a series of talks that may be of interest to those concerned about the microbiology of the built environment. I gave a talk in the session on “A Field Guide to the Microbes” for which the built environment is a key component.
I will try and post more details about the meeting but for know some may be interested in the “Storification” notes I made based upon twitter posts for the session. The storification is below.
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Stalking the Fourth Domain in Metagenomic Data: Searching for …
PLoS ONE 6(3): e18011. doi:10.1371/journal.pone.0018011 … This is an open- access article distributed under the terms of the Creative … -
Citizen Microbiology — Projects | Microbiology of the Built Environment Network
There are a few excellent resources for locating citizen science projects, covering topics from water sampling to galaxy classification. … -
“At my talk at #AAASMTG I will also discuss phylosift.wordpress.com/ta… plosone.org/article/info%3… and other things
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Bio-tastic! Posted: February 16, 2012 | Author: hollybik | Filed under: Uncategorized | Tags: github, twitter | 1 Comment ». Welcome to…
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PLoS ONE: The Phylogenetic Diversity of Metagenomes
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone. 0023214/trackback;jsessionid=B757DDC4559566340C64750BF92F7D76 … -
Steven Kembel – Google+ – Story behind new PLoS One paper on …
Sep 1, 2011 … Story behind new PLoS One paper on which I am an author. -
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“Rob Knight at #AAASMtg – of currently available rRNA data Earth Microbiome Project in last year covers >80% of known diversity
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“Rob Knight talks of his vision for personalized medicine in developing word by focusing on microbes #AAASMtg
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“@phylogenomics I hope you’re telling your microbe-loving friends at #aaasmtg where they can find great microbe artwork etsy.com/shop/artologica
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“Don’t forget to support microbial culture : etsy.com/shop/artologica #microbialart #aaasmtg
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Earth Microbiome Project breakfast theatre listening to @gilbertjacka at #AAASMtg http://pic.twitter.com/iDHN93A0 -
“Have to jump out of the #microbiome talk … follow @phylogenomics @digitalbio @hcpearson @gilbertjacka for the latest from #aaasmtg #emp
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Jack Gilbert Talk
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“Now @gilbertjacka discusses how to model future microbial community change … “microbe weather reports” #aaasmtg #emp
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“Microbes see us as “just a new lump of flesh that has come along in the last 2 million years” – @gilbertjacka #emp #aaasmtg
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““The Earth Microbiome Project is saving the lives of babies around the world and must be funded” says @gilbertjacka at #AAASMtg
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“#mep is saving babies around the world. It must get funded or the babies will die says @gilbertjacka #aaasmtg
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“UK native @gilbertjacka shows pic of English Channel and says “This is why I am not considered European” #AAASMtg
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“@gilbertjacka gets big laughs for a line about Plymouth Rock and says “That’s it – I’m out of here” and starts walking off stage #AAASMtg
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“Jack Gilbert @gilbertjacka continues to do a part science talk part comedy show – now is praising the “hairball” figure style #AAASMtg
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“@gilbertjacka: Pilgrims were from south Hampton. Shocking!! #aaasmtg
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“We don’t have species names for bacteria–we call them OTU1, OTU2, OTU3, OT4…. @gilbertjacka, scientist/comedian #AAASmtg
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“Jack Gilbert @gilbertjacka continues to do a part science talk part comedy show – now is praising the “hairball” figure style #AAASMtg
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“Can predict species abundance over time/space but wanted to know what they were doing….enter the #Hairball! @gilbertjacka #AAASmtg
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“I’m loving the tweets from Earth Microbiome session at #aaasmtg. Thanks @lizabio @b0yle @phylogenomics!
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My talk
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“Don’t keep it secret, don’t follow these notions that we’re not supposed to talk @ things. @phylogenomics on #klllthembargo #AAASmtg
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“Me too! Thx! RT: @hillaryrosner: I’m loving the tweets from Earth Microbiome session at #aaasmtg. Thanks @lizabio @b0yle @phylogenomics
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“my talk is on slideshare so share it, mock it, blog it, discuss it, comment on it, just don’t keep it secret. –@phylogenomics #aaasmtg #emp
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“Birders share when they see an unusual bird & quickly ID’d an Amer. robin in England. Need same tools for #microbes @phylogenomics #AAASmtg
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“Eisen: Birders saw American robin in Grimsby, UK until it was eaten by local predator. The anomoly quickly noticed & info shared. #AAASmtg
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“RT @digitalbio: @phylogenomics is imploring us to publicize his talk as much as possible. Blog , tweet, etc. #AAASmtg
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“@phylogenomics wants field guide to microbes like field guide to birds w/ iPhone apps etc. usable by amateurs in powerful ways #aaasmtg #emp
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“Preliminary attempts: A Field Guide to Bacteria by Dyer. Anyone interested in #microbes, must get this book. @phylogenomics #AAASmtg
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“http://www.amazon.com/gp/aw/d/0801488540 – a field gude to Bactria by Dyer – @phylogenomics #awesome #EMP #AAASmtg
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“Jonathan Eisen (UC-Davis) says we can’t catalogue microbes with the same thoroughness as birds — but that’s the “drive” of EMP. #AAASmtg
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“~8K described bacterial species, m/b billions of niches–a field guide ludicrous but worthy org principle for study @phylogenomics #AAASmtg
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“~50 papers studying # of species fo bacteria and #archaea. Lots of complications–like, what is a #species? @phylogenomics #AAASmtg
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“Need to forget constraints re: how people traditionally think about describing species. @phylogenomics #AAASmtg
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“You can divide #microbes into species-like categories or instead use branch length, phylogenetic diversity. @phylogenomics #AAASmtg
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“Matt Kane named me, Rob, Jonathan, Forest, and Janet – Professor Eisen-Man, Jack of All Trades, The Knight, Captain Goth and Stockholm Storm
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“@lizabio @phylogenomics Mmm, I was just asking since the previous #AAASmtg mentioned over 8k species found
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“This is our planet, we need to characterize microbial diversity on the planet. Even if it seems intractable. @phylogenomics #AAASmtg
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“We can start to ask if there’s niche characterization in different taxonomic groups of #microbes. @phylogenomics #AAASmtg
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“Jack Gilbert and Jonathan Eisen give excellent and entertaining perspectives on the importance of understanding the microbial world.
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“Awesome: “If you want to grab the data and publish a paper before we do, that’s great” re: 800 seq’d genomes @phylogenomics #AAASmtg
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“inspired by amateur birders, @phylogenomics held citizen microbiology workshop at UC Davis. #aaasmtg #emp
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“Use citizen science to engage amateurs to catalog #microbes like birds. OK, it’s a problem u can’t see them, but… @phylogenomics #AAASmtg
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“Eisen calls for more amateur participation in the EMP and citizen microbio. There’s “enormous potential” for popular engagement. #AAASmtg
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“Brilliant & entertaining talk on discovering the microbial universe RT@phylogenomics: My slides for #AAASMtg talk slidesha.re/zi7cVP
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“Why #microbes hard to culture? Partly b/c org’s have complex interactions, share metabolites, structures, signals @phylogenomics #AAASmtg
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“We want full engagement in sci. process for #microbes (not crowdsourcing). Easier for undergrads than public. @phylogenomics #AAASmtg
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“@phylogenomics wants us to start pronouncing QIIME “Qweeme” :-) #EMP #AAASmtg
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“v amusing story from @phylogenomics at #aaasmtg on bird watchers spotting US robin in UK, then watching it get eaten by bigger bird
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#AAASmtg #EMP great questions from the floor http://pic.twitter.com/3s0Tjzsz -
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Heather Joseph talk
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“Heather Joseph discussing “ELife” journal – which aims to be great (I love notion of aiming to be great; who would aim to suck?) #AAASmtg
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“Heather Joseph discussing open data issues – need to connect data to literature in a better way #AAASMtg
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“Heather Joseph pushing the need for Open Education Resources to help translate research material back into teaching #AAASMtg
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“Heather Joseph discussing the value and heavy use of Pubmed Central #AAASMtg “No publisher has been harmed in the making of this policy”
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“Heather Joseph discussing HR3699 “The numbers I see in my sleep” – the Research Works Act #AAASMtg
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“Joseph giving kudos to AAAS for opposing RWA svpow.wordpress.com/2012/0… tho I note; AAAS not doing enough in access phylogenomics.blogspot.com… #AAASMtg
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“Joseph: 1) learn more about OA 2) be conscious of where you publish 3) understand that IP should be respected but needs updating #AAASMtg
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“Joseph: try to use Creative Commons licenses for your work; talk to scholarly societies, promote a campus wide OA policy #AAASMtg
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“Joseph: consider joining Alliance for Taxpayer Access taxpayeraccess.org/ #AAASMtg
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Lunch
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“Overheard at lunch – for the last year I’ve done nothing but boing boing and book #AAASmtg
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“Discussing science faux pas at the tweetup at #aaasmtg phylogenomics.blogspot.com…
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The Tree of Life: Science Faux Pas Example #2: V = MA
OK. This is far and away my favorite Science Faux Pas I have seen. I cut this out of some magazine many years ago and posted … -
“RT @tysune: Collaborative notes for “Moving (Actively) from Vision to Change in Undergraduate Biology Education” at #AAASmtg: bit.ly/xnY182
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“At the undergraduate biology education session at #AAASMtg watching youtube.com/watch?v=PHmwZ9…
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Did You Know? 3.0 (Official Video) -2009 Edition
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“Sorry I am missing talk by @researchremix at #AAASMtg – there were no seats in the back and so I went to biology education session
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“Suggestion to have “learning paragraphs” in biology education having students answer ? about what they learned that week #AAASMtg
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“As #AAASmtg session discussing the “Testing Effect” en.wikipedia.org/wiki/Test…
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Testing effect – Wikipedia, the free encyclopedia
From Wikipedia, the free encyclopedia The testing effect refers to the higher probability of recalling an item resulting from the act of … -
RT @phylogenomics: At #AAASmtg education session people using strange carbon based communication system http://pic.twitter.com/2Kk1Opgk -
“Watching this brilliant video is #AAASMtg science education session “Five Minute University” youtube.com/watch?v=kO8x8e… #brilliant #FatherGuido
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Father Guido Sarducci’s Five Minute University
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“NoWatching “A Private Universe” at #AAASMtg Science Education session shar.es/gbyII
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“At #AAASMtg science education session discussing “Backward Design” flec.ednet.ns.ca/staff/Wha… emphasizes learning not teaching
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A video documentary on education research for grade 5-12 educators; 1 twenty-minute video program and guideNow on DVD With its famous ope…
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“Backward course design: 1) where should students be at end of course? 2) how KNOW they got there? 3) how help them get there? #AAASMtg
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“Quoted at #AAASMtg “If they sit and listen what they learn to do is sit and listen” Randall Phillis U Mass Amherst
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Fish eye view of #AAASmtg science education session http://pic.twitter.com/RKg5ljUU -
Panoramic view of harbor at #aaasmtg yesterday http://pic.twitter.com/g1HrhMXt -
“@lizabio @phylogenomics @thegreenelk Yeah, me too. That’s one way that Instagram can’t compete atm!
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“@phylogenomics @LouWoodley @thegreenelk Love that lens–it came out really well!
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Hmm … does this newspaper know something about phylogenetics I need to know? #AAASMtg http://pic.twitter.com/K4JnS1VU -
Wondering if #AAASmtg is planning to try and copyright me #aaasmtg http://pic.twitter.com/8Mi7Eaoo -
Fish eye view of Entrance to convention center at #AAASmtg http://pic.twitter.com/UVeq3nwO -
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Hmm – something wrong with restroom on my camera #whalefail #aaasmtg http://pic.twitter.com/dXJICxCO -
“Great meeting @PamBrierley, @phylogenomics and a bunch of other twits at the tweetup last night! #aaasmtg
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“Audio: Science Podcast, 17 February 2012 – #AAASMtg Special – Earth Microbiome Project @SpokenWord.org shar.es/goWFL
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The Earth Microbiome Project: Modeling the Microbial Planet
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Strangest sighting for me at #AAASmtg – sign above urinal saying “The water is not intended for consumption” http://pic.twitter.com/oOzv9n2t -
“@phylogenomics I tweeted that yesterday – glad to know I am not the only person with their phone out while peeing!
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“I noticed that too! MT @phylogenomics: At #AAASmtg – sign above urinal, “The water is not intended for consumption” twitter.com/phylogenomics/…
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Well @carlzimmer may not have been at #AAASMtg but his virus book was #GuardiansOfMicrobialDiversity http://pic.twitter.com/hjcIwWlG -
Best attempt to connect to the local area at #AAASMtg – The Science of NHL Hockey http://pic.twitter.com/dgnNsngN -
Cool model organism art at #NAIST display at #AAASmtg http://pic.twitter.com/6LVkjV0G -
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“@JennyCarpy may not be there anymore – was in the downstairs area with all the booths/posters
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Second strangest sighting at #aaasmtg – biology conspiracy theorist handing out his theories http://pic.twitter.com/019s3AXZ -
Scientists apparently do not like cauliflower #aaasmtg http://pic.twitter.com/ynH1l6LG -
“@phylogenomics Cauliflowerians ! Makes more sense than veganism or that caveman diet thing some people are doing…
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Me and @lizabio at #aaasmtg holding up the world http://pic.twitter.com/WhOB7lkd -
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“Before trying to solve its problems ;) RT @phylogenomics Me and @lizabio at #aaasmtg holding up the world twitter.com/phylogenomics/…
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“Before trying to solve its problems ;) RT @phylogenomics Me and @lizabio at #aaasmtg holding up the world twitter.com/phylogenomics/…
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“RT @phylogenomics: Completely brilliant: Crackpot Index bit.ly/luJ51 via @blakestacey #AAASmtg
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“We were there! RT @meganmansell: inspired by amateur birders, @phylogenomics held citizen microbiology workshop at UC Davis. #aaasmtg #emp
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“w/o a doubt the best aspect of #AAASmtg – giving my kids science schwag #GoScience post.ly/5TOjH
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“Posted slideshow w/ audio for my talk on “A Field Guide to the Microbes” from #AAASMtg youtu.be/yoD6Fs5yRdU #EarthMicrobiome
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A field guide to the microbes – talk by Jonathan Eisen @phylogenomics at #AAASMtg
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“Report from @b0yle on.msnbc.com/wypvXo on #microbiome #AAASmtg. Join us 4/15-16 bit.ly/ISBsymp, featuring @JCVenter & @phylogenomics.
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2012 International Symposium – Systems Biology & the Microbiome
ISB is committed to sustainability. We are in the process of seeking LEED Platinum certification for our building, which also won the 201… -
“Strange “Seeing the elephants” conspiracy-esque document handed out at #AAASMtg post.ly/5UHgF
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Strange “Seeing the elephants” conspiracy-esque document handed out at #AAASMtg -
“Most “@” mentions #AAASmtg ’12 con’t 4) @phylogenomics, 157 5) @erinbiba, 154 need4feed.com
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“The Tree of Life: Jack Gilbert @gilbertjacka clarifies comments at #AAASMtg re: opening windows, cleanliness… goo.gl/fb/0ux54
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“@phylogenomics :-) makes me laugh though – you think this will come back to bite me?
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“@gilbertjacka there is no doubt – really – that this will come back to bite you
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The Tree of Life: Jack Gilbert @gilbertjacka clarifies comments at …
2 days ago … Just got this to post from my college Jack Gilbert in regard to some comments he made to the press at the AAAS Meeting a… -
“Jack Gilbert @gilbertjacka clarifies comments at #AAASMtg re: opening windows, cleanliness & microbes
shar.es/gfBcH -
“Guess I should stop eating dirt and rubbing LB agar into cuts then.
MT: @gilbertjacka clarifies comments at #AAASMtg shar.es/gfBcH” -
“Ooo thanks! RT @phylogenomics: Slideshow w/ audio of my talk on “A Field Guide to the Microbes” from #AAASMtg goo.gl/fb/B6zRk
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“The Tree of Life: Slideshow w/ audio of my talk on “A Field Guide to the Microbes” from the AAAS Meeting #AAASMtg bit.ly/x0fMxF
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“More #AAASmtg stats: @CanadaAAAS, @phylogenomics and @ericmjohnson most RTed/mentioned.
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“w/o a doubt the best aspect of #AAASmtg – giving my kids science schwag #GoScience post.ly/5TOjH
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w/o a doubt the best aspect of #AAASmtg – giving my kids science schwag #GoScience
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“Love the image from MBARI in this article: Scientists map the world’s microbes shar.es/gWOOV
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Scientists map the world’s microbes
Microbiologists are starting to make sense of tens of thousands of samples they’ve collected from around the world, undoubtedly containin… -
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