个人简介

Assistant Professor; Born 1978; B.A. in Chemistry, Gustavus Adolphus College (2001); Ph.D. in Biophysics with Robert Stroud, UCSF (2007); Department of Energy Physical Biosciences Fellow of the Life Sciences Research Foundation with Pamela Silver, Harvard Medical School (2007-2011); Alfred P. Sloan Research Fellowship (2011); Department of Energy Early Career Research Program (2011)

研究领域

Biophysics, Synthetic Biology, and Systems Biology - Understanding metabolism through systems and synthetic biological approaches. The molecules used to build cells, and much of human infrastructure, are synthesized by the chemical reactions of metabolism. In understanding metabolism better, we open the door to new ways of curing disease and environmentally friendly chemistry. Work in our lab focuses on defining how metabolic reactions function in the context of the cellular system in order to elucidate the so-called design principles of metabolic function. To do so, we take an interdisciplinary approach, combining biochemistry, biophysics, and systems biology, with an eye towards building synthetic biology tools.

Biophysics, Synthetic Biology, and Systems Biology - Understanding metabolism through systems and synthetic biological approaches. The molecules used to build cells, and much of human infrastructure, are synthesized by the chemical reactions of metabolism. In understanding metabolism better, we open the door to new ways of curing disease and environmentally friendly chemistry. Work in our lab focuses on defining how metabolic reactions function in the context of the cellular system in order to elucidate the so-called design principles of metabolic function. To do so, we take an interdisciplinary approach, combining biochemistry, biophysics, and systems biology, with an eye towards building synthetic biology tools.

近期论文

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Higgins, SA, Ouonkap, R, Savage, DF. Rapid and Programmable Protein Mutagenesis Using Plasmid Recombineering. In submission. bioRxiv link Nichols RJ*, Cassidy-Amstutz C*, Chaijarasphong, T, Savage DF. 2017. Encapsulins: molecular biology of the shell. In submission. *denote equal contribution Morgan SA*, Nadler DC*, Yokoo, R, Savage DF. 2016. Rapid engineering of metabolism using biosensors. Manuscript in press, Current Opinion in Chemical Biology. *denote equal contribution Mangan NM*, Flamholz A*, Milo R, Savage DF. 2016. Efficient operation of the cyanobacterial CO2 concentrating mechanism depends strongly on pH. PNAS. doi: 10.1073/pnas.1525145113. *denote equal contribution Link Hood RD, Higgins S, Flamholz A, Nichols RJ, Savage DF. 2016. The stringent response regulates adaptation to darkness in a cyanobacterium. PNAS. doi:10.1073/pnas.1524915113. Link Gerhardt KP, Olson EJ, Castillo-Hair SM, Hartsough LA, Landry BP, Ekness F, Yokoo R, Gomez EJ, Ramakrishnan P, Suh J, et al. 2016. An open-hardware platform for optogenetics and photobiology. Sci Rep 6: 35363. Link Nadler DC*, Morgan SA*, Flamholz A, Kortright K, Savage DF. 2016. Rapid construction of metabolite biosensors using domain-insertion profiling. Nature Communications 10.1038/ncomms12266. *denote equal contribution Link Cassidy-Amstutz C, Oltrogge LM, Going CC, Lee A, Teng PK, Quintanilla D, East-Seletsky A, Williams ER, Savage DF. 2016. Identification of a minimal peptide tag for in vivo and in vitro loading of encapsulin. Biochemistry. Link Oakes BL, Nadler DC, Flamholz A, Fellmann C, Staahl BT, Doudna JA, Savage DF. 2016. Profiling of engineering hotspots identifies an allosteric CRISPR-Cas9 switch. Nat Biotechnol. Link Chaijarasphong T, Nichols RJ, Kortright KE, Nixon CF, Teng PK, Oltrogge LM, Savage DF. 2016. Programmed Ribosomal Frameshifting Mediates Expression of the α-Carboxysome. J Mol Biol 428: 153–164. Link Yokoo R, Hood RD, Savage DF. 2015. Live-cell imaging of cyanobacteria. Photosynthesis Research 126: 33–46. Link Oakes BL, Nadler DC, Savage DF. 2014. Protein engineering of Cas9 for enhanced function. Methods in enzymology 546: 491–511. Link Chen AH, Robinson-Mosher A, Savage DF, Silver PA, Polka JK. 2013. The bacterial carbon-fixing organelle is formed by shell envelopment of preassembled cargo. PLoS ONE 8: e76127. Link Chen AH, Afonso B, Silver PA, Savage DF. 2012. Spatial and temporal organization of chromosome duplication and segregation in the cyanobacterium Synechococcus elongatus PCC 7942. PLoS ONE 7: e47837. Link Bonacci W, Teng PK, Afonso B, Niederholtmeyer H, Grob P, Silver PA, Savage DF. 2012. Modularity of a carbon-fixing protein organelle. Proc Natl Acad Sci USA 109: 478–483. Link Niederholtmeyer H, Wolfstädter BT, Savage DF, Silver PA, Way JC. 2010. Engineering cyanobacteria to synthesize and export hydrophilic products. Appl Environ Microbiol 76: 3462–3466. Link Savage DF*, Afonso B*, Chen AH, Silver PA. 2010. Spatially ordered dynamics of the bacterial carbon fixation machinery. Science 327: 1258–1261. *denote equal contribution Link