Blanco-Ameijeiras, S., H. M. Stoll, H. Zhang, and B.M. Hopkinson. 2020. Influence of temperature and CO2 on plasma-membrane permeability to CO2 and HCO3- in the marine haptophytes Emiliania huxleyi and Calcidiscus leptoporus (Prmynesiophyceae). Journal of Phycology. doi: 10.1111/jpy.13017.
Hopkinson, B.M., A. C. King, D. P. Owen, M. Johnson-Roberson, M. H. Long, S. M. Bhandarkar. 2020. Automated classification of three-dimensional reconstructions of coral reefs using convolutional neural networks. PloS ONE. 15(3) e0230671. doi: 10.1371/journal.pone.0230671
Varnerin, B.V., B.M. Hopkinson, D. F. Gleason. 2020. Recruits of the temperate coral, Oculina arbuscula, mimic adults in their resilience to ocean acidification. Marine Ecology Progress Series. 636: 63-75
King, A. S.M. Bhandarkar, B. M. Hopkinson. 2019. Deep learning for semantic segmentation of coral reef images using multi-view information. Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition Workshops. 1-10
Luo, Y., D. Shi, S.A. Kranz, B. M. Hopkinson, H. Hong, R. Shen, and F. Zhang. 2019. Reduced nitrogenase efficiency dominates response of the globally important nitrogen fixer Trichodesmium to ocean acidification. Nature Communications. 10: 1521
Hogle, S.L., C.L. Dupont, B. M. Hopkinson, A. L. King, K. N. Buck, K. L. Roe, R. K. Stuart, A. E. Allen, E. L. Mann, Z. I. Johnson, and K. A. Barbeau. 2018. Pervasive iron limitation at subsurface chlorophyll maxima of the California Current. Proceedings of the National Academy of Sciences USA. 115: 13300-13305
King, A. S.M. Bhandarkar, B. M. Hopkinson. 2018. A comparison of deep learning methods for semantic segmentation of coral reef survey images. Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition Workshops. 1507-1515.
H. Matsui, B. M. Hopkinson, K. Nakajima, and Y. Matsuda. 2018. Plasma-membrane-type aquaporins from marine diatoms function as CO2/NH3 channels and provide photoprotection. Plant Physiology. 178: 345-357
Yuan, X, W.J. Cai, C. Meile, B. M. Hopkinson, Q. Ding, V. Schoepf, M. E. Warner, K. D. Hoadley, B. Chen, S . Liu, H. Huang, Y. Ye, A. G. Grottoli. 2018. Quantitative interpretation of vertical profiles of calcium and pH in the coral coelenteron. Marine Chemistry. 204: 62-69. Chrachri, A., B.M. Hopkinson, K. Flynn, C. Brownlee, G. Wheeler. 2018. Dynamic changes in carbonate chemistry in the microenvironment around single marine phytoplankton cells. Nature Communications 9:74 doi:10.1038/s41467-017-02426-y.
Young, J.N., and B.M. Hopkinson. 2017. The potential for co-evolution of CO2 concentrating mechanisms and RubisCO in diatoms. Journal of Experimental Botany 68: 3751-3762.
Shen, C., C.L. Dupont, and B.M. Hopkinson. 2017. The diversity of carbon dioxide concentrating mechanisms in marine diatoms as inferred from their genetic content. Journal of Experimental Botany 68: 3937-3948.
Matsuda, Y., B.M. Hopkinson, K. Nakajima, C. Dupont, Y Tsuji. 2017. Mechanisms of carbon dioxide acquisition and CO2 sensing in marine diatoms - a gateway to carbon metabolism. Philosophical Transactions of the Royal Society B: Biological Sciences 372: doi:10.1098/rstb.2016.0398
Tansik, A. L., W.K. Fitt, and B.M. Hopkinson. 2017. Inorganic carbon is scarce for symbionts in scleractinian corals. Limnology and Oceanography 62: 2045-2055.
Cai, W.J., Y. Ma, B. M. Hopkinson, A.G. Grottoli, M.E. Warner, Q. Ding, X. Hu, X. Yuan, V. Schoepf, H. Xu, C. Han, T.F. Melman, K.D. Hoadley, D.T. Pettay, Y. Matsui, J.H. Baumann, S. Levas, Y. Ying, and Y. Wang. 2016. Coral interior carbonate chemistry and dynamics as revealed by CO32- and pH microeletrode measurements. Nature Communications 7: 11144.
B.M. Hopkinson, C. L. Dupont, Y. Matsuda. 2016. The genetics and physiology of CO2 concentrating mechanisms in model diatoms. Current Opinion in Plant Biology. 31: 51-57.
D. Shi, W. Li., B.M. Hopkinson, D. Li, W. Lin, S.J. Kao, H. Hong. 2015. Interactive effects of light, nitrogen source, and carbon dioxide on energy metabolism in the diatom Thalssiosira pseudonana. Limnology and Oceanography 60: 1805-1822, doi: 10.1002/lno.10134
Marchetti, A., D. Catlettt, B.M. Hopkinson, K. Ellis, N. Cassar. 2015. Marine eukaryotic proteorhodopsins and their potential role in coping with low iron availability. ISME J. 9: 2745-2748, doi:10.1038/ismej.2015.74
B.M. Hopkinson, Tansik, A.L., W.K. Fitt. 2015. High internal carbonic anhydrase activity in the tissue of scleractinian corals is sufficient to support proposed roles in photosynthesis and calcification. Journal of Experimental Biology doi: 10.1242/jeb.118182
Yates, K.K., C. Turley, B.M. Hopkinson, A. Todgham, J. Cross, H. Greening, R. Van Hooidonk, P. Williamson, D. Dehyen, and Z. Johnson. 2015. Transdisciplinary science: a path to understanding the impacts of ocean acidification on ecosystems and society. Oceanography 28: 212-225
Tansik, A.L., W.K. Fitt, B.M. Hopkinson, 2015. External carbonic anhydrase in three Caribbean corals: quantification of activity and role in CO2 uptake. Coral Reefs doi: 10.1007/s00338-015-1289-8
Shen C, B.M. Hopkinson, 2015. Size scaling of extracellular carbonic anhydrase activity in centric marine diatoms. Journal of Phycology 51: 255-263.
Kranz S.A., J.N. Young, B.M. Hopkinson, J.A.L. Goldman, P.D. Tortell, F.M.M. Morel. 2015. Low temperature reduces the energetic requirement for the CO2 concentrating mechanism in diatoms. New Phytologist 205: 192-201.
Hopkinson B.M., J.N. Young, A.L. Tansik, B.J. Binder. 2014. The minimal CO2 concentrating mechanism of Prochlorococcus MED4 is effective and efficient. Plant Physiology 166: 2205-2217.
Oakley, C.A., B.M. Hopkinson, G.W. Schmidt. 2014a. Mitochondrial terminal alternative oxidase and its enhancement by thermal stress in the coral symbiont Symbiodinium. Coral Reefs 33: 543-552.
Samukawa, M., C. Shen, B.M. Hopkinson, Y. Matsuda 2014. Localization of putative carbonic anhydrases in the marine diatom, Thalassiosira pseudonana. Photosynthesis Research 121: 235-249.
Hopkinson, B.M. 2014. A chloroplast pump model for the CO2 concentrating mechanism in the diatom Phaeodactylum tricornutum. Photosynthesis Research 121: 223-233.
Hopkinson, B.M., C. Meile, C. Shen. 2013. Quantification of extracellular carbonic anhydrase in two marine diatoms and investigation of its role. Plant Physiology 162: 1142-1152.
Hopkinson, B.M., B. Seegers, M. Hatta, C.I. Measures, B.G. Mitchell, K.A. Barbeau. 2013. Planktonic C:Fe ratios and carrying capacity in the southern Drake Passage. Deep-Sea Research II http://dx.doi.org/10.1016/j.dsr2.2012.09.001.
Moran M.A., B. Satinsky, S.M. Gifford, H. Luo, A. Rivers, L.K. Chan, J. Meng, B.P. Durham, C. Shen, V.A. Varalijay, C.B. Smith, P.L. Yager, B.M. Hopkinson. 2013. Sizing up Metatranscriptomics ISME J. 7: 237-243.
Oakley, C.A., B.M. Hopkinson, and G.W. Schmidt. 2012. A modular system for the measurement of CO2 and O2 gas flux and photosynthetic electron transport in microalgae. Limnology and Oceanography Methods 10: 968-977.
Losh, J.L, F.M.M. Morel, and B.M. Hopkinson. 2012. Modest increase in the C:N ratio of N-limited phytoplankton in the California Current in response to high CO2. Marine Ecology Progress Series 468: 31-42.
Hopkinson, B.M., and K.A Barbeau. 2012. Iron transporters in marine prokaryotic genomes and metagenomes Environmental Microbiology 14: 114-128.
Lomas, M.W., B.M. Hopkinson, J.L. Losh, D.E. Ryan, D.L. Shi, Y. Xu, and F.M.M. Morel. 2012. Effects of ocean acidification on cyanobacteria in the subtropical North Atlantic Aquatic Microbial Ecology 66: 211-222.
Hopkinson, B.M., C.L. Dupont, A.E. Allen, and F.M.M. Morel. 2011. Efficiency of the CO2-concentrating mechanism of diatoms. PNAS 108: 3830-3837.
Hopkinson, B.M., Y. Xu, D. Shi, P.J. McGinn, and F.M.M. Morel. 2010. The effect of CO2 on the photosynthetic physiology of phytoplankton in the Gulf of Alaska. Limnology and Oceanography 55: 2011-2024.
Shi, D., Y. Xu, B.M. Hopkinson, F.M.M. Morel. 2010. Effect of ocean acidification on iron availability to marine phytoplankton. Science 327: 676-679.
Hopkinson, B.M., and F.M.M. Morel. 2009. The role of siderophores in iron acquisition by photosynthetic marine microorganisms. Biometals 22: 659-669.
Hopkinson, B.M., K. Roe, and K.A. Barbeau. 2008. Heme uptake by Microscilla marina and evidence for heme uptake systems in the genomes of diverse marine bacteria. Applied and Environmental Microbiology 74: 6263-6270.
Hopkinson, B.M., and K.A. Barbeau. 2008. Interactive influences of iron and light limitation on phytoplankton at subsurface chlorophyll maxima in the eastern North Pacific. Limnology and Oceanography 53: 1303-1318.
Hopkinson, B.M., G. Mitchell, R. Reynolds, H. Wang, C. Hewes, C. Measures, O. Holm-Hansen, and K.A. Barbeau. 2007. Iron limitation across chlorophyll gradients in the southern Drake Passage: phytoplankton responses to iron addition and indicators of iron stress. Limnology and Oceanography 52: 2540-2554.
Hopkinson, B.M., and K.A. Barbeau. 2007. Organic and redox speciation of iron in the eastern tropical North Pacific suboxic zone. Marine Chemistry 106: 2-17.
Hopkinson, B.M., E.D. Kwee, and S.K. Knudson. 2002. A connection between quantum critical points and classical separatracies of electronic states. J. Chem. Phys. 117: 5660-5669.