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Širovic, A., Hildebrand, J.A., McDonald, M.A, Ocean ambient sound south of Bermuda and Panama Canal traffic, , J. Acous. Soc. Am., 139:2417-2423.

Hildebrand, J.A., Baumann-Pickering, S., Frasier, K.E., Trickey, J.S., Merkens, K.P.B., Wiggins, S.M., McDonald, M.A., Garrison, L.P., Harris, D., Marques, T.A. and Thomas, L., Passive Acoustic monitoring of beaked whale densities in the Gulf of Mexico. Scientific Reports, November, 2015 (Online pdf)

McDonald, M. A., Hildebrand, J. A. and Wiggins, S. M., Dey, D. K., Jung, J., Nelson, D.C., Hodges, R. P., and Bailey, M. P., Disruption of Cuvier's beaked whales by mid-frequency sonar, unpublished.

Wiggins, S. M., McDonald, M. A. and Hildebrand, J. A., Beaked whale and dolphin tracking using a multichannel autonomous acoustic recorder, J. Acous. Soc. Am., 131:156-163, 2012.

McDonald, M. A., Hildebrand, J. A. and Mesnick, S. L., Worldwide decline in tonal frequencies of blue whale songs, Endangered Species Research, 9:13-21, 2009. (Online pdf)

McDonald, M. A., Hildebrand, J. A., Wiggins, S. M., Johnston, D. W. and Polovina, J. J., An acoustic survey of beaked whales at Cross Seamount near Hawaii, J. Acous. Soc. Am., 125:624-627, 2009. (Online pdf)

McDonald, M. A., Wiggins, S. M., Hildebrand, J. A. and Ross D., A 50 year comparison of ambient ocean noise near San Clemente Island: A bathymetrically complex coastal region off Southern California, J. Acous. Soc. Am., 124:1985-1992, 2008. (Online pdf)

Johnston, D. W., McDonald, M., Polovina, J., Domokos, R., Wiggins, S. and Hildebrand, J., Temporal patterns in the acoustic signals of beaked whales at Cross Seamount, Biology Letters, 2008, 4:208-211. (Online pdf)

Oleson, E. M., Calambokidis, J., Burgess, W. C., McDonald, M. A. and Hildebrand, J. A., Behavioral context of call production by Eastern North Pacific blue whales, Mar. Ecol. Prog. Ser., 330:269-284, 2007.(Online pdf)

McDonald, M. A., An acoustic survey of baleen whales off Great Barrier Island, New Zealand, New Zealand Journal of Marine and Freshwater Science, 40:519-529, 2006. (Online pdf)

Goldbogen, J. A., Calambokidis, J., Shadwick, R. E., Oleson, E. M., McDonald, M.A. and Hildebrand, J.A., Kinematics of foraging dives and lunge-feeding in fin whales, Jour. Exp. Biol., 209:1231-1244, 2006. (Online pdf)

McDonald, M. A., Hildebrand, J. A. and Wiggins, S. M., Increases in deep ocean ambient noise in the Northeast Pacific west of San Nicolas Island, California, J. Acous. Soc. Am., 120:711-718, 2006. (Online pdf)

McDonald, M. A., Mesnick, S. L. and Hildebrand, J. A., Biogeographic characterisation of blue whale song worldwide: using song to identify populations, Journal of Cetacean Research and Management, 8:55-65, 2006. (Online pdf, 7 Mb file)

McDonald, M. A., Thiele, D., Hildebrand, J. A., Wiggins, S. M., Moore, S. E. and Glasgow, D., Acoustic recordings of sei whales in the Antarctic, J. Acous. Soc. Am., 118:3941-3945, 2005. (Online)

Wiggins, S. M., Oleson, E. M., McDonald, M. A. and Hildebrand, J. A., Blue whale (Balaenoptera musculus) diel call patterns offshore of Southern California, Aquatic Mammals, 31:161-168, 2005. (Online pdf)

Wiggins, S. M., McDonald, M. A., Munger, L., Hildebrand, J. A. and Moore, S. E., Waveguide propagation allows range estimates for North Pacific right whales in the Bering Sea, Canadian Acoustics, 32:146-154, 2004. (Online. pdf)

McDonald, M. A., DIFAR hydrophones applied to whale research, Canadian Acoustics, 32:155-160, 2004. (Online pdf, 3 Mb file)

Širovic, A., Hildebrand, J.A., Wiggins, S. M., McDonald, M.A., Moore, S.M., and Thiele, D., Seasonality of blue and fin whale calls and the influence of sea ice in the Western Antarctic Peninsula, Deep Sea Research II. 51:2327–2344, 2004. (Online pdf)

Burtenshaw, J.C., Oleson, E.M., Hildebrand, J.A., McDonald, M.A., Andrew, R.K., Howe, B.M., Mercer, J.A., Acoustic and satellite remote sensing of blue whale seasonality and habitat in the Northeast Pacific. Deep Sea Research II. 51:967-986, 2004. (Online pdf)

Swartz, S.L., Cole, T., McDonald, M.A., Hildebrand, J.A., Oleson, E.M., Martinez, A., Clapham, P.J., Barlow, J. and Jones, M.L., Acoustic and visual survey of humpback whale (Megaptera novaeangliae) distribution in the Eastern and Southeastern Caribbean Sea. Caribbean Journal of Science, 39:195-208, 2003. (Online pdf)

McDonald, M. A., Sue E. Moore, Calls recorded from North Pacific right whales (Eubalaena japonica) in the Eastern Bering Sea, Journal of Cetacean Research and Management, 4:261-266, 2002.

McDonald, M. A., Calambokidis, J., Teranishi, A.M., and Hildebrand, J.A., The acoustic calls of blue whales off California with gender data, J. Acous. Soc. Am., 109:1728-1735, 2001. (Online pdf)

McDonald, M. A., Webb, S.C., Hildebrand, J.A., Clark, D., Reidenberg, J.S., Laitman, J.T., On the physics of sound production in the blue whale, In: Hearing by Whales and Dolphins, Springer, ed. Whitlow W. L. Au, Arthur N. Popper and Richard R. Fay, pp. 441-469, 2000. (Online pdf, 8.4 Mb file)

Norris, T. F., McDonald, M., Barlow, J., Acoustic detections of singing humpback whales (Megaptera novaengliae) in the Eastern North Pacific during their northbound migration, J. Acous. Soc. Am., 106:506-514, 1999. (Online. abstract)

Elisseeff, P, Schmidt, H., Johnson, M., Herold, D., Chapman, N. R., McDonald, M., Acoustic tomography of a coastal front in Haro Strait, British Columbia, J. Acous. Soc. Am., 106:169-184, 1999. (Online. abstract)

McDonald, M. A., Fox, C.G., Passive acoustic methods for fin whale population density estimation, J. Acous. Soc. Am., 105:2643-2651, 1999. (Online. abstract)

Heard, G. J., McDonald, M., Chapman, N. R., Jaschke, L., Underwater light bulb implosions: A useful acoustic source, IEEE Oceans 97 Conference Proceedings, pp. 755-762, 1997. (Online. pdf)

Chapman, N. R., Jaschke, L., McDonald, M. A., Schmidt, H., Johnson, M., Matched field geoacoustic tomography experiments using light bulb sound sources in the Haro Strait sea trial, IEEE Oceans 97 Conference Proceedings, pp. 763-768, 1997.

Hildebrand, J.A., McDonald, M.A., Webb, S.C., Microearthquakes at intermediate spreading-rate ridges: The cleft segment megaplume site on the Juan de Fuca Ridge, Bull. Seis. Soc. Am., 87:684-691, 1997.

McDonald, M.A., Webb, S.C., Hildebrand, J.A., Blue and fin whales observed on a seafloor array in the Northeast Pacific, J. Acous. Soc. Am., 98:712-721, 1995. (Online. abstract)

McDonald, M.A., Webb, S.C., Hildebrand, J.A., Cornuelle, B.D., Fox, C.G., Seismic structure and anisotropy of the Juan de Fuca Ridge at 45° N, J. Geophys. Res., 99:4857-4875, 1994.

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