2019.  Rapacciuolo, G., J.M. Beman, L.M. Schiebelhut, and M.N. Dawson.  Microbes and macro-invertebrates show parallel β-diversity but contrasting α-diversity patterns in a marine natural experiment.  Proceedings of the Royal Society B. 286. ::PDF::

2019.  Ul-Hasan, S., R.M. Bowers, A. Figueroa-Montiel, A.F. Licea-Navarro, J.M. Beman, T. Woyke, and C.J. Nobile. Community ecology across bacteria, archaea and microbial eukaryotes in the sediment and seawater of coastal Puerto Nuevo, Baja California.  PloS One 14: e0212355. ::HTML::

2018.  Wilson, J. M., S.Y. Litvin, and J.M. Beman, J. M. Microbial community networks associated with variations in community respiration rates during upwelling in nearshore Monterey Bay, California.  Environmental Microbiology Reports 10: 272-282.  ::HTML::

2017.  Wilson, J.M., S. Abboud., and J.M. Beman.  Primary Production, Community Respiration, and Net Community Production along Oxygen and Nutrient Gradients: Environmental Controls and Biogeochemical Feedbacks within and across “Marine Lakes.”  Frontiers in Marine Science 4: 12.  ::HTML::

2016. Meyerhof, M.S., J.M. Wilson, M.N. Dawson, and J.M. Beman.  Microbial community diversity, structure and assembly across oxygen gradients in meromictic marine lakes, Palau.  Environmental Microbiology 18: 4907–4919.  ::HTML::

2016.  Carey, C.J., N.C. Dove, J.M. Beman, S.C. Hart, and E.L. Aronson. Meta-analysis reveals ammonia-oxidizing bacteria respond more strongly to nitrogen addition than ammonia-oxidizing archaea.  Soil Biology and Biochemistry 9: 158-166. ::PDF::

2016.  Moulton, O.M., M.A. Altabet, J.M. Beman, L.A. Deegan, J. Lloret, M.K. Lyons, J.A. Nelson, and C.A. Pfister. Microbial associations with macrobiota in coastal ecosystems: patterns and implications for nitrogen cycling. Frontiers in Ecology and the Environment 4: 200-208 ::PDF::

2016 Smith, B., M. Beman, D. Gravano and Y. Chen. Development and validation of a microbe detecting UAV payload. 2015 Workshop on Research, Education and Development of Unmanned Aerial Systems (RED-UAS), Cancun, Mexico: 258-264. ::PDF::

2016 Graham, E.B. et al. Microbes as engines of ecosystem function: when does community structure enhance predictions of ecosystem processes? Frontiers in Microbiology 7: 214. ::HTML::

2015 Hayden, C.J. and J.M. Beman. Microbial diversity and community structure along a lake elevation gradient in Yosemite National Park, California, USA. Environmental Microbiology doi 10.1111/1462-2920.12938. ::HTML::

2015 Carey, C.J., J.M. Beman, V.T. Eviner, C.S. Malmstrom, and S.C. Hart. Soil microbial community structure is unaltered by plant invasion, vegetation clipping, and nitrogen fertilization in experimental semi-arid grasslands. Frontiers in Microbiology 6: 466. ::HTML::

2015 Carolan, M.T., J.M. Smith and J.M. Beman.  Transcriptomic evidence for microbial sulfur cycling in the eastern tropical North Pacific oxygen minimum zone. Frontiers in Microbiology 6: 334. ::HTML::

2014 Hayden, C.J. and J.M. Beman. High abundances of potentially active ammonia-oxidizing bacteria and archaea in oligotrophic, high-altitude lakes of the Sierra Nevada, California, USA. PLOS ONE 9(11): e111560.  ::HTML::

2014 Wilson, J.M., R. Severson, and J.M. Beman. Ocean-scale patterns in community respiration rates along continuous transects across the Pacific Ocean. PLOS ONE 9(7): e99821. ::HTML::

2014 Beman, J.M. Activity, abundance, and diversity of nitrifying archaea and denitrifying bacteria in sediments of a subtropical estuary: Bahía del Tóbari, Mexico. Estuaries and Coasts (invited submission to thematic issue) 37: 1343-1352.  ::PDF::

2013 Beman, J.M. and M.T. Carolan. Deoxygenation alters bacterial diversity and community composition in the ocean’s largest oxygen minimum zone. Nature Communications 4: 2705. ::BEMAN13_NCOMM::

2013 Beman, J.M., J.L. Shi, B.N. Popp.  Nitrite oxidation in the upper water column and oxygen minimum zone of the eastern tropical North Pacific Ocean. ISME Journal 7: 2192-2205. ::BEMAN13_ISMEJ::

2013 Gilly, W.F., J.M. Beman, S.Y. Litvin, B. Robison.  Oceanographic and biological effects of shoaling of the oxygen minimum zone.  Annual Review of Marine Science 5: 393-420.  ::HTML::

2012 Beman, J.M., V.J. Bertics, T. Braunschweiler, and J.M. Wilson. Quantification of ammonia oxidation rates and the distribution of ammonia-oxidizing Archaea and Bacteria in marine sediment depth profiles from Catalina Island, California. Frontiers in Microbiology 3: 263.  ::HTML::

2012 Beman, J.M., B.N. Popp, and S.E. Alford. Quantification of ammonia oxidation rates and ammonia-oxidizing archaea and bacteria at high resolution in the Gulf of California and eastern tropical North Pacific Ocean. Limnology and Oceanography 57: 711-726.  ::BEMAN12_LO.pdf::

2011 Beman, J.M., C.-E. Chow, A.L. King, Y. Feng, J.A. Fuhrman, A. Andersson, N.R. Bates, B.N. Popp, and D.A. Hutchins. Global declines in oceanic nitrification rates as a consequence of ocean acidification. Proceedings of the National Academy of Sciences 108: 209-213.  ::BEMAN11_PNAS::

2011 Steele, J.A., P.D. Countway, L. Xia, P. Vigil, J.M. Beman, et al. Marine bacterial, archaeal, and protistan association networks reveal ecological linkages. ISME Journal 5: 1414-1425.  ::STEELE11_ISMEJ.pdf::

2011 Beman, J.M., J.A. Steele, and J.A. Fuhrman. Co-occurrence patterns for abundant marine archaeal and bacterial lineages in the deep chlorophyll maximum of coastal California. ISME Journal 5: 1077-1085.  ::BEMAN11_ISMEJ::

2010 Beman, J.M., R. Sachdeva, and J.A. Fuhrman. Population ecology of nitrifying Archaea and Bacteria in the Southern California Bight. Environmental Microbiology 12: 1282-1292.  ::HTML::

2008 Ahrens, T.D., J.M. Beman, J.A. Harrison, P.K. Jewett, and P.A. Matson. A synthesis of nitrogen transformations and transfers from land to sea in the Yaqui Valley agricultural region of Northwest Mexico. Water Resources Research 44: W00A05 (invited).  ::PDF::

2008 Beman, J.M., B.N. Popp, and C.A. Francis. Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of California. ISME Journal 2: 429-441.  ::BEMAN08_ISMEJ::

2007 Beman, J.M., K.J. Roberts, L. Wegley, F. Rohwer, and C.A. Francis. Distribution and diversity of archaeal ammonia monooxygenase (amoA) genes associated with corals. Applied and Environmental Microbiology 73: 5642-5647.  ::BEMAN07_AEM.pdf::

2007 Francis, C.A., J.M. Beman, and M.M.M. Kuypers. New processes and players in the nitrogen cycle: the microbial ecology of anaerobic and archaeal ammonia oxidation. ISME Journal 1: 19-27.  ::FRANCIS07_ISMEJ.pdf::

2006 Beman, J.M. and C.A. Francis. Diversity of ammonia-oxidizing Archaea and Bacteria in the sediments of a hyper-nutrified subtropical estuary: Bahía del Tóbari, Mexico. Applied and Environmental Microbiology 72: 7677-7777.  ::BEMAN06_AEM.pdf::

2006 Gilly, W.F., C.A. Elliger, C.A. Salinas, S. Camarillo-Coop, G. Bazzino and J.M. Beman. Spawning by jumbo squid Dosidicus gigas in San Pedro Mártir Basin, Gulf of California, Mexico. Marine Ecology Progress Series 313: 125-133.  ::GILLY06_MEPS.pdf::

2005 Francis, C.A., K.J. Roberts, J.M. Beman, A.E. Santoro and B.B. Oakley. Ubiquity and diversity of ammonia-oxidizing Archaea in water columns and sediments of the ocean. Proceedings of the National Academy of Sciences 102: 14683-14688.  ::FRANCIS05_PNAS::

2005 Beman, J.M., K.R. Arrigo and P.A. Matson. Agricultural runoff fuels large phytoplankton blooms in vulnerable areas of the ocean. Nature 434: 211-214.  ::BEMAN05_Nature::

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