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António M. Baptista

António M. Baptista, Ph.D.

António M. BaptistaAntónio M. Baptista, Ph.D.
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Institution: Oregon Health & Science University
E-mail: baptista@stccmop.org
Phone: 503-346-3418
Fax: 503-346-3427
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Research Interests
I seek to understand how coastal margins function under the complex influence of rivers, ocean, climate and humans – and how to integrate such understanding in broad-range societal decisions on sustainable development. My anchoring expertise is on observation and prediction of the physics of estuaries and plumes, and I collaborate with scientists of diverse backgrounds to integrate physics into thinking on biogeochemistry, fisheries, and ecological processes.

Education Interests
At a graduate level, I am focused on the development of multidisciplinary M.S. and Ph.D. programs on Environmental Information Technology. More broadly, I am helping create multi-tiered education pipelines fostering a science and technology-savvy youth, society and ocean-related workforce.

Current Appointments
Director, Science and Technology Center for Coastal Margin Observation and Prediction Professor, Division of Environmental and Biomolecular Systems, Institute of Environmental Health, Oregon Health & Science University

Education
Ph.D., Civil Engineering, Massachusetts Institute of Technology, 1987 M.S., Civil Engineering, Massachusetts Institute of Technology, 1984 B.S., Civil Engineering, Academia Militar, Lisboa, Portugal

Selected Service
President Elect, Northwest Association of Networked Ocean Observing Systems Member, Scientific and Technical Advisory Committee, Ocean Observatories Initiative (OOI), National Science Foundation Member, Independent Science Board, California Bay-Delta Authority (CALFED)

Selected Publications

Maier D, Megler VM, Baptista A, Jaramillo A, Seaton C, Turner P. 2012. Navigating oceans of data. 7338:1-19. Scientific Statistical Database Management. (DOI: 10.1007/978-3-642-31235-9_1)

Anderson CR, Davis RE, Bandolin NS, Baptista A, Tebo BM. 2011. Analysis of in situ manganese(II) oxidation in the Columbia River and offshore plume: linking Aurantimonas and the associated microbial community to an active biogeochemical cycle. Environmental Microbiology. 13:1561-1576. (DOI: 10.1111/j.1462-2920.2011.02462.x)

Roegner GC, Needoba JA, Baptista A. 2011. Coastal Upwelling Supplies Oxygen-Depleted Water to the Columbia River estuary. PLoS ONE. 6(4):e18672. (DOI: 10.1371/journal.pone.0018672)

Roegner, GC, Seaton C, Baptista A. 2011. Climatic and tidal forcing of hydrography and chlorophyll concentrations in the Columbia River estuary. Estuaries and Coasts. 34(2):281-296. (DOI: 10.1007/s12237-010-9340-z)

Brauer, SL, Adams C, Kranzler K, Murphy D, Xu M, Zuber P, Simon HM, Baptista A, Tebo BM. 2011. Culturable Rhodobacter and Shewanella species are abundant in estuarine turbidity maxima of the Columbia River. Environmental Microbiology . 13(3) (DOI: 10.1111/j.1462-2920.2010.02360.x)

Herfort, L, Peterson TD, McCue L, Crump BC, Prahl FG, Baptista A, Campbell V, Warnick R l, Selby M, Roegner GC et al.. 2011. Myrionecta rubra population genetic diversity and its cryptophyte chloroplast specificity in recurrent red tides in the Columbia River estuary. Aquatic Microbial Ecology. 62 (DOI: 10.3354/ame01460)

Hickey, BM, Kudela RM, Nash JD, Bruland KW, Peterson WT, MacCready P, Lessard EJ, Jay DA, Banas NS, Baptista A et al.. 2010. River influences on shelf ecosystems: Introduction and synthesis. Journal of Geophysical Research. 115(C00B17) (DOI: 10.1029/2009JC005452)

Burla, M, Baptista A, Zhang Y, Frolov S. 2010. Seasonal and interannual variability of the Columbia River plume: A perspective enabled by multiyear simulation databases. Journal of Geophysical Research. 115(C00B16) (DOI: 10.1029/2008JC004964)

Dang, T, Bulusu N, Feng W, Frolov S, Baptista A. 2010. CoTrack: A framework for tracking dynamic features with static and mobile sensors. INFOCOM, 2010 Proceedings IEEE. 1-5. (DOI: 10.1109/INFCOM.2010.5462234)

Burla, M, Baptista A, Casillas E, Williams JG, Marsh DM. 2010. The influence of the Columbia River plume on the survival of steelhead (Oncorhynchus mykiss) and Chinook salmon (Oncorhynchus tshawytscha): A numerical exploration. Canadian Journal of Fisheries & Aquatic Sciences. 67(10):1671-1684. (DOI: 10.1139/F10-083)

Smith, MW, Herfort L, Tyrol K, Suciu D, Campbell V, Crump BC, Peterson TD, Zuber P, Baptista A, Simon HM. 2010. Seasonal changes in bacterial and archaeal gene expression patterns across salinity gradients in the Columbia River coastal margin. PLoS ONE . 5(10):e13312. (DOI: 10.1371/journal.pone.0013312)

Frolov, S, Baptista A, Leen TK, Lu Z, van der Merwe R. 2009. Fast data assimilation using a nonlinear Kalman filter and a model surrogate: An application to the Columbia River estuary. Dynamics of Atmospheres and Oceans. 48(1-3):16-45. (DOI: 10.1016/j.dynatmoce.2008.10.004)

Ghindilis, A L, Smith MW, Schwarzkopf K.R, Zhan C, Evans D R, Baptista A, Simon HM. 2009. Sensor Array: Impedimetric label-free sensing of DNA hybridization in real time for rapid, PCR-based detection of microorganisms. Electroanalysis. 21(13):1459-1468. (DOI: 10.1002/elan.200904549)

Frolov, S, Baptista A, Zhang Y, Seaton C. 2009. Estimation of ecologically significant circulation features of the Columbia River estuary and plume using a reduced-dimension Kalman filter. Continental Shelf Research. 29(2):456-466. (DOI: 10.1016/j.csr.2008.11.004)

Baptista, A.M., Howe, B., Freire, J., Maier, D. and Silva, C., 2008. Scientific exploration in the era of ocean observatories. Computing in Science and Engineering, 10(3): 53-58. (DOI: 10.1109/MCSE.2008.83)

Chawla, A., Jay, D., Baptista, A.M., Wilkin, M. and Seaton, C., 2008. Seasonal variability and estuary-shelf interactions in circulation dynamics of a river- dominated estuary. Estuaries and Coasts, 31(2): 269-288.

Zhang, Y.-L. and Baptista, A.M., 2008. A semi-implicit Eulerian-Lagrangian finite-element model for cross-scale ocean circulation, with hybrid vertical coordinates. Ocean Modeling, 21(3): 71-96. (DOI: 10.1016/j.ocemod.2007.11.005)

Van der Merwe, R., Leen, T.K., Lu, Z., Frolov, S. and Baptista, A.M., 2007. Fast neural network surrogates for very high dimensional physics-based models in computational oceanography. Neural Networks, 20: 462-478. (DOI: 10.1016/j.neunet.2007.04.023)

Research Team

Graduate students: Jesse Lopez, Katie Morrice, Mojgan Rostaminia

Staff: Tuomas Karna, Katie Rathmell, Charles Seaton, Paul Turner, Michael Wilkin