Lidstrom:Journal Club

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The Lidstrom Lab journal club is held from 9:30-10:30 AM on Fridays in the 4th floor conference room.

Journal Club Schedule

Date	Presenter	Paper	Snack Provider
2015/01/30	??		??
2015/01/23	Melissa	Tsai SQ et al. GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases. Nat Biotechnol (2014)	Amanda
2015/01/16	Frances	Ling LL et al. A new antibiotic kills pathogens without detectable resistance. Nature (2015)	Mila
2015/01/09	Aaron	Michener JK et al. Effective use of a horizontally-transferred pathway for dichloromethane catabolism requires post-transfer refinement. Elife (2014)	Janet
2014
2014/12/19	Sascha	Deutzmann JS et al. Anaerobic methane oxidation coupled to denitrification is the dominant methane sink in a deep lake. PNAS (2014)	Mila
2014/12/04	Mila	Nyak DD & Marx CJ. Methylamine Utilization via the N-Methylglutamate Pathway in Methylobacterium extorquens PA1 Involves a Novel Flow of Carbon through C1 Assimilation and Dissimilation Pathways. J Bacteriol (2014).	Mila
2014/11/14	Amanda	Bogorad et al. Building carbon-carbon bonds using a biocatalytic methanol condensation cycle.	Frances
2014/11/07	Frances	Wang BL et al. Microfluidic high-throughput culturing of single cells for selection based on extracellular metabolite production or consumption. Nat Biotechnol (2014).	Sascha
2014/10/31	Aaron	Ye RW et al. Construction of the astaxanthin biosynthetic pathway in a methanotrophic bacterium Methylomonas sp. strain 16a. J Ind Microbiol Biotechnol (2007).	Amanda
2014/10/03	Melissa	Lin MT et al. A faster Rubisco with potential to increase photosynthesis in crops. Nature (2014).	Janet
2014/09/26	Alexey	Tips and tricks for being a good lab human	Mila
2014/08/08	Amanda	Noor E et al. Pathway Thermodynamics Highlights Kinetic Obstacles in Central Metabolism PLoS Comput Biol (2014).	:(
2014/08/01	Aaron	Rozova ON et al. Characterization of recombinant pyrophosphate-dependent 6-phosphofructokinase from halotolerant methanotroph Methylomicrobium alcaliphilum 20Z. Res Microbiol (2010).	Janet
2014/07/18	Alexey	Ramezani M et al. Improved Modeling of Bubble Column Reactors by Considering the Bubble Size Distribution. I&EC Research (2012)	:(
2014/07/11	Frances	Chen KH et al. Bacteriohemerythrin bolsters the activity of the pMMO in Methylococcus capsulatus (Bath). J Inorg Biochem (2012).	Amanda
2014/06/27	Amanda, Janet, & Aaron	Metabolic Engineering X Conference Recap	:(
2014/06/13	Bo	Paddon CJ et al. High-level semi-synthetic production of the potent antimalarial artemisinin. Nature (2013).	Maria
2014/05/30	Mila	Kemp MB & Quayle JR. Microbial growth on C1 compounds. Incorporation of C1 units into allulose phosphate by extracts of Pseudomonas methanica. Biochem J (1966).	Mila
2014/05/23	Aaron	Crombie AT & Murrell JC. Trace-gas metabolic versatility of the facultative methanotroph Methylocella silvestris. Nature (2014).	Mila
2014/05/16	Maria	Chauhan A et al. Composition of methane-oxidizing bacterial communities as a function of nutrient loading in the Florida everglades. Microb Ecol (2012).	Mila
2014/05/09	Amanda	Chou H & Keasling JD. Programming adaptive control to evolve increased metabolite production. Nat Comm (2013).	Janet
2014/05/02	Sascha	Andrade-Domínguez A et al. Eco-evolutionary feedbacks drive species interactions. ISME J (2014).	Mila
2014/04/25	Bo	Lan EL & Liao JC. ATP drives direct photosynthetic production of 1-butanol in cyanobacteria. Proc Natl Acad Sci (2012).	Mila
2014/04/18	Frances	Dunfield PF et al. Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia. Nature (2007).	Bo
2014/04/11	Amanda	Dahl RH et al. Engineering dynamic pathway regulation using stress-response promoters. Nat Biotechnol (2013).	Frances
2014/03/21	Maria	Wieczorek AS et al. Organic acids and ethanol inhibit the oxidation of methane by mire methanotrophs. FEMS Microbiol Ecol (2011).	Aaron
2014/03/14	Sascha	Dam B et al. Ammonium induces differential expression of methane and nitrogen metabolism-related genes in Methylocystis sp. strain SC2. Environ Microbiol (2013).	Amanda
2014/02/28	Aaron	Bogorad IW et al. Synthetic non-oxidative glycolysis enables complete carbon conservation. Nature (2013).	Maria
2014/02/21	Janet	Jiang W et al. RNA-guided editing of bacterial genomes using CRISPR-Cas systems. Nat Biotechnol (2013).	Igor
2014/02/14	Dave	Gomaa AA et al. Programmable Removal of Bacterial Strains by Use of Genome-Targeting CRISPR-Cas Systems. mBio (2014).	Sascha
2014/02/07	Bo	Na D et al. Metabolic engineering of Escherichia coli using synthetic small regulatory RNAs. Nat Biotechnol (2013).	Janet
2014/01/31	Alexey	Dellomonaco C et al. Engineered reversal of the b-oxidation cycle for the synthesis of fuels and chemicals. Nature (2011).	Amanda
2014/01/24	Amanda	Kudla G et al. Coding-Sequence Determinants of Gene Expression in Escherichia coli. Science (2009).	Frances
2014/01/17	Frances	Goodman AL et al. Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat. Cell Host Microbe (2009).	Aaron
2014/01/10	Aaron	Tamas I et al. The (d)evolution of methanotrophy in the Beijerinckiaceae—a comparative genomics analysis. ISME J (2013).	Mila
2013
2013/12/06	Alexey	Wen M et al. Production of advanced biofuels in engineered E. Coli. Curr Opin Chem Biol (2013).	Amanda
2013/11/22	Mila	Kalyuzhnaya MG et al. Highly efficient methane biocatalysis revealed in a methanotrophic bacterium. Nat Commun (2013).	Mila
2013/11/15	Dave	Lee SJ et al. Control of substrate access to the active site in methane monooxygenase. Nature (2013).	Aaron
2013/11/08	Amanda	Blount ZD et al. Genomic analysis of a key innovation in an experimental Escherichia coli population. Nature (2012).	Yanfen
2013/11/01	Frances	Semrau JD et al. Methanobactin and MmoD work in concert to act as the 'copper-switch' in methanotrophs. Environmental Microbiology (2013).	Janet
2013/10/25	Bo	Dietrich JA et al. Transcription factor-based screens and synthetic selections for microbial small-molecule biosynthesis. ACS Synth Biol (2013).	Frances
2013/10/18	Aaron	Iguchi H et al. Stimulation of methanotrophic growth in cocultures by cobalamin excreted by rhizobia. Appl Environ Microbiol (2011).	Amanda
2013/10/11	Mila	Stock M et al. Exploration and prediction of interactions between methanotrophs and heterotrophs. Res Microbiol (2013).	Mila
2013/10/04	Alexey	Ro DK et al. Production of the antimalarial drug precursor artemisinic acid in engineered yeast. Nature (2006).	Igor
2013/09/20	Amanda	Barrick JE et al. Genome evolution and adaptation in a long-term experiment with Escherichia coli. Nature (2009).	Janet
2013/09/13	Frances	Nakagawa T et al. A catalytic role of XoxF1 as La3+-dependent methanol dehydrogenase in Methylobacterium extorquens strain AM1. PLoS One (2012).	Bo
2013/09/06	Igor	Dekas AE et al. Deep-sea archaea fix and share nitrogen in methane-consuming microbial consortia. Science (2009).	Frances
2013/08/30	Mila	Haroon MF et al. Anaerobic oxidation of methane coupled to nitrate reduction in a novel archaeal lineage. Nature (2013).	Mila
2013/08/23	Amanda	Blount ZD et al. Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli. Proc Natl Acad Sci (2008).	Dave
2013/08/16	Yanfen	Schuetz R et al. Multidimensional optimality of microbial metabolism. Science (2012).	Mila
2013/08/09	Nate	Okubo Y et al. Alternative route for glyoxylate consumption during growth on two-carbon compounds by Methylobacterium extorquens AM1. J Bacteriol (2010).	Janet
2013/08/02	Aaron	Ettwig KF et al. Nitrite-driven anaerobic methane oxidation by oxygenic bacteria. Nature (2010).	Amanda
2013/07/26	Alexey	Ajikumar PK et al. Isoprenoid pathway optimization for Taxol precursor overproduction in Escherichia coli. Science (2010).	Aaron
2013/07/19	Bo	Erb TJ et al. Synthesis of C5-dicarboxylic acids from C2-units involving crotonyl-CoA carboxylase/reductase: the ethylmalonyl-CoA pathway. Proc Natl Acad Sci (2007).	:(
2013/07/12	Frances	Balasubramanian R et al. Oxidation of methane by a biological dicopper centre. Nature (2010).	Amanda
2013/06/28	Aaron	Chistoserdova L et al. C1 transfer enzymes and coenzymes linking methylotrophic bacteria and methanogenic Archaea. Science (1998).	Frances