☰

Allison Lopatkin - Publications

Affiliations: 
2017 Biomedical Engineering Duke University, Durham, NC 
 2020-2023 Biological Sciences Barnard College, New York, NY, United States 
 2023- Chemical Engineering University of Rochester, Rochester, NY 
Area:
Systems biology, synthetic biology, computational biology, horizontal gene transfer, bacterial population dynamics, microbial metabolism, antibiotic resistance
Website:
https://lopatkinlab.com/index.html
Tree Info Similar researchers PubMed Report error

28 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
2024 Aduru SV, Szenkiel K, Rahman A, Ahmad M, Fabozzi M, Smith RP, Lopatkin AJ. Sub-inhibitory antibiotic treatment selects for enhanced metabolic efficiency. Microbiology Spectrum. e0324123. PMID 38226801 DOI: 10.1128/spectrum.03241-23  0.57
2023 Pajon C, Fortoul MC, Diaz-Tang G, Marin Meneses E, Kalifa AR, Sevy E, Mariah T, Toscan BM, Marcelin M, Hernandez DM, Marzouk MM, Lopatkin AJ, Eldakar OT, Smith RP. Interactions between metabolism and growth can determine the co-existence of and . Elife. 12. PMID 37078696 DOI: 10.7554/eLife.83664  0.453
2023 Barraza I, Pajon C, Diaz-Tang G, Marin Meneses E, Abu-Rumman F, García-Diéguez L, Castro V, Lopatkin AJ, Smith RP. Disturbing the Spatial Organization of Biofilm Communities Affects Expression of -Regulated Virulence Factors in Staphylococcus aureus. Applied and Environmental Microbiology. e0193222. PMID 36700647 DOI: 10.1128/aem.01932-22  0.479
2022 Diaz-Tang G, Meneses EM, Patel K, Mirkin S, García-Diéguez L, Pajon C, Barraza I, Patel V, Ghali H, Tracey AP, Blanar CA, Lopatkin AJ, Smith RP. Growth productivity as a determinant of the inoculum effect for bactericidal antibiotics. Science Advances. 8: eadd0924. PMID 36516248 DOI: 10.1126/sciadv.add0924  0.556
2022 Palomino A, Gewurz D, DeVine L, Zajmi U, Moralez J, Abu-Rumman F, Smith RP, Lopatkin AJ. Metabolic genes on conjugative plasmids are highly prevalent in Escherichia coli and can protect against antibiotic treatment. The Isme Journal. PMID 36261510 DOI: 10.1038/s41396-022-01329-1  0.574
2022 Wang T, Weiss A, Aqeel A, Wu F, Lopatkin AJ, David LA, You L. Horizontal gene transfer enables programmable gene stability in synthetic microbiota. Nature Chemical Biology. PMID 36050493 DOI: 10.1038/s41589-022-01114-3  0.59
2022 Gomez-Simmonds A, Annavajhala MK, Tang N, Rozenberg FD, Ahmad M, Park H, Lopatkin AJ, Uhlemann AC. Population structure of blaKPC-harbouring IncN plasmids at a New York City medical centre and evidence for multi-species horizontal transmission. The Journal of Antimicrobial Chemotherapy. PMID 35412609 DOI: 10.1093/jac/dkac114  0.327
2021 Lopatkin AJ, Yang JH. Digital Insights Into Nucleotide Metabolism and Antibiotic Treatment Failure. Frontiers in Digital Health. 3. PMID 34355212 DOI: 10.3389/fdgth.2021.583468  0.329
2021 Prensky H, Gomez-Simmonds A, Uhlemann AC, Lopatkin AJ. Conjugation dynamics depend on both the plasmid acquisition cost and the fitness cost. Molecular Systems Biology. 17: e9913. PMID 33646643 DOI: 10.15252/msb.20209913  0.324
2021 Lopatkin AJ, Bening SC, Manson AL, Stokes JM, Kohanski MA, Badran AH, Earl AM, Cheney NJ, Yang JH, Collins JJ. Clinically relevant mutations in core metabolic genes confer antibiotic resistance. Science (New York, N.Y.). 371. PMID 33602825 DOI: 10.1126/science.aba0862  0.331
2021 Lopatkin AJ, Yang JH. Digital Insights Into Nucleotide Metabolism and Antibiotic Treatment Failure Frontiers in Digital Health. 3. DOI: 10.3389/fdgth.2021.583468  0.329
2020 Bethke JH, Davidovich A, Cheng L, Lopatkin AJ, Song W, Thaden JT, Fowler VG, Xiao M, You L. Environmental and genetic determinants of plasmid mobility in pathogenic . Science Advances. 6: eaax3173. PMID 32042895 DOI: 10.1126/Sciadv.Aax3173  0.596
2020 Sysoeva TA, Kim Y, Rodriguez J, Lopatkin AJ, You L. Growth‐stage‐dependent regulation of conjugation Aiche Journal. 66. DOI: 10.1002/Aic.16848  0.666
2019 Lopatkin AJ, Stokes JM, Zheng EJ, Yang JH, Takahashi MK, You L, Collins JJ. Bacterial metabolic state more accurately predicts antibiotic lethality than growth rate. Nature Microbiology. PMID 31451773 DOI: 10.1038/S41564-019-0536-0  0.536
2019 Stokes JM, Gutierrez A, Lopatkin AJ, Andrews IW, French S, Matic I, Brown ED, Collins JJ. A multiplexable assay for screening antibiotic lethality against drug-tolerant bacteria. Nature Methods. PMID 30858599 DOI: 10.1038/S41592-019-0333-Y  0.31
2019 Wu F, Lopatkin AJ, Needs DA, Lee CT, Mukherjee S, You L. A unifying framework for interpreting and predicting mutualistic systems. Nature Communications. 10: 242. PMID 30651549 DOI: 10.1038/S41467-018-08188-5  0.421
2018 Meredith HR, Andreani V, Ma HR, Lopatkin AJ, Lee AJ, Anderson DJ, Batt G, You L. Applying ecological resistance and resilience to dissect bacterial antibiotic responses. Science Advances. 4: eaau1873. PMID 30525104 DOI: 10.1126/Sciadv.Aau1873  0.584
2017 Lopatkin AJ, Meredith HR, Srimani JK, Pfeiffer C, Durrett R, You L. Persistence and reversal of plasmid-mediated antibiotic resistance. Nature Communications. 8: 1689. PMID 29162798 DOI: 10.1038/S41467-017-01532-1  0.621
2017 Srimani JK, Huang S, Lopatkin AJ, You L. Drug detoxification dynamics explain the postantibiotic effect. Molecular Systems Biology. 13: 948. PMID 29061668 DOI: 10.15252/Msb.20177723  0.743
2017 Wilson CE, Lopatkin AJ, Craddock TJ, Driscoll WW, Eldakar OT, Lopez JV, Smith RP. Cooperation and competition shape ecological resistance during periodic spatial disturbance of engineered bacteria. Scientific Reports. 7: 440. PMID 28348396 DOI: 10.1038/S41598-017-00588-9  0.513
2016 Cao Y, Lopatkin A, You L. Elements of biological oscillations in time and space. Nature Structural & Molecular Biology. 23: 1030-1034. PMID 27922613 DOI: 10.1038/Nsmb.3320  0.538
2016 Lopatkin AJ, Sysoeva TA, You L. Dissecting the effects of antibiotics on horizontal gene transfer: Analysis suggests a critical role of selection dynamics. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. PMID 27699821 DOI: 10.1002/Bies.201600133  0.748
2016 Lopatkin AJ, Huang S, Smith RP, Srimani JK, Sysoeva TA, Bewick S, Karig DK, You L. Antibiotics as a selective driver for conjugation dynamics. Nature Microbiology. 1: 16044. PMID 27572835 DOI: 10.1038/Nmicrobiol.2016.44  0.687
2015 Huang S, Srimani JK, Lee AJ, Zhang Y, Lopatkin AJ, Leong KW, You L. Dynamic control and quantification of bacterial population dynamics in droplets. Biomaterials. 61: 239-45. PMID 26005763 DOI: 10.1016/J.Biomaterials.2015.05.038  0.711
2015 Meredith HR, Lopatkin AJ, Anderson DJ, You L. Bacterial temporal dynamics enable optimal design of antibiotic treatment. Plos Computational Biology. 11: e1004201. PMID 25905796 DOI: 10.1371/Journal.Pcbi.1004201  0.564
2015 Lee TJ, Wong J, Bae S, Lee AJ, Lopatkin A, Yuan F, You L. A power-law dependence of bacterial invasion on mammalian host receptors. Plos Computational Biology. 11: e1004203. PMID 25879937 DOI: 10.1371/Journal.Pcbi.1004203  0.465
2015 Meredith HR, Srimani JK, Lee AJ, Lopatkin AJ, You L. Collective antibiotic tolerance: mechanisms, dynamics and intervention. Nature Chemical Biology. 11: 182-8. PMID 25689336 DOI: 10.1038/Nchembio.1754  0.628
2014 Lopatkin AJ, You L. Synthetic biology looks good on paper. Cell. 159: 718-20. PMID 25417149 DOI: 10.1016/J.Cell.2014.10.003  0.422
Show low-probability matches.