Christopher J. Marx, Ph.D. - Publications

Affiliations: 
Harvard University, Cambridge, MA, United States 

76 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
2021 Bazurto JV, Riazi S, D'Alton S, Deatherage DE, Bruger EL, Barrick JE, Marx CJ. Global Transcriptional Response of to Formaldehyde Stress Expands the Role of EfgA and Is Distinct from Antibiotic Translational Inhibition. Microorganisms. 9. PMID 33578755 DOI: 10.3390/microorganisms9020347  0.546
2019 Lee JA, Riazi S, Nemati S, Bazurto JV, Vasdekis AE, Ridenhour BJ, Remien CH, Marx CJ. Microbial phenotypic heterogeneity in response to a metabolic toxin: Continuous, dynamically shifting distribution of formaldehyde tolerance in Methylobacterium extorquens populations. Plos Genetics. 15: e1008458. PMID 31710603 DOI: 10.1371/Journal.Pgen.1008458  0.428
2019 Stolyar S, Marx CJ. Align to Define: Ecologically Meaningful Populations from Genomes. Cell. 178: 767-768. PMID 31398331 DOI: 10.1016/J.Cell.2019.07.026  0.326
2019 Marx CJ. Experimental Evolution of Methylobacterium: 15 Years of Planned Experiments and Surprise Findings. Current Issues in Molecular Biology. 33: 249-266. PMID 31166197 DOI: 10.21775/Cimb.033.249  0.447
2018 Harcombe WR, Chacón JM, Adamowicz EM, Chubiz LM, Marx CJ. Evolution of bidirectional costly mutualism from byproduct consumption. Proceedings of the National Academy of Sciences of the United States of America. PMID 30348787 DOI: 10.1073/Pnas.1810949115  0.354
2018 Bruger EL, Marx CJ. A decade of genome sequencing has revolutionized studies of experimental evolution. Current Opinion in Microbiology. 45: 149-155. PMID 29879621 DOI: 10.1016/J.Mib.2018.03.002  0.338
2018 Hynes WF, Chacón J, Segrè D, Marx CJ, Cady NC, Harcombe WR. Bioprinting microbial communities to examine interspecies interactions in time and space Biomedical Physics & Engineering Express. 4: 055010. DOI: 10.1088/2057-1976/Aad544  0.351
2017 Dalia TN, Hayes CA, Stolyar S, Marx CJ, McKinlay JB, Dalia AB. Multiplex Genome Editing by Natural Transformation (MuGENT) for Synthetic Biology in Vibrio natriegens. Acs Synthetic Biology. PMID 28571309 DOI: 10.1021/Acssynbio.7B00116  0.387
2017 Douglas SM, Chubiz LM, Harcombe WR, Marx CJ. Identification of the potentiating mutations and synergistic epistasis that enabled the evolution of inter-species cooperation. Plos One. 12: e0174345. PMID 28493869 DOI: 10.1371/Journal.Pone.0174345  0.692
2017 Caglar MU, Houser JR, Barnhart CS, Boutz DR, Carroll SM, Dasgupta A, Lenoir WF, Smith BL, Sridhara V, Sydykova DK, Vander Wood D, Marx CJ, Marcotte EM, Barrick JE, Wilke CO. The E. coli molecular phenotype under different growth conditions. Scientific Reports. 7: 45303. PMID 28417974 DOI: 10.1038/Srep45303  0.709
2017 Bradley AS, Swanson PK, Muller EE, Bringel F, Caroll SM, Pearson A, Vuilleumier S, Marx CJ. Hopanoid-free Methylobacterium extorquens DM4 overproduces carotenoids and has widespread growth impairment. Plos One. 12: e0173323. PMID 28319163 DOI: 10.1371/Journal.Pone.0173323  0.361
2017 Chubiz LM, Marx CJ. Growth tradeoffs accompany the emergence of glycolytic metabolism in Shewanella oneidensis MR-1. Journal of Bacteriology. PMID 28289083 DOI: 10.1128/Jb.00827-16  0.446
2016 Douglas SM, Chubiz LM, Harcombe WR, Ytreberg FM, Marx CJ. Parallel Mutations Result in a Wide Range of Cooperation and Community Consequences in a Two-Species Bacterial Consortium. Plos One. 11: e0161837. PMID 27617746 DOI: 10.1371/Journal.Pone.0161837  0.686
2016 Michener JK, Vuilleumier S, Bringel F, Marx CJ. Transfer of a Catabolic Pathway for Chloromethane in Methylobacterium Strains Highlights Different Limitations for Growth with Chloromethane or with Dichloromethane. Frontiers in Microbiology. 7: 1116. PMID 27486448 DOI: 10.3389/Fmicb.2016.01116  0.634
2016 Harcombe WR, Betts A, Shapiro JW, Marx CJ. Adding Biotic Complexity Alters the Metabolic Benefits of Mutualism. Evolution; International Journal of Organic Evolution. PMID 27272242 DOI: 10.1111/Evo.12973  0.36
2016 Nayak DD, Agashe D, Lee MC, Marx CJ. Selection Maintains Apparently Degenerate Metabolic Pathways due to Tradeoffs in Using Methylamine for Carbon versus Nitrogen. Current Biology : Cb. PMID 27212407 DOI: 10.1016/J.Cub.2016.04.029  0.752
2016 Agashe D, Sane M, Phalnikar K, Diwan GD, Habibullah A, Martinez-Gomez NC, Sahasrabuddhe V, Polachek W, Wang J, Chubiz LM, Marx CJ. Large-effect beneficial synonymous mutations mediate rapid and parallel adaptation in a bacterium. Molecular Biology and Evolution. PMID 26908584 DOI: 10.1093/Molbev/Msw035  0.733
2015 Carroll SM, Chubiz LM, Agashe D, Marx CJ. Parallel and Divergent Evolutionary Solutions for the Optimization of an Engineered Central Metabolism in Methylobacterium extorquens AM1. Microorganisms. 3: 152-74. PMID 27682084 DOI: 10.3390/microorganisms3020152  0.761
2015 Nayak DD, Marx CJ. Experimental Horizontal Gene Transfer of Methylamine Dehydrogenase Mimics Prevalent Exchange in Nature and Overcomes the Methylamine Growth Constraints Posed by the Sub-Optimal N-Methylglutamate Pathway. Microorganisms. 3: 60-79. PMID 27682079 DOI: 10.3390/microorganisms3010060  0.305
2015 Houser JR, Barnhart C, Boutz DR, Carroll SM, Dasgupta A, Michener JK, Needham BD, Papoulas O, Sridhara V, Sydykova DK, Marx CJ, Trent MS, Barrick JE, Marcotte EM, Wilke CO. Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation. Plos Computational Biology. 11: e1004400. PMID 26275208 DOI: 10.1371/Journal.Pcbi.1004400  0.765
2015 Chou HH, Marx CJ, Sauer U. Transhydrogenase promotes the robustness and evolvability of E. coli deficient in NADPH production. Plos Genetics. 11: e1005007. PMID 25715029 DOI: 10.1371/Journal.Pgen.1005007  0.621
2015 Escalante-Chong R, Savir Y, Carroll SM, Ingraham JB, Wang J, Marx CJ, Springer M. Galactose metabolic genes in yeast respond to a ratio of galactose and glucose. Proceedings of the National Academy of Sciences of the United States of America. 112: 1636-41. PMID 25605920 DOI: 10.1073/Pnas.1418058112  0.56
2015 Houser JR, Barnhart C, Boutz DR, Carroll SM, Dasgupta A, Michener JK, Needham BD, Papoulas O, Sridhara V, Sydykova DK, Marx CJ, Trent MS, Barrick JE, Marcotte EM, Wilke CO. Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation Plos Computational Biology. 11. DOI: 10.1371/journal.pcbi.1004400  0.73
2015 Michener JK, Marx CJ. After horizontal gene transfers, metabolic pathways may need further optimization: Effective use of a horizontally transferred pathway can require co-evolutionary changes in the host or pathway Microbe. 10: 61-67.  0.596
2014 Michener JK, Camargo Neves AA, Vuilleumier S, Bringel F, Marx CJ. Effective use of a horizontally-transferred pathway for dichloromethane catabolism requires post-transfer refinement. Elife. 3. PMID 25418043 DOI: 10.7554/Elife.04279  0.672
2014 Nayak DD, Marx CJ. Genetic and phenotypic comparison of facultative methylotrophy between Methylobacterium extorquens strains PA1 and AM1. Plos One. 9: e107887. PMID 25232997 DOI: 10.1371/Journal.Pone.0107887  0.411
2014 Nayak DD, Marx CJ. Methylamine utilization via the N-methylglutamate pathway in Methylobacterium extorquens PA1 involves a novel flow of carbon through C1 assimilation and dissimilation pathways. Journal of Bacteriology. 196: 4130-9. PMID 25225269 DOI: 10.1128/Jb.02026-14  0.397
2014 Harcombe WR, Riehl WJ, Dukovski I, Granger BR, Betts A, Lang AH, Bonilla G, Kar A, Leiby N, Mehta P, Marx CJ, Segrè D. Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics. Cell Reports. 7: 1104-15. PMID 24794435 DOI: 10.1016/J.Celrep.2014.03.070  0.767
2014 Michener JK, Vuilleumier S, Bringel F, Marx CJ. Phylogeny poorly predicts the utility of a challenging horizontally transferred gene in Methylobacterium strains. Journal of Bacteriology. 196: 2101-7. PMID 24682326 DOI: 10.1128/Jb.00034-14  0.645
2014 Plucain J, Hindré T, Le Gac M, Tenaillon O, Cruveiller S, Médigue C, Leiby N, Harcombe WR, Marx CJ, Lenski RE, Schneider D. Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli. Science (New York, N.Y.). 343: 1366-9. PMID 24603152 DOI: 10.1126/Science.1248688  0.788
2014 Chou HH, Delaney NF, Draghi JA, Marx CJ. Mapping the fitness landscape of gene expression uncovers the cause of antagonism and sign epistasis between adaptive mutations. Plos Genetics. 10: e1004149. PMID 24586190 DOI: 10.1371/Journal.Pgen.1004149  0.77
2014 Leiby N, Marx CJ. Metabolic erosion primarily through mutation accumulation, and not tradeoffs, drives limited evolution of substrate specificity in Escherichia coli. Plos Biology. 12: e1001789. PMID 24558347 DOI: 10.1371/Journal.Pbio.1001789  0.812
2014 Carroll SM, Xue KS, Marx CJ. Laboratory divergence of Methylobacterium extorquens AM1 through unintended domestication and past selection for antibiotic resistance. Bmc Microbiology. 14: 2. PMID 24384040 DOI: 10.1186/1471-2180-14-2  0.634
2014 Carroll SM, Lee MC, Marx CJ. Sign epistasis limits evolutionary trade-offs at the confluence of single- and multi-carbon metabolism in Methylobacterium extorquens AM1. Evolution; International Journal of Organic Evolution. 68: 760-71. PMID 24164359 DOI: 10.1111/Evo.12301  0.692
2014 Michener JK, Camargo Neves AA, Vuilleumier S, Bringel F, Marx CJ. Evolutionary refinement of a horizontally-transferred pathway in methylobacterium species International Congress On Energy 2014, Ice 2014 - Topical Conference At the 2014 Aiche Annual Meeting. 3: 1686.  0.546
2013 Harcombe WR, Delaney NF, Leiby N, Klitgord N, Marx CJ. The ability of flux balance analysis to predict evolution of central metabolism scales with the initial distance to the optimum. Plos Computational Biology. 9: e1003091. PMID 23818838 DOI: 10.1371/Journal.Pcbi.1003091  0.767
2013 Chubiz LM, Purswani J, Carroll SM, Marx CJ. A novel pair of inducible expression vectors for use in Methylobacterium extorquens. Bmc Research Notes. 6: 183. PMID 23648175 DOI: 10.1186/1756-0500-6-183  0.478
2013 Delaney NF, Kaczmarek ME, Ward LM, Swanson PK, Lee MC, Marx CJ. Development of an optimized medium, strain and high-throughput culturing methods for Methylobacterium extorquens. Plos One. 8: e62957. PMID 23646164 DOI: 10.1371/Journal.Pone.0062957  0.718
2013 Carroll SM, Marx CJ. Evolution after introduction of a novel metabolic pathway consistently leads to restoration of wild-type physiology. Plos Genetics. 9: e1003427. PMID 23593025 DOI: 10.1371/Journal.Pgen.1003427  0.627
2013 Xi Z, Wang Y, Bradley RK, Sugumaran M, Marx CJ, Rest JS, Davis CC. Massive mitochondrial gene transfer in a parasitic flowering plant clade. Plos Genetics. 9: e1003265. PMID 23459037 DOI: 10.1371/Journal.Pgen.1003265  0.334
2013 Marx CJ. Can you sequence ecology? Metagenomics of adaptive diversification. Plos Biology. 11: e1001487. PMID 23431268 DOI: 10.1371/Journal.Pbio.1001487  0.356
2013 Lee MC, Marx CJ. Synchronous waves of failed soft sweeps in the laboratory: remarkably rampant clonal interference of alleles at a single locus. Genetics. 193: 943-52. PMID 23307898 DOI: 10.1534/Genetics.112.148502  0.58
2013 Agashe D, Martinez-Gomez NC, Drummond DA, Marx CJ. Good codons, bad transcript: large reductions in gene expression and fitness arising from synonymous mutations in a key enzyme. Molecular Biology and Evolution. 30: 549-60. PMID 23223712 DOI: 10.1093/Molbev/Mss273  0.728
2013 Delaney NF, Rojas Echenique JI, Marx CJ. Clarity: an open-source manager for laboratory automation. Journal of Laboratory Automation. 18: 171-7. PMID 23032169 DOI: 10.1177/2211068212460237  0.618
2012 Chubiz LM, Lee MC, Delaney NF, Marx CJ. FREQ-Seq: a rapid, cost-effective, sequencing-based method to determine allele frequencies directly from mixed populations. Plos One. 7: e47959. PMID 23118913 DOI: 10.1371/Journal.Pone.0047959  0.71
2012 Leiby N, Harcombe WR, Marx CJ. Multiple long-term, experimentally-evolved populations of Escherichia coli acquire dependence upon citrate as an iron chelator for optimal growth on glucose. Bmc Evolutionary Biology. 12: 151. PMID 22909317 DOI: 10.1186/1471-2148-12-151  0.792
2012 Robinson DG, Lee MC, Marx CJ. OASIS: an automated program for global investigation of bacterial and archaeal insertion sequences. Nucleic Acids Research. 40: e174. PMID 22904081 DOI: 10.1093/Nar/Gks778  0.528
2012 Chiu HC, Marx CJ, Segrè D. Epistasis from functional dependence of fitness on underlying traits. Proceedings. Biological Sciences / the Royal Society. 279: 4156-64. PMID 22896647 DOI: 10.1098/Rspb.2012.1449  0.387
2012 Marx CJ, Bringel F, Chistoserdova L, Moulin L, Farhan Ul Haque M, Fleischman DE, Gruffaz C, Jourand P, Knief C, Lee MC, Muller EE, Nadalig T, Peyraud R, Roselli S, Russ L, et al. Complete genome sequences of six strains of the genus Methylobacterium. Journal of Bacteriology. 194: 4746-8. PMID 22887658 DOI: 10.1128/Jb.01009-12  0.532
2012 Chou HH, Marx CJ. Optimization of gene expression through divergent mutational paths. Cell Reports. 1: 133-40. PMID 22832162 DOI: 10.1016/J.Celrep.2011.12.003  0.653
2012 Marx CJ. Recovering from a bad start: rapid adaptation and tradeoffs to growth below a threshold density. Bmc Evolutionary Biology. 12: 109. PMID 22762241 DOI: 10.1186/1471-2148-12-109  0.306
2012 Lee MC, Marx CJ. Repeated, selection-driven genome reduction of accessory genes in experimental populations. Plos Genetics. 8: e1002651. PMID 22589730 DOI: 10.1371/Journal.Pgen.1002651  0.601
2012 Delaney NF, Balenger S, Bonneaud C, Marx CJ, Hill GE, Ferguson-Noel N, Tsai P, Rodrigo A, Edwards SV. Ultrafast evolution and loss of CRISPRs following a host shift in a novel wildlife pathogen, Mycoplasma gallisepticum. Plos Genetics. 8: e1002511. PMID 22346765 DOI: 10.1371/Journal.Pgen.1002511  0.675
2012 Delaney NF, Balenger S, Bonneaud C, Marx CJ, Hill GE, Ferguson-Noel N, Tsai P, Rodrigo A, Edwards SV. Correction: Ultrafast Evolution and Loss of CRISPRs Following a Host Shift in a Novel Wildlife Pathogen, Mycoplasma gallisepticum Plos Genetics. 8. DOI: 10.1371/annotation/b5608bc6-aa54-40a7-b246-51fa7bc4a9db  0.603
2011 Chou HH, Chiu HC, Delaney NF, Segrè D, Marx CJ. Diminishing returns epistasis among beneficial mutations decelerates adaptation. Science (New York, N.Y.). 332: 1190-2. PMID 21636771 DOI: 10.1126/Science.1203799  0.77
2010 Segrè D, Marx CJ. Introduction to focus issue: genetic interactions. Chaos (Woodbury, N.Y.). 20: 026101. PMID 20590330 DOI: 10.1063/1.3456057  0.364
2010 Gudelj I, Weitz JS, Ferenci T, Claire Horner-Devine M, Marx CJ, Meyer JR, Forde SE. An integrative approach to understanding microbial diversity: from intracellular mechanisms to community structure. Ecology Letters. 13: 1073-84. PMID 20576029 DOI: 10.1111/J.1461-0248.2010.01507.X  0.581
2010 Bradley AS, Pearson A, Sáenz JP, Marx CJ. Adenosylhopane: The first intermediate in hopanoid side chain biosynthesis Organic Geochemistry. 41: 1075-1081. DOI: 10.1016/J.Orggeochem.2010.07.003  0.348
2009 Chou HH, Berthet J, Marx CJ. Fast growth increases the selective advantage of a mutation arising recurrently during evolution under metal limitation. Plos Genetics. 5: e1000652. PMID 19763169 DOI: 10.1371/Journal.Pgen.1000652  0.625
2009 Lee MC, Chou HH, Marx CJ. Asymmetric, bimodal trade-offs during adaptation of Methylobacterium to distinct growth substrates. Evolution; International Journal of Organic Evolution. 63: 2816-30. PMID 19545267 DOI: 10.1111/J.1558-5646.2009.00757.X  0.668
2009 Vuilleumier S, Chistoserdova L, Lee MC, Bringel F, Lajus A, Zhou Y, Gourion B, Barbe V, Chang J, Cruveiller S, Dossat C, Gillett W, Gruffaz C, Haugen E, Hourcade E, ... ... Marx CJ, et al. Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources. Plos One. 4: e5584. PMID 19440302 DOI: 10.1371/Journal.Pone.0005584  0.665
2008 Marx CJ. Development of a broad-host-range sacB-based vector for unmarked allelic exchange. Bmc Research Notes. 1: 1. PMID 18710539 DOI: 10.1186/1756-0500-1-1  0.386
2006 Chain PS, Denef VJ, Konstantinidis KT, Vergez LM, Agulló L, Reyes VL, Hauser L, Córdova M, Gómez L, González M, Land M, Lao V, Larimer F, LiPuma JJ, Mahenthiralingam E, ... ... Marx CJ, et al. Burkholderia xenovorans LB400 harbors a multi-replicon, 9.73-Mbp genome shaped for versatility. Proceedings of the National Academy of Sciences of the United States of America. 103: 15280-7. PMID 17030797 DOI: 10.1073/Pnas.0606924103  0.394
2005 Kalyuzhnaya MG, Korotkova N, Crowther G, Marx CJ, Lidstrom ME, Chistoserdova L. Analysis of gene islands involved in methanopterin-linked C1 transfer reactions reveals new functions and provides evolutionary insights. Journal of Bacteriology. 187: 4607-14. PMID 15968072 DOI: 10.1128/Jb.187.13.4607-4614.2005  0.569
2005 Marx CJ, Van Dien SJ, Lidstrom ME. Flux analysis uncovers key role of functional redundancy in formaldehyde metabolism. Plos Biology. 3: e16. PMID 15660163 DOI: 10.1371/Journal.Pbio.0030016  0.596
2004 Marx CJ, Miller JA, Chistoserdova L, Lidstrom ME. Multiple formaldehyde oxidation/detoxification pathways in Burkholderia fungorum LB400. Journal of Bacteriology. 186: 2173-8. PMID 15028703 DOI: 10.1128/Jb.186.7.2173-2178.2004  0.571
2004 Chistoserdova L, Jenkins C, Kalyuzhnaya MG, Marx CJ, Lapidus A, Vorholt JA, Staley JT, Lidstrom ME. The enigmatic planctomycetes may hold a key to the origins of methanogenesis and methylotrophy. Molecular Biology and Evolution. 21: 1234-41. PMID 15014146 DOI: 10.1093/Molbev/Msh113  0.561
2004 Marx CJ, Lidstrom ME. Development of an insertional expression vector system for Methylobacterium extorquens AM1 and generation of null mutants lacking mtdA and/or fch. Microbiology (Reading, England). 150: 9-19. PMID 14702393 DOI: 10.1099/Mic.0.26587-0  0.597
2003 Van Dien SJ, Marx CJ, O'Brien BN, Lidstrom ME. Genetic characterization of the carotenoid biosynthetic pathway in Methylobacterium extorquens AM1 and isolation of a colorless mutant. Applied and Environmental Microbiology. 69: 7563-6. PMID 14660416 DOI: 10.1128/Aem.69.12.7563-7566.2003  0.619
2003 Marx CJ, Laukel M, Vorholt JA, Lidstrom ME. Purification of the formate-tetrahydrofolate ligase from Methylobacterium extorquens AM1 and demonstration of its requirement for methylotrophic growth. Journal of Bacteriology. 185: 7169-75. PMID 14645277 DOI: 10.1128/Jb.185.24.7169-7175.2003  0.575
2003 Marx CJ, Chistoserdova L, Lidstrom ME. Formaldehyde-detoxifying role of the tetrahydromethanopterin-linked pathway in Methylobacterium extorquens AM1. Journal of Bacteriology. 185: 7160-8. PMID 14645276 DOI: 10.1128/Jb.185.23.7160-7168.2003  0.56
2003 Marx CJ, O'Brien BN, Breezee J, Lidstrom ME. Novel methylotrophy genes of Methylobacterium extorquens AM1 identified by using transposon mutagenesis including a putative dihydromethanopterin reductase. Journal of Bacteriology. 185: 669-73. PMID 12511515 DOI: 10.1128/Jb.185.2.669-673.2003  0.573
2002 Marx CJ, Lidstrom ME. Broad-host-range cre-lox system for antibiotic marker recycling in gram-negative bacteria. Biotechniques. 33: 1062-7. PMID 12449384 DOI: 10.2144/02335Rr01  0.573
2001 Marx CJ, Lidstrom ME. Development of improved versatile broad-host-range vectors for use in methylotrophs and other Gram-negative bacteria. Microbiology (Reading, England). 147: 2065-75. PMID 11495985 DOI: 10.1099/00221287-147-8-2065  0.566
2000 Vorholt JA, Marx CJ, Lidstrom ME, Thauer RK. Novel formaldehyde-activating enzyme in Methylobacterium extorquens AM1 required for growth on methanol. Journal of Bacteriology. 182: 6645-50. PMID 11073907 DOI: 10.1128/Jb.182.23.6645-6650.2000  0.573
1999 Cohen-Kupiec R, Marx CJ, Leigh JA. Function and regulation of glnA in the methanogenic archaeon Methanococcus maripaludis. Journal of Bacteriology. 181: 256-61. PMID 9864338 DOI: 10.1128/Jb.181.1.256-261.1999  0.372
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