Roman Stocker

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. pmc Ecology and physics of bacterial chemotaxis in the ocean
    Roman Stocker
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    Microbiol Mol Biol Rev 76:792-812. 2012
  2. doi request reprint Marine microbes see a sea of gradients
    Roman Stocker
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, 49 213, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Science 338:628-33. 2012
  3. pmc Rapid chemotactic response enables marine bacteria to exploit ephemeral microscale nutrient patches
    Roman Stocker
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Proc Natl Acad Sci U S A 105:4209-14. 2008
  4. doi request reprint Chemoattraction to dimethylsulfoniopropionate throughout the marine microbial food web
    Justin R Seymour
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Science 329:342-5. 2010
  5. pmc A bacterial pathogen uses dimethylsulfoniopropionate as a cue to target heat-stressed corals
    Melissa Garren
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
    ISME J 8:999-1007. 2014
  6. pmc Competition-dispersal tradeoff ecologically differentiates recently speciated marine bacterioplankton populations
    Yutaka Yawata
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139
    Proc Natl Acad Sci U S A 111:5622-7. 2014
  7. pmc Bacterial chemotaxis in linear and nonlinear steady microfluidic gradients
    Tanvir Ahmed
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA
    Nano Lett 10:3379-85. 2010
  8. doi request reprint Turbulence drives microscale patches of motile phytoplankton
    William M Durham
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Nat Commun 4:2148. 2013
  9. pmc Microbial alignment in flow changes ocean light climate
    - Marcos
    Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Proc Natl Acad Sci U S A 108:3860-4. 2011
  10. ncbi request reprint Gyrotaxis in a steady vortical flow
    William M Durham
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Phys Rev Lett 106:238102. 2011

Collaborators

Detail Information

Publications27

  1. pmc Ecology and physics of bacterial chemotaxis in the ocean
    Roman Stocker
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    Microbiol Mol Biol Rev 76:792-812. 2012
    ....
  2. doi request reprint Marine microbes see a sea of gradients
    Roman Stocker
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, 49 213, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Science 338:628-33. 2012
    ....
  3. pmc Rapid chemotactic response enables marine bacteria to exploit ephemeral microscale nutrient patches
    Roman Stocker
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Proc Natl Acad Sci U S A 105:4209-14. 2008
    ..These results suggest that chemotactic swimming strategies of marine bacteria in patchy nutrient seascapes exert strong influence on carbon turnover rates by triggering the formation of microscale hot spots of bacterial productivity...
  4. doi request reprint Chemoattraction to dimethylsulfoniopropionate throughout the marine microbial food web
    Justin R Seymour
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Science 329:342-5. 2010
    ....
  5. pmc A bacterial pathogen uses dimethylsulfoniopropionate as a cue to target heat-stressed corals
    Melissa Garren
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
    ISME J 8:999-1007. 2014
    ....
  6. pmc Competition-dispersal tradeoff ecologically differentiates recently speciated marine bacterioplankton populations
    Yutaka Yawata
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139
    Proc Natl Acad Sci U S A 111:5622-7. 2014
    ....
  7. pmc Bacterial chemotaxis in linear and nonlinear steady microfluidic gradients
    Tanvir Ahmed
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA
    Nano Lett 10:3379-85. 2010
    ....
  8. doi request reprint Turbulence drives microscale patches of motile phytoplankton
    William M Durham
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Nat Commun 4:2148. 2013
    ..This 'unmixing' mechanism likely enhances ecological interactions in the plankton and offers mechanistic insights into how turbulence intensity impacts ecosystem productivity. ..
  9. pmc Microbial alignment in flow changes ocean light climate
    - Marcos
    Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Proc Natl Acad Sci U S A 108:3860-4. 2011
    ..These results imply that fluid flow, currently neglected in models of marine optics, may exert an important control on light propagation, influencing rates of global carbon fixation and how we estimate these rates via remote sensing...
  10. ncbi request reprint Gyrotaxis in a steady vortical flow
    William M Durham
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Phys Rev Lett 106:238102. 2011
    ..Aggregations are found to form within a few overturning time scales, suggesting that vortical flows might be capable of efficiently separating species with different motility characteristics...
  11. doi request reprint Microfluidics for bacterial chemotaxis
    Tanvir Ahmed
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Building 48, Room 335, 77 Massachusetts Ave, Cambridge, MA 02139, USA
    Integr Biol (Camb) 2:604-29. 2010
    ..Time is ripe for a deeper integration between technology and biology in fully bringing to bear microfluidics on studies of this fascinating microbial behavior...
  12. pmc Microfluidic-based Time-kill Kinetic Assay
    Nicole Billings
    Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
    Bio Protoc 4:. 2014
    ..Here, we describe a microfluidic-based kill-kinetics assay for the observation of antimicrobial effects on biofilms under flowing conditions...
  13. doi request reprint How cats lap: water uptake by Felis catus
    Pedro M Reis
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology MIT, Cambridge, MA 02139, USA
    Science 330:1231-4. 2010
    ..Measurements of lapping frequency across the family Felidae support this prediction, which suggests that the lapping mechanism is conserved among felines...
  14. ncbi request reprint Thin phytoplankton layers: characteristics, mechanisms, and consequences
    William M Durham
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Ann Rev Mar Sci 4:177-207. 2012
    ..Only through a mechanistic understanding of the relevant biological and physical processes can we begin to predict the effect of thin layers on the ecology of phytoplankton and higher organisms...
  15. pmc Chemotactic response of marine micro-organisms to micro-scale nutrient layers
    Justin R Seymour
    Environmental Microfluidics Group, Massachusetts Institute of Technology, USA
    J Vis Exp . 2007
    ..We therefore suggest that microfluidics represents a valuable tool for obtaining a better understanding of the ecology of microorganisms in the ocean...
  16. pmc Speed-dependent chemotactic precision in marine bacteria
    Kwangmin Son
    Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139 Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139
    Proc Natl Acad Sci U S A 113:8624-9. 2016
    ..These findings indicate that, contrary to what occurs in E. coli, swimming speed can be a fundamental determinant of the gradient-seeking capabilities of marine bacteria, and suggest a new model of bacterial chemotaxis. ..
  17. pmc Intermittent turbulence in flowing bacterial suspensions
    Eleonora Secchi
    Department of Chemistry CMIC, Politecnico di Milano, Via Ponzio 34 3, 20133 Milano, Italy Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 02139 Cambridge, MA, USA
    J R Soc Interface 13:. 2016
    ..These results link together two entirely different manifestations of turbulence and show the potential of the microfluidic approach to mimic the environment characteristic of certain niches of the human microbiome. ..
  18. pmc Shear-induced orientational dynamics and spatial heterogeneity in suspensions of motile phytoplankton
    Michael T Barry
    Department of Mechanical Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    J R Soc Interface 12:. 2015
    ..These observations demonstrate that ambient fluid flow can strongly affect the motility and spatial distribution of phytoplankton and highlight the rich dynamics emerging from the interaction between motility, morphology and flow. ..
  19. pmc Chemotaxis toward phytoplankton drives organic matter partitioning among marine bacteria
    Steven Smriga
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139 Department of Civil, Environmental and Geomatic Engineering, ETH Zurich, 8092 Zurich, Switzerland
    Proc Natl Acad Sci U S A 113:1576-81. 2016
    ..By informing a DOM utilization model with highly resolved behavioral data, the hybrid approach used here represents a new path toward the elusive goal of predicting the consequences of microscale interactions in the ocean. ..
  20. pmc Vortical ciliary flows actively enhance mass transport in reef corals
    Orr H Shapiro
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139 Department of Plant Sciences, Weizmann Institute of Science, Rehovot 76100, Israel
    Proc Natl Acad Sci U S A 111:13391-6. 2014
    ..These findings extend our understanding of mass transport processes in reef corals and may shed new light on the evolutionary success of corals and coral reefs. ..
  21. pmc Microfluidics expanding the frontiers of microbial ecology
    Roberto Rusconi
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139 email
    Annu Rev Biophys 43:65-91. 2014
    ....
  22. doi request reprint Single-cell genomics reveals hundreds of coexisting subpopulations in wild Prochlorococcus
    Nadav Kashtan
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology MIT, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
    Science 344:416-20. 2014
    ..Such a large set of coexisting subpopulations may be a general feature of free-living bacterial species with huge populations in highly mixed habitats. ..
  23. doi request reprint Microbes in flow
    Roberto Rusconi
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Curr Opin Microbiol 25:1-8. 2015
    ....
  24. doi request reprint Live from under the lens: exploring microbial motility with dynamic imaging and microfluidics
    Kwangmin Son
    Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nat Rev Microbiol 13:761-75. 2015
    ....
  25. pmc The extracellular matrix Component Psl provides fast-acting antibiotic defense in Pseudomonas aeruginosa biofilms
    Nicole Billings
    Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    PLoS Pathog 9:e1003526. 2013
    ..coli and S. aureus in co-culture biofilms. Together, our study shows that Psl represents a critical first bottleneck to the antibiotic attack of a biofilm community early in biofilm development...
  26. pmc Experimental verification of the behavioral foundation of bacterial transport parameters using microfluidics
    Tanvir Ahmed
    Ralph M Parsons Laboratory, Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Biophys J 95:4481-93. 2008
    ..Furthermore, this study shows that microfluidic platforms can go beyond traditional chemotaxis assays and enable the quantification of bacterial transport parameters...
  27. doi request reprint Disruption of vertical motility by shear triggers formation of thin phytoplankton layers
    William M Durham
    Department of Civil and Environmental Engineering, Massachusetts Institute of Technology MIT, Cambridge, MA 02139, USA
    Science 323:1067-70. 2009
    ..These results reveal that the coupling between active microorganism motility and ambient fluid motion can shape the macroscopic features of the marine ecological landscape...