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2016

Bowers, H.A., R. Marin III, J.M. Birch, C.A. Scholin, and G.J. Doucette. 2016. Recovery and identification of Pseudo-nitzschia (Bacillariophyceae) frustules from natural samples acquired using the environmental sample processor. Journal of Phycology, 52: 135–140. http://dx.doi.org/10.1111/jpy.12369

Branham, C.W., D. Murphy, K. Johnson, and H. Jannasch. 2016. Optimization of a robust and reliable ISFET sensor for measuring pH in the deep ocean. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–4. http://dx.doi.org/10.1109/OCEANS.2016.7761357

Breusing, C., A. Biastoch, A. Drews, A. Metaxas, D. Jollivet, R.C. Vrijenhoek, T. Bayer, F. Melzner, L. Sayavedra, J.M. Petersen, N. Dubilier, M.B. Schilhabel, P. Rosenstiel, and T.B. Reusch. 2016. Biophysical and population genetic models predict the presence of “phantom” stepping stones connecting Mid-Atlantic Ridge vent ecosystems. Current Biology, 26: 2257–2267. http://dx.doi.org/10.1016/j.cub.2016.06.062

Brewer, P.G., and E.T. Peltzer. 2016. Ocean chemistry, ocean warming, and emerging hypoxia: Commentary. Journal of Geophysical Research-Oceans, 121: 3659–3667. http://dx.doi.org/10.1002/2016jc011651

Bruno, B., J. Wren, J. Ayau, S. Leon Soon, H. Needham, K. Noa, E. Wood-Charlson, and A. Choy. 2016. Summer Bridge Program establishes nascent pipeline to expand and diversify Hawaii’s Undergraduate Geoscience enrollment. Oceanography, 29: 286–292. http://dx.doi.org/10.5670/oceanog.2016.33

Caron, D.A., H. Alexander, A.E. Allen, J.M. Archibald, E.V. Armbrust, C. Bachy, C.J. Bell, A. Bharti, S.T. Dyhrman, S.M. Guida, K.B. Heidelberg, J.Z. Kaye, J. Metzner, S.R. Smith, and A.Z. Worden. 2016. Probing the evolution, ecology and physiology of marine protists using transcriptomics. Nature Reviews Microbiology, 15: 6–20. http://dx.doi.org/10.1038/nrmicro.2016.160

Chadwick, W.W., J.B. Paduan, D.A. Clague, B.M. Dreyer, S.G. Merle, A.M. Bobbitt, D.W. Caress, B.T. Philip, D.S. Kelley, and S.L. Nooner. 2016. Voluminous eruption from a zoned magma body after an increase in supply rate at Axial Seamount. Geophysical Research Letters, 43: 12063–12070. http://dx.doi.org/10.1002/2016GL071327

Chaytor, J.D., E.L. Geist, C.K. Paull, D.W. Caress, R. Gwiazda, J.U. Fucugauchi, and M.R. Vieyra. 2016. Source characterization and tsunami modeling of submarine landslides along the Yucatán Shelf/Campeche Escarpment, southern Gulf of Mexico. Pure and Applied Geophysics, 173: 4101–4116. http://dx.doi.org/10.1007/s00024-016-1363-3

Clague, D.A., F.A. Frey, M.O. Garcia, S. Huang, M. McWilliams, and M.H. Beeson. 2016. Compositional heterogeneity of the Sugarloaf melilite nephelinite flow, Honolulu Volcanics, Hawai‘i. Geochimica et Cosmochimica Acta, 185: 251–277. http://dx.doi.org/10.1016/j.gca.2016.01.034

Coumans, J.P., J. Stix, D.A. Clague, W.G. Minarik, and G.D. Layne. 2016. Melt-rock interaction near the Moho: Evidence from crystal cargo in lavas from near-ridge seamounts. Geochimica et Cosmochimica Acta, 191: 139–164. http://dx.doi.org/10.1016/j.gca.2016.07.017

Dayton, P.K., K. Hammerstrom, S.C. Jarrell, S. Kim, W. Nordhausen, D.J. Osborne, and S.F. Thrush. 2016. Unusual coastal flood impacts in Salmon Valley, McMurdo Sound, Antarctica. Antarctic Science, 28: 269–275. http://dx.doi.org/10.1017/S0954102016000171

Douglas, P.M.J., D.A. Stolper, D.A. Smith, K.M. Walter Anthony, C.K. Paull, S. Dallimore, M. Wik, P.M. Crill, M. Winterdahl, J.M. Eiler, and A.L. Sessions. 2016. Diverse origins of Arctic and Subarctic methane point source emissions identified with multiply-substituted isotopologues. Geochimica et Cosmochimica Acta, 188: 163–188. http://dx.doi.org/10.1016/j.gca.2016.05.031

Dunlop, K.M., D. van Oevelen, H.A. Ruhl, C.L. Huffard, L.A. Kuhnz, and K.L. Smith Jr. 2016. Carbon cycling in the deep eastern North Pacific benthic food web: Investigating the effect of organic carbon input. Limnology and Oceanography, 61: 1956–1968. http://dx.doi.org/10.1002/lno.10345

Durden, J.M., T. Schoening, F. Althaus, A. Friedman, R. Garcia, A.G. Glover, J. Greinert, N. Jacobsen Stout, D.O.B. Jones, A. Jordt, J.W. Kaeli, K. Köser, L.A. Kuhnz, D. Lindsay, K.J. Morris, T.W. Nattkemper, J. Osterloff, H.A. Ruhl, H. Singh, M. Tran, and B.J. Bett. 2016. Perspectives in visual imaging for marine biology and ecology: From acquisition to understanding. Oceanography and Marine Biology: An Annual Review, 54: 1–72. http://dx.doi.org/10.5281/zenodo.202685

Figurski, J.D., J. Freiwald, S.I. Lonhart, and C.D. Storlazzi. 2016. Seasonal sediment dynamics shape temperate bedrock reef communities. Marine Ecology Progress Series, 552: 19–29. http://dx.doi.org/10.3354/meps11763

Fossette, S., K. Katija, J.A. Goldbogen, S. Bograd, W. Patry, M.J. Howard, T. Knowles, S.H.D. Haddock, L. Bedell, E.L. Hazen, B.H. Robison, T.A. Mooney, K.A. Shorter, T. Bastian, and A.C. Gleiss. 2016. How to tag a jellyfish? A methodological review and guidelines to successful jellyfish tagging. Journal of Plankton Research, 38: 1347–1363. http://dx.doi.org/10.1093/plankt/fbw073

Francis, W.R., L.M. Christianson, M.L. Powers, C.E. Schnitzler, and S.H.D. Haddock. 2016. Non-excitable fluorescent protein orthologs found in ctenophores. BMC Evolutionary Biology, 16: 167. http://dx.doi.org/10.1186/s12862-016-0738-5

Gao, R., J.C. Lassiter, J.D. Barnes, D.A. Clague, and W.A. Bohrson. 2016. Geochemical investigation of Gabbroic Xenoliths from Hualalai Volcano: Implications for lower oceanic crust accretion and Hualalai Volcano magma storage system. Earth and Planetary Science Letters, 442: 162–172. http://dx.doi.org/10.1016/j.epsl.2016.02.043

Gasca, R., and S.H. Haddock. 2016. The rare deep-living hyperiid amphipod Megalanceoloides remipes (Barnard, 1932): Complementary description and symbiosis. Zootaxa, 4178: 138–144. http://dx.doi.org/10.11646/zootaxa.4178.1.7

Gawryluk, R.M.R., J. Del Campo, N. Okamoto, J.F. Strassert, J. Lukes, T.A. Richards, A.Z. Worden, A.E. Santoro, and P.J. Keeling. 2016. Morphological identification and single-cell genomics of marine diplonemids. Current Biology, 26: 3053–3059. http://dx.doi.org/10.1016/j.cub.2016.09.013

Gaylord, B., K.J. Kroeker, J.M. Sunday, K.M. Anderson, J.P. Barry, N.E. Brown, S.D. Connell, S. Dupont, K.E. Fabricius, J.M. Hall-Spencer, T. Klinger, M. Milazzo, P.L. Munday, B.D. Russell, E. Sanford, S.J. Schreiber, V. Thiyagarajan, M.L.H. Vaughan, S. Widdicombe, and C.D.G. Harley. 2016. The reality of ocean acidification: Ocean acidification through the lens of ecological theory. Washington Journal of Environmental Law & Policy, Environmental Law Symposium on Ocean Acidification, 6: 252–284. https://digitalcommons.law.uw.edu/wjelp/vol6/iss2/4/

Gill, J., P. Michael, J. Woodcock, B. Dreyer, F. Ramos, D. Clague, J. Kela, S. Scott, K. Konrad, and D. Stakes. 2016. Spatial and temporal scale of mantle enrichment at the Endeavour Segment, Juan de Fuca Ridge. Journal of Petrology, 57: 863–896. http://dx.doi.org/10.1093/petrology/egw024

Gomes-Pereira, J.N., V. Auger, K. Beisiegel, R. Benjamin, M. Bergmann, D. Bowden, P. Buhl-Mortensen, F.C. De Leo, G. Dionísio, J.M. Durden, L. Edwards, A. Friedman, J. Greinert, N. Jacobsen Stout, S. Lerner, M. Leslie, T.W. Nattkemper, J.A. Sameoto, T. Schoening, R. Schouten, J. Seager, H. Singh, O. Soubigou, I. Tojeira, I. van den Beld, F. Dias, F. Tempera, and R.S. Santos. 2016. Current and future trends in marine image annotation software. Progress in Oceanography, 149: 106–120. http://dx.doi.org/10.1016/j.pocean.2016.07.005

Gregory, A.C., S.A. Solonenko, J.C. Ignacio-Espinoza, K. LaButti, A. Copeland, S. Sudek, A. Maitland, L. Chittick, F. Dos Santos, J.S. Weitz, A.Z. Worden, T. Woyke, and M.B. Sullivan. 2016. Genomic differentiation amongst wild cyanophages despite widespread horizontal gene transfer. BMC Genomics, 17: 930. http://dx.doi.org/10.1186/s12864-016-3286-x

Gwiazda, R., C.K. Paull, D.W. Caress, T. Lorenson, P.G. Brewer, E.T. Peltzer, P.M. Walz, K. Anderson, and E.M. Lundsten. 2016. Eel Canyon slump scar and associated fluid venting. Submarine mass movements and their consequences, 7th International Symposium, 2016: 411–418. http://dx.doi.org/10.1007/978-3-319-20979-1_41

Hearn, A., E. Espinoza, J.R. Green, D. Acuña-Marrero, and J.P. Ryan. 2016. Association of adult female whale sharks with open ocean and coastal upwelling frontal systems in the Eastern Tropical Pacific. Q Science Proceedings, The 4th International Whale Shark Conference, 2016. http://dx.doi.org/10.5339/qproc.2016.iwsc4.24

Herfort, L., C. Seaton, M. Wilkin, B. Roman, C.M. Preston, R. Marin, K. Seitz, M.W. Smith, V. Haynes, C.A. Scholin, A.M. Baptista, and H.M. Simon. 2016. Use of continuous, real-time observations and model simulations to achieve autonomous, adaptive sampling of microbial processes with a robotic sampler. Limnology and Oceanography: Methods, 14: 50–67. http://dx.doi.org/10.1002/lom3.10069

Holt, A.L. and A.M. Sweeney. 2016. Open water camouflage via ‘leaky’ light guides in the midwater squid Galiteuthis. Journal of The Royal Society Interface, 13(119): 20160230. doi.org/10.1098/rsif.2016.0230

Hoving, H.J.T., and B.H. Robison. 2016. Deep-sea in situ observations of gonatid squid and their prey reveal high occurrence of cannibalism. Deep Sea Research Part I: Oceanographic Research Papers, 116: 94–98. http://dx.doi.org/10.1016/j.dsr.2016.08.001

Huffard, C.L., L.A. Kuhnz, L. Lemon, A.D. Sherman, and K.L. Smith Jr. 2016. Demographic indicators of change in a deposit-feeding abyssal holothurian community (Station M, 4000m). Deep Sea Research Part I: Oceanographic Research Papers, 109: 27–39. http://dx.doi.org/10.1016/j.dsr.2016.01.002

Jang, S.J., E. Park, W.K. Lee, S.B. Johnson, R.C. Vrijenhoek, and Y.J. Won. 2016. Population subdivision of hydrothermal vent polychaete Alvinella pompejana across equatorial and Easter Microplate boundaries. BMC Evolutionary Biology, 16: 235. http://dx.doi.org/10.1186/s12862-016-0807-9

Jeon, Y.S., S.B. Johnson, Y.J. Won, and R.C. Vrijenhoek. 2016. Complete mitochondrial genome of the headwater livebearer, Poeciliopsis monacha: the mother of clones. Mitochondrial DNA Part B, 1: 793–794. http://dx.doi.org/10.1080/23802359.2016.1197066

Johnson, K.S., H.W. Jannasch, L.J. Coletti, V.A. Elrod, T.R. Martz, Y. Takeshita, R.J. Carlson, and J.G. Connery. 2016. Deep-Sea DuraFET: A pressure tolerant pH sensor designed for global sensor networks. Analytical Chemistry, 88: 3249–3256. http://dx.doi.org/10.1021/acs.analchem.5b04653

Johnson, S.B., E.M. Krylova, A. Audzijonyte, H. Sahling, and R.C. Vrijenhoek. 2016. Phylogeny and origins of chemosynthetic vesicomyid clams. Systematics and Biodiversity, 15(4): 346–360. http://dx.doi.org/10.1080/14772000.2016.1252438

Judge, J., and J.P. Barry. 2016. Macroinvertebrate community assembly on deep-sea wood falls in Monterey Bay is strongly influenced by wood type. Ecology, 97: 3031–3043. http://dx.doi.org/10.1002/ecy.1546

Kavanaugh, M.T., M.J. Oliver, F.P. Chavez, R.M. Letelier, F.E. Muller-Karger, and S.C. Doney. 2016. Seascapes as a new vernacular for pelagic ocean monitoring, management and conservation. ICES Journal of Marine Science, 73: 1839–1850. http://dx.doi.org/10.1093/icesjms/fsw086

Kim, T.W., and J.P. Barry. 2016. Boldness in a deep sea hermit crab to simulated tactile predator attacks is unaffected by ocean acidification. Ocean Science Journal, 51: 381–386. http://dx.doi.org/10.1007/s12601-016-0034-8

Kirkwood, W. 2016. Deep sea laser Raman - past, present and future developments for in situ chemical analysis and applications. Offshore Technology Conference Asia, Kuala Lumpur, 22–25 March 2016. https://doi.org/10.4043/26505-MS

Kroeker, K.J., E. Sanford, J.M. Rose, C.A. Blanchette, F. Chan, F.P. Chavez, B. Gaylord, B. Helmuth, T.M. Hill, G.E. Hofmann, M.A. McManus, B.A. Menge, K.J. Nielsen, P.T. Raimondi, A.D. Russell, and L. Washburn. 2016. Interacting environmental mosaics drive geographic variation in mussel performance and predation vulnerability. Ecology Letters, 19: 771–779. http://dx.doi.org/10.1111/ele.12613

Kukulya, L., J.G. Bellingham, J.W. Kaeli, C.M. Reddy, M.A. Godin, and R.N. Conmy. 2016. Development of a propeller driven long range autonomous underwater vehicle (LRAUV) for under-ice mapping of oil spills and environmental hazards: An Arctic Domain Center of Awareness project (ADAC). In 2016 IEEE/OES Autonomous Underwater Vehicles (AUV), Tokyo, Japan, November 2016, 95–100. IEEE. https://doi.org/10.1109/AUV.2016.7778655

Laguionie-Marchais, C., G.L.J. Paterson, B.J. Bett, K.L. Smith, and H.A. Ruhl. 2016. Inter-annual species-level variations in an abyssal polychaete assemblage (Sta. M, NE Pacific, 4000m). Progress in Oceanography, 140: 43–53. http://dx.doi.org/10.1016/j.pocean.2015.10.006

Lord, Joshua P. 2016. Impact of seawater temperature on growth and recruitment of invasive fouling species at the global scale. Marine Ecology, 38(2): e12404. http://dx.doi.org/10.1111/maec.12404

Maier, K.L., D.S. Brothers, C.K. Paull, M. McGann, D.W. Caress, and J.E. Conrad. 2016. Records of continental slope sediment flow morphodynamic responses to gradient and active faulting from integrated AUV and ROV data, offshore Palos Verdes, southern California borderland. Marine Geology, 393: 47–66. http://dx.doi.org/10.1016/j.margeo.2016.10.001

Mariano-Matias, M., G. Gaxiola-Castro, M.E. De la Cruz-Orozco, and F.P. Chavez. 2016. Seasonal air–sea CO2 fluxes in the southern California Current off the Baja California Peninsula (Mexico). Ciencias Marinas, 42: 157–177. http://dx.doi.org/10.7773/cm.v42i3.2651

Martin, E.J., D.W. Caress, H. Thomas, B. Hobson, R. Henthorn, M. Risi, C.K. Paull, J.P. Barry, and G. Troni. 2016. Enabling new techniques in environmental assessment through multi-sensor hydrography. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–7. http://dx.doi.org/10.1109/OCEANS.2016.7761487

Martini, S., V. Michotey, L. Casalot, P. Bonin, S. Guasco, M. Garel, and C. Tamburini. 2016. Bacteria as part of bioluminescence emission at the deep ANTARES station (North-Western Mediterranean Sea) during a one-year survey. Deep Sea Research Part I: Oceanographic Research Papers, 116: 33–40. http://dx.doi.org/10.1016/j.dsr.2016.07.014

Masmitjà, I., O. Pallarés, S. Gomáriz, J. del Río, T. O'Reilly, and B. Kieft. 2016. Range-only underwater target localization: Error characterization. 21st IMEKO TC4 International Symposium and 19th International Workshop on ADC Modelling and Testing Understanding the World through Electrical and Electronic Measurement, 2016: 267–271. https://upcommons.upc.edu/handle/2117/97764?show=full

Masmitjà, I., S. Gomariz, J. Del Rio, B. Kieft, and T. O'Reilly. 2016. Range-only benthic rover localization off the central California coast. Instrumentation Viewpoint, 19: 86–87. http://hdl.handle.net/2117/100115

Masmitjà, I., S. Gomáriz, J. del Rio, B. Kieft, and T. O'Reilly. 2016. Range-only underwater target localization: Path characterization. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–7. 10.1109/oceans.2016.7761246.

McClain, C.R., J.P. Barry, D. Eernisse, T. Horton, J. Judge, K. Kakui, C. Mah, and A. Waren 2016. Multiple processes generate productivity–diversity relationships in experimental wood-fall communities. Ecology, 97: 885–898. http://dx.doi.org/10.1890/15-1669.1

McGill, P.R., R.G. Henthorn, L.E. Bird, C.L. Huffard, D.V. Klimov, and K.L. Smith Jr. 2016. Sedimentation event sensor: New ocean instrument for in situ imaging and fluorometry of sinking particulate matter. Limnology and Oceanography: Methods, 14: 853–863. http://dx.doi.org/10.1002/lom3.10131

Moline, M.A., and K. Benoit-Bird. 2016. Sensor fusion and autonomy as a powerful combination for biological assessment in the marine environment. Robotics, 5: 4. http://dx.doi.org/10.3390/robotics5010004

Monier, A., A.Z. Worden, and T.A. Richards. 2016. Phylogenetic diversity and biogeography of the Mamiellophyceae lineage of eukaryotic marine phytoplankton across the oceans. Environmental Microbiology Reports, 8: 461–469. http://dx.doi.org/10.1111/1758-2229.12390

Orsi, W.D., J.M. Smith, S. Liu, Z. Liu, C.M. Sakamoto, S. Wilken, C. Poirier, T.A. Richards, P.J. Keeling, A.Z. Worden, and A.E. Santoro. 2016. Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean. ISME Journal, 10: 2158–2173. http://dx.doi.org/10.1038/ismej.2016.20

Paduan, J.B., D.A. Clague, D.W. Caress, and H. Thomas. 2016. High-resolution AUV mapping and ROV sampling of mid-ocean ridges. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–8. http://dx.doi.org/10.1109/OCEANS.2016.7761264

Patterson, J., and A. Bickel. 2016. Communicating local relevance of ocean observations: Integrating real-time ocean sensor data visualizations, online communications, and ocean issues to engage public audiences. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–4. http://dx.doi.org/10.1109/OCEANS.2016.7761325

Paull, C.K., K. Anderson, D.W. Caress, E. Lundsten, and R. Gwiazda. 2016. Fine-scale morphology of Tubeworm Slump, Monterey Canyon. Submarine Mass Movements and Their Consequences, 7th International Symposium, 41: 155–162. http://dx.doi.org/10.1007/978-3-319-20979-1_15

Pearlman, J., S. Jirka, J. del Rio, E. Delory, L. Frommhold, S. Martinez, and T. O'Reilly. 2016. Oceans of Tomorrow sensor interoperability for in-situ ocean monitoring. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–8. http://dx.doi.org/10.1109/OCEANS.2016.7761404

Peltzer, E.T., X. Zhang, P.M. Walz, M. Luna, and P.G. Brewer. 2016. In situ Raman measurement of HS− and H2S in sediment pore waters and use of the HS−:H2S ratio as an indicator of pore water pH. Marine Chemistry, 184: 32–42. http://dx.doi.org/10.1016/j.marchem.2016.05.006

Plant, J.N., K.S. Johnson, C.M. Sakamoto, H.W. Jannasch, L.J. Coletti, S.C. Riser, and D.D. Swift. 2016. Net community production at Ocean Station Papa observed with nitrate and oxygen sensors on profiling floats. Global Biogeochemical Cycles, 30: 859–879. http://dx.doi.org/10.1002/2015GB005349

Port, J. A., J.L. O'Donnell, O.C. Romero-Maraccini, P.R. Leary, S.Y. Litvin, K.J. Nickols, K.M. Yamahara, and R.P. Kelly. 2016. Assessing vertebrate biodiversity in a kelp forest ecosystem using environmental DNA. Molecular Ecology, 25: 527–541. http://dx.doi.org/10.1111/mec.13481

Puga-Bernabéu, Á., J.M. Webster, J.C. Braga, D.A. Clague, A. Dutton, S. Eggins, S. Fallon, G. Jacobsen, J.B. Paduan, and D.C. Potts. 2016. Morphology and evolution of drowned carbonate terraces during the last two interglacial cycles, off Hilo, NE Hawaii. Marine Geology, 371: 57–81. http://dx.doi.org/10.1016/j.margeo.2015.10.016

Pugh, P.R., and S.H.D. Haddock. 2016. A description of two new species of the genus Erenna (Siphonophora, Physonectae, Erennidae), with notes on recently collected specimens of other Erenna species. Zootaxa, 4189: 401–446. http://dx.doi.org/10.11646/zootaxa.4189.3.1

Raanan, B.Y., J.G. Bellingham, Y. Zhang, M. Kemp, B. Kieft, H. Singh, and Y. Girdhar. 2016. Automatic fault diagnosis for autonomous underwater vehicles using online topic models. OCEANS 2016 MTS/IEEE Monterey, 2016: 1–6. http://dx.doi.org/10.1109/OCEANS.2016.7761139

Radenac, M.H., F. Léger, M. Messié, P. Dutrieux, C. Menkes, and G. Eldin. 2016. Wind-driven changes of surface current, temperature, and chlorophyll observed by satellites north of New Guinea. Journal of Geophysical Research: Oceans, 121: 2231–2252. http://dx.doi.org/10.1002/2015JC011438

Reichert, A.N., L. Lundsten, and D.A. Ebert. 2016. First North Pacific records of the pointy nosed blue chimaera, Hydrolagus cf. trolli (Chondrichthyes: Chimaeriformes: Chimaeridae). Marine Biodiversity Records, 9: 90. http://dx.doi.org/10.1186/s41200-016-0095-5

Reisenbichler, K.R., M.R. Chaffey, F. Cazenave, R.S. McEwen, R.G. Henthorn, R.E. Sherlock, and B.H. Robison. 2016. Automating MBARI's midwater time-series video surveys: The transition from ROV to AUV. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–9. http://dx.doi.org/10.1109/OCEANS.2016.7761499

Ruhl, H.A., J.M. Durden, D. Jones, T. Schoening, T.W. Nattkemper, D. Cline, and D. Edgington. 2016. Computer vision and machine learning needs for research in biological oceanography. 2nd Workshop on Computer Vision for Analysis of Underwater Imagery (CVAUI 2016), Cancun, 4 December 2016.

Ryan, J., D. Cline, C. Dawe, P. McGill, Y. Zhang, J. Joseph, T. Margolina, M. Caillat, M. Fischer, A. DeVogelaere, A. Stimpert, and B. Southall. 2016. New passive acoustic monitoring in Monterey Bay National Marine Sanctuary: Exploring natural and anthropogenic sounds in a deep soundscape. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, Monterey, 19–23 September 2016.

Santoferrara, L.F., C. Bachy, V.A. Alder, J. Gong, Y.O. Kim, A. Saccá, I.D. da Silva Neto, M.C. Struder-Kypke, A. Warren, D. Xu, Z. Yi, and S. Agatha. 2016. Updating biodiversity studies in loricate protists: The case of the Tintinnids (Alveolata, Ciliophora, Spirotrichea). Journal of Eukaryotic Microbiology, 63: 651–656. http://dx.doi.org/10.1111/jeu.12303

Shafait, F., A. Mian, M. Shortis, B. Ghanem, P.F. Culverhouse, D. Edgington, D. Cline, M. Ravanbakskh, J. Seager, and E.S. Harvey. 2016. Fish identification from videos captured in uncontrolled underwater environments. ICES Journal of Marine Science, 73: 2737–2746. http://dx.doi.org/10.1093/icesjms/fsw106

Sherlock, R.E., K.R. Walz, and B.H. Robison. 2016. The first definitive record of the giant larvacean, Bathochordaeus charon, since its original description in 1900 and a range extension to the northeast Pacific Ocean. Marine Biodiversity Records, 9: 1–10. http://dx.doi.org/10.1186/s41200-016-0075-9

Sickmann, Z., C.K. Paull, and S.A. Graham. 2016. Detrital-zircon mixing and partitioning in fluvial to deep marine systems, central California, U.S.A.. Journal of Sedimentary Research (SEPM), 86: 1298–1307. http://dx.doi.org/10.2110/jsr.2016.78

Simmons, M.P., S. Sudek, A. Monier, A.J. Limardo, V. Jimenez, C.R. Perle, V.A. Elrod, J.T. Pennington, and A.Z. Worden. 2016. Abundance and biogeography of picoprasinophyte ecotypes and other phytoplankton in the Eastern North Pacific Ocean. Applied and Environmental Microbiology, 82: 1693–1705. http://dx.doi.org/10.1128/AEM.02730-15

Smith Jr., K.L., C.L. Huffard, A.D. Sherman, and H.A. Ruhl. 2016. Decadal change in sediment community oxygen consumption in the abyssal northeast Pacific. Aquatic Geochemistry, 22: 401–417. http://dx.doi.org/10.1007/s10498-016-9293-3

Stocks, K., N. Jacobsen Stout., and T.M. Shank. Information management strategies for deep‐sea biology. In Biological Sampling in the Deep Sea, edited by M.R. Clark, M. Consalvey, and A.A. Rowden, 368–385. Hoboken: Wiley-Blackwell, 2016.

Sunday, J.M., K.E. Fabricius, K.J. Kroeker, K.M. Anderson, N.E. Brown, J.P. Barry, S.D. Connell, S. Dupont, B. Gaylord, J.M. Hall-Spencer, T. Klinger, M. Milazzo, P.L. Munday, B.D. Russell, E. Sanford, V. Thiyagarajan, M.L.H. Vaughan, S. Widdicombe, and C.D.G. Harley. 2016. Ocean acidification can mediate biodiversity shifts by changing biogenic habitat. Nature Climate Change, 7: 81–85. http://dx.doi.org/10.1038/nclimate3161

Takeshita, Y., T.R. Martz, L.J. Coletti, A.G. Dickson, H.W. Jannasch, and K.S. Johnson. 2016. The effects of pressure on pH of Tris buffer in synthetic seawater. Marine Chemistry, 188: 1–5. http://dx.doi.org/10.1016/j.marchem.2016.11.002

Thys, T., J.P. Ryan, K.C. Weng, M. Erdmann, and J. Tresnati. 2016. Tracking a marine ecotourism star: Movements of the short ocean sunfish Mola ramsayi in Nusa Penida, Bali, Indonesia. Journal of Marine Biology, 3: 1–6. http://dx.doi.org/10.1155/2016/8750193

van Baren, M.J., C. Bachy, E.N. Reistetter, S.O. Purvine, J. Grimwood, S. Sudek, H. Yu, C. Poirier, T.J. Deerinck, A. Kuo, I.V. Grigoriev, C.H. Wong, R.D. Smith, S.J. Callister, C.L. Wei, J. Schmutz, and A.Z. Worden. 2016. Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants. BMC Genomics, 17: 1–22. http://dx.doi.org/10.1186/s12864-016-2585-6

Waldmann, C., T.M. Kier, W.S. Kirkwood, and S. Meckel. 2016. Performance data of a pneumatic variable buoyancy engine for a newly designed underwater glider. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–3. http://dx.doi.org/10.1109/OCEANS.2016.7761225

Waltman, P. H., J. Guo, E.N. Reistetter, S. Purvine, C.K. Ansong, M.J. van Baren, C.H. Wong, C.L. Wei, R.D. Smith, S.J. Callister, J.M. Stuart, and A.Z. Worden. 2016. Identifying aspects of the post-transcriptional program governing the proteome of the green alga Micromonas pusilla. PLoS One, 11: e0155839. http://dx.doi.org/10.1371/journal.pone.0155839

Williams, N.L., L.W. Juranek, K.S. Johnson, R.A. Feely, S.C. Riser, L.D. Talley, J.L. Russell, J.L. Sarmiento, and R. Wanninkhof. 2016. Empirical algorithms to estimate water column pH in the Southern Ocean. Geophysical Research Letters, 43: 3415–3422. http://dx.doi.org/10.1002/2016GL068539

Zhang, Y., B. Kieft, C. Rueda, T. O'Reilly, J. Ryan, T. Maughan, C. Wahl, and F. Chavez. 2016. Autonomous front tracking by a Wave Glider. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–4. http://dx.doi.org/10.1109/OCEANS.2016.7761070

Zhang, Y., J.G. Bellingham, J.P. Ryan, B. Kieft, and M.J. Stanway. 2016. Autonomous four-dimensional mapping and tracking of a coastal upwelling front by an autonomous underwater vehicle. Journal of Field Robotics, 33: 67–81. http://dx.doi.org/10.1002/rob.21617

Ziccarelli, L., R. Dellor, R. Johnson, H. Schmitz, T. O'Reilly, and F. Chavez. 2016. A novel method of obtaining near real-time observations of phytoplankton from a mobile autonomous platform. Marine Technology Society / Institute of Electrical and Electronics Engineers Oceans Conference, 2016: 1–5. http://dx.doi.org/10.1109/OCEANS.2016.7761230

2015

Aylward, F.O., J.M. Eppley, J.M. Smith, F.P. Chavez, C.A. Scholin, and E.F. DeLong. 2015. Microbial community transcriptional networks are conserved in three domains at ocean basin scales. Proceedings of the National Academy of Sciences, 112: 5443–5448. http://dx.doi.org/10.1073/pnas.1502883112

Bradley, C.J., N.J. Wallsgrove, C.A. Choy, J.C. Drazen, E.D. Hetherington, D.K. Hoen, and B.N. Popp. 2015. Trophic position estimates of marine teleosts using amino acid compound specific isotopic analysis. Limnology and Oceanography: Methods, 13: 476–493. http://dx.doi.org/10.1002/lom3.10041

Breusing, C., S.B. Johnson, V. Tunnicliffe, and R.C. Vrijenhoek. 2015. Population structure and connectivity in Indo-Pacific deep-sea mussels of the Bathymodiolus septemdierum complex. Conservation Genetics, 16: 1415–1430. https://doi.org/10.1007/s10592-015-0750-0

Brothers, D.S., J.E. Conrad, K.L. Maier, C.K. Paull, M. McGann, and D.W. Caress. 2015. The Palos Verdes Fault offshore Southern California: Late Pleistocene to present tectonic geomorphology, seascape evolution, and slip rate estimate based on AUV and ROV surveys. Journal of Geophysical Research: Solid Earth, 120: 4734–4758. http://dx.doi.org/10.1002/2015jb011938

Caress, D.W., and D.N. Chayes. 2015. MB-System Version 5.5.2252. Open source software distributed from the MBARI and L-DEO web sites, 2000-2015. https://www.mbari.org/products/research-software/mb-system/

Choy, C.A., B.N. Popp, C.C.S. Hannides, and J.C. Drazen. 2015. Trophic structure and food resources of epipelagic and mesopelagic fishes in the North Pacific Subtropical Gyre ecosystem inferred from nitrogen isotopic compositions. Limnology and Oceanography, 60: 1156–1171. http://dx.doi.org/10.1002/lno.10085