Thierry Emonet
Lewis B. Cullman Professor of Molecular, Cellular and Developmental Biology and Professor of Physics
Research & Publications
Biography
News
Research Summary
Our lab combines mathematical modeling and quantitative experiments to understand the biological computations that enable organisms to sense and navigate their chemical environments. http://emonet.biology.yale.edu
Extensive Research Description
Coauthors
Selected Publications
- Olfactory cues and memories in animal navigationEmonet T, Vergassola M. Olfactory cues and memories in animal navigation. Nature Reviews Physics 2024, 6: 215-216. DOI: 10.1038/s42254-024-00710-7.
- Direct measurement of dynamic attractant gradients reveals breakdown of the Patlak–Keller–Segel chemotaxis modelPhan T, Mattingly H, Vo L, Marvin J, Looger L, Emonet T. Direct measurement of dynamic attractant gradients reveals breakdown of the Patlak–Keller–Segel chemotaxis model. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2309251121. PMID: 38194458, PMCID: PMC10801886, DOI: 10.1073/pnas.2309251121.
- Temporal novelty detection and multiple timescale integration drive Drosophila orientation dynamics in temporally diverse olfactory environmentsJayaram V, Sehdev A, Kadakia N, Brown E, Emonet T. Temporal novelty detection and multiple timescale integration drive Drosophila orientation dynamics in temporally diverse olfactory environments. PLOS Computational Biology 2023, 19: e1010606. PMID: 37167321, PMCID: PMC10205008, DOI: 10.1371/journal.pcbi.1010606.
- Optimal inference of molecular interaction dynamics in FRET microscopyKamino K, Kadakia N, Avgidis F, Liu Z, Aoki K, Shimizu T, Emonet T. Optimal inference of molecular interaction dynamics in FRET microscopy. Proceedings Of The National Academy Of Sciences Of The United States Of America 2023, 120: e2211807120. PMID: 37014867, PMCID: PMC10104582, DOI: 10.1073/pnas.2211807120.
- Odour motion sensing enhances navigation of complex plumesKadakia N, Demir M, Michaelis B, DeAngelis B, Reidenbach M, Clark D, Emonet T. Odour motion sensing enhances navigation of complex plumes. Nature 2022, 611: 754-761. PMID: 36352224, PMCID: PMC10039482, DOI: 10.1038/s41586-022-05423-4.
- Where is that smell coming from?Brudner S, Emonet T. Where is that smell coming from? ELife 2022, 11: e82635. PMID: 36125436, PMCID: PMC9489204, DOI: 10.7554/elife.82635.
- Collective behavior and nongenetic inheritance allow bacterial populations to adapt to changing environmentsMattingly H, Emonet T. Collective behavior and nongenetic inheritance allow bacterial populations to adapt to changing environments. Proceedings Of The National Academy Of Sciences Of The United States Of America 2022, 119: e2117377119. PMID: 35727978, PMCID: PMC9245662, DOI: 10.1073/pnas.2117377119.
- Sensing complementary temporal features of odor signals enhances navigation of diverse turbulent plumesJayaram V, Kadakia N, Emonet T. Sensing complementary temporal features of odor signals enhances navigation of diverse turbulent plumes. ELife 2022, 11: e72415. PMID: 35072625, PMCID: PMC8871351, DOI: 10.7554/elife.72415.
- Escherichia coli chemotaxis is information limitedMattingly H, Kamino K, Machta B, Emonet T. Escherichia coli chemotaxis is information limited. Nature Physics 2021, 17: 1426-1431. PMID: 35035514, PMCID: PMC8758097, DOI: 10.1038/s41567-021-01380-3.
- Non-Genetic Diversity in Chemosensing and Chemotactic BehaviorMoore JP, Kamino K, Emonet T. Non-Genetic Diversity in Chemosensing and Chemotactic Behavior. International Journal Of Molecular Sciences 2021, 22: 6960. PMID: 34203411, PMCID: PMC8268644, DOI: 10.3390/ijms22136960.
- A Primed Subpopulation of Bacteria Enables Rapid Expression of the Type 3 Secretion System in Pseudomonas aeruginosaLin CK, Lee DSW, McKeithen-Mead S, Emonet T, Kazmierczak B. A Primed Subpopulation of Bacteria Enables Rapid Expression of the Type 3 Secretion System in Pseudomonas aeruginosa. MBio 2021, 12: e00831-21. PMID: 34154400, PMCID: PMC8262847, DOI: 10.1128/mbio.00831-21.
- Adaptive tuning of cell sensory diversity without changes in gene expressionKamino K, Keegstra JM, Long J, Emonet T, Shimizu TS. Adaptive tuning of cell sensory diversity without changes in gene expression. Science Advances 2020, 6: eabc1087. PMID: 33188019, PMCID: PMC7673753, DOI: 10.1126/sciadv.abc1087.
- Walking Drosophila navigate complex plumes using stochastic decisions biased by the timing of odor encountersDemir M, Kadakia N, Anderson HD, Clark DA, Emonet T. Walking Drosophila navigate complex plumes using stochastic decisions biased by the timing of odor encounters. ELife 2020, 9: e57524. PMID: 33140723, PMCID: PMC7609052, DOI: 10.7554/elife.57524.
- A rule from bacteria to balance growth and expansionMattingly H, Emonet T. A rule from bacteria to balance growth and expansion. Nature 2019, 575: 602-603. PMID: 31768038, DOI: 10.1038/d41586-019-03348-z.
- Front-end Weber-Fechner gain control enhances the fidelity of combinatorial odor codingKadakia N, Emonet T. Front-end Weber-Fechner gain control enhances the fidelity of combinatorial odor coding. ELife 2019, 8: e45293. PMID: 31251174, PMCID: PMC6609331, DOI: 10.7554/elife.45293.
- Non‐genetic diversity modulates population performanceWaite AJ, Frankel NW, Dufour YS, Johnston JF, Long J, Emonet T. Non‐genetic diversity modulates population performance. Molecular Systems Biology 2018, 14: e8149. PMID: 29321185, PMCID: PMC5787705, DOI: 10.15252/msb.20178149.
- Olfactory receptor neurons use gain control and complementary kinetics to encode intermittent odorant stimuliGorur-Shandilya S, Demir M, Long J, Clark DA, Emonet T. Olfactory receptor neurons use gain control and complementary kinetics to encode intermittent odorant stimuli. ELife 2017, 6: e27670. PMID: 28653907, PMCID: PMC5524537, DOI: 10.7554/elife.27670.
- Feedback between motion and sensation provides nonlinear boost in run-and-tumble navigationLong J, Zucker SW, Emonet T. Feedback between motion and sensation provides nonlinear boost in run-and-tumble navigation. PLOS Computational Biology 2017, 13: e1005429. PMID: 28264023, PMCID: PMC5358899, DOI: 10.1371/journal.pcbi.1005429.
- Limits of Feedback Control in Bacterial ChemotaxisDufour YS, Fu X, Hernandez-Nunez L, Emonet T. Limits of Feedback Control in Bacterial Chemotaxis. PLOS Computational Biology 2014, 10: e1003694. PMID: 24967937, PMCID: PMC4072517, DOI: 10.1371/journal.pcbi.1003694.
- Adaptability of non-genetic diversity in bacterial chemotaxisFrankel NW, Pontius W, Dufour YS, Long J, Hernandez-Nunez L, Emonet T. Adaptability of non-genetic diversity in bacterial chemotaxis. ELife 2014, 3: e03526. PMID: 25279698, PMCID: PMC4210811, DOI: 10.7554/elife.03526.
- Adaptation Dynamics in Densely Clustered ChemoreceptorsPontius W, Sneddon MW, Emonet T. Adaptation Dynamics in Densely Clustered Chemoreceptors. PLOS Computational Biology 2013, 9: e1003230. PMID: 24068908, PMCID: PMC3777915, DOI: 10.1371/journal.pcbi.1003230.
- Cell-Fibronectin Interactions Propel Vertebrate Trunk Elongation via Tissue MechanicsDray N, Lawton A, Nandi A, Jülich D, Emonet T, Holley SA. Cell-Fibronectin Interactions Propel Vertebrate Trunk Elongation via Tissue Mechanics. Current Biology 2013, 23: 1335-1341. PMID: 23810535, PMCID: PMC3725194, DOI: 10.1016/j.cub.2013.05.052.
- Functional diversity among sensory receptors in a Drosophila olfactory circuitMathew D, Martelli C, Kelley-Swift E, Brusalis C, Gershow M, Samuel AD, Emonet T, Carlson JR. Functional diversity among sensory receptors in a Drosophila olfactory circuit. Proceedings Of The National Academy Of Sciences Of The United States Of America 2013, 110: e2134-e2143. PMID: 23690583, PMCID: PMC3677458, DOI: 10.1073/pnas.1306976110.
- Intensity Invariant Dynamics and Odor-Specific Latencies in Olfactory Receptor Neuron ResponseMartelli C, Carlson JR, Emonet T. Intensity Invariant Dynamics and Odor-Specific Latencies in Olfactory Receptor Neuron Response. Journal Of Neuroscience 2013, 33: 6285-6297. PMID: 23575828, PMCID: PMC3678969, DOI: 10.1523/jneurosci.0426-12.2013.
- Regulated tissue fluidity steers zebrafish body elongationLawton AK, Nandi A, Stulberg MJ, Dray N, Sneddon MW, Pontius W, Emonet T, Holley SA. Regulated tissue fluidity steers zebrafish body elongation. Development 2013, 140: 573-582. PMID: 23293289, PMCID: PMC3561786, DOI: 10.1242/dev.090381.
- Modeling cellular signaling: taking space into the computationSneddon MW, Emonet T. Modeling cellular signaling: taking space into the computation. Nature Methods 2012, 9: 239-242. PMID: 22373909, PMCID: PMC4713026, DOI: 10.1038/nmeth.1900.
- The Her7 node modulates the network topology of the zebrafish segmentation clock via sequestration of the Hes6 hubTrofka A, Schwendinger-Schreck J, Brend T, Pontius W, Emonet T, Holley SA. The Her7 node modulates the network topology of the zebrafish segmentation clock via sequestration of the Hes6 hub. Development 2012, 139: 940-947. PMID: 22278920, PMCID: PMC3274355, DOI: 10.1242/dev.073544.
- 9.16 Systems Immunology: A Primer for BiophysicistsAltan-Bonnet G, Emonet T. 9.16 Systems Immunology: A Primer for Biophysicists. 2012, 389-413. DOI: 10.1016/b978-0-12-374920-8.00926-7.
- Stochastic coordination of multiple actuators reduces latency and improves chemotactic response in bacteriaSneddon MW, Pontius W, Emonet T. Stochastic coordination of multiple actuators reduces latency and improves chemotactic response in bacteria. Proceedings Of The National Academy Of Sciences Of The United States Of America 2011, 109: 805-810. PMID: 22203971, PMCID: PMC3271881, DOI: 10.1073/pnas.1113706109.
- Guidelines for visualizing and annotating rule-based modelsChylek LA, Hu B, Blinov ML, Emonet T, Faeder JR, Goldstein B, Gutenkunst RN, Haugh JM, Lipniacki T, Posner RG, Yang J, Hlavacek WS. Guidelines for visualizing and annotating rule-based models. Molecular Omics 2011, 7: 2779-2795. PMID: 21647530, PMCID: PMC3168731, DOI: 10.1039/c1mb05077j.
- Thermal Robustness: Lessons from Bacterial ChemotaxisDufour YS, Sneddon MW, Emonet T. Thermal Robustness: Lessons from Bacterial Chemotaxis. Current Biology 2011, 21: r465-r468. PMID: 21683899, DOI: 10.1016/j.cub.2011.05.014.
- High‐throughput, subpixel precision analysis of bacterial morphogenesis and intracellular spatio‐temporal dynamicsSliusarenko O, Heinritz J, Emonet T, Jacobs‐Wagner C. High‐throughput, subpixel precision analysis of bacterial morphogenesis and intracellular spatio‐temporal dynamics. Molecular Microbiology 2011, 80: 612-627. PMID: 21414037, PMCID: PMC3090749, DOI: 10.1111/j.1365-2958.2011.07579.x.
- Temporal coding of odor mixtures in an olfactory receptor neuronSu CY, Martelli C, Emonet T, Carlson JR. Temporal coding of odor mixtures in an olfactory receptor neuron. Proceedings Of The National Academy Of Sciences Of The United States Of America 2011, 108: 5075-5080. PMID: 21383179, PMCID: PMC3064350, DOI: 10.1073/pnas.1100369108.
- Efficient modeling, simulation and coarse-graining of biological complexity with NFsimSneddon MW, Faeder JR, Emonet T. Efficient modeling, simulation and coarse-graining of biological complexity with NFsim. Nature Methods 2010, 8: 177-183. PMID: 21186362, DOI: 10.1038/nmeth.1546.
- Interdependence of behavioural variability and response to small stimuli in bacteriaPark H, Pontius W, Guet CC, Marko JF, Emonet T, Cluzel P. Interdependence of behavioural variability and response to small stimuli in bacteria. Nature 2010, 468: 819-823. PMID: 21076396, PMCID: PMC3230254, DOI: 10.1038/nature09551.
- Fine-Tuning of Chemotactic Response in E. coli Determined by High-Throughput Capillary AssayPark H, Guet CC, Emonet T, Cluzel P. Fine-Tuning of Chemotactic Response in E. coli Determined by High-Throughput Capillary Assay. Current Microbiology 2010, 62: 764-769. PMID: 20972792, PMCID: PMC3230253, DOI: 10.1007/s00284-010-9778-z.
- Spatial organization of the flow of genetic information in bacteriaMontero Llopis P, Jackson AF, Sliusarenko O, Surovtsev I, Heinritz J, Emonet T, Jacobs-Wagner C. Spatial organization of the flow of genetic information in bacteria. Nature 2010, 466: 77-81. PMID: 20562858, PMCID: PMC2896451, DOI: 10.1038/nature09152.
- Processivity of peptidoglycan synthesis provides a built-in mechanism for the robustness of straight-rod cell morphologySliusarenko O, Cabeen MT, Wolgemuth CW, Jacobs-Wagner C, Emonet T. Processivity of peptidoglycan synthesis provides a built-in mechanism for the robustness of straight-rod cell morphology. Proceedings Of The National Academy Of Sciences Of The United States Of America 2010, 107: 10086-10091. PMID: 20479277, PMCID: PMC2890421, DOI: 10.1073/pnas.1000737107.
- Single‐cell quantification of IL‐2 response by effector and regulatory T cells reveals critical plasticity in immune responseFeinerman O, Jentsch G, Tkach KE, Coward JW, Hathorn MM, Sneddon MW, Emonet T, Smith KA, Altan-Bonnet G. Single‐cell quantification of IL‐2 response by effector and regulatory T cells reveals critical plasticity in immune response. Molecular Systems Biology 2010, 6: 437-437. PMID: 21119631, PMCID: PMC3010113, DOI: 10.1038/msb.2010.90.
- Understanding Modularity in Molecular Networks Requires DynamicsAlexander RP, Kim PM, Emonet T, Gerstein MB. Understanding Modularity in Molecular Networks Requires Dynamics. Science Signaling 2009, 2: pe44. PMID: 19638611, PMCID: PMC4243459, DOI: 10.1126/scisignal.281pe44.
- RodZ, a component of the bacterial core morphogenic apparatusAlyahya SA, Alexander R, Costa T, Henriques AO, Emonet T, Jacobs-Wagner C. RodZ, a component of the bacterial core morphogenic apparatus. Proceedings Of The National Academy Of Sciences Of The United States Of America 2009, 106: 1239-1244. PMID: 19164570, PMCID: PMC2633561, DOI: 10.1073/pnas.0810794106.
- Minimally invasive determination of mRNA concentration in single living bacteriaGuet CC, Bruneaux L, Min TL, Siegal-Gaskins D, Figueroa I, Emonet T, Cluzel P. Minimally invasive determination of mRNA concentration in single living bacteria. Nucleic Acids Research 2008, 36: e73-e73. PMID: 18515347, PMCID: PMC2475643, DOI: 10.1093/nar/gkn329.
- Hidden Stochastic Nature of a Single Bacterial MotorKorobkova EA, Emonet T, Park H, Cluzel P. Hidden Stochastic Nature of a Single Bacterial Motor. Physical Review Letters 2006, 96: 058105. PMID: 16486999, DOI: 10.1103/physrevlett.96.058105.
- Dynamical Determinants of Drug-Inducible Gene Expression in a Single BacteriumLe TT, Emonet T, Harlepp S, Guet C, Cluzel P. Dynamical Determinants of Drug-Inducible Gene Expression in a Single Bacterium. Biophysical Journal 2006, 90: 3315-3321. PMID: 16461398, PMCID: PMC1432126, DOI: 10.1529/biophysj.105.073353.
- Real-time RNA profiling within a single bacteriumLe TT, Harlepp S, Guet C, Dittmar K, Emonet T, Pan T, Cluzel P. Real-time RNA profiling within a single bacterium. Proceedings Of The National Academy Of Sciences Of The United States Of America 2005, 102: 9160-9164. PMID: 15967986, PMCID: PMC1166617, DOI: 10.1073/pnas.0503311102.
- AgentCell: a digital single-cell assay for bacterial chemotaxisEmonet T, Macal CM, North MJ, Wickersham CE, Cluzel P. AgentCell: a digital single-cell assay for bacterial chemotaxis. Bioinformatics 2005, 21: 2714-2721. PMID: 15774553, DOI: 10.1093/bioinformatics/bti391.
- Simulations of magneto-convection in the solar photosphere*Vögler A, Shelyag S, Schüssler M, Cattaneo F, Emonet T, Linde T. Simulations of magneto-convection in the solar photosphere*. Astronomy & Astrophysics 2004, 429: 335-351. DOI: 10.1051/0004-6361:20041507.
- From molecular noise to behavioural variability in a single bacteriumKorobkova E, Emonet T, Vilar JM, Shimizu TS, Cluzel P. From molecular noise to behavioural variability in a single bacterium. Nature 2004, 428: 574-578. PMID: 15058306, DOI: 10.1038/nature02404.
- On the Interaction between Convection and Magnetic FieldsCattaneo F, Emonet T, Weiss N. On the Interaction between Convection and Magnetic Fields. The Astrophysical Journal 2003, 588: 1183-1198. DOI: 10.1086/374313.
- Polarization of Photospheric Lines from Turbulent Dynamo SimulationsAlmeida J, Emonet T, Cattaneo F. Polarization of Photospheric Lines from Turbulent Dynamo Simulations. The Astrophysical Journal 2003, 585: 536-552. DOI: 10.1086/346077.
- Simulation of Solar MagnetoconvectionVögler A, Shelyag S, Schüssler M, Cattaneo F, Emonet T, Linde T. Simulation of Solar Magnetoconvection. Symposium - International Astronomical Union 2003, 210: 157-167. DOI: 10.1017/s0074180900133339.
- Small-Scale Photospheric Fields: Observational Evidence and Numerical SimulationsEmonet T, Cattaneo F. Small-Scale Photospheric Fields: Observational Evidence and Numerical Simulations. The Astrophysical Journal 2001, 560: l197-l200. DOI: 10.1086/324315.
- The Zigzag Path of Buoyant Magnetic Tubes and the Generation of Vorticity along Their PeripheryEmonet T, Moreno-Insertis F, Rast M. The Zigzag Path of Buoyant Magnetic Tubes and the Generation of Vorticity along Their Periphery. The Astrophysical Journal 2001, 549: 1212-1220. DOI: 10.1086/319469.
- MagnetoconvectionEmonet T, Cattaneo F, Weiss N. Magnetoconvection. 2001, 173-180. DOI: 10.1007/978-94-010-0788-7_20.
- The Physics of Twisted Magnetic Tubes Rising in a Stratified Medium: Two-dimensional ResultsEmonet T, Moreno-Insertis F. The Physics of Twisted Magnetic Tubes Rising in a Stratified Medium: Two-dimensional Results. The Astrophysical Journal 1998, 492: 804-821. DOI: 10.1086/305074.
- The Rise of Twisted Magnetic Tubes in a Stratified MediumMoreno-Insertis F, Emonet T. The Rise of Twisted Magnetic Tubes in a Stratified Medium. The Astrophysical Journal 1996, 472: l53-l56. DOI: 10.1086/310360.
- Equilibrium of Twisted Horizontal Magnetic Flux TubesEmonet T, Moreno-Insertis F. Equilibrium of Twisted Horizontal Magnetic Flux Tubes. The Astrophysical Journal 1996, 458: 783. DOI: 10.1086/176858.