Jay D. Keasling - Publications

Affiliations: 
University of California, Berkeley, Berkeley, CA 
Area:
Metabolic engineering of microorganisms
Website:
http://keaslinglab.lbl.gov/

363 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Thompson MG, Valencia LE, Blake-Hedges JM, Cruz-Morales P, Velasquez AE, Pearson AN, Sermeno LN, Sharpless WA, Benites VT, Chen Y, Baidoo EEK, Petzold CJ, Deutschbauer AM, Keasling JD. Omics-driven identification and elimination of valerolactam catabolism in KT2440 for increased product titer. Metabolic Engineering Communications. 9: e00098. PMID 31720214 DOI: 10.1016/j.mec.2019.e00098  0.56
2019 Eiben CB, de Rond T, Bloszies C, Gin J, Chiniquy J, Baidoo EEK, Petzold CJ, Hillson NJ, Fiehn O, Keasling JD. Mevalonate Pathway Promiscuity Enables Noncanonical Terpene Production. Acs Synthetic Biology. PMID 31576747 DOI: 10.1021/acssynbio.9b00230  0.56
2019 Rodrigues AV, Tantillo DJ, Mukhopadhyay A, Keasling JD, Beller H. Insights into the Mechanism of Phenylacetate Decarboxylase (PhdB), a Toluene-Producing Glycyl Radical Enzyme. Chembiochem : a European Journal of Chemical Biology. PMID 31512343 DOI: 10.1002/cbic.201900560  0.6
2019 Kang A, Mendez-Perez D, Goh EB, Baidoo EEK, Benites VT, Beller HR, Keasling JD, Adams PD, Mukhopadhyay A, Lee TS. Optimization of the IPP-bypass mevalonate pathway and fed-batch fermentation for the production of isoprenol in Escherichia coli. Metabolic Engineering. PMID 31499175 DOI: 10.1016/j.ymben.2019.09.003  0.6
2019 Brenac L, Baidoo EEK, Keasling JD, Budin I. Distinct functional roles for hopanoid composition in the chemical tolerance of Zymomonas mobilis. Molecular Microbiology. PMID 31468587 DOI: 10.1111/mmi.14380  0.56
2019 Chen Y, Guenther JM, Gin JW, Chan LJG, Costello Z, Ogorzalek TL, Tran HM, Blake-Hedges JM, Keasling JD, Adams PD, Garcia Martin H, Hillson NJ, Petzold CJ. An automated 'cells-to-peptides' sample preparation workflow for high-throughput, quantitative proteomic assays of microbes. Journal of Proteome Research. PMID 31436101 DOI: 10.1021/acs.jproteome.9b00455  0.52
2019 Barajas JF, Wehrs M, To M, Cruickshanks L, Urban R, McKee A, Gladden J, Goh EB, Brown ME, Pierotti D, Carothers JM, Mukhopadhyay A, Keasling JD, Fortman JL, Singer SW, et al. Isolation and Characterization of Bacterial Cellulase Producers for Biomass Deconstruction: A Microbiology Laboratory Course. Journal of Microbiology & Biology Education. 20. PMID 31388393 DOI: 10.1128/jmbe.v20i2.1723  1
2019 Hillson N, Caddick M, Cai Y, Carrasco JA, Chang MW, Curach NC, Bell DJ, Feuvre RL, Friedman DC, Fu X, Gold ND, Herrgård MJ, Holowko MB, Johnson JR, Johnson RA, ... Keasling JD, et al. Author Correction: Building a global alliance of biofoundries. Nature Communications. 10: 3132. PMID 31296848 DOI: 10.1038/s41467-019-10862-1  0.72
2019 de Rond T, Gao J, Zargar A, de Raad M, Cunha J, Northen TR, Keasling JD. A high-throughput mass spectrometric enzyme activity assay enabling the discovery of cytochrome P450 biocatalysts. Angewandte Chemie (International Ed. in English). PMID 31140688 DOI: 10.1002/anie.201901782  0.52
2019 Barajas JF, McAndrew RP, Thompson MG, Backman TWH, Pang B, de Rond T, Pereira JH, Benites VT, Martín HG, Baidoo EEK, Hillson NJ, Adams PD, Keasling JD. Structural insights into dehydratase substrate selection for the borrelidin and fluvirucin polyketide synthases. Journal of Industrial Microbiology & Biotechnology. PMID 31115703 DOI: 10.1007/s10295-019-02189-z  0.56
2019 Hillson N, Caddick M, Cai Y, Carrasco JA, Chang MW, Curach NC, Bell DJ, Le Feuvre R, Friedman DC, Fu X, Gold ND, Herrgård MJ, Holowko MB, Johnson JR, Johnson RA, ... Keasling JD, et al. Building a global alliance of biofoundries. Nature Communications. 10: 2040. PMID 31068573 DOI: 10.1038/s41467-019-10079-2  0.72
2019 Thompson MG, Blake-Hedges JM, Cruz-Morales P, Barajas JF, Curran SC, Eiben CB, Harris NC, Benites VT, Gin JW, Sharpless WA, Twigg FF, Skyrud W, Krishna RN, Henrique Pereira J, Baidoo EEK, ... ... Keasling JD, et al. Massively Parallel Fitness Profiling Reveals Multiple Novel Enzymes in Lysine Metabolism. Mbio. 10. PMID 31064836 DOI: 10.1128/mBio.02577-18  0.6
2019 Rajkumar AS, Özdemir E, Lis AV, Schneider K, Qin J, Jensen MK, Keasling JD. Engineered reversal of function in glycolytic yeast promoters. Acs Synthetic Biology. PMID 31051075 DOI: 10.1021/acssynbio.9b00027  0.52
2019 Jessop-Fabre MM, Dahlin J, Biron MB, Stovicek V, Ebert BE, Blank LM, Budin I, Keasling JD, Borodina I. The transcriptome and flux profiling of Crabtree-negative hydroxy acid producing strains of Saccharomyces cerevisiae reveals changes in the central carbon metabolism. Biotechnology Journal. e1900013. PMID 30969019 DOI: 10.1002/biot.201900013  0.52
2019 Lis AV, Schneider K, Weber J, Keasling JD, Jensen MK, Klein T. Exploring small-scale chemostats to scale up microbial processes: 3-hydroxypropionic acid production in S. cerevisiae. Microbial Cell Factories. 18: 50. PMID 30857529 DOI: 10.1186/s12934-019-1101-5  0.52
2019 Luo H, Hansen ASL, Yang L, Schneider K, Kristensen M, Christensen U, Christensen HB, Du B, Özdemir E, Feist AM, Keasling JD, Jensen MK, Herrgård MJ, Palsson BO. Coupling S-adenosylmethionine-dependent methylation to growth: Design and uses. Plos Biology. 17: e2007050. PMID 30856169 DOI: 10.1371/journal.pbio.2007050  1
2019 Luo X, Reiter MA, d'Espaux L, Wong J, Denby CM, Lechner A, Zhang Y, Grzybowski AT, Harth S, Lin W, Lee H, Yu C, Shin J, Deng K, Benites VT, ... ... Keasling JD, et al. Complete biosynthesis of cannabinoids and their unnatural analogues in yeast. Nature. PMID 30814733 DOI: 10.1038/s41586-019-0978-9  0.6
2019 Chen Y, Vu J, Thompson MG, Sharpless WA, Chan LJG, Gin JW, Keasling JD, Adams PD, Petzold CJ. A rapid methods development workflow for high-throughput quantitative proteomic applications. Plos One. 14: e0211582. PMID 30763335 DOI: 10.1371/journal.pone.0211582  0.52
2019 Baidoo EEK, Wang G, Joshua CJ, Benites VT, Keasling JD. Liquid Chromatography and Mass Spectrometry Analysis of Isoprenoid Intermediates in Escherichia coli. Methods in Molecular Biology (Clifton, N.J.). 1859: 209-224. PMID 30421231 DOI: 10.1007/978-1-4939-8757-3_11  0.64
2018 Wehrs M, Prahl JP, Moon J, Li Y, Tanjore D, Keasling JD, Pray T, Mukhopadhyay A. Production efficiency of the bacterial non-ribosomal peptide indigoidine relies on the respiratory metabolic state in S. cerevisiae. Microbial Cell Factories. 17: 193. PMID 30545355 DOI: 10.1186/s12934-018-1045-1  0.6
2018 Yuzawa S, Mirsiaghi M, Jocic R, Fujii T, Masson F, Benites VT, Baidoo EEK, Sundstrom E, Tanjore D, Pray TR, George A, Davis RW, Gladden JM, Simmons BA, Katz L, ... Keasling JD, et al. Short-chain ketone production by engineered polyketide synthases in Streptomyces albus. Nature Communications. 9: 4569. PMID 30385744 DOI: 10.1038/s41467-018-07040-0  0.56
2018 Liu CL, Tian T, Alonso-Gutierrez J, Garabedian B, Wang S, Baidoo EEK, Benites V, Chen Y, Petzold CJ, Adams PD, Keasling JD, Tan T, Lee TS. Renewable production of high density jet fuel precursor sesquiterpenes from . Biotechnology For Biofuels. 11: 285. PMID 30377444 DOI: 10.1186/s13068-018-1272-z  0.56
2018 Budin I, de Rond T, Chen Y, Chan LJG, Petzold CJ, Keasling JD. Viscous control of cellular respiration by membrane lipid composition. Science (New York, N.Y.). PMID 30361388 DOI: 10.1126/science.aat7925  0.52
2018 Budin I, Keasling JD. Synthetic Biology for Fundamental Biochemical Discovery. Biochemistry. PMID 30350947 DOI: 10.1021/acs.biochem.8b00915  0.52
2018 Lim YP, Go MK, Raida M, Inoue T, Wenk MR, Keasling JD, Chang MW, Yew WS. Synthetic Enzymology and the Fountain of Youth: Repurposing Biology for Longevity. Acs Omega. 3: 11050-11061. PMID 30320257 DOI: 10.1021/acsomega.8b01620  0.72
2018 Li G, Jones KC, Eudes A, Pidatala VR, Sun J, Xu F, Zhang C, Wei T, Jain R, Birdseye D, Canlas PE, Baidoo EEK, Duong PQ, Sharma MK, Singh S, ... ... Keasling JD, et al. Overexpression of a rice BAHD acyltransferase gene in switchgrass (Panicum virgatum L.) enhances saccharification. Bmc Biotechnology. 18: 54. PMID 30180895 DOI: 10.1186/s12896-018-0464-8  0.56
2018 Yuzawa S, Zargar A, Pang B, Katz L, Keasling JD. Commodity Chemicals From Engineered Modular Type I Polyketide Synthases. Methods in Enzymology. 608: 393-415. PMID 30173771 DOI: 10.1016/bs.mie.2018.04.027  0.32
2018 Petersen SD, Zhang J, Lee JS, Jakociunas T, Grav LM, Kildegaard HF, Keasling JD, Jensen MK. Modular 5'-UTR hexamers for context-independent tuning of protein expression in eukaryotes. Nucleic Acids Research. PMID 30124898 DOI: 10.1093/nar/gky734  0.56
2018 Jakočiūnas T, Pedersen LE, Lis AV, Jensen MK, Keasling JD. CasPER, a method for directed evolution in genomic contexts using mutagenesis and CRISPR/Cas9. Metabolic Engineering. 48: 288-296. PMID 29981865 DOI: 10.1016/j.ymben.2018.07.001  0.52
2018 Curran SC, Hagen A, Poust S, Chan LJG, Garabedian BM, de Rond T, Baluyot MJ, Vu JT, Lau AK, Yuzawa S, Petzold CJ, Katz L, Keasling JD. Probing the flexibility of an iterative modular polyketide synthase with non-native substrates in vitro. Acs Chemical Biology. PMID 29912551 DOI: 10.1021/acschembio.8b00422  0.52
2018 Palluk S, Arlow DH, de Rond T, Barthel S, Kang JS, Bector R, Baghdassarian HM, Truong AN, Kim PW, Singh AK, Hillson NJ, Keasling JD. De novo DNA synthesis using polymerase-nucleotide conjugates. Nature Biotechnology. PMID 29912208 DOI: 10.1038/nbt.4173  0.52
2018 Zhang S, He Y, Sen B, Chen X, Xie Y, Keasling JD, Wang G. Alleviation of reactive oxygen species enhances PUFA accumulation in sp. through regulating genes involved in lipid metabolism. Metabolic Engineering Communications. 6: 39-48. PMID 29896446 DOI: 10.1016/j.meteno.2018.03.002  0.56
2018 Hanko EKR, Denby CM, Nogué VSI, Lin W, Ramirez KJ, Singer CA, Beckham GT, Keasling JD. Engineering β-oxidation in Yarrowia lipolytica for methyl ketone production. Metabolic Engineering. PMID 29852272 DOI: 10.1016/j.ymben.2018.05.018  0.32
2018 Snoek T, Romero-Suarez D, Zhang J, Ambri F, Skjoedt ML, Sudarsan S, Jensen MK, Keasling JD. An orthogonal and pH-tunable sensor-selector for muconic acid biosynthesis in yeast. Acs Synthetic Biology. PMID 29613773 DOI: 10.1021/acssynbio.7b00439  0.56
2018 Barajas JF, Zargar A, Pang B, Benites VT, Gin J, Baidoo EEK, Petzold CJ, Hillson NJ, Keasling JD. Biochemical Characterization of β-Amino Acid Incorporation in Fluvirucin B2 Biosynthesis. Chembiochem : a European Journal of Chemical Biology. PMID 29603548 DOI: 10.1002/cbic.201800169  0.56
2018 Denby CM, Li RA, Vu VT, Costello Z, Lin W, Chan LJG, Williams J, Donaldson B, Bamforth CW, Petzold CJ, Scheller HV, Martin HG, Keasling JD. Industrial brewing yeast engineered for the production of primary flavor determinants in hopped beer. Nature Communications. 9: 965. PMID 29559655 DOI: 10.1038/s41467-018-03293-x  0.52
2018 Beller HR, Rodrigues AV, Zargar K, Wu YW, Saini AK, Saville RM, Pereira JH, Adams PD, Tringe SG, Petzold CJ, Keasling JD. Discovery of enzymes for toluene synthesis from anoxic microbial communities. Nature Chemical Biology. PMID 29556105 DOI: 10.1038/s41589-018-0017-4  0.52
2018 George KW, Thompson M, Kim J, Baidoo EEK, Wang G, Benites VT, Petzold CJ, Chan LJG, Yilmaz S, Turhanen P, Adams PD, Keasling JD, Lee TS. Integrated analysis of isopentenyl pyrophosphate (IPP) toxicity in isoprenoid-producing Escherichia coli. Metabolic Engineering. PMID 29530749 DOI: 10.1016/j.ymben.2018.03.004  0.6
2018 Krink-Koutsoubelis N, Loechner AC, Lechner A, Link H, Denby CM, Vögeli B, Erb TJ, Yuzawa S, Jakociunas T, Katz L, Jensen MK, Sourjik V, Keasling JD. Engineered Production of Short-Chain Acyl-Coenzyme A Esters in Saccharomyces cerevisiae. Acs Synthetic Biology. PMID 29498824 DOI: 10.1021/acssynbio.7b00466  0.52
2018 Yuzawa S, Backman TWH, Keasling JD, Katz L. Synthetic biology of polyketide synthases. Journal of Industrial Microbiology & Biotechnology. PMID 29423743 DOI: 10.1007/s10295-018-2021-9  0.32
2018 Goh EB, Chen Y, Petzold CJ, Keasling JD, Beller HR. Improving methyl ketone production in E. coli by heterologous expression of NADH-dependent FabG. Biotechnology and Bioengineering. PMID 29411856 DOI: 10.1002/bit.26558  0.52
2018 Thompson MG, Sedaghatian N, Barajas JF, Wehrs M, Bailey CB, Kaplan N, Hillson NJ, Mukhopadhyay A, Keasling JD. Isolation and characterization of novel mutations in the pSC101 origin that increase copy number. Scientific Reports. 8: 1590. PMID 29371642 DOI: 10.1038/s41598-018-20016-w  0.6
2018 Ambri F, Snoek T, Skjoedt ML, Jensen MK, Keasling JD. Design, Engineering, and Characterization of Prokaryotic Ligand-Binding Transcriptional Activators as Biosensors in Yeast. Methods in Molecular Biology (Clifton, N.J.). 1671: 269-290. PMID 29170965 DOI: 10.1007/978-1-4939-7295-1_17  0.52
2018 Jakočiūnas T, Jensen ED, Jensen MK, Keasling JD. Assembly and Multiplex Genome Integration of Metabolic Pathways in Yeast Using CasEMBLR. Methods in Molecular Biology (Clifton, N.J.). 1671: 185-201. PMID 29170960 DOI: 10.1007/978-1-4939-7295-1_12  0.52
2017 Barajas JF, Blake-Hedges JM, Bailey CB, Curran S, Keasling JD. Engineered polyketides: Synergy between protein and host level engineering. Synthetic and Systems Biotechnology. 2: 147-166. PMID 29318196 DOI: 10.1016/j.synbio.2017.08.005  0.32
2017 Alonso-Gutierrez J, Koma D, Hu Q, Yang Y, Chan LJG, Petzold CJ, Adams PD, Vickers CE, Nielsen LK, Keasling JD, Lee TS. Towards industrial production of isoprenoids in Escherichia coli: lessons learned from CRISPR-Cas9 based optimization of a chromosomally integrated mevalonate pathway. Biotechnology and Bioengineering. PMID 29278415 DOI: 10.1002/bit.26530  0.56
2017 Kim EM, Min Woo H, Tian T, Yilmaz S, Javidpour P, Keasling JD, Soon Lee T. Autonomous control of metabolic state by a quorum sensing (QS)-mediated regulator for bisabolene production in engineered E. coli. Metabolic Engineering. PMID 29129823 DOI: 10.1016/j.ymben.2017.11.004  0.6
2017 Dossani ZY, Apel AR, Middleton HS, Hillson NJ, Deutch S, Keasling JD, Mukhopadhyay A. A combinatorial approach to Synthetic Transcription Factor-Promoter combinations for yeast strain engineering. Yeast (Chichester, England). PMID 29084380 DOI: 10.1002/yea.3292  0.6
2017 Yaegashi J, Kirby J, Ito M, Sun J, Dutta T, Mirsiaghi M, Sundstrom ER, Rodriguez A, Baidoo E, Tanjore D, Pray T, Sale K, Singh S, Keasling JD, Simmons BA, et al. Rhodosporidium toruloides: a new platform organism for conversion of lignocellulose into terpene biofuels and bioproducts. Biotechnology For Biofuels. 10: 241. PMID 29075325 DOI: 10.1186/s13068-017-0927-5  0.6
2017 Eng CH, Backman TWH, Bailey CB, Magnan C, García Martín H, Katz L, Baldi P, Keasling JD. ClusterCAD: a computational platform for type I modular polyketide synthase design. Nucleic Acids Research. PMID 29040649 DOI: 10.1093/nar/gkx893  0.32
2017 Yuzawa S, Bailey CB, Fujii T, Jocic R, Barajas JF, Benites VT, Baidoo EEK, Chen Y, Petzold CJ, Katz L, Keasling JD. Heterologous Gene Expression of N-terminally truncated variants of LipPks1 Suggests a Functionally Critical Structural Motif in the N-terminus of Modular Polyketide Synthase. Acs Chemical Biology. PMID 29028314 DOI: 10.1021/acschembio.7b00714  0.56
2017 de Rond T, Stow P, Eigl I, Johnson RE, Chan LJG, Goyal G, Baidoo EEK, Hillson NJ, Petzold CJ, Sarpong R, Keasling JD. Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme. Nature Chemical Biology. PMID 28892091 DOI: 10.1038/nchembio.2471  0.56
2017 Morrell W, Birkel G, Forrer M, Lopez T, Backman T, Dussault M, Petzold CJ, Baidoo EEK, Costello Z, Ando D, Alonso Gutierrez J, George K, Mukhopadhyay A, Vaino I, Keasling JD, et al. The Experiment Data Depot: a web-based software tool for biological experimental data storage, sharing, and visualization. Acs Synthetic Biology. PMID 28826210 DOI: 10.1021/acssynbio.7b00204  0.6
2017 Chubukov V, Desmarais JJ, Wang G, Chan LJG, Baidoo EE, Petzold CJ, Keasling JD, Mukhopadhyay A. Engineering glucose metabolism of Escherichia coli under nitrogen starvation. Npj Systems Biology and Applications. 3: 16035. PMID 28725483 DOI: 10.1038/npjsba.2016.35  0.6
2017 d'Espaux L, Ghosh A, Runguphan W, Wehrs M, Xu F, Konzock O, Dev I, Nhan M, Gin J, Reider Apel A, Petzold CJ, Singh S, Simmons BA, Mukhopadhyay A, García Martín H, ... Keasling JD, et al. Engineering high-level production of fatty alcohols by Saccharomyces cerevisiae from lignocellulosic feedstocks. Metabolic Engineering. PMID 28606738 DOI: 10.1016/j.ymben.2017.06.004  0.72
2017 Shymansky CM, Wang G, Baidoo EEK, Gin J, Apel AR, Mukhopadhyay A, García Martín H, Keasling JD. Flux-Enabled Exploration of the Role of Sip1 in Galactose Yeast Metabolism. Frontiers in Bioengineering and Biotechnology. 5: 31. PMID 28596955 DOI: 10.3389/fbioe.2017.00031  0.6
2017 Parisutham V, Chandran SP, Mukhopadhyay A, Lee SK, Keasling JD. Intracellular cellobiose metabolism and its applications in lignocellulose-based biorefineries. Bioresource Technology. PMID 28535986 DOI: 10.1016/j.biortech.2017.05.001  0.6
2017 Raad M, de Rond T, Rübel O, Keasling JD, Northen TR, Bowen BP. OpenMSI Arrayed Analysis Toolkit: Analyzing spatially defined samples using mass spectrometry imaging. Analytical Chemistry. PMID 28467051 DOI: 10.1021/acs.analchem.6b05004  0.52
2017 Zargar A, Bailey CB, Haushalter RW, Eiben CB, Katz L, Keasling JD. Leveraging microbial biosynthetic pathways for the generation of 'drop-in' biofuels. Current Opinion in Biotechnology. 45: 156-163. PMID 28427010 DOI: 10.1016/j.copbio.2017.03.004  0.32
2017 Birkel GW, Ghosh A, Kumar VS, Weaver D, Ando D, Backman TWH, Arkin AP, Keasling JD, Martín HG. Erratum to: The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism. Bmc Bioinformatics. 18: 219. PMID 28420344 DOI: 10.1186/s12859-017-1631-y  0.6
2017 Zhang J, Barajas JF, Burdu M, Wang G, Baidoo EEK, Keasling JD. Application of an acyl-CoA ligase from Streptomyces aizunensis for lactam biosynthesis. Acs Synthetic Biology. PMID 28414905 DOI: 10.1021/acssynbio.6b00372  0.56
2017 Kang A, Meadows CW, Canu N, Keasling JD, Soon Lee T. High-throughput enzyme screening platform for the IPP-bypass mevalonate pathway for isopentenol production. Metabolic Engineering. PMID 28389395 DOI: 10.1016/j.ymben.2017.03.010  0.44
2017 Birkel GW, Ghosh A, Kumar VS, Weaver D, Ando D, Backman TW, Arkin AP, Keasling JD, Martín HG. The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism. Bmc Bioinformatics. 18: 205. PMID 28381205 DOI: 10.1186/s12859-017-1615-y  0.6
2017 Mendez-Perez D, Alonso-Gutierrez J, Hu Q, Molinas M, Baidoo EE, Wang G, Chan LJ, Adams PD, Petzold CJ, Keasling JD, Lee TS. Production of jet fuel precursor monoterpenoids from engineered Escherichia coli. Biotechnology and Bioengineering. PMID 28369701 DOI: 10.1002/bit.26296  0.6
2017 Jakočiūnas T, Jensen MK, Keasling JD. System-level perturbations of cell metabolism using CRISPR/Cas9. Current Opinion in Biotechnology. 46: 134-140. PMID 28365497 DOI: 10.1016/j.copbio.2017.03.014  0.52
2017 Degreif D, de Rond T, Bertl A, Keasling JD, Budin I. Lipid engineering reveals regulatory roles for membrane fluidity in yeast flocculation and oxygen-limited growth. Metabolic Engineering. PMID 28323063 DOI: 10.1016/j.ymben.2017.03.002  0.52
2017 Jensen ED, Ferreira R, Jakočiūnas T, Arsovska D, Zhang J, Ding L, Smith JD, David F, Nielsen J, Jensen MK, Keasling JD. Transcriptional reprogramming in yeast using dCas9 and combinatorial gRNA strategies. Microbial Cell Factories. 16: 46. PMID 28298224 DOI: 10.1186/s12934-017-0664-2  0.56
2017 Wan N, DeLorenzo DM, He L, You L, Immethun CM, Wang G, Baidoo EE, Hollinshead W, Keasling JD, Moon TS, Tang YJ. Cyanobacterial carbon metabolism: Fluxome plasticity and oxygen dependence. Biotechnology and Bioengineering. PMID 28295163 DOI: 10.1002/bit.26287  0.56
2017 Haushalter RW, Phelan RM, Hoh KM, Su C, Wang G, Baidoo EE, Keasling JD. Production of odd-carbon dicarboxylic acids in Escherichia coli using an engineered biotin-fatty acid biosynthetic pathway. Journal of the American Chemical Society. PMID 28291347 DOI: 10.1021/jacs.6b11895  0.56
2017 Liang Y, Richardson SM, Yan J, Benites VT, Cheng-Yue C, Tran T, Mortimer J, Mukhopadhyay A, Keasling JD, Loque D. Endoribonuclease-based two-component repressor systems for tight gene expression control in plants. Acs Synthetic Biology. PMID 28094975 DOI: 10.1021/acssynbio.6b00295  0.6
2016 Beller HR, Zhou P, Jewell TNM, Goh EB, Keasling JD. Enhanced fatty acid production in engineered chemolithoautotrophic bacteria using reduced sulfur compounds as energy sources. Metabolic Engineering Communications. 3: 211-215. PMID 29468125 DOI: 10.1016/j.meteno.2016.07.001  0.4
2016 Zhang J, Kao E, Wang G, Baidoo EEK, Chen M, Keasling JD. Metabolic engineering offor the biosynthesis of 2-pyrrolidone. Metabolic Engineering Communications. 3: 1-7. PMID 29468109 DOI: 10.1016/j.meteno.2015.11.001  0.56
2016 Chubukov V, Mukhopadhyay A, Petzold CJ, Keasling JD, Martín HG. Synthetic and systems biology for microbial production of commodity chemicals. Npj Systems Biology and Applications. 2: 16009. PMID 28725470 DOI: 10.1038/npjsba.2016.9  0.6
2016 He L, Xiu Y, Jones JA, Baidoo EE, Keasling JD, Tang YJ, Koffas MA. Deciphering flux adjustments of engineered E. coli cells during fermentation with changing growth conditions. Metabolic Engineering. PMID 28017690 DOI: 10.1016/j.ymben.2016.12.008  0.44
2016 Zhang J, Barajas JF, Burdu M, Ruegg TL, Dias B, Keasling JD. Development of a Transcription Factor Based Lactam Biosensor. Acs Synthetic Biology. PMID 27997130 DOI: 10.1021/acssynbio.6b00136  0.56
2016 Kirby J, Dietzel KL, Wichmann G, Chan R, Antipov E, Moss N, Baidoo EE, Jackson P, Gaucher SP, Gottlieb S, LaBarge J, Mahatdejkul T, Hawkins KM, Muley S, Newman JD, ... ... Keasling JD, et al. Engineering a functional 1-deoxy-D-xylulose 5-phosphate (DXP) pathway in Saccharomyces cerevisiae. Metabolic Engineering. PMID 27989805 DOI: 10.1016/j.ymben.2016.10.017  0.6
2016 Reider Apel A, d'Espaux L, Wehrs M, Sachs D, Li RA, Tong GJ, Garber M, Nnadi O, Zhuang W, Hillson NJ, Keasling JD, Mukhopadhyay A. A Cas9-based toolkit to program gene expression in Saccharomyces cerevisiae. Nucleic Acids Research. PMID 27899650 DOI: 10.1093/nar/gkw1023  0.6
2016 Fang L, Ishikawa T, Rennie EA, Murawska GM, Lao J, Yan J, Tsai AY, Baidoo EE, Xu J, Keasling JD, Demura T, Kawai-Yamada M, Scheller HV, Mortimer JC. Loss of Inositol Phosphorylceramide Sphingolipid Mannosylation Induces Plant Immune Responses and Reduces Cellulose Content in Arabidopsis. The Plant Cell. PMID 27895225 DOI: 10.1105/tpc.16.00186  0.44
2016 Eudes A, Mouille M, Robinson DS, Benites VT, Wang G, Roux L, Tsai YL, Baidoo EE, Chiu TY, Heazlewood JL, Scheller HV, Mukhopadhyay A, Keasling JD, Deutsch S, Loqué D. Exploiting members of the BAHD acyltransferase family to synthesize multiple hydroxycinnamate and benzoate conjugates in yeast. Microbial Cell Factories. 15: 198. PMID 27871334 DOI: 10.1186/s12934-016-0593-5  0.6
2016 Yuzawa S, Keasling JD, Katz L. Bio-based production of fuels and industrial chemicals by repurposing antibiotic-producing type I modular polyketide synthases: opportunities and challenges. The Journal of Antibiotics. PMID 27847387 DOI: 10.1038/ja.2016.136  0.32
2016 Hollinshead WD, Rodriguez S, Martin HG, Wang G, Baidoo EE, Sale KL, Keasling JD, Mukhopadhyay A, Tang YJ. Examining Escherichia coli glycolytic pathways, catabolite repression, and metabolite channeling using Δpfk mutants. Biotechnology For Biofuels. 9: 212. PMID 27766116 DOI: 10.1186/s13068-016-0630-y  1
2016 Ghosh A, Ando D, Gin J, Runguphan W, Denby C, Wang G, Baidoo EE, Shymansky C, Keasling JD, García Martín H. (13)C Metabolic Flux Analysis for Systematic Metabolic Engineering of S. cerevisiae for Overproduction of Fatty Acids. Frontiers in Bioengineering and Biotechnology. 4: 76. PMID 27761435 DOI: 10.3389/fbioe.2016.00076  0.72
2016 Choi SY, Lee HJ, Choi J, Kim J, Sim SJ, Um Y, Kim Y, Lee TS, Keasling JD, Woo HM. Photosynthetic conversion of CO2 to farnesyl diphosphate-derived phytochemicals (amorpha-4,11-diene and squalene) by engineered cyanobacteria. Biotechnology For Biofuels. 9: 202. PMID 27688805 DOI: 10.1186/s13068-016-0617-8  0.56
2016 Skjoedt ML, Snoek T, Kildegaard KR, Arsovska D, Eichenberger M, Goedecke TJ, Rajkumar AS, Zhang J, Kristensen M, Lehka BJ, Siedler S, Borodina I, Jensen MK, Keasling JD. Engineering prokaryotic transcriptional activators as metabolite biosensors in yeast. Nature Chemical Biology. PMID 27642864 DOI: 10.1038/nchembio.2177  1
2016 Phelan RM, Sachs D, Petkiewicz SJ, Barajas JF, Blake-Hedges JM, Thompson MG, Reider Apel A, Rasor BJ, Katz L, Keasling JD. Development of next generation synthetic biology tools for use in Streptomyces venezuelae. Acs Synthetic Biology. PMID 27605473 DOI: 10.1021/acssynbio.6b00202  0.48
2016 Yuzawa S, Deng K, Wang G, Baidoo EE, Northen TR, Adams PD, Katz L, Keasling JD. Comprehensive In Vitro Analysis of Acyltransferase Domain Exchanges in Modular Polyketide Synthases and Its Application for Short-Chain Ketone Production. Acs Synthetic Biology. PMID 27548700 DOI: 10.1021/acssynbio.6b00176  0.56
2016 Lechner A, Brunk E, Keasling JD. The Need for Integrated Approaches in Metabolic Engineering. Cold Spring Harbor Perspectives in Biology. PMID 27527588 DOI: 10.1101/cshperspect.a023903  0.36
2016 Eudes A, Zhao N, Sathitsuksanoh N, Baidoo EE, Lao J, Wang G, Yogiswara S, Lee TS, Singh S, Mortimer JC, Keasling JD, Simmons BA, Loqué D. Expression of S-adenosylmethionine Hydrolase in Tissues Synthesizing Secondary Cell Walls Alters Specific Methylated Cell Wall Fractions and Improves Biomass Digestibility. Frontiers in Bioengineering and Biotechnology. 4: 58. PMID 27486577 DOI: 10.3389/fbioe.2016.00058  0.56
2016 Zhang J, Sonnenschein N, Pihl TP, Pedersen KR, Jensen MK, Keasling JD. Engineering an NADPH/NADP+ redox biosensor in yeast. Acs Synthetic Biology. PMID 27419466 DOI: 10.1021/acssynbio.6b00135  0.56
2016 Brown ME, Mukhopadhyay A, Keasling JD. Engineering bacteria to catabolize the carbonaceous component of sarin: teaching E. coli to eat isopropanol. Acs Synthetic Biology. PMID 27403844 DOI: 10.1021/acssynbio.6b00115  0.6
2016 Rajkumar AS, Liu G, Bergenholm D, Arsovska D, Kristensen M, Nielsen J, Jensen MK, Keasling JD. Engineering of synthetic, stress-responsive yeast promoters. Nucleic Acids Research. PMID 27325743 DOI: 10.1093/nar/gkw553  1
2016 Yuzawa S, Keasling JD, Katz L. Insights into polyketide biosynthesis gained from repurposing antibiotic-producing polyketide synthases to produce fuels and chemicals. The Journal of Antibiotics. PMID 27245558 DOI: 10.1038/ja.2016.64  0.32
2016 Brunk E, George KW, Alonso-Gutierrez J, Thompson M, Baidoo E, Wang G, Petzold CJ, McCloskey D, Monk J, Yang L, O'Brien EJ, Batth TS, Martin HG, Feist A, Adams PD, ... Keasling JD, et al. Characterizing Strain Variation in Engineered E. coli Using a Multi-Omics-Based Workflow. Cell Systems. PMID 27211860 DOI: 10.1016/j.cels.2016.04.004  1
2016 Jessop-Fabre MM, Jakočiūnas T, Stovicek V, Dai Z, Jensen MK, Keasling JD, Borodina I. EasyClone-MarkerFree: A vector toolkit for marker-less integration of genes into Saccharomyces cerevisiae via CRISPR-Cas9. Biotechnology Journal. PMID 27166612 DOI: 10.1002/biot.201600147  1
2016 Eng CH, Yuzawa S, Wang G, Baidoo EE, Katz L, Keasling JD. Alteration of Polyketide Stereochemistry from anti to syn by a Ketoreductase Domain Exchange in a Type I Modular Polyketide Synthase Subunit. Biochemistry. PMID 26976746 DOI: 10.1021/acs.biochem.6b00129  1
2016 Javidpour P, Deutsch S, Mutalik VK, Hillson NJ, Petzold CJ, Keasling JD, Beller HR. Investigation of Proposed Ladderane Biosynthetic Genes from Anammox Bacteria by Heterologous Expression in E. coli. Plos One. 11: e0151087. PMID 26975050 DOI: 10.1371/journal.pone.0151087  0.52
2016 Nielsen J, Keasling JD. Engineering Cellular Metabolism. Cell. 164: 1185-97. PMID 26967285 DOI: 10.1016/j.cell.2016.02.004  0.32
2016 Rodriguez S, Denby CM, Van Vu T, Baidoo EE, Wang G, Keasling JD. ATP citrate lyase mediated cytosolic acetyl-CoA biosynthesis increases mevalonate production in Saccharomyces cerevisiae. Microbial Cell Factories. 15: 48. PMID 26939608 DOI: 10.1186/s12934-016-0447-1  1
2016 Hsia J, Holtz WJ, Maharbiz MM, Arcak M, Keasling JD. Modular Synthetic Inverters from Zinc Finger Proteins and Small RNAs. Plos One. 11: e0149483. PMID 26886888 DOI: 10.1371/journal.pone.0149483  0.32
2016 Eudes A, Pereira JH, Yogiswara S, Wang G, Teixeira Benites V, Baidoo EE, Lee TS, Adams PD, Keasling JD, Loqué D. Exploiting The Substrate Promiscuity of Hydroxycinnamoyl-CoA:shikimate Hydroxycinnamoyl Transferase to Reduce Lignin. Plant & Cell Physiology. PMID 26858288 DOI: 10.1093/pcp/pcw016  0.56
2016 Linshiz G, Jensen E, Stawski N, Bi C, Elsbree N, Jiao H, Kim J, Mathies R, Keasling JD, Hillson NJ. End-to-end automated microfluidic platform for synthetic biology: from design to functional analysis. Journal of Biological Engineering. 10: 3. PMID 26839585 DOI: 10.1186/s13036-016-0024-5  1
2016 Gach PC, Shih SC, Sustarich J, Keasling JD, Hillson NJ, Adams PD, Singh AK. A Droplet Microfluidic Platform for Automating Genetic Engineering. Acs Synthetic Biology. PMID 26830031 DOI: 10.1021/acssynbio.6b00011  1
2016 Reider Apel A, Ouellet M, Szmidt-Middleton H, Keasling JD, Mukhopadhyay A. Evolved hexose transporter enhances xylose uptake and glucose/xylose co-utilization in Saccharomyces cerevisiae. Scientific Reports. 6: 19512. PMID 26781725 DOI: 10.1038/srep19512  1
2016 Zhang J, Kao E, Wang G, Baidoo EEK, Chen M, Keasling JD. Metabolic engineering of Escherichia coli for the biosynthesis of 2-pyrrolidone Metabolic Engineering Communications. 3: 1-7. DOI: 10.1016/j.meteno.2015.11.001  1
2015 Foo JL, Susanto AV, Keasling JD, Leong SS, Chang MW. Whole-cell biocatalytic and de novo production of alkanes from free fatty acids in Saccharomyces cerevisiae. Biotechnology and Bioengineering. PMID 26717118 DOI: 10.1002/bit.25920  1
2015 Kang A, George KW, Wang G, Baidoo E, Keasling JD, Lee TS. Isopentenyl diphosphate (IPP)-bypass mevalonate pathways for isopentenol production. Metabolic Engineering. PMID 26708516 DOI: 10.1016/j.ymben.2015.12.002  1
2015 Jakočiūnas T, Jensen MK, Keasling JD. CRISPR/Cas9 advances engineering of microbial cell factories. Metabolic Engineering. PMID 26707540 DOI: 10.1016/j.ymben.2015.12.003  1
2015 Hagen A, Poust S, Rond T, Fortman JL, Katz L, Petzold CJ, Keasling JD. Engineering a Polyketide Synthase for In Vitro Production of Adipic Acid. Acs Synthetic Biology. PMID 26501439 DOI: 10.1021/acssynbio.5b00153  1
2015 d'Espaux L, Mendez-Perez D, Li R, Keasling JD. Synthetic biology for microbial production of lipid-based biofuels. Current Opinion in Chemical Biology. 29: 58-65. PMID 26479184 DOI: 10.1016/j.cbpa.2015.09.009  1
2015 Eudes A, Teixeira Benites V, Wang G, Baidoo EE, Lee TS, Keasling JD, Loqué D. Precursor-Directed Combinatorial Biosynthesis of Cinnamoyl, Dihydrocinnamoyl, and Benzoyl Anthranilates in Saccharomyces cerevisiae. Plos One. 10: e0138972. PMID 26430899 DOI: 10.1371/journal.pone.0138972  0.56
2015 García Martín H, Kumar VS, Weaver D, Ghosh A, Chubukov V, Mukhopadhyay A, Arkin A, Keasling JD. A Method to Constrain Genome-Scale Models with 13C Labeling Data. Plos Computational Biology. 11: e1004363. PMID 26379153 DOI: 10.1371/journal.pcbi.1004363  1
2015 Ronda C, Maury J, Jako?iu?nas T, Baallal Jacobsen SA, Germann SM, Harrison SJ, Borodina I, Keasling JD, Jensen MK, Nielsen AT. CrEdit: CRISPR mediated multi-loci gene integration in Saccharomyces cerevisiae. Microbial Cell Factories. 14: 97. PMID 26148499 DOI: 10.1186/s12934-015-0288-3  1
2015 Wenz C, Barbas C, López-Gonzálvez Á, Garcia A, Benavente F, Sanz-Nebot V, Blanc T, Freckleton G, Britz-McKibbin P, Shanmuganathan M, de l'Escaille F, Far J, Haselberg R, Huang S, Huhn C, ... ... Keasling JD, et al. Interlaboratory study to evaluate the robustness of capillary electrophoresis with mass spectrometry for peptide mapping. Journal of Separation Science. PMID 26147246 DOI: 10.1002/jssc.201500551  1
2015 Johnson RE, de Rond T, Lindsay VN, Keasling JD, Sarpong R. Synthesis of Cycloprodigiosin Identifies the Natural Isolate as a Scalemic Mixture. Organic Letters. PMID 26114660 DOI: 10.1021/acs.orglett.5b01527  0.52
2015 Poust S, Piety J, Bar-Even A, Baker D, Keasling J, Siegel J. Mechanistic Analysis of an Engineered Enzyme that Catalyzes the Formose Reaction. Chembiochem : a European Journal of Chemical Biology. PMID 26109266 DOI: 10.1002/cbic.201500228  0.56
2015 Shih SC, Goyal G, Kim PW, Koutsoubelis N, Keasling JD, Adams PD, Hillson NJ, Singh AK. A Versatile Microfluidic Device for Automating Synthetic Biology. Acs Synthetic Biology. PMID 26075958 DOI: 10.1021/acssynbio.5b00062  0.32
2015 Zhang J, Jensen MK, Keasling JD. Development of biosensors and their application in metabolic engineering. Current Opinion in Chemical Biology. 28: 1-8. PMID 26056948 DOI: 10.1016/j.cbpa.2015.05.013  1
2015 George KW, Thompson MG, Kang A, Baidoo E, Wang G, Chan LJ, Adams PD, Petzold CJ, Keasling JD, Lee TS. Metabolic engineering for the high-yield production of isoprenoid-based C₅ alcohols in E. coli. Scientific Reports. 5: 11128. PMID 26052683 DOI: 10.1038/srep11128  1
2015 Chubukov V, Mingardon F, Schackwitz W, Baidoo EE, Alonso-Gutierrez J, Hu Q, Lee TS, Keasling JD, Mukhopadhyay A. Acute Limonene Toxicity in Escherichia coli Is Caused by Limonene Hydroperoxide and Alleviated by a Point Mutation in Alkyl Hydroperoxidase AhpC. Applied and Environmental Microbiology. 81: 4690-6. PMID 25934627 DOI: 10.1128/AEM.01102-15  1
2015 Walley J, Xiao Y, Wang JZ, Baidoo EE, Keasling JD, Shen Z, Briggs SP, Dehesh K. Plastid-produced interorgannellar stress signal MEcPP potentiates induction of the unfolded protein response in endoplasmic reticulum. Proceedings of the National Academy of Sciences of the United States of America. 112: 6212-7. PMID 25922532 DOI: 10.1073/pnas.1504828112  1
2015 Haushalter RW, Groff D, Deutsch S, The L, Chavkin TA, Brunner SF, Katz L, Keasling JD. Development of an orthogonal fatty acid biosynthesis system in E. coli for oleochemical production. Metabolic Engineering. 30: 1-6. PMID 25887638 DOI: 10.1016/j.ymben.2015.04.003  1
2015 George KW, Alonso-Gutierrez J, Keasling JD, Lee TS. Erratum to: Isoprenoid Drugs, Biofuels, and Chemicals-Artemisinin, Farnesene, and Beyond. Advances in Biochemical Engineering/Biotechnology. 148: 469. PMID 25813866 DOI: 10.1007/10_2015_310  0.56
2015 Jako?iu?nas T, Rajkumar AS, Zhang J, Arsovska D, Rodriguez A, Jendresen CB, Skjødt ML, Nielsen AT, Borodina I, Jensen MK, Keasling JD. CasEMBLR: Cas9-Facilitated Multiloci Genomic Integration of in Vivo Assembled DNA Parts in Saccharomyces cerevisiae. Acs Synthetic Biology. PMID 25781611 DOI: 10.1021/acssynbio.5b00007  0.56
2015 Siegel JB, Smith AL, Poust S, Wargacki AJ, Bar-Even A, Louw C, Shen BW, Eiben CB, Tran HM, Noor E, Gallaher JL, Bale J, Yoshikuni Y, Gelb MH, Keasling JD, et al. Computational protein design enables a novel one-carbon assimilation pathway. Proceedings of the National Academy of Sciences of the United States of America. 112: 3704-9. PMID 25775555 DOI: 10.1073/pnas.1500545112  1
2015 Jako?i?nas T, Bonde I, Herrgård M, Harrison SJ, Kristensen M, Pedersen LE, Jensen MK, Keasling JD. Multiplex metabolic pathway engineering using CRISPR/Cas9 in Saccharomyces cerevisiae. Metabolic Engineering. 28: 213-22. PMID 25638686 DOI: 10.1016/j.ymben.2015.01.008  1
2015 Vega-Sánchez ME, Loqué D, Lao J, Catena M, Verhertbruggen Y, Herter T, Yang F, Harholt J, Ebert B, Baidoo EE, Keasling JD, Scheller HV, Heazlewood JL, Ronald PC. Engineering temporal accumulation of a low recalcitrance polysaccharide leads to increased C6 sugar content in plant cell walls. Plant Biotechnology Journal. PMID 25586315 DOI: 10.1111/pbi.12326  0.56
2015 Eudes A, Sathitsuksanoh N, Baidoo EE, George A, Liang Y, Yang F, Singh S, Keasling JD, Simmons BA, Loqué D. Expression of a bacterial 3-dehydroshikimate dehydratase reduces lignin content and improves biomass saccharification efficiency. Plant Biotechnology Journal. PMID 25583257 DOI: 10.1111/pbi.12310  1
2015 George KW, Alonso-Gutierrez J, Keasling JD, Lee TS. Isoprenoid drugs, biofuels, and chemicals-artemisinin, farnesene, and beyond. Advances in Biochemical Engineering/Biotechnology. 148: 355-89. PMID 25577395 DOI: 10.1007/10_2014_288  1
2015 Poust S, Phelan RM, Deng K, Katz L, Petzold CJ, Keasling JD. Divergent mechanistic routes for the formation of gem-dimethyl groups in the biosynthesis of complex polyketides. Angewandte Chemie (International Ed. in English). 54: 2370-3. PMID 25564997 DOI: 10.1002/anie.201410124  1
2015 Alonso-Gutierrez J, Kim EM, Batth TS, Cho N, Hu Q, Chan LJ, Petzold CJ, Hillson NJ, Adams PD, Keasling JD, Garcia Martin H, Lee TS. Principal component analysis of proteomics (PCAP) as a tool to direct metabolic engineering. Metabolic Engineering. 28: 123-33. PMID 25554074 DOI: 10.1016/j.ymben.2014.11.011  1
2015 Kirby J, Nishimoto M, Chow RW, Baidoo EE, Wang G, Martin J, Schackwitz W, Chan R, Fortman JL, Keasling JD. Enhancing Terpene yield from sugars via novel routes to 1-deoxy-d-xylulose 5-phosphate. Applied and Environmental Microbiology. 81: 130-8. PMID 25326299 DOI: 10.1128/AEM.02920-14  1
2015 Scullin C, Stavila V, Skarstad A, Keasling JD, Simmons BA, Singh S. Optimization of renewable pinene production from the conversion of macroalgae Saccharina latissima. Bioresource Technology. 184: 415-20. PMID 25318906 DOI: 10.1016/j.biortech.2014.09.105  0.36
2015 Phelan RM, Sekurova ON, Keasling JD, Zotchev SB. Engineering terpene biosynthesis in Streptomyces for production of the advanced biofuel precursor bisabolene. Acs Synthetic Biology. 4: 393-9. PMID 25006988 DOI: 10.1021/sb5002517  1
2015 Weaver LJ, Sousa MM, Wang G, Baidoo E, Petzold CJ, Keasling JD. A kinetic-based approach to understanding heterologous mevalonate pathway function in E. coli. Biotechnology and Bioengineering. 112: 111-9. PMID 24981116 DOI: 10.1002/bit.25323  1
2015 Kent MS, Avina IC, Rader N, Busse ML, George A, Sathitsuksanoh N, Baidoo E, Timlin J, Giron NH, Celina MC, Martin LE, Polsky R, Chavez VH, Huber DL, Keasling JD, et al. Assay for lignin breakdown based on lignin films: insights into the Fenton reaction with insoluble lignin Green Chemistry. 17: 4830-4845. DOI: 10.1039/c5gc01083g  0.48
2015 Shi J, George KW, Sun N, He W, Li C, Stavila V, Keasling JD, Simmons BA, Lee TS, Singh S. Impact of Pretreatment Technologies on Saccharification and Isopentenol Fermentation of Mixed Lignocellulosic Feedstocks Bioenergy Research. DOI: 10.1007/s12155-015-9588-z  1
2014 Foo JL, Jensen HM, Dahl RH, George K, Keasling JD, Lee TS, Leong S, Mukhopadhyay A. Improving microbial biogasoline production in Escherichia coli using tolerance engineering. Mbio. 5: e01932. PMID 25370492 DOI: 10.1128/mBio.01932-14  1
2014 Poust S, Yoon I, Adams PD, Katz L, Petzold CJ, Keasling JD. Understanding the role of histidine in the GHSxG acyltransferase active site motif: evidence for histidine stabilization of the malonyl-enzyme intermediate. Plos One. 9: e109421. PMID 25286165 DOI: 10.1371/journal.pone.0109421  1
2014 Haushalter RW, Kim W, Chavkin TA, The L, Garber ME, Nhan M, Adams PD, Petzold CJ, Katz L, Keasling JD. Production of anteiso-branched fatty acids in Escherichia coli; next generation biofuels with improved cold-flow properties. Metabolic Engineering. 26: 111-118. PMID 25250846 DOI: 10.1016/j.ymben.2014.09.002  1
2014 Goh EB, Baidoo EE, Burd H, Lee TS, Keasling JD, Beller HR. Substantial improvements in methyl ketone production in E. coli and insights on the pathway from in vitro studies. Metabolic Engineering. 26: 67-76. PMID 25241399 DOI: 10.1016/j.ymben.2014.09.003  1
2014 Batth TS, Singh P, Ramakrishnan VR, Sousa MM, Chan LJ, Tran HM, Luning EG, Pan EH, Vuu KM, Keasling JD, Adams PD, Petzold CJ. A targeted proteomics toolkit for high-throughput absolute quantification of Escherichia coli proteins. Metabolic Engineering. 26: 48-56. PMID 25205128 DOI: 10.1016/j.ymben.2014.08.004  1
2014 Hagen A, Poust S, de Rond T, Yuzawa S, Katz L, Adams PD, Petzold CJ, Keasling JD. In vitro analysis of carboxyacyl substrate tolerance in the loading and first extension modules of borrelidin polyketide synthase. Biochemistry. 53: 5975-7. PMID 25188840 DOI: 10.1021/bi500951c  1
2014 Ghosh A, Nilmeier J, Weaver D, Adams PD, Keasling JD, Mukhopadhyay A, Petzold CJ, Martín HG. A peptide-based method for 13C Metabolic Flux Analysis in microbial communities. Plos Computational Biology. 10: e1003827. PMID 25188426 DOI: 10.1371/journal.pcbi.1003827  1
2014 Kirby J, Nishimoto M, Chow RW, Pasumarthi VN, Chan R, Chan LJ, Petzold CJ, Keasling JD. Use of nonionic surfactants for improvement of terpene production in Saccharomyces cerevisiae. Applied and Environmental Microbiology. 80: 6685-93. PMID 25149518 DOI: 10.1128/AEM.02155-14  1
2014 Linshiz G, Stawski N, Goyal G, Bi C, Poust S, Sharma M, Mutalik V, Keasling JD, Hillson NJ. PR-PR: cross-platform laboratory automation system. Acs Synthetic Biology. 3: 515-24. PMID 25126893 DOI: 10.1021/sb4001728  1
2014 Rajeev L, Luning EG, Altenburg S, Zane GM, Baidoo EE, Catena M, Keasling JD, Wall JD, Fields MW, Mukhopadhyay A. Identification of a cyclic-di-GMP-modulating response regulator that impacts biofilm formation in a model sulfate reducing bacterium. Frontiers in Microbiology. 5: 382. PMID 25120537 DOI: 10.3389/fmicb.2014.00382  1
2014 Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Göker M, Parker CT, Amann R, Beck BJ, Chain PS, Chun J, Colwell RR, Danchin A, Dawyndt P, Dedeurwaerdere T, DeLong EF, ... ... Keasling JD, et al. Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. Plos Biology. 12: e1001920. PMID 25093819 DOI: 10.1371/journal.pbio.1001920  1
2014 Rodriguez S, Kirby J, Denby CM, Keasling JD. Production and quantification of sesquiterpenes in Saccharomyces cerevisiae, including extraction, detection and quantification of terpene products and key related metabolites. Nature Protocols. 9: 1980-96. PMID 25058645 DOI: 10.1038/nprot.2014.132  1
2014 Jensen MK, Keasling JD. Recent applications of synthetic biology tools for yeast metabolic engineering. Fems Yeast Research. PMID 25041737 DOI: 10.1111/1567-1364.12185  1
2014 Frederix M, Hütter K, Leu J, Batth TS, Turner WJ, Rüegg TL, Blanch HW, Simmons BA, Adams PD, Keasling JD, Thelen MP, Dunlop MJ, Petzold CJ, Mukhopadhyay A. Development of a native Escherichia coli induction system for ionic liquid tolerance. Plos One. 9: e101115. PMID 24983352 DOI: 10.1371/journal.pone.0101115  1
2014 Kung Y, McAndrew RP, Xie X, Liu CC, Pereira JH, Adams PD, Keasling JD. Constructing tailored isoprenoid products by structure-guided modification of geranylgeranyl reductase. Structure (London, England : 1993). 22: 1028-36. PMID 24954619 DOI: 10.1016/j.str.2014.05.007  1
2014 Keasling JD. Synthetic biology: A global approach. Nature. 510: 218. PMID 24919915 DOI: 10.1038/510218c  1
2014 Poust S, Hagen A, Katz L, Keasling JD. Narrowing the gap between the promise and reality of polyketide synthases as a synthetic biology platform. Current Opinion in Biotechnology. 30: 32-9. PMID 24816568 DOI: 10.1016/j.copbio.2014.04.011  1
2014 Baidoo EE, Xiao Y, Dehesh K, Keasling JD. Metabolite profiling of plastidial deoxyxylulose-5-phosphate pathway intermediates by liquid chromatography and mass spectrometry. Methods in Molecular Biology (Clifton, N.J.). 1153: 57-76. PMID 24777790 DOI: 10.1007/978-1-4939-0606-2_5  1
2014 Nielsen J, Fussenegger M, Keasling J, Lee SY, Liao JC, Prather K, Palsson B. Engineering synergy in biotechnology. Nature Chemical Biology. 10: 319-22. PMID 24743245 DOI: 10.1038/nchembio.1519  1
2014 Paddon CJ, Keasling JD. Semi-synthetic artemisinin: a model for the use of synthetic biology in pharmaceutical development. Nature Reviews. Microbiology. 12: 355-67. PMID 24686413 DOI: 10.1038/nrmicro3240  1
2014 Way JC, Collins JJ, Keasling JD, Silver PA. Integrating biological redesign: where synthetic biology came from and where it needs to go. Cell. 157: 151-61. PMID 24679533 DOI: 10.1016/j.cell.2014.02.039  1
2014 Sarria S, Wong B, García Martín H, Keasling JD, Peralta-Yahya P. Microbial synthesis of pinene. Acs Synthetic Biology. 3: 466-75. PMID 24679043 DOI: 10.1021/sb4001382  1
2014 Ruegg TL, Kim EM, Simmons BA, Keasling JD, Singer SW, Lee TS, Thelen MP. An auto-inducible mechanism for ionic liquid resistance in microbial biofuel production. Nature Communications. 5: 3490. PMID 24667370 DOI: 10.1038/ncomms4490  1
2014 George KW, Chen A, Jain A, Batth TS, Baidoo EE, Wang G, Adams PD, Petzold CJ, Keasling JD, Lee TS. Correlation analysis of targeted proteins and metabolites to assess and engineer microbial isopentenol production. Biotechnology and Bioengineering. 111: 1648-58. PMID 24615242 DOI: 10.1002/bit.25226  1
2014 Goler JA, Carothers JM, Keasling JD. Dual-selection for evolution of in vivo functional aptazymes as riboswitch parts. Methods in Molecular Biology (Clifton, N.J.). 1111: 221-35. PMID 24549623 DOI: 10.1007/978-1-62703-755-6_16  1
2014 Garcia DE, Keasling JD. Kinetics of phosphomevalonate kinase from Saccharomyces cerevisiae. Plos One. 9: e87112. PMID 24475236 DOI: 10.1371/journal.pone.0087112  1
2014 Ito J, Herter T, Baidoo EE, Lao J, Vega-Sánchez ME, Michelle Smith-Moritz A, Adams PD, Keasling JD, Usadel B, Petzold CJ, Heazlewood JL. Analysis of plant nucleotide sugars by hydrophilic interaction liquid chromatography and tandem mass spectrometry. Analytical Biochemistry. 448: 14-22. PMID 24299991 DOI: 10.1016/j.ab.2013.11.026  1
2014 Nowroozi FF, Baidoo EE, Ermakov S, Redding-Johanson AM, Batth TS, Petzold CJ, Keasling JD. Metabolic pathway optimization using ribosome binding site variants and combinatorial gene assembly. Applied Microbiology and Biotechnology. 98: 1567-81. PMID 24257840 DOI: 10.1007/s00253-013-5361-4  1
2014 Colloms SD, Merrick CA, Olorunniji FJ, Stark WM, Smith MC, Osbourn A, Keasling JD, Rosser SJ. Rapid metabolic pathway assembly and modification using serine integrase site-specific recombination. Nucleic Acids Research. 42: e23. PMID 24225316 DOI: 10.1093/nar/gkt1101  1
2014 Javidpour P, Pereira JH, Goh EB, McAndrew RP, Ma SM, Friedland GD, Keasling JD, Chhabra SR, Adams PD, Beller HR. Biochemical and structural studies of NADH-dependent FabG used to increase the bacterial production of fatty acids under anaerobic conditions. Applied and Environmental Microbiology. 80: 497-505. PMID 24212572 DOI: 10.1128/AEM.03194-13  1
2014 Yuzawa S, Eng CH, Katz L, Keasling JD. Enzyme analysis of the polyketide synthase leads to the discovery of a novel analog of the antibiotic α-lipomycin. The Journal of Antibiotics. 67: 199-201. PMID 24169801 DOI: 10.1038/ja.2013.110  1
2014 Runguphan W, Keasling JD. Metabolic engineering of Saccharomyces cerevisiae for production of fatty acid-derived biofuels and chemicals. Metabolic Engineering. 21: 103-13. PMID 23899824 DOI: 10.1016/j.ymben.2013.07.003  1
2014 Eudes A, Juminaga D, Baidoo EEK, Collins FW, Keasling JD, Loqué D. Correction to Production of hydroxycinnamoyl anthranilates from glucose in Escherichia coli [Microb Cell Fact 12 (2013) 62] Microbial Cell Factories. 13. DOI: 10.1186/1475-2859-13-8  1
2014 Hajimorad M, Keasling JD. Independence among synthetic genetic devices in the bacterium Escherichia coli extends to the time-domain Ieee 2014 Biomedical Circuits and Systems Conference, Biocas 2014 - Proceedings. 89-92. DOI: 10.1109/BioCAS.2014.6981652  1
2013 Joshua CJ, Perez LD, Keasling JD. Functional characterization of the origin of replication of pRN1 from Sulfolobus islandicus REN1H1. Plos One. 8: e84664. PMID 24376833 DOI: 10.1371/journal.pone.0084664  1
2013 Dahl RH, Zhang F, Alonso-Gutierrez J, Baidoo E, Batth TS, Redding-Johanson AM, Petzold CJ, Mukhopadhyay A, Lee TS, Adams PD, Keasling JD. Engineering dynamic pathway regulation using stress-response promoters. Nature Biotechnology. 31: 1039-46. PMID 24142050 DOI: 10.1038/nbt.2689  1
2013 Chou HH, Keasling JD. Programming adaptive control to evolve increased metabolite production. Nature Communications. 4: 2595. PMID 24131951 DOI: 10.1038/ncomms3595  1
2013 Eudes A, Juminaga D, Baidoo EE, Collins FW, Keasling JD, Loqué D. Production of hydroxycinnamoyl anthranilates from glucose in Escherichia coli. Microbial Cell Factories. 12: 62. PMID 23806124 DOI: 10.1186/1475-2859-12-62  1
2013 Alonso-Gutierrez J, Chan R, Batth TS, Adams PD, Keasling JD, Petzold CJ, Lee TS. Metabolic engineering of Escherichia coli for limonene and perillyl alcohol production. Metabolic Engineering. 19: 33-41. PMID 23727191 DOI: 10.1016/j.ymben.2013.05.004  1
2013 Yuzawa S, Eng CH, Katz L, Keasling JD. Broad substrate specificity of the loading didomain of the lipomycin polyketide synthase. Biochemistry. 52: 3791-3. PMID 23692164 DOI: 10.1021/bi400520t  1
2013 Bokinsky G, Baidoo EE, Akella S, Burd H, Weaver D, Alonso-Gutierrez J, García-Martín H, Lee TS, Keasling JD. HipA-triggered growth arrest and β-lactam tolerance in Escherichia coli are mediated by RelA-dependent ppGpp synthesis. Journal of Bacteriology. 195: 3173-82. PMID 23667235 DOI: 10.1128/JB.02210-12  1
2013 Dietrich JA, Shis DL, Alikhani A, Keasling JD. Transcription factor-based screens and synthetic selections for microbial small-molecule biosynthesis. Acs Synthetic Biology. 2: 47-58. PMID 23656325 DOI: 10.1021/sb300091d  1
2013 Linshiz G, Stawski N, Poust S, Bi C, Keasling JD, Hillson NJ. PaR-PaR laboratory automation platform. Acs Synthetic Biology. 2: 216-22. PMID 23654257 DOI: 10.1021/sb300075t  1
2013 Paddon CJ, Westfall PJ, Pitera DJ, Benjamin K, Fisher K, McPhee D, Leavell MD, Tai A, Main A, Eng D, Polichuk DR, Teoh KH, Reed DW, Treynor T, Lenihan J, ... ... Keasling JD, et al. High-level semi-synthetic production of the potent antimalarial artemisinin. Nature. 496: 528-32. PMID 23575629 DOI: 10.1038/nature12051  1
2013 Zhou A, Baidoo E, He Z, Mukhopadhyay A, Baumohl JK, Benke P, Joachimiak MP, Xie M, Song R, Arkin AP, Hazen TC, Keasling JD, Wall JD, Stahl DA, Zhou J. Characterization of NaCl tolerance in Desulfovibrio vulgaris Hildenborough through experimental evolution. The Isme Journal. 7: 1790-802. PMID 23575373 DOI: 10.1038/ismej.2013.60  1
2013 de Rond T, Peralta-Yahya P, Cheng X, Northen TR, Keasling JD. Versatile synthesis of probes for high-throughput enzyme activity screening. Analytical and Bioanalytical Chemistry. 405: 4969-73. PMID 23568610 DOI: 10.1007/s00216-013-6888-z  1
2013 Boutigny S, Saini A, Baidoo EE, Yeung N, Keasling JD, Butland G. Physical and functional interactions of a monothiol glutaredoxin and an iron sulfur cluster carrier protein with the sulfur-donating radical S-adenosyl-L-methionine enzyme MiaB. The Journal of Biological Chemistry. 288: 14200-11. PMID 23543739 DOI: 10.1074/jbc.M113.460360  1
2013 Mutalik VK, Guimaraes JC, Cambray G, Mai QA, Christoffersen MJ, Martin L, Yu A, Lam C, Rodriguez C, Bennett G, Keasling JD, Endy D, Arkin AP. Quantitative estimation of activity and quality for collections of functional genetic elements. Nature Methods. 10: 347-53. PMID 23474467 DOI: 10.1038/nmeth.2403  1
2013 Mutalik VK, Guimaraes JC, Cambray G, Lam C, Christoffersen MJ, Mai QA, Tran AB, Paull M, Keasling JD, Arkin AP, Endy D. Precise and reliable gene expression via standard transcription and translation initiation elements. Nature Methods. 10: 354-60. PMID 23474465 DOI: 10.1038/nmeth.2404  1
2013 Gille S, Sharma V, Baidoo EE, Keasling JD, Scheller HV, Pauly M. Arabinosylation of a Yariv-precipitable cell wall polymer impacts plant growth as exemplified by the Arabidopsis glycosyltransferase mutant ray1. Molecular Plant. 6: 1369-72. PMID 23396039 DOI: 10.1093/mp/sst029  1
2013 Bartley LE, Peck ML, Kim SR, Ebert B, Manisseri C, Chiniquy DM, Sykes R, Gao L, Rautengarten C, Vega-Sánchez ME, Benke PI, Canlas PE, Cao P, Brewer S, Lin F, ... ... Keasling JD, et al. Overexpression of a BAHD acyltransferase, OsAt10, alters rice cell wall hydroxycinnamic acid content and saccharification. Plant Physiology. 161: 1615-33. PMID 23391577 DOI: 10.1104/pp.112.208694  1
2013 Özaydın B, Burd H, Lee TS, Keasling JD. Carotenoid-based phenotypic screen of the yeast deletion collection reveals new genes with roles in isoprenoid production. Metabolic Engineering. 15: 174-83. PMID 22918085 DOI: 10.1016/j.ymben.2012.07.010  1
2013 Keasling J. A conversation with Jay Keasling, PhD Industrial Biotechnology. 9: 152-155. DOI: 10.1089/ind.2013.1585  1
2013 Groff D, George A, Sun N, Sathitsuksanoh N, Bokinsky G, Simmons BA, Holmes BM, Keasling JD. Acid enhanced ionic liquid pretreatment of biomass Green Chemistry. 15: 1264-1267. DOI: 10.1039/c3gc37086k  1
2013 Szmidt-Middleton HL, Ouellet M, Adams PD, Keasling JD, Mukhopadhyay A. Utilizing a highly responsive gene, yhjX, in E. coli based production of 1,4-butanediol Chemical Engineering Science. 103: 68-73. DOI: 10.1016/j.ces.2013.06.044  1
2013 Woo HM, Murray GW, Batth TS, Prasad N, Adams PD, Keasling JD, Petzold CJ, Lee TS. Application of targeted proteomics and biological parts assembly in E. coli to optimize the biosynthesis of an anti-malarial drug precursor, amorpha-4,11-diene Chemical Engineering Science. 103: 21-28. DOI: 10.1016/j.ces.2013.04.033  1
2013 Paap SM, West TH, Manley DK, Steen EJ, Beller HR, Keasling JD, Dibble DC, Chang S, Simmons BA. Biochemical production of ethanol and fatty acid ethyl esters from switchgrass: A comparative analysis of environmental and economic performance Biomass and Bioenergy. 49: 49-62. DOI: 10.1016/j.biombioe.2012.11.029  1
2013 Bokinsky G, Groff D, Keasling J. Synthetic Biology of Microbial Biofuel Production: From Enzymes to Pathways to Organisms Synthetic Biology. 207-223. DOI: 10.1016/B978-0-12-394430-6.00011-X  1
2012 Kung Y, Runguphan W, Keasling JD. From fields to fuels: recent advances in the microbial production of biofuels. Acs Synthetic Biology. 1: 498-513. PMID 23656227 DOI: 10.1021/sb300074k  1
2012 Hillson NJ, Rosengarten RD, Keasling JD. j5 DNA assembly design automation software. Acs Synthetic Biology. 1: 14-21. PMID 23651006 DOI: 10.1021/sb2000116  1
2012 Keasling JD, Mendoza A, Baran PS. Synthesis: A constructive debate. Nature. 492: 188-9. PMID 23235869 DOI: 10.1038/492188a  1
2012 Yuzawa S, Chiba N, Katz L, Keasling JD. Construction of a part of a 3-hydroxypropionate cycle for heterologous polyketide biosynthesis in Escherichia coli. Biochemistry. 51: 9779-81. PMID 23181847 DOI: 10.1021/bi301414q  1
2012 Batth TS, Keasling JD, Petzold CJ. Targeted proteomics for metabolic pathway optimization. Methods in Molecular Biology (Clifton, N.J.). 944: 237-49. PMID 23065621 DOI: 10.1007/978-1-62703-122-6_17  1
2012 Chiniquy D, Sharma V, Schultink A, Baidoo EE, Rautengarten C, Cheng K, Carroll A, Ulvskov P, Harholt J, Keasling JD, Pauly M, Scheller HV, Ronald PC. XAX1 from glycosyltransferase family 61 mediates xylosyltransfer to rice xylan. Proceedings of the National Academy of Sciences of the United States of America. 109: 17117-22. PMID 23027943 DOI: 10.1073/pnas.1202079109  1
2012 Zhang F, Ouellet M, Batth TS, Adams PD, Petzold CJ, Mukhopadhyay A, Keasling JD. Enhancing fatty acid production by the expression of the regulatory transcription factor FadR. Metabolic Engineering. 14: 653-60. PMID 23026122 DOI: 10.1016/j.ymben.2012.08.009  1
2012 Pereira JH, Goh EB, Keasling JD, Beller HR, Adams PD. Structure of FabH and factors affecting the distribution of branched fatty acids in Micrococcus luteus. Acta Crystallographica. Section D, Biological Crystallography. 68: 1320-8. PMID 22993086 DOI: 10.1107/S0907444912028351  1
2012 Satoh Y, Tajima K, Munekata M, Keasling JD, Lee TS. Engineering of L-tyrosine oxidation in Escherichia coli and microbial production of hydroxytyrosol. Metabolic Engineering. 14: 603-10. PMID 22948011 DOI: 10.1016/j.ymben.2012.08.002  1
2012 Chou HH, Keasling JD. Synthetic pathway for production of five-carbon alcohols from isopentenyl diphosphate. Applied and Environmental Microbiology. 78: 7849-55. PMID 22941086 DOI: 10.1128/AEM.01175-12  1
2012 Perez-Gil J, Uros EM, Sauret-Güeto S, Lois LM, Kirby J, Nishimoto M, Baidoo EE, Keasling JD, Boronat A, Rodriguez-Concepcion M. Mutations in Escherichia coli aceE and ribB genes allow survival of strains defective in the first step of the isoprenoid biosynthesis pathway. Plos One. 7: e43775. PMID 22928031 DOI: 10.1371/journal.pone.0043775  1
2012 Peralta-Yahya PP, Zhang F, del Cardayre SB, Keasling JD. Microbial engineering for the production of advanced biofuels. Nature. 488: 320-8. PMID 22895337 DOI: 10.1038/nature11478  1
2012 Walker CB, Redding-Johanson AM, Baidoo EE, Rajeev L, He Z, Hendrickson EL, Joachimiak MP, Stolyar S, Arkin AP, Leigh JA, Zhou J, Keasling JD, Mukhopadhyay A, Stahl DA. Functional responses of methanogenic archaea to syntrophic growth. The Isme Journal. 6: 2045-55. PMID 22739494 DOI: 10.1038/ismej.2012.60  1
2012 Xiao Y, Savchenko T, Baidoo EE, Chehab WE, Hayden DM, Tolstikov V, Corwin JA, Kliebenstein DJ, Keasling JD, Dehesh K. Retrograde signaling by the plastidial metabolite MEcPP regulates expression of nuclear stress-response genes. Cell. 149: 1525-35. PMID 22726439 DOI: 10.1016/j.cell.2012.04.038  1
2012 Ham TS, Dmytriv Z, Plahar H, Chen J, Hillson NJ, Keasling JD. Design, implementation and practice of JBEI-ICE: an open source biological part registry platform and tools. Nucleic Acids Research. 40: e141. PMID 22718978 DOI: 10.1093/nar/gks531  1
2012 Rennie EA, Hansen SF, Baidoo EE, Hadi MZ, Keasling JD, Scheller HV. Three members of the Arabidopsis glycosyltransferase family 8 are xylan glucuronosyltransferases. Plant Physiology. 159: 1408-17. PMID 22706449 DOI: 10.1104/pp.112.200964  1
2012 McKee AE, Rutherford BJ, Chivian DC, Baidoo EK, Juminaga D, Kuo D, Benke PI, Dietrich JA, Ma SM, Arkin AP, Petzold CJ, Adams PD, Keasling JD, Chhabra SR. Manipulation of the carbon storage regulator system for metabolite remodeling and biofuel production in Escherichia coli. Microbial Cell Factories. 11: 79. PMID 22694848 DOI: 10.1186/1475-2859-11-79  1
2012 Park JI, Steen EJ, Burd H, Evans SS, Redding-Johnson AM, Batth T, Benke PI, D'haeseleer P, Sun N, Sale KL, Keasling JD, Lee TS, Petzold CJ, Mukhopadhyay A, Singer SW, et al. A thermophilic ionic liquid-tolerant cellulase cocktail for the production of cellulosic biofuels. Plos One. 7: e37010. PMID 22649505 DOI: 10.1371/journal.pone.0037010  1
2012 Chen Z, Friedland GD, Pereira JH, Reveco SA, Chan R, Park JI, Thelen MP, Adams PD, Arkin AP, Keasling JD, Blanch HW, Simmons BA, Sale KL, Chivian D, Chhabra SR. Tracing determinants of dual substrate specificity in glycoside hydrolase family 5. The Journal of Biological Chemistry. 287: 25335-43. PMID 22645145 DOI: 10.1074/jbc.M112.362640  1
2012 Baidoo EE, Benke PI, Keasling JD. Mass spectrometry-based microbial metabolomics. Methods in Molecular Biology (Clifton, N.J.). 881: 215-78. PMID 22639216 DOI: 10.1007/978-1-61779-827-6_9  1
2012 Singh P, Batth TS, Juminaga D, Dahl RH, Keasling JD, Adams PD, Petzold CJ. Application of targeted proteomics to metabolically engineered Escherichia coli. Proteomics. 12: 1289-99. PMID 22577029 DOI: 10.1002/pmic.201100482  1
2012 Clark ME, He Z, Redding AM, Joachimiak MP, Keasling JD, Zhou JZ, Arkin AP, Mukhopadhyay A, Fields MW. Transcriptomic and proteomic analyses of Desulfovibrio vulgaris biofilms: carbon and energy flow contribute to the distinct biofilm growth state. Bmc Genomics. 13: 138. PMID 22507456 DOI: 10.1186/1471-2164-13-138  1
2012 Xie X, Kirby J, Keasling JD. Functional characterization of four sesquiterpene synthases from Ricinus communis (castor bean). Phytochemistry. 78: 20-8. PMID 22459969 DOI: 10.1016/j.phytochem.2012.02.022  1
2012 Eudes A, George A, Mukerjee P, Kim JS, Pollet B, Benke PI, Yang F, Mitra P, Sun L, Cetinkol OP, Chabout S, Mouille G, Soubigou-Taconnat L, Balzergue S, Singh S, ... ... Keasling JD, et al. Biosynthesis and incorporation of side-chain-truncated lignin monomers to reduce lignin polymerization and enhance saccharification. Plant Biotechnology Journal. 10: 609-20. PMID 22458713 DOI: 10.1111/j.1467-7652.2012.00692.x  1
2012 Zhang F, Carothers JM, Keasling JD. Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids. Nature Biotechnology. 30: 354-9. PMID 22446695 DOI: 10.1038/nbt.2149  1
2012 Chen J, Densmore D, Ham TS, Keasling JD, Hillson NJ. DeviceEditor visual biological CAD canvas. Journal of Biological Engineering. 6: 1. PMID 22373390 DOI: 10.1186/1754-1611-6-1  1
2012 Deng K, George KW, Reindl W, Keasling JD, Adams PD, Lee TS, Singh AK, Northen TR. Encoding substrates with mass tags to resolve stereospecific reactions using Nimzyme. Rapid Communications in Mass Spectrometry : Rcm. 26: 611-5. PMID 22328213 DOI: 10.1002/rcm.6134  1
2012 Keasling JD. Synthetic biology and the development of tools for metabolic engineering. Metabolic Engineering. 14: 189-95. PMID 22314049 DOI: 10.1016/j.ymben.2012.01.004  1
2012 Groff D, Benke PI, Batth TS, Bokinsky G, Petzold CJ, Adams PD, Keasling JD. Supplementation of intracellular XylR leads to coutilization of hemicellulose sugars. Applied and Environmental Microbiology. 78: 2221-9. PMID 22286982 DOI: 10.1128/AEM.06761-11  1
2012 Westfall PJ, Pitera DJ, Lenihan JR, Eng D, Woolard FX, Regentin R, Horning T, Tsuruta H, Melis DJ, Owens A, Fickes S, Diola D, Benjamin KR, Keasling JD, Leavell MD, et al. Production of amorphadiene in yeast, and its conversion to dihydroartemisinic acid, precursor to the antimalarial agent artemisinin. Proceedings of the National Academy of Sciences of the United States of America. 109: E111-8. PMID 22247290 DOI: 10.1073/pnas.1110740109  1
2012 Yuzawa S, Kim W, Katz L, Keasling JD. Heterologous production of polyketides by modular type I polyketide synthases in Escherichia coli. Current Opinion in Biotechnology. 23: 727-35. PMID 22244790 DOI: 10.1016/j.copbio.2011.12.029  1
2012 Satoh Y, Tajima K, Munekata M, Keasling JD, Lee TS. Engineering of a tyrosol-producing pathway, utilizing simple sugar and the central metabolic tyrosine, in Escherichia coli. Journal of Agricultural and Food Chemistry. 60: 979-84. PMID 22225426 DOI: 10.1021/jf203256f  1
2012 Rautengarten C, Ebert B, Ouellet M, Nafisi M, Baidoo EE, Benke P, Stranne M, Mukhopadhyay A, Keasling JD, Sakuragi Y, Scheller HV. Arabidopsis Deficient in Cutin Ferulate encodes a transferase required for feruloylation of ω-hydroxy fatty acids in cutin polyester. Plant Physiology. 158: 654-65. PMID 22158675 DOI: 10.1104/pp.111.187187  1
2012 Kumar S, Hahn FM, Baidoo E, Kahlon TS, Wood DF, McMahan CM, Cornish K, Keasling JD, Daniell H, Whalen MC. Remodeling the isoprenoid pathway in tobacco by expressing the cytoplasmic mevalonate pathway in chloroplasts. Metabolic Engineering. 14: 19-28. PMID 22123257 DOI: 10.1016/j.ymben.2011.11.005  1
2012 Li Z, Keasling JD, Niyogi KK. Overlapping photoprotective function of vitamin E and carotenoids in Chlamydomonas. Plant Physiology. 158: 313-23. PMID 22080601 DOI: 10.1104/pp.111.181230  1
2012 Goh EB, Baidoo EE, Keasling JD, Beller HR. Engineering of bacterial methyl ketone synthesis for biofuels. Applied and Environmental Microbiology. 78: 70-80. PMID 22038610 DOI: 10.1128/AEM.06785-11  1
2012 Juminaga D, Baidoo EE, Redding-Johanson AM, Batth TS, Burd H, Mukhopadhyay A, Petzold CJ, Keasling JD. Modular engineering of L-tyrosine production in Escherichia coli. Applied and Environmental Microbiology. 78: 89-98. PMID 22020510 DOI: 10.1128/AEM.06017-11  1
2012 Golberg A, Linshiz G, Hillson N, Keasling JD, Chemodanov A, Koudritsky M. Distributed small scale marine biorefineries: Scale analyses and design for developing countries Aiche 2012 - 2012 Aiche Annual Meeting, Conference Proceedings 0.32
2012 Keasling J. Technique to boost microbial production of diesel fuel Industrial Bioprocessing. 34: 2-3.  1
2011 Carothers JM, Goler JA, Juminaga D, Keasling JD. Model-driven engineering of RNA devices to quantitatively program gene expression. Science (New York, N.Y.). 334: 1716-9. PMID 22194579 DOI: 10.1126/science.1212209  1
2011 McAndrew RP, Peralta-Yahya PP, DeGiovanni A, Pereira JH, Hadi MZ, Keasling JD, Adams PD. Structure of a three-domain sesquiterpene synthase: a prospective target for advanced biofuels production. Structure (London, England : 1993). 19: 1876-84. PMID 22153510 DOI: 10.1016/j.str.2011.09.013  1
2011 Bokinsky G, Peralta-Yahya PP, George A, Holmes BM, Steen EJ, Dietrich J, Lee TS, Tullman-Ercek D, Voigt CA, Simmons BA, Keasling JD. Synthesis of three advanced biofuels from ionic liquid-pretreated switchgrass using engineered Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 108: 19949-54. PMID 22123987 DOI: 10.1073/pnas.1106958108  0.6
2011 Peralta-Yahya PP, Ouellet M, Chan R, Mukhopadhyay A, Keasling JD, Lee TS. Identification and microbial production of a terpene-based advanced biofuel. Nature Communications. 2: 483. PMID 21952217 DOI: 10.1038/ncomms1494  1
2011 Lee TS, Krupa RA, Zhang F, Hajimorad M, Holtz WJ, Prasad N, Lee SK, Keasling JD. BglBrick vectors and datasheets: A synthetic biology platform for gene expression. Journal of Biological Engineering. 5: 12. PMID 21933410 DOI: 10.1186/1754-1611-5-12  1
2011 Chhabra SR, Butland G, Elias DA, Chandonia JM, Fok OY, Juba TR, Gorur A, Allen S, Leung CM, Keller KL, Reveco S, Zane GM, Semkiw E, Prathapam R, Gold B, ... ... Keasling JD, et al. Generalized schemes for high-throughput manipulation of the Desulfovibrio vulgaris genome. Applied and Environmental Microbiology. 77: 7595-604. PMID 21908633 DOI: 10.1128/AEM.05495-11  1
2011 Nielsen J, Keasling JD. Synergies between synthetic biology and metabolic engineering. Nature Biotechnology. 29: 693-5. PMID 21822239 DOI: 10.1038/nbt.1937  1
2011 Ma SM, Garcia DE, Redding-Johanson AM, Friedland GD, Chan R, Batth TS, Haliburton JR, Chivian D, Keasling JD, Petzold CJ, Lee TS, Chhabra SR. Optimization of a heterologous mevalonate pathway through the use of variant HMG-CoA reductases. Metabolic Engineering. 13: 588-97. PMID 21810477 DOI: 10.1016/j.ymben.2011.07.001  1
2011 Chhabra SR, Joachimiak MP, Petzold CJ, Zane GM, Price MN, Reveco SA, Fok V, Johanson AR, Batth TS, Singer M, Chandonia JM, Joyner D, Hazen TC, Arkin AP, Wall JD, ... ... Keasling JD, et al. Towards a rigorous network of protein-protein interactions of the model sulfate reducer Desulfovibrio vulgaris Hildenborough. Plos One. 6: e21470. PMID 21738675 DOI: 10.1371/journal.pone.0021470  1
2011 Beller HR, Goh EB, Keasling JD. Definitive alkene identification needed for in vitro studies with ole (olefin biosynthesis) proteins. The Journal of Biological Chemistry. 286: le11; author reply l. PMID 21705341 DOI: 10.1074/jbc.L110.216127  1
2011 Zhang F, Rodriguez S, Keasling JD. Metabolic engineering of microbial pathways for advanced biofuels production. Current Opinion in Biotechnology. 22: 775-83. PMID 21620688 DOI: 10.1016/j.copbio.2011.04.024  1
2011 Dunlop MJ, Dossani ZY, Szmidt HL, Chu HC, Lee TS, Keasling JD, Hadi MZ, Mukhopadhyay A. Engineering microbial biofuel tolerance and export using efflux pumps. Molecular Systems Biology. 7: 487. PMID 21556065 DOI: 10.1038/msb.2011.21  1
2011 Hajimorad M, Gray PR, Keasling JD. A framework and model system to investigate linear system behavior in Escherichia coli. Journal of Biological Engineering. 5: 3. PMID 21510907 DOI: 10.1186/1754-1611-5-3  1
2011 Joshua CJ, Dahl R, Benke PI, Keasling JD. Absence of diauxie during simultaneous utilization of glucose and Xylose by Sulfolobus acidocaldarius. Journal of Bacteriology. 193: 1293-301. PMID 21239580 DOI: 10.1128/JB.01219-10  1
2011 Redding-Johanson AM, Batth TS, Chan R, Krupa R, Szmidt HL, Adams PD, Keasling JD, Lee TS, Mukhopadhyay A, Petzold CJ. Targeted proteomics for metabolic pathway optimization: application to terpene production. Metabolic Engineering. 13: 194-203. PMID 21215324 DOI: 10.1016/j.ymben.2010.12.005  1
2011 Shui W, Petzold CJ, Redding A, Liu J, Pitcher A, Sheu L, Hsieh TY, Keasling JD, Bertozzi CR. Organelle membrane proteomics reveals differential influence of mycobacterial lipoglycans on macrophage phagosome maturation and autophagosome accumulation. Journal of Proteome Research. 10: 339-48. PMID 21105745 DOI: 10.1021/pr100688h  1
2011 Eudes A, Baidoo EEK, Yang F, Burd H, Hadi MZ, Collins FW, Keasling JD, Loqué D. Production of tranilast [N-(3′,4′-dimethoxycinnamoyl)- anthranilic acid] and its analogs in yeast Saccharomyces cerevisiae Applied Microbiology and Biotechnology. 89: 989-1000. PMID 20972784 DOI: 10.1007/s00253-010-2939-y  1
2011 Davison B, Donohue T, Gilna P, Keasling JD, Youngs H. Q&A roundtable on US bioenergy research Industrial Biotechnology. 7: 264-266. DOI: 10.1089/ind.2011.7.264  1
2011 George A, Tran K, Morgan TJ, Benke PI, Berrueco C, Lorente E, Wu BC, Keasling JD, Simmons BA, Holmes BM. The effect of ionic liquid cation and anion combinations on the macromolecular structure of lignins Green Chemistry. 13: 3375-3385. DOI: 10.1039/c1gc15543a  1
2011 Ouellet M, Datta S, Dibble DC, Tamrakar PR, Benke PI, Li C, Singh S, Sale KL, Adams PD, Keasling JD, Simmons BA, Holmes BM, Mukhopadhyay A. Impact of ionic liquid pretreated plant biomass on Saccharomyces cerevisiae growth and biofuel production Green Chemistry. 13: 2743-2749. DOI: 10.1039/c1gc15327g  1
2011 Dietrich JA, Fortman JL, Juminaga D, Keasling JD. Microbial Production of Plant-Derived Pharmaceutical Natural Products through Metabolic Engineering: Artemisinin and beyond Biocatalysis For Green Chemistry and Chemical Process Development. 173-196. DOI: 10.1002/9781118028308.ch7  1
2011 Fortman JL, Baidoo E, Fok V, Zhang J, Katz L, Keasling JD. Production of α-olefins using an engineered strain of E. coli Acs National Meeting Book of Abstracts 1
2010 Keasling JD. Manufacturing molecules through metabolic engineering. Science (New York, N.Y.). 330: 1355-8. PMID 21127247 DOI: 10.1126/science.1193990  1
2010 Dunlop MJ, Keasling JD, Mukhopadhyay A. A model for improving microbial biofuel production using a synthetic feedback loop. Systems and Synthetic Biology. 4: 95-104. PMID 20805930 DOI: 10.1007/s11693-010-9052-5  1
2010 Prach L, Kirby J, Keasling JD, Alber T. Diterpene production in Mycobacterium tuberculosis. The Febs Journal. 277: 3588-95. PMID 20670276 DOI: 10.1111/j.1742-4658.2010.07767.x  1
2010 Kirby J, Nishimoto M, Park JG, Withers ST, Nowroozi F, Behrendt D, Rutledge EJ, Fortman JL, Johnson HE, Anderson JV, Keasling JD. Cloning of casbene and neocembrene synthases from Euphorbiaceae plants and expression in Saccharomyces cerevisiae. Phytochemistry. 71: 1466-73. PMID 20594566 DOI: 10.1016/j.phytochem.2010.06.001  1
2010 Wang C, Yoon SH, Shah AA, Chung YR, Kim JY, Choi ES, Keasling JD, Kim SW. Farnesol production from Escherichia coli by harnessing the exogenous mevalonate pathway Biotechnology and Bioengineering. 107: 421-429. PMID 20552672 DOI: 10.1002/bit.22831  1
2010 Zhou A, He Z, Redding-Johanson AM, Mukhopadhyay A, Hemme CL, Joachimiak MP, Luo F, Deng Y, Bender KS, He Q, Keasling JD, Stahl DA, Fields MW, Hazen TC, Arkin AP, et al. Hydrogen peroxide-induced oxidative stress responses in Desulfovibrio vulgaris Hildenborough. Environmental Microbiology. 12: 2645-57. PMID 20482586 DOI: 10.1111/j.1462-2920.2010.02234.x  1
2010 He Q, He Z, Joyner DC, Joachimiak M, Price MN, Yang ZK, Yen HC, Hemme CL, Chen W, Fields MM, Stahl DA, Keasling JD, Keller M, Arkin AP, Hazen TC, et al. Impact of elevated nitrate on sulfate-reducing bacteria: a comparative study of Desulfovibrio vulgaris. The Isme Journal. 4: 1386-97. PMID 20445634 DOI: 10.1038/ismej.2010.59  1
2010 Dietrich JA, McKee AE, Keasling JD. High-throughput metabolic engineering: advances in small-molecule screening and selection. Annual Review of Biochemistry. 79: 563-90. PMID 20367033 DOI: 10.1146/annurev-biochem-062608-095938  1
2010 Anderson JC, Dueber JE, Leguia M, Wu GC, Goler JA, Arkin AP, Keasling JD. BglBricks: A flexible standard for biological part assembly. Journal of Biological Engineering. 4: 1. PMID 20205762 DOI: 10.1186/1754-1611-4-1  1
2010 Mattozzi Mde L, Keasling JD. Rationally engineered biotransformation of p-nitrophenol. Biotechnology Progress. 26: 616-21. PMID 20196144 DOI: 10.1002/btpr.382  1
2010 Carothers JM, Goler JA, Kapoor Y, Lara L, Keasling JD. Selecting RNA aptamers for synthetic biology: investigating magnesium dependence and predicting binding affinity. Nucleic Acids Research. 38: 2736-47. PMID 20159999 DOI: 10.1093/nar/gkq082  1
2010 Rutherford BJ, Dahl RH, Price RE, Szmidt HL, Benke PI, Mukhopadhyay A, Keasling JD. Functional genomic study of exogenous n-butanol stress in Escherichia coli. Applied and Environmental Microbiology. 76: 1935-45. PMID 20118358 DOI: 10.1128/AEM.02323-09  1
2010 Steen EJ, Kang Y, Bokinsky G, Hu Z, Schirmer A, McClure A, Del Cardayre SB, Keasling JD. Microbial production of fatty-acid-derived fuels and chemicals from plant biomass. Nature. 463: 559-62. PMID 20111002 DOI: 10.1038/nature08721  1
2010 Holtz WJ, Keasling JD. Engineering Static and Dynamic Control of Synthetic Pathways Cell. 140: 19-23. PMID 20085699 DOI: 10.1016/j.cell.2009.12.029  1
2010 Peralta-Yahya PP, Keasling JD. Advanced biofuel production in microbes. Biotechnology Journal. 5: 147-62. PMID 20084640 DOI: 10.1002/biot.200900220  1
2010 Beller HR, Goh EB, Keasling JD. Genes involved in long-chain alkene biosynthesis in micrococcus Luteus Applied and Environmental Microbiology. 76: 1212-1223. PMID 20038703 DOI: 10.1128/AEM.02312-09  1
2010 He Z, Zhou A, Baidoo E, He Q, Joachimiak MP, Benke P, Phan R, Mukhopadhyay A, Hemme CL, Huang K, Alm EJ, Fields MW, Wall J, Stahl D, Hazen TC, ... Keasling JD, et al. Global transcriptional, physiological, and metabolite analyses of the responses of Desulfovibrio vulgaris hildenborough to salt adaptation. Applied and Environmental Microbiology. 76: 1574-86. PMID 20038696 DOI: 10.1128/AEM.02141-09  1
2010 Shaikh AS, Tang YJ, Mukhopadhyay A, Martín HG, Gin J, Benke PI, Keasling JD. Study of stationary phase metabolism via isotopomer analysis of amino acids from an isolated protein. Biotechnology Progress. 26: 52-6. PMID 19899123 DOI: 10.1002/btpr.325  1
2010 Scheller HV, Singh S, Blanch H, Keasling JD. The Joint BioEnergy Institute (JBEI): Developing new biofuels by overcoming biomass recalcitrance Bioenergy Research. 3: 105-107. DOI: 10.1007/s12155-010-9086-2  1
2010 Rautengarten C, Baidoo E, Keasling JD, Scheller HV. A simple method for enzymatic synthesis of unlabeled and radiolabeled hydroxycinnamate-CoA Bioenergy Research. 3: 115-122. DOI: 10.1007/s12155-010-9085-3  1
2010 Fortman JL, Baidoo E, Fok V, Katz L, Keasling JD. Production of diacids by an engineered strain of E. coli Acs National Meeting Book of Abstracts 1
2009 Ouellet M, Adams PD, Keasling JD, Mukhopadhyay A. A rapid and inexpensive labeling method for microarray gene expression analysis. Bmc Biotechnology. 9: 97. PMID 19939278 DOI: 10.1186/1472-6750-9-97  1
2009 Carothers JM, Goler JA, Keasling JD. Chemical synthesis using synthetic biology. Current Opinion in Biotechnology. 20: 498-503. PMID 19720519 DOI: 10.1016/j.copbio.2009.08.001  1
2009 Dueber JE, Wu GC, Malmirchegini GR, Moon TS, Petzold CJ, Ullal AV, Prather KLJ, Keasling JD. Synthetic protein scaffolds provide modular control over metabolic flux Nature Biotechnology. 27: 753-759. PMID 19648908 DOI: 10.1038/nbt.1557  1
2009 Tang YJ, Martin HG, Deutschbauer A, Feng X, Huang R, Llora X, Arkin A, Keasling JD. Invariability of central metabolic flux distribution in Shewanella oneidensis MR-1 under environmental or genetic perturbations. Biotechnology Progress. 25: 1254-9. PMID 19610125 DOI: 10.1002/btpr.227  1
2009 Kirby J, Keasling JD. Biosynthesis of plant isoprenoids: Perspectives for microbial engineering Annual Review of Plant Biology. 60: 335-355. PMID 19575586 DOI: 10.1146/annurev.arplant.043008.091955  1
2009 Li Z, Ahn TK, Avenson TJ, Ballottari M, Cruz JA, Kramer DM, Bassi R, Fleming GR, Keasling JD, Niyogi KK. Lutein accumulation in the absence of zeaxanthin restores nonphotochemical quenching in the Arabidopsis thaliana npq1 mutant. The Plant Cell. 21: 1798-812. PMID 19549928 DOI: 10.1105/tpc.109.066571  1
2009 Tang YJ, Yi S, Zhuang WQ, Zinder SH, Keasling JD, Alvarez-Cohen L. Investigation of carbon metabolism in "Dehalococcoides ethenogenes" strain 195 by use of isotopomer and transcriptomic analyses. Journal of Bacteriology. 191: 5224-31. PMID 19525347 DOI: 10.1128/JB.00085-09  1
2009 Yoon SH, Lee SH, Das A, Ryu HK, Jang HJ, Kim JY, Oh DK, Keasling JD, Kim SW. Combinatorial expression of bacterial whole mevalonate pathway for the production of β-carotene in E. coli Journal of Biotechnology. 140: 218-226. PMID 19428716 DOI: 10.1016/j.jbiotec.2009.01.008  1
2009 Tang YJ, Shui W, Myers S, Feng X, Bertozzi C, Keasling JD. Central metabolism in Mycobacterium smegmatis during the transition from O2-rich to O2-poor conditions as studied by isotopomer-assisted metabolite analysis. Biotechnology Letters. 31: 1233-40. PMID 19357814 DOI: 10.1007/s10529-009-9991-7  1
2009 Marner WD, Shaikh AS, Muller SJ, Keasling JD. Enzyme immobilization via silaffin-mediated autoencapsulation in a biosilica support. Biotechnology Progress. 25: 417-23. PMID 19334285 DOI: 10.1002/btpr.136  1
2009 Elias DA, Mukhopadhyay A, Joachimiak MP, Drury EC, Redding AM, Yen HC, Fields MW, Hazen TC, Arkin AP, Keasling JD, Wall JD. Expression profiling of hypothetical genes in Desulfovibrio vulgaris leads to improved functional annotation. Nucleic Acids Research. 37: 2926-39. PMID 19293273 DOI: 10.1093/nar/gkp164  1
2009 Dietrich JA, Yoshikuni Y, Fisher KJ, Woolard FX, Ockey D, McPhee DJ, Renninger NS, Chang MC, Baker D, Keasling JD. A novel semi-biosynthetic route for artemisinin production using engineered substrate-promiscuous P450(BM3). Acs Chemical Biology. 4: 261-7. PMID 19271725 DOI: 10.1021/cb900006h  1
2009 Tsuruta H, Paddon CJ, Eng D, Lenihan JR, Horning T, Anthony LC, Regentin R, Keasling JD, Renninger NS, Newman JD. High-level production of amorpha-4,11-diene, a precursor of the antimalarial agent artemisinin, in Escherichia coli. Plos One. 4: e4489. PMID 19221601 DOI: 10.1371/journal.pone.0004489  1
2009 Shui W, Gilmore SA, Sheu L, Liu J, Keasling JD, Bertozzi CR. Quantitative proteomic profiling of host-pathogen interactions: the macrophage response to Mycobacterium tuberculosis lipids. Journal of Proteome Research. 8: 282-9. PMID 19053526 DOI: 10.1021/pr800422e  1
2009 Tang YJ, Martin HG, Dehal PS, Deutschbauer A, Llora X, Meadows A, Arkin A, Keasling JD. Metabolic flux analysis of Shewanella spp. reveals evolutionary robustness in central carbon metabolism. Biotechnology and Bioengineering. 102: 1161-9. PMID 19031428 DOI: 10.1002/bit.22129  1
2009 Tang YJ, Martin HG, Myers S, Rodriguez S, Baidoo EE, Keasling JD. Advances in analysis of microbial metabolic fluxes via (13)C isotopic labeling. Mass Spectrometry Reviews. 28: 362-75. PMID 19025966 DOI: 10.1002/mas.20191  1
2009 Tang YJ, Sapra R, Joyner D, Hazen TC, Myers S, Reichmuth D, Blanch H, Keasling JD. Analysis of metabolic pathways and fluxes in a newly discovered thermophilic and ethanol-tolerant geobacillus strain Biotechnology and Bioengineering. 102: 1377-1386. PMID 19016470 DOI: 10.1002/bit.22181  1
2009 Lubertozzi D, Keasling JD. Developing Aspergillus as a host for heterologous expression Biotechnology Advances. 27: 53-75. PMID 18840517 DOI: 10.1016/j.biotechadv.2008.09.001  1
2009 Anthony JR, Anthony LC, Nowroozi F, Kwon G, Newman JD, Keasling JD. Optimization of the mevalonate-based isoprenoid biosynthetic pathway in Escherichia coli for production of the anti-malarial drug precursor amorpha-4,11-diene. Metabolic Engineering. 11: 13-9. PMID 18775787 DOI: 10.1016/j.ymben.2008.07.007  1
2008 Steen EJ, Chan R, Prasad N, Myers S, Petzold CJ, Redding A, Ouellet M, Keasling JD. Metabolic engineering of Saccharomyces cerevisiae for the production of n-butanol. Microbial Cell Factories. 7: 36. PMID 19055772 DOI: 10.1186/1475-2859-7-36  1
2008 Lee SK, Chou H, Ham TS, Lee TS, Keasling JD. Metabolic engineering of microorganisms for biofuels production: from bugs to synthetic biology to fuels. Current Opinion in Biotechnology. 19: 556-63. PMID 18996194 DOI: 10.1016/j.copbio.2008.10.014  1
2008 Ro DK, Ouellet M, Paradise EM, Burd H, Eng D, Paddon CJ, Newman JD, Keasling JD. Induction of multiple pleiotropic drug resistance genes in yeast engineered to produce an increased level of anti-malarial drug precursor, artemisinic acid. Bmc Biotechnology. 8: 83. PMID 18983675 DOI: 10.1186/1472-6750-8-83  1
2008 Yoshikuni Y, Dietrich JA, Nowroozi FF, Babbitt PC, Keasling JD. Redesigning enzymes based on adaptive evolution for optimal function in synthetic metabolic pathways. Chemistry & Biology. 15: 607-18. PMID 18559271 DOI: 10.1016/j.chembiol.2008.05.006  1
2008 Garcia DE, Baidoo EE, Benke PI, Pingitore F, Tang YJ, Villa S, Keasling JD. Separation and mass spectrometry in microbial metabolomics. Current Opinion in Microbiology. 11: 233-9. PMID 18538626 DOI: 10.1016/j.mib.2008.04.002  1
2008 Mukhopadhyay A, Redding AM, Rutherford BJ, Keasling JD. Importance of systems biology in engineering microbes for biofuel production. Current Opinion in Biotechnology. 19: 228-34. PMID 18515068 DOI: 10.1016/j.copbio.2008.05.003  1
2008 Fortman JL, Chhabra S, Mukhopadhyay A, Chou H, Lee TS, Steen E, Keasling JD. Biofuel alternatives to ethanol: pumping the microbial well. Trends in Biotechnology. 26: 375-81. PMID 18471913 DOI: 10.1016/j.tibtech.2008.03.008  0.6
2008 Gaucher SP, Redding AM, Mukhopadhyay A, Keasling JD, Singh AK. Post-translational modifications of Desulfovibrio vulgaris Hildenborough sulfate reduction pathway proteins. Journal of Proteome Research. 7: 2320-31. PMID 18416566 DOI: 10.1021/pr700772s  1
2008 Kizer L, Pitera DJ, Pfleger BF, Keasling JD. Application of functional genomics to pathway optimization for increased isoprenoid production. Applied and Environmental Microbiology. 74: 3229-41. PMID 18344344 DOI: 10.1128/AEM.02750-07  0.84
2008 Kirby J, Romanini DW, Paradise EM, Keasling JD. Engineering triterpene production in Saccharomyces cerevisiae-beta-amyrin synthase from Artemisia annua. The Febs Journal. 275: 1852-9. PMID 18336574 DOI: 10.1111/j.1742-4658.2008.06343.x  0.48
2008 Shaikh AS, Tang YJ, Mukhopadhyay A, Keasling JD. Isotopomer distributions in amino acids from a highly expressed protein as a proxy for those from total protein. Analytical Chemistry. 80: 886-90. PMID 18179240 DOI: 10.1021/ac071445+  0.64
2008 Paradise EM, Kirby J, Chan R, Keasling JD. Redirection of flux through the FPP branch-point in Saccharomyces cerevisiae by down-regulating squalene synthase. Biotechnology and Bioengineering. 100: 371-8. PMID 18175359 DOI: 10.1002/bit.21766  0.48
2007 da Costa BM, Cornish K, Keasling JD. Manipulation of intracellular magnesium levels in Saccharomyces cerevisiae with deletion of magnesium transporters. Applied Microbiology and Biotechnology. 77: 411-25. PMID 17926032 DOI: 10.1007/s00253-007-1177-4  0.52
2007 Withers ST, Gottlieb SS, Lieu B, Newman JD, Keasling JD. Identification of isopentenol biosynthetic genes from Bacillus subtilis by a screening method based on isoprenoid precursor toxicity. Applied and Environmental Microbiology. 73: 6277-83. PMID 17693564 DOI: 10.1128/AEM.00861-07  1
2007 McMahon KD, Yilmaz S, He S, Gall DL, Jenkins D, Keasling JD. Polyphosphate kinase genes from full-scale activated sludge plants. Applied Microbiology and Biotechnology. 77: 167-73. PMID 17671784 DOI: 10.1007/s00253-007-1122-6  1
2007 Lee SK, Chou HH, Pfleger BF, Newman JD, Yoshikuni Y, Keasling JD. Directed evolution of AraC for improved compatibility of arabinose- and lactose-inducible promoters. Applied and Environmental Microbiology. 73: 5711-5. PMID 17644634 DOI: 10.1128/AEM.00791-07  1
2007 Suthers PF, Burgard AP, Dasika MS, Nowroozi F, Van Dien S, Keasling JD, Maranas CD. Metabolic flux elucidation for large-scale models using 13C labeled isotopes. Metabolic Engineering. 9: 387-405. PMID 17632026 DOI: 10.1016/j.ymben.2007.05.005  1
2007 Mukhopadhyay A, Redding AM, Joachimiak MP, Arkin AP, Borglin SE, Dehal PS, Chakraborty R, Geller JT, Hazen TC, He Q, Joyner DC, Martin VJ, Wall JD, Yang ZK, Zhou J, ... Keasling JD, et al. Cell-wide responses to low-oxygen exposure in Desulfovibrio vulgaris Hildenborough. Journal of Bacteriology. 189: 5996-6010. PMID 17545284 DOI: 10.1128/JB.00368-07  1
2007 Chang MC, Eachus RA, Trieu W, Ro DK, Keasling JD. Engineering Escherichia coli for production of functionalized terpenoids using plant P450s. Nature Chemical Biology. 3: 274-7. PMID 17438551 DOI: 10.1038/nchembio875  1
2007 Pitera DJ, Paddon CJ, Newman JD, Keasling JD. Balancing a heterologous mevalonate pathway for improved isoprenoid production in Escherichia coli. Metabolic Engineering. 9: 193-207. PMID 17239639 DOI: 10.1016/j.ymben.2006.11.002  1
2007 Shiba Y, Paradise EM, Kirby J, Ro DK, Keasling JD. Engineering of the pyruvate dehydrogenase bypass in Saccharomyces cerevisiae for high-level production of isoprenoids. Metabolic Engineering. 9: 160-8. PMID 17196416 DOI: 10.1016/j.ymben.2006.10.005  1
2007 Withers ST, Keasling JD. Biosynthesis and engineering of isoprenoid small molecules. Applied Microbiology and Biotechnology. 73: 980-90. PMID 17115212 DOI: 10.1007/s00253-006-0593-1  0.96
2007 Tang Y, Pingitore F, Mukhopadhyay A, Phan R, Hazen TC, Keasling JD. Pathway confirmation and flux analysis of central metabolic pathways in Desulfovibrio vulgaris hildenborough using gas chromatography-mass spectrometry and Fourier transform-ion cyclotron resonance mass spectrometry. Journal of Bacteriology. 189: 940-9. PMID 17114264 DOI: 10.1128/JB.00948-06  0.6
2007 Pfleger BF, Pitera DJ, Newman JD, Martin VJ, Keasling JD. Microbial sensors for small molecules: development of a mevalonate biosensor. Metabolic Engineering. 9: 30-8. PMID 17002894 DOI: 10.1016/j.ymben.2006.08.002  1
2006 Chang MC, Keasling JD. Production of isoprenoid pharmaceuticals by engineered microbes. Nature Chemical Biology. 2: 674-81. PMID 17108985 DOI: 10.1038/nchembio836  1
2006 de la Peña Mattozzi M, Tehara SK, Hong T, Keasling JD. Mineralization of paraoxon and its use as a sole C and P source by a rationally designed catabolic pathway in Pseudomonas putida. Applied and Environmental Microbiology. 72: 6699-706. PMID 17021221 DOI: 10.1128/AEM.00907-06  1
2006 Newman JD, Marshall J, Chang M, Nowroozi F, Paradise E, Pitera D, Newman KL, Keasling JD. High-level production of amorpha-4,11-diene in a two-phase partitioning bioreactor of metabolically engineered Escherichia coli. Biotechnology and Bioengineering. 95: 684-91. PMID 16878333 DOI: 10.1002/bit.21017  1
2006 Pfleger BF, Pitera DJ, Smolke CD, Keasling JD. Combinatorial engineering of intergenic regions in operons tunes expression of multiple genes. Nature Biotechnology. 24: 1027-32. PMID 16845378 DOI: 10.1038/nbt1226  1
2006 da Costa BM, Keasling JD, McMahan CM, Cornish K. Magnesium ion regulation of in vitro rubber biosynthesis by Parthenium argentatum Gray. Phytochemistry. 67: 1621-8. PMID 16780905 DOI: 10.1016/j.phytochem.2006.04.010  1
2006 Redding AM, Mukhopadhyay A, Joyner DC, Hazen TC, Keasling JD. Study of nitrate stress in Desulfovibrio vulgaris Hildenborough using iTRAQ proteomics. Briefings in Functional Genomics & Proteomics. 5: 133-43. PMID 16772278 DOI: 10.1093/bfgp/ell025  1
2006 Mukhopadhyay A, He Z, Alm EJ, Arkin AP, Baidoo EE, Borglin SC, Chen W, Hazen TC, He Q, Holman HY, Huang K, Huang R, Joyner DC, Katz N, Keller M, ... ... Keasling JD, et al. Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach. Journal of Bacteriology. 188: 4068-78. PMID 16707698 DOI: 10.1128/JB.01921-05  1
2006 Ro DK, Paradise EM, Ouellet M, Fisher KJ, Newman KL, Ndungu JM, Ho KA, Eachus RA, Ham TS, Kirby J, Chang MC, Withers ST, Shiba Y, Sarpong R, Keasling JD. Production of the antimalarial drug precursor artemisinic acid in engineered yeast. Nature. 440: 940-3. PMID 16612385 DOI: 10.1038/nature04640  1
2005 Pfleger BF, Fawzi NJ, Keasling JD. Optimization of DsRed production in Escherichia coli: effect of ribosome binding site sequestration on translation efficiency. Biotechnology and Bioengineering. 92: 553-8. PMID 16247774 DOI: 10.1002/bit.20630  0.84
2005 Wang K, Keasling JD, Muller SJ. Effects of the sequence and size of non-polar residues on self-assembly of amphiphilic peptides. International Journal of Biological Macromolecules. 36: 232-40. PMID 16055181 DOI: 10.1016/j.ijbiomac.2005.06.006  1
2005 da Costa BM, Keasling JD, Cornish K. Regulation of rubber biosynthetic rate and molecular weight in Hevea brasiliensis by metal cofactor. Biomacromolecules. 6: 279-89. PMID 15638531 DOI: 10.1021/bm049606w  0.52
2004 Reichmuth DS, Blanch HW, Keasling JD. Dibenzothiophene biodesulfurization pathway improvement using diagnostic GFP fusions. Biotechnology and Bioengineering. 88: 94-9. PMID 15389482 DOI: 10.1002/bit.20220  1
2004 Maharbiz MM, Holtz WJ, Howe RT, Keasling JD. Microbioreactor arrays with parametric control for high-throughput experimentation. Biotechnology and Bioengineering. 86: 485-90. PMID 15146839  1
2004 Maharbiz MM, Holtz WJ, Howe RT, Keasling JD. Microbioreactor arrays with parametric control for high-throughput experimentation. Biotechnology and Bioengineering. 85: 376-81. PMID 14755555 DOI: 10.1002/bit.10835  1
2003 Aldor IS, Keasling JD. Process design for microbial plastic factories: metabolic engineering of polyhydroxyalkanoates. Current Opinion in Biotechnology. 14: 475-83. PMID 14580576 DOI: 10.1016/j.copbio.2003.09.002  1
2003 Scott DJ, da Costa BM, Espy SC, Keasling JD, Cornish K. Activation and inhibition of rubber transferases by metal cofactors and pyrophosphate substrates. Phytochemistry. 64: 123-34. PMID 12946411  0.52
2003 Knopp R, Panak PJ, Wray LA, Renninger NS, Keasling JD, Nitsche H. Laser spectroscopic studies of interactions of UVI with bacterial phosphate species. Chemistry (Weinheim An Der Bergstrasse, Germany). 9: 2812-8. PMID 12866546 DOI: 10.1002/chem.200304711  1
2003 Martin VJ, Pitera DJ, Withers ST, Newman JD, Keasling JD. Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nature Biotechnology. 21: 796-802. PMID 12778056 DOI: 10.1038/nbt833  1
2003 Tehara SK, Keasling JD. Gene Cloning, purification, and characterization of a phosphodiesterase from Delftia acidovorans. Applied and Environmental Microbiology. 69: 504-8. PMID 12514034 DOI: 10.1128/AEM.69.1.504-508.2003  1
2002 Wang CL, Ozuna SC, Clark DS, Keasling JD. A deep-sea hydrothermal vent isolate, Pseudomonas aeruginosa CW961, requires thiosulfate for Cd tolerance and precipitation. Biotechnology Letters. 24: 637-641. PMID 20725529 DOI: 10.1023/A:1015043324584  0.8
2002 Smolke CD, Keasling JD. Effect of gene location, mRNA secondary structures, and RNase sites on expression of two genes in an engineered operon. Biotechnology and Bioengineering. 80: 762-76. PMID 12402322 DOI: 10.1002/bit.10434  1
2002 McMahon KD, Dojka MA, Pace NR, Jenkins D, Keasling JD. Polyphosphate kinase from activated sludge performing enhanced biological phosphorus removal. Applied and Environmental Microbiology. 68: 4971-8. PMID 12324346 DOI: 10.1128/AEM.68.10.4971-4978.2002  1
2002 Aldor IS, Kim SW, Prather KL, Keasling JD. Metabolic engineering of a novel propionate-independent pathway for the production of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) in recombinant Salmonella enterica serovar typhimurium. Applied and Environmental Microbiology. 68: 3848-54. PMID 12147480 DOI: 10.1128/AEM.68.8.3848-3854.2002  1
2002 Walker AW, Keasling JD. Metabolic engineering of Pseudomonas putida for the utilization of parathion as a carbon and energy source Biotechnology and Bioengineering. 78: 715-721. PMID 12001163 DOI: 10.1002/bit.10251  1
2002 Smolke CD, Keasling JD. Effect of copy number and mRNA processing and stabilization on transcript and protein levels from an engineered dual-gene operon. Biotechnology and Bioengineering. 78: 412-24. PMID 11948448 DOI: 10.1002/bit.10218  1
2001 Smolke CD, Khlebnikov A, Keasling JD. Effects of transcription induction homogeneity and transcript stability on expression of two genes in a constructed operon. Applied Microbiology and Biotechnology. 57: 689-96. PMID 11778879 DOI: 10.1007/s002530100812  1
2001 Smolke CD, Martin VJ, Keasling JD. Controlling the metabolic flux through the carotenoid pathway using directed mRNA processing and stabilization. Metabolic Engineering. 3: 313-21. PMID 11676567 DOI: 10.1006/mben.2001.0194  1
2001 Wang CL, Clark DS, Keasling JD. Analysis of an engineered sulfate reduction pathway and cadmium precipitation on the cell surface. Biotechnology and Bioengineering. 75: 285-91. PMID 11590601 DOI: 10.1002/bit.10030  0.8
2001 Wang CL, Lum AM, Ozuna SC, Clark DS, Keasling JD. Aerobic sulfide production and cadmium precipitation by Escherichia coli expressing the Treponema denticola cysteine desulfhydrase gene. Applied Microbiology and Biotechnology. 56: 425-30. PMID 11549014  0.8
2001 Aldor I, Keasling JD. Metabolic engineering of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) composition in recombinant Salmonella enterica serovar typhimurium. Biotechnology and Bioengineering. 76: 108-14. PMID 11505380 DOI: 10.1002/bit.1150  1
2000 Smolke CD, Carrier TA, Keasling JD. Coordinated, differential expression of two genes through directed mRNA cleavage and stabilization by secondary structures. Applied and Environmental Microbiology. 66: 5399-405. PMID 11097920 DOI: 10.1128/AEM.66.12.5399-5405.2000  1
2000 Wang CL, Maratukulam PD, Lum AM, Clark DS, Keasling JD. Metabolic engineering of an aerobic sulfate reduction pathway and its application to precipitation of cadmium on the cell surface. Applied and Environmental Microbiology. 66: 4497-502. PMID 11010904  0.8
2000 Reichmuth DS, Hittle JL, Blanch HW, Keasling JD. Biodesulfurization of dibenzothiophene in Escherichia coli is enhanced by expression of a Vibrio harveyi oxidoreductase gene. Biotechnology and Bioengineering. 67: 72-9. PMID 10581437 DOI: 10.1002/(SICI)1097-0290(20000105)67:1<72::AID-BIT8>3.0.CO;2-C  1
1999 Trelstad PL, Purdhani P, Geissdörfer W, Hillen W, Keasling JD. Polyphosphate kinase of Acinetobacter sp. strain ADP1: purification and characterization of the enzyme and its role during changes in extracellular phosphate levels. Applied and Environmental Microbiology. 65: 3780-6. PMID 10473375  0.48
1998 Cooper S, Keasling JD. Cycle-specific replication of chromosomal and F-plasmid origins. Fems Microbiology Letters. 163: 217-22. PMID 9673025  0.96
1997 Wang CL, Michels PC, Dawson SC, Kitisakkul S, Baross JA, Keasling JD, Clark DS. Cadmium removal by a new strain of Pseudomonas aeruginosa in aerobic culture. Applied and Environmental Microbiology. 63: 4075-8. PMID 9327571  1
1994 Hupp TR, Keasling JD, Cooper S, Kaguni JM. Synthesis of DnaK protein during the division cycle of Escherichia coli. Research in Microbiology. 145: 99-109. PMID 8090998  0.96
1992 Keasling JD, Palsson BO, Cooper S. Replication of the R6K plasmid during the Escherichia coli cell cycle. Journal of Bacteriology. 174: 1060-2. PMID 1732198  1
1992 Keasling JD, Palsson BO, Cooper S. Replication of prophage P1 is cell-cycle specific. Journal of Bacteriology. 174: 4457-62. PMID 1624438  1
1992 Keasling JD, Palsson BO, Cooper S. Replication of mini-F plasmids during the bacterial division cycle. Research in Microbiology. 143: 541-8. PMID 1475515  1
1991 Keasling JD, Palsson BO, Cooper S. Cell-cycle-specific F plasmid replication: regulation by cell size control of initiation. Journal of Bacteriology. 173: 2673-80. PMID 2013579  1
1990 Palsson BO, Keasling JD, Emerson SG. The regulatory mechanisms of human immunodeficiency virus replication predict multiple expression rates. Proceedings of the National Academy of Sciences of the United States of America. 87: 772-6. PMID 2405389  1
1989 Keasling JD, Palsson BO. On the kinetics of plasmid replication. Journal of Theoretical Biology. 136: 487-92. PMID 2811403  1
1989 Keasling JD, Palsson BO. ColE1 plasmid replication: a simple kinetic description from a structured model. Journal of Theoretical Biology. 141: 447-61. PMID 2483575  1
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