Woyke: Future plans: 'we need more than just sequence data'. Need a functional pre-screen; want to do single-cell functional target #ASM2014
8:26am May 19th 2014 via Hootsuite
Woyke: Abundance of other stop codon reassignments? From 5.6Tb seq WW, found 200Mb recoded sequences. Opal stop dominant #ASM2014
8:23am May 19th 2014 via Hootsuite
Woyke: Functional novelty: stop codon reassignment from UAG/UAA/UGA; UGA -> Gly (from SR1 cand. phylum Gracilibacteria) #ASM2014
8:21am May 19th 2014 via Hootsuite
Woyke: Using BLAST, were able to improve assignment of metagenome reads; from 12% binning to 32% in their best case (Saginaw Lake) #ASM2014
8:17am May 19th 2014 via Hootsuite
Woyke: ToL before / after: first genomics data for 11 candidate phyla (eg SAR406) #ASM2014
8:16am May 19th 2014 via Hootsuite
Woyke: Seven 'population genomes' est completeness of >90%. Learned: filled in ToL; phylogenetic anchoring; functional novelty #ASM2014
8:15am May 19th 2014 via Hootsuite
Woyke: Developed tools, published Rinke et al Nature 2013 http://t.co/S4jIkVP77f 200kb to 2.5Mb, N50 ~25kb 21 combined assy's #ASM2014
8:14am May 19th 2014 via Hootsuite
Woyke: 200 draft assy's took over 1 year. Contam, bias, chimeras, all problems. No assemblers for single-cells, k-mer based methods #ASM2014
8:12am May 19th 2014 via Hootsuite
Woyke: 9K cells sorted via FACS, WGA, SSU rRNA ID (via Sanger), resulted in 200 draft assemblies #ASM2014
8:11am May 19th 2014 via Hootsuite
Woyke: They have a high throughput pipeline; sampling from 9 WW sites; from one, 50% of 16S tags were assigned to candidate phyla #ASM2014
Woyke: Metagenomics and single-cell genomics are complementary; one easier to do, other tedious, expensive and challenging #ASM2014
8:09am May 19th 2014 via Hootsuite
Woyke: Illustration of the Tree of Life: vast majority (and major branches) are uncultivated. Called 'candidate phyla': large range #ASM2014
8:08am May 19th 2014 via Hootsuite
Woyke: And the unknown/unknowns go straight up - no saturation on her curve #ASM2014
8:06am May 19th 2014 via Hootsuite
Woyke: Knowns, known unknown (16S), and unknown unknowns: plot of # organisms by Phylogenetic Diversity, shows 16S about 160K spp. #ASM2014
8:05am May 19th 2014 via Hootsuite
First: Tanja Woyke, Lawrence Livermore National Lab. "Insights into Candidate Phyla via Cultivation-Independent Genomics" #ASM2014
8:03am May 19th 2014 via Hootsuite
MT @GoodMenProject: Why I Stopped Using These Two Words In My (Cust Service) Emails: Buffer http://t.co/mqghH4Y2LS
5:15am May 19th 2014 via Hootsuite in reply to
RT @ivanoransky: On Science Journalism, Blogs, and The Wow Beat: @leHotz interviews @edyong209 http://t.co/mv707EZgDH
3:10am May 19th 2014 via Hootsuite
RT @David_Dobbs: 9 year-old's apology note to her 12yo brother. Good sign. Displays remorse plus foresight. http://t.co/lCFkpwNUgp
1:10am May 19th 2014 via Hootsuite
RT @dgmacarthur: This is America, in a nutshell: http://t.co/IzRnMitk2z
12:20am May 19th 2014 via Hootsuite
The Evolution of Social Media (2008-2013) ~ An Infographic | HootSuite http://t.co/9cWTmG5D5b
11:20pm May 18th 2014 via Hootsuite
TIL that BASIC started on the Dartmouth campus May 1 1964. "The Computer Language for Everyman" | WSJ http://t.co/oGPtYn1IiI
10:20pm May 18th 2014 via Hootsuite
MT @Paulflevy: On @Glassdoor: For some job negotiation questions, if you answer truthfully, you can be squeezed. http://t.co/oFc3KMkKoo
9:10pm May 18th 2014 via Hootsuite
FDA announces October meeting to discuss regulation, technical challenges of 3D printing | 3D Printer News http://t.co/JuXAzUjPes
8:10pm May 18th 2014 via Hootsuite
Yager: Presented nanoSIMS single cell work out of the Amazon plume. Method publ Musat 2011 http://t.co/mCp81yO9g5 #ASM2014
5:26pm May 18th 2014 via Hootsuite
Yager: Amazon plume takes up >20 T grams CO2, closely related to the watershed. Very sensitive - droughts / floods in Brazil #ASM2014
5:21pm May 18th 2014 via Hootsuite
Yager: Ocean acidification due to CO2 problem: 0.1 pH change is 30% effective acidity to organisms #ASM2014
5:16pm May 18th 2014 via Hootsuite
Yager: Shows maps from IPCC 2013 report here. http://t.co/XpocqHMc3B #ASM2014
5:14pm May 18th 2014 via Hootsuite
Yager: 93% of that excess energy is stored in the ocean. >50% in upper ocean (<700m) "The ocean is driving the whole system" #ASM2014
5:13pm May 18th 2014 via Hootsuite
Yager: Climate change is about energy budget changes. 'An extra 10^25 Joules' since 1950. A thousand Trillion kcals #ASM2014
5:12pm May 18th 2014 via Hootsuite
Patricia Yager (Univ Georgia): Microbial Community Dynamics & Carbon Export along the Tropical River-Ocean Continuum of the Amazon #ASM2
5:10pm May 18th 2014 via Hootsuite
Rice: On demand-side: Can reduce losses in food chain, change human diets but unlikely #ASM2014
4:57pm May 18th 2014 via Hootsuite
Rice: In 40y: AFOLU sector (Ag, forestry, other land use) going down; conservation, mgmt changes, better sequestration in soils #ASM2014
4:54pm May 18th 2014 via Hootsuite
Rice: Title: "Global Climate Change: A Global Policy Perspective". 50% anthropogenic methane fro Ag - largest from ruminants, rice #ASM2014
4:51pm May 18th 2014 via Hootsuite
Charles Rice (Kansas State Univ) organizer, Special interest symposium, "Microbial Interactions in a Changing Climate" #ASM2014
4:50pm May 18th 2014 via Hootsuite
Baselski's translation: faster TAT, newer technologies, classical microbiology, 'what you think more money is to you'. #ASM2014
4:07pm May 18th 2014 via Hootsuite
Baselski's outline from a Tom Hall song: "Faster horses, younger women, older whiskey, more money" as it relates to clinical micro #ASM2014
4:06pm May 18th 2014 via Hootsuite
Harel: Fe2S2 and heme common ancestry electron transport change assisted survival of 'catastrophic' oxyenating event #ASM2014
3:42pm May 18th 2014 via Hootsuite
Harel: Recent PNAS paper: http://t.co/M8xKb2J5n2 Polyphyletic evol of transition metal binding redox domains #ASM2014
3:36pm May 18th 2014 via Hootsuite
Harel: Use of Fe termed a 'frozen accident'. Accurate tool developed pub. here: http://t.co/6oKj8P3kee But not best for inference #ASM2014
3:34pm May 18th 2014 via Hootsuite
Harel: Distribution of metal evolution; O2 scarce 3.8By ago, use of Fe. After O2 event, Cu, Zn, Mo became soluble #ASM2014
3:32pm May 18th 2014 via Hootsuite
Harel: Used protein domains of highly diverged sequences; looked at 104 transition-metal-binding redox domains. Fe most common #ASM2014
3:30pm May 18th 2014 via Hootsuite
Arye Harel Rutgers NJ “Network Analysis Shows Modular, Polyphyletic Origin of Redox Metal-Binding Domains Across The Tree of Life” #ASM2014
3:28pm May 18th 2014 via Hootsuite
Glass: (Showed OMZ taxonomic data in press.) Linking geochemistry and metagenomics. #ASM2014
3:25pm May 18th 2014 via Hootsuite
Glass: Trace-metal-free sample collection, 20l seawater filter and metagenomic profiling #ASM2014
3:15pm May 18th 2014 via Hootsuite
Glass: Fe(II) enriched in O2 minimum zones (OMZ); Cu unaffected. World's largest OMZ is off coast of Mexico #ASM2014
3:14pm May 18th 2014 via Hootsuite
Glass: Cu used in horseshoe crab (blue blood); also marine diatoms where Cu more abundant than Fe. #ASM2014
3:11pm May 18th 2014 via Hootsuite
Glass: Cu and dependence upon O2, figures from this PLOS paper http://t.co/rAw4VyxLOl #ASM2014
3:07pm May 18th 2014 via Hootsuite
Glass: What drives the selection of Fe and Cu in history and today's environment? Pub. from this 2010 PNAS http://t.co/Gy9aFXMbdk #ASM2014
3:04pm May 18th 2014 via Hootsuite
Glass: Life uses about 1/3 of naturally occurring elements. Metals used as co-factors, in particular today Fe and Cu #ASM2014
3:03pm May 18th 2014 via Hootsuite
Jennifer B. Glass (Georgia Tech): Microbes that Meddle with Metals: Insights from Omics and Single Cell Imaging #ASM2014
3:01pm May 18th 2014 via Hootsuite
