Laboratory of Ocean Ecosystem Dynamics


Tokyo University of Marine Science and Technology


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Hidekatsu Yamazaki

Hidekatsu Yamazaki

Professor, Graduate School of Tokyo University of Marine Science and Technology

Ph.D., Texas A&M University

Research goal:

To understand the physical conditions surrounding life early in the earth’s history, I am investigating the physical environments around planktonic organisms.

Research interests:

My research interests focus on examining the physical environment of phytoplankton and zooplankton from two different angles: 1) The effect of the physical environment at the individual planktonic scale (turbulence, diffusion, etc.) on the ecology and distribution of plankton. 2) The relationship between the physical environment and turbulence and other phenomena (internal waves, ocean currents, etc.). In addition, I am investigating the relationship between the distribution of larger organisms, such as fish, and the physical environment.

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Personal History

Sept. 2004, Ocean University of China, Guest Professor (Present)

Jul. 2004, Tokyo University of Marine Science and Technology Department of Ocean Sciences, Professor (Present)

Oct. 2003, Tokyo University of Marine Science and Technology, Assistant Professor (due to university merger), (to Sept. 2004)

Jul. 1997, Woods Hole Oceanographic Institution, Guest Researcher (Present)

Jul. 1996, University of Victoria Department of Ocean Earth and Atmospheric Sciences, Guest Professor (Present)

Apr. 1996, Tokyo University of Fisheries Department of Ocean Sciences, Assistant Professor (due to department name change), (to Oct. 2003)

Oct. 1993, Tokyo University of Fisheries Department of Marine Production, Assistant Professor (to May 1996)

Sept. 1991, University of Victoria Bob Wright Centre (Ocean Earth and Atmospheric Sciences), Assistant Professor (to Sept. 1993)

Jul. 1991, University of Wisconsin Madison Great Lakes Bioenergy Research Center, Guest Researcher, Assistant Professor (to Sept. 1993)

Nov. 1990, Dalhousie University Department of Oceanography, Guest Researcher (to Dec.1990)

Oct. 1987, Stanford University Center for Turbulence Research, Guest Researcher (to Nov. 1987)

Oct. 1986, Johns Hopkins University Chesapeake Bay Institute, Ph.D. Researcher (to June 1991)

May 1984, Naval Postgraduate School (U.S.), Adjunct Research Professor (to Sept. 1986)

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Publications (with peer review)

Auger, G., H. Yamazaki, T. Nagai, C. Jiao and M. Kumagai, 2013: Hypolimnetic turbulence generation associated with superposition of large-scale internal waves in a strongly stratified lake: Lake Biwa, Japan, Limnology, 229–238, doi:10.1007/s10201-013-0401-4.

Berdalet, E, M.A. McManus, O.N. Ross, H. Burchard, F. Chavez, J.S. Jaffe, I. Jenkinson, R. Kudela, I. Lips, A. Lucas, D. Rivas, M.C. Ruiz de la Torre, J. Ryan, J.M. Sullivan and H. Yamazaki, 2013: Understanding harmful algae in stratified systems: review of progress and identification of gaps in knowledge, Deep-Sea Res. Pt. II, accepted.

Doubell, M. J.C. Prairie and H. Yamazaki, 2013: Millimeter scale profiles of chlorophyll fluorescence: Deciphering the microscale spatial structure of phytoplankton, Deep-Sea Res. Pt. II,, in press.

Yamazaki, H., C. Locke, L. Umlauf, H. Burchard, T. Ishimaru and D. Kamykowski, 2013: A Lagrangian model for phototaxis-induced thin layer formation, Deep-Sea Res. Pt. II,, in press.

Nagai, T., A. Tandon, H. Yamazaki, M.J. Doubell and S. Gallager, 2012: Direct observations of microscale turbulence and thermohaline structure in the Kuroshio Front. J. Geophys. Res., 117, C08013, doi:10.1029/2011JC007228.

Prairie, J.C., P.J.S. Franks, J.S. Jaffe, M.J. Doubell and H. Yamazaki, 2011: Physical and biological controls of vertical gradients in phytoplankton, Limnology and Oceanography: Fluids and Environments, 1, 75–90, doi:10.1215/21573698-1267403.

Arima, M., H. Nakamura and H. Yamazaki, 2010: Development of the glider-type turbulence ocean microstructures acquisition profiler, TurboMAP-G, Proc. of the Twentieth International Offshore and Polar Engineering Conference (ISOPE-2010), June 20-25, 2010, CD-ROM.

Yamazaki, H., H. Honma, T. Nagai, M.J. Doubell, K. Amakasu and M. Kumagai, 2010: Multilayer biological structure and mixing in the upper water column of Lake Biwa during summer 2008, Limnol. 11(l), doi:10,1007/S10201-009-0288-2,63-70.

Doubell, M.J., H. Yamazaki, H. Li and Y. Kokubu, 2009: An advanced laser-based fluorescence microstructure profiler (TurboMAP-L) for measuring bio-physical coupling in aquatic systems, J. Plank. Res, 31(12), 1441-1452.

Nagai, T., A. Tandon, H. Yamazaki and M. Doubell, 2009: Evidence of enhanced turbulent dissipation in the frontgenetic Kuroshio Front thermocline, Geophysical Res. Lett., 36(12), L12609, doi:10,1029/2009GL08832.

Takano, A., H. Yamazaki, T. Nagai and O. Honda, 2009: A method to estimate three-dimensional thermal structure from satellite altimetry data, J. Atmos. Oceanic Technol,. 26(12), 2655-2664.

Yamazaki, H., I. Iwamatsu, D. Hasegawa and T. Nagai, 2009: Chlorophyll patches observed during summer in the main stream of the Kuroshio, Atmosphere-Ocean 47(4), 299-307.

Hasegawa, D., H. Yamazaki, T. Ishimaru, H. Nagashima and Y. Koike, 2008: Apparent phytoplankton bloom due to island mass effect, J. Mar. Sys., 69, 238-246.

Mitchell, J.G., H. Yamazaki, L. Seuront, F. Wolk and H. Li, 2008: Phytoplankton patch patterns: seascape anatomy in a turbulent ocean, J. Mar. Sys., 69, 247-253.

Sato, M. and H. Yamazaki, 2008: Estimating micro-scale intermittency of fluorescence fields from conventional CTD measurements, J. Mar. Sys., 70, 240-247.

Yamazaki, H., D. Kamykowski and A. Tandon, 2008: Physical-biological interactions in the upper ocean, J. Mar. Sys., 69, 163.

Inoue, R., H. Yamazaki, F. Wolk, T. Kono and J. Yoshida, 2007: An estimation of buoyancy flux for a mixture of turbulence and double diffusion, J. Phys Oceanogr, 37, 611-624.

Hwang, J.H., H. Yamazaki and C.R. Rehmann, 2006: Buoyancy generated turbulence in stably stratified flow with shear, Physics Fluid., 18, 045104, doi:10.1063/1.2193472.

Wolk, F., H. Yamazaki, H. Li and R.G. Lueck, 2006: Calibrating the spatial response of bio-optical sensors, J. Atmos. Oceanic Tech., 23(3), 511-516.

Yamazaki, H., J.G. Mitchell, L. Seuront, F. Wolk and H. Li, 2006: Phytoplankton microstructure in fully developed oceanic turbulence, Geophysical Res. Lett., 33(1), L01603, doi:10.1029/2005GL024103.

Nagai, T., H. Yamazaki, H. Nagashima and L.H. Kantha, 2005: Field and numerical study of entrainment laws for surface mixed layer, Deep Sea Res. Pt.Ⅱ. 52, 1109-1132.

Wolk, F., H. Yamazaki and L. Seuront, 2005: Optical sensors, in: Marine Turbulence – Theories, Observations and Models, H. Z. Baumert, J. Simpson and J. Sündermann (Eds.), Cambridge University Press, 110-114.

Yamazaki, H. and T. Nagai, 2005: How to do random walk right in eddy-viscosity models, in: Marine Turbulence – Theories, Observations, and Models, H. Baumert, J. Simpson and J. Sündermann (Eds.), Cambridge University Press, 207-212.

Gallager, S.M., H. Yamazaki and C.S. Davis, 2004: The contribution of fine-scale vertical structure and swimming behavior to formation of plankton layer on Georges Bank. Mar. Ecol. Prog. Ser., 267, 27-43.

Hasegawa, D., H. Yamazaki, R.G. Lueck and L. Seuront, 2004: How islands stir and fertilize the upper ocean, Geophys. Res Lett., 31(16), L16303.

Seuront, L., H. Yamazaki and S. Souissi, 2004: Hydrodynamic disturbance and zooplankton swimming behavior, Zoological Studies, 43(2), 376-387.

Wolk, F., L. Seuront, H. Yamazaki and S. Leterme, 2004: Comparison of biological scale resolution from CTD and microstructure measurements, in: Handbook of scaling methods in aquatic ecology: Measurement, analysis and simulation. Laurent Seuront and Peter G. Strutton (Eds.), CRC press, 3-15.

Yamazaki, H. and K. D. Squires, 2004: An application of the lognormal theory to moderate Reynolds number turbulent structures, in: Handbook of scaling methods in aquatic ecology: Measurement, analysis and simulation. Laurent Seuront and Peter G. Strutton (Eds.), CRC press, 469-478.

Yamazaki. H., K.D. Squires and J.R. Strickler, 2004: Can turbulence reduce the energy costs of hovering for planktonic organisms?, in: Handbook of scaling methods in aquatic ecology: Measurement, analysis and simulation. Laurent Seuront and Peter G. Strutton (Eds.), CRC press, 493-506.

Iwamatsu, I., H. Yamazaki, T. Ishimaru, K. Kihara, Y. Koike, A. Kitazawa and T. Hayashi, 2003: An observation of low salinity water mass at the Kuroshio front, Umi-no-Kenkyu, 12, 477-486 (in Japanese).

Nagai, T., H. Yamazaki and D. Kamykowski, 2003: A Lagrangian photoresponse model coupled with 2nd- order turbulence closure, Mar. Eco. Prog. Ser.,265, 17-30.

Nagashima, H., H. Yamazaki and J. Yoshida, 2002: Measurements of microstructure and some implications for ocean modeling. Fisheries Science, 68, Supplement II, 1785-1788.

Wolk, F., H. Yamazaki, L. Seuront and R.G. Lueck, 2002: A new free-fall profiler for measuring bio-physical microstructure. J. Atmos. Oceanic Tech., 19, 780-793.

Li, H. and H. Yamazaki, 2001: Observations of a Kelvin-Helmholtz billow in the ocean, J. Oceanogr., 57(6), 709-721.

Wolk, F., L. Seuront and H. Yamazaki, 2001: Spatial resolution of a new micro-optical probe for chlorophyll and turbidity, J. Tokyo University of Fisheries, 87, 13-21.

Yamazaki, A.K., D. Kamykowski and H. Yamazaki, 1998: A new approach to plankton's behavior modelling, J. Japan Soc. Simulation Technology, 17, 69-75.

Yamazaki, H. and D. Ramsden, 1998: Stratified turbulence: field, laboratory and DNS data, in: Physcial Processes in Lakes and Oceans, J. Imberger (Ed.), AGU monogram, 401-416.

Kamykowski, D. and H. Yamazaki, 1997: A study of metabolism-influenced orientation in marine dinoflagellate diel vertical migration, Limnol. Oceanogr., 42, 1182-1202.

Kamykowski, H. Yamazaki, A.K. Yamazaki and G.J. Kirkpatrick, 1997: A comparison of how different orientation behaviors influence dinoflagellate trajectories and photoresponses in turbulent water columns, in: The physiological ecology of harmful algal blooms, D.M. Anderson, A.D. Combella and G.M. Hallegraff (Eds.), Springer-Verlag, 581-599.

Strickler, J.R., K.D. Squires, H. Yamazaki and A.H. Abib, 1997: Combining analog turbulence with digital turbulence. Sci. Mar., 61 (Suppl.1), 197-204.

Yamazaki, H., 1996a: An observation of gravitational collapse caused by turbulent mixing. J. Phys. Oceanogr.. 26, 826-831.

Yamazaki, H., 1996b: Turbulence problems for planktonic organisms. Mar. Ecol. Prog. Ser., 139, 304-305.

Yamazaki, H. and K.D. Squires, 1996: A comparison of oceanic turbulence and copepod swimming. Mar. Ecol. Prog. Ser., 144, 299-301.

Denman, K. and H. Yamazaki, 1995: Upper ocean processes and the global carbon cycle. Umi no Kenkyu, 4,1-8 (in Japanese).

Haury, L.R. and H. Yamazaki, 1995: The dichotomy of scales in the perception and aggregation behavior of zooplankton. J. Plankton Res., 17(1), 191-197.

Squires, K. and H. Yamazaki, 1995: Preferential concentration of marine particles in isotropic turbulence. Deep-Sea Res., 42(11-12), 1989-2004.

Yamazaki, H. and A. Okubo, 1995: A simulation of grouping: an aggregating random walk, Ecological Modelling, 79(1-3), 159-165.

Kamykowski, D., H. Yamazaki and G.S. Janowitz, 1994: A Lagrangian model of phytoplankton photosynthetic response in the upper mixed layer. J. Plankton Res., 16(8), 1059-1069.

Keiyu, A.Y., H. Yamazaki and J.R. Strickler, 1994: A new modelling approach for zooplankton behaviour, Deep-Sea Res. Pt. II, 41(1), 171-184.

Yamazaki, H. and D. Kamykowski, 1994: Reply to Greg Holloway, Deep-Sea Res., 41(5-6), 961-963.

Gerz, T. and H. Yamazaki, 1993a: Direct numerical simulation of buoyancy-driven turbulence in stably stratified fluid, J. Fluid. Mech., 249, 415-440.

Gerz, T. and H. Yamazaki, 1993b: Buoyancy driven turbulence in a shear flow, in: Ninth symposium on turbulent shear flow. 16-18 August, 1993, Kyoto, Japan, 12-3-1 - 12-3-6.

Yamazaki, H., 1993a: Lagrangian study of planktonic organisms: perspective, Bulletin of Marine Science, 53(1), 265-278.

Yamazaki, H., 1993b: "Particle" transportation due to turbulence, Bulletin on Coastal Oceanography, 31, 81-91, (in Japanese).

Yamazaki, H. and L.R. Haury, 1993: A new Lagrangian model to study animal aggregation, Ecological Modeling., 69(1-2), 99-111.

Yamazaki, H. and T.R. Osborn, 1993a: Direct estimation of heat flux in a seasonal thermocline, J. Phys. Oceanogr., 23, 503-516.

Yamazaki, H. and T.R. Osborn, 1993b: Correction to "Dissipation estimates for stratified turbulence" by H. Yamazaki and T. Osborn, J. Geophys. Res., 98(C7), 12605.

Yamazaki, H., G. Sugihara, G.J. Kirkpatrick and D. Kamykowski, 1993: Is the photosynthetic process nonlinear?, J. Plankton Res., 15(11), 1297-1308.

Haury, L.R., H. Yamazaki and C.L. Fey, 1992: Simultaneous measurements of small-scale physical dynamics and zooplankton distribution, J. Plankton Res., 14(4), 513-530.

Yamazaki, H. and D. Kamykowski, 1991: The vertical trajectories of motile phytoplankton in a wind-mixed water column, Deep-Sea Res., 38(2), 219-241.

Yamazaki, H., T.R. Osborn and K.D. Squires, 1991: Direct numerical simulation of planktonic contact in turbulent flow, J. Plankton Res., 13(3), 629-643.

Gerz, T. and H. Yamazaki, 1990: Mixing during the final stage of decay of turbulence in stratified flow, in: Ninth Symposium on Turbulence and Diffusion, April 30-May 3, 1990, Roskilde, Denmark, 393-396.

Haury, L.R., H. Yamazaki and E.C. Itsweire, 1990: Effects of turbulent shear flow on zooplankton distribution, Deep-Sea Res., 37(3), 447-461.

Osborn, T., H. Yamazaki and K. Squires, 1990: Direct simulation of the effects of turbulence on planktonic contact rates, in: Large Marine Ecosystems, K. Sherman, L.M. Alexander and B.D. Gold (Eds.), A.A.A.S., Chapter 8, 99-103.

Yamazaki, H., 1990a: Breakage models: lognormality and intermittency, J. Fluid. Mech., 219, 181-193.

Yamazaki, H., 1990b: Stratified turbulence near a critical dissipation rate, J. Phys. Oceanogr., 20, 1583-1598.

Yamazaki, H. and R. Lueck, 1990: Why oceanic dissipation rates are not lognormal, J. Phys. Oceanogr., 20, 1907-1918.

Yamazaki, H., R.G. Lueck and T. Osborn, 1990: A comparison of turbulence data from a submarine and a vertical profiler, J. Phys Oceanogr., 20, 1778-1786.

Yamazaki, H. and T. Osborn, 1990: Dissipation estimates for stratified turbulence, J. Geophys. Res., 95(C6), 9739-9744.

Lueck, R. and H. Yamazaki, 1989: An application of turbulence data to the California Undercurrent, in: Poleward flows along eastern ocean boundary, S.J. Neshyba, Ch.N.K. Mooers. R.L. Smith and R.T. Barber (Eds.), Springer-Verlag, 256-262.

Yamazaki, H. and T.R. Osborn, 1988: Mixture distribution on geophysical turbulence data, Eighth Symposium on Turbulence and Diffusion, American Meteorological Society, April 26-29, 1988, San Diego, CA, 215-216.

Yamazaki, H. and R.G. Lueck, 1987: Turbulence in the California undercurrent, J. Phys. Oceanogr., 17, 1378-1396.

Yamazaki, H. and J.B. Herbich, 1985a: Determination of wave height spectrum by means of joint probability density function, J. Geophys. Res., 90(C2), 3381-3390.

Uekita, Y. and H. Yamazaki, 1980: Inertia forces due to waves on a horizontal circular cylinder, 27th Symposium on Coastal Engineering in Japan, JSCE (in Japanese), 358-362.

Uekita, Y. and H. Yamazaki, 1977: Wave forces on submerged structures, Japanese Society of Civil Engineering Conference (in Japanese).

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Review Articles (with peer review)

deYoung, B., F. Werner, H. Batchelder, F. Carlotti, Ø. Fiksen, E. Hofmann, S, Kim and H. Yamazaki, 2010: Dynamics of marine ecosystems: integration through models of physical-biological interactions, in Marine Ecosystems and Climate Change, M. Barange, J. Field, R. Harris, E. Hofmann, R. Perry, and F. Werner (Eds.), Oxford University Press, 89–128.

Yamazaki, H., H. Burchard, K. Denman and T. Nagai, 2008: One-dimensional mixed layer models, Encyclopedia of Ocean Sciences, Second Edition, J.H. Steel, K.K. Turekian and S.A. Thorpe (Eds.), Elsevier, 4171–4180.

Gentien, P., P. Donoghay, H. Yamazaki, R. Raine, B. Reguera and T. Osborn, 2005: Harmful algal blooms in stratified environments, Oceanography, 18, 172–183.

Seuront, L., H. Yamazaki and F. Schmitt, 2005: Intermittency, in: Marine Turbulence – Theories, Observations and Models, H. Baumert, J. Simpson and J. Sündermann (Eds.), Cambridge University Press, 66–78.

Lueck, R., F. Wolk and H. Yamazaki, 2002: Oceanic velocity microstructure measurements in the 20th century, J. Oceanogr., 58, 153–174.

Yamazaki, H., D. Mackas and K. Denman, 2002: Coupling small scale physical processes with biology, The Sea, Volume 12: Biological-Physical Interactions in the Sea, A.R. Robinson, J.J. McCarthy and B.J. Rothschild (Eds.), 12, Chapter 3, 51–112.

Denman, K. and H. Yamazaki, 1995: Upper ocean processes and the global carbon cycle, Umi-no-Kenkyu, 4,1–8 (in Japanese).

Yamazaki, H., 1993a: "Particle" transportation due to turbulence, Bulletin on Coastal Oceanography, 31, 81–91 (in Japanese).

Yamazaki, H., 1993b: Lagrangian study of planktonic organisms: perspective, Bull. Mar. Sci., 53, 265–278.

Yamazaki, H. and T.R. Osborn, 1988: Review of oceanic turbulence: Implications for biodynamics, in: Toward a Theory on Biological and Physical Interactions in the World Ocean, B.J. Rothschild (Ed.), D. Reidel Publishing Co., 215–233.

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GEOHAB 2008. Global Ecology and Oceanography of Harmful Algal Blooms, GEOHAB Core Research Project: HABs in Stratified Systems. P. Gentien, B. Reguera, H. Yamazaki, L. Fernand, E. Berdalet, R. Raine (Eds.) IOC and SCOR, Paris, France, and Newark, Delaware, USA, 59 pp.

Wolk, F., H. Yamazaki, R. Lueck and L. Seuront, 2001: Evaluation of a new instrument for measuring bio-physical microstructure, Oceanology International Americas, Miami, FL, Spearhead International.

Li, H. and H. Yamazaki, 2000: Direct observation of shear instability in the ocean, in: Fifth international symposium on stratified flows, G.A. Lawrence, R. Pieters and N. Yonemitsu (Eds.), University of British Columbia, Vancouver, 10-13 July 2000, 501-506.

Yamazaki, H., D. Mackas and K. Denman, 1999: Coupling turbulence with planktonic organisms, in: Ecosystem dynamics of the Kuroshio-Oyashio transition region, Proceedings of the International Marine Science Symposium, August 25-28, 1998, Mutsu and Hakodate, Japan, 116–129.

Yamazaki, H., 1997: Turbulence and plankton, Kaiyo-to-Seibutsu, 110, 19, 11-16 (in Japanese).

Yamazaki, H. and D. Kamykowski, 1996: Vertical migration of dinoflagellata - A Lagrangian point of view, Kaiyou, gogai 10, 142–145 (in Japanese).

Yamazaki, H. and A. Yamazaki, 1995: Individual behavior models, Kaiyou, 27, 229–235 (in Japanese).

Keiyu, A.K., J.R. Strickler and H. Yamazaki, 1994: Application of artificial intelligence to zooplankton behavior, Special Report No.46, Center for Great Lakes Studies, University of Wisconsin at Milwaukee.

Yamazaki, H. 1994: Microstructures, Kaiyou, Special No.6, 12–15 (in Japanese).

Squires, K.D. and H. Yamazaki 1993: Towards direct numerical simulation of zooplankton interaction with homogenous turbulence, Special Report No.45, Center for Great Lakes Studies, University of Wisconsin at Milwaukee.

Yamazaki, H. and T.R. Osborn, 1989: Distribution of phytoplankton in the mixed layer: Implication for krill abundance, in: Scientific Committee for The Conservation of Antarctic Marine Living Resources, 1988 Selected Scientific Papers Part 1, Commission for the Conservation of Antarctic Marine Living Resources, Hobart, TAS7000, Australia, 331–356.

Yamazaki, H. and J.B. Herbich, 1985b: Monthly wave characteristics National Oceanographic Data Center, vol. I-III, TAMU-SG-86-205, COE Report No.273, Sea Grant College Program, Texas A&M University.

Yamazaki, H. and J.B. Herbich, 1985c: Nonparametric and parametric estimation of wave statistics and wave spectra, TAMU-SG-86-202, COE Report No.279, Sea Grant College Program, Texas A&M University.

Maidment, D.R., E. Parzen, H. Yamazaki, and T. Woodfield, 1981: A cascade model of monthly municipal water use applied to six Texas cities, TEES Project 1083, Texas Engineering Experiment Station, Texas A&M University.

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