Quinlan, Z. A., Koester, I., Aron, A. T., Petras, D., Aluwihare, L. I., Dorrestein, P. C., Nelson, C. E., & Wegley Kelly, L. (2022). ConCISE: Consensus Annotation Propagation of Ion Features in Untargeted Tandem Mass Spectrometry Combining Molecular Networking and In Silico Metabolite Structure Prediction. Metabolites, 12(12), 1275. https://doi.org/10.3390/metabo12121275
White, M. E., Rafter, P. A., Stephens, B. M., Mazloff, M. R., Wankel, S. D., & Aluwihare, L. I. (2022). Stable isotopes of nitrate record effects of the 2015–2016 El Niño and diatom iron limitation on nitrogen cycling in the eastern North Pacific Ocean. Limnology and Oceanography, lno.12194. https://doi.org/10.1002/lno.12194
Lewis, S. L., Russell, L. M., Saliba, G., Quinn, P. K., Bates, T. S., Carlson, C. A., Baetge, N., Aluwihare, L. I., Boss, E., Frossard, A. A., Bell, T. G., & Behrenfeld, M. J. (2022). Characterization of Sea Surface Microlayer and Marine Aerosol Organic Composition Using STXM-NEXAFS Microscopy and FTIR Spectroscopy. ACS Earth and Space Chemistry, 6(7), 1899–1913. https://doi.org/10.1021/acsearthspacechem.2c00119
Semitsoglou-Tsiapou, S., Meador, T. B., Peng, B., & Aluwihare, L. (2022). Photochemical (UV-vis/H2O2) degradation of carotenoids: Kinetics and molecular end products. Chemosphere, 286, 11. https://doi.org/10.1016/j.chemosphere.2021.131697
Koester, I., Quinlan, Z. A., Nothias, L., White, M. E., Rabines, A., Petras, D., Brunson, J. K., Dührkop, K., Ludwig, M., Böcker, S., Azam, F., Allen, A. E., Dorrestein, P. C., & Aluwihare, L. I. (2022). Illuminating the dark metabolome of Pseudo‐nitzschia –microbiome associations. Environmental Microbiology, 24(11), 5408–5424. https://doi.org/10.1111/1462-2920.16242
Cancelada, L., Torres, R. R., Luna, J. G., Dorrestein, P. C., Aluwihare, L. I., Prather, K. A., & Petras, D. (2021). Assessment of styrene-divinylbenzene polymer (PPL) solid-phase extraction and non-targeted tandem mass spectrometry for the analysis of xenobiotics in seawater. Limnology and Oceanography-Methods, 13. https://doi.org/10.1002/lom3.10470
Beman, J. M., Vargas, S. M., Wilson, J. M., Perez-Coronel, E., Karolewski, J. S., Vazquez, S., Yu, A., Cairo, A. E., White, M. E., Koester, I., Aluwihare, L. I., & Wankel, S. D. (2021). Substantial oxygen consumption by aerobic nitrite oxidation in oceanic oxygen minimum zones. Nature Communications, 12(1), 11. https://doi.org/10.1038/s41467-021-27381-7
Aron, A. T., Petras, D., Schmid, R., Gauglitz, J. M., Buttel, I., Antelo, L., Zhi, H., Nuccio, S. P., Saak, C. C., Malarney, K. P., Thines, E., Dutton, R. J., Aluwihare, L. I., Raffatellu, M., & Dorrestein, P. C. (2021). Native mass spectrometry-based metabolomics identifies metal-binding compounds. Nature Chemistry, 11. https://doi.org/10.1038/s41557-021-00803-1
Kelly, L. W., Nelson, C. E., Aluwihare, L. I., Arts, M. G. I., Dorrestein, P. C., Koester, I., Matsuda, S. B., Petras, D., Quinlan, Z. A., & Haas, A. F. (2021). Molecular commerce on coral reefs: Using metabolomics to reveal biochemical exchanges underlying holobiont biology and the ecology of coastal ecosystems. Frontiers in Marine Science, 8, 11. https://doi.org/10.3389/fmars.2021.630799
Schmid, R., Petras, D., Nothias, L. F., Wang, M. X., Aron, A. T., Jagels, A., Tsugawa, H., Rainer, J., Garcia-Aloy, M., Duhrkop, K., Korf, A., Pluskal, T., Kamenik, Z., Jarmusch, A. K., Caraballo-Rodriguez, A. M., Weldon, K. C., Nothias-Esposito, M., Aksenov, A. A., Bauermeister, A., … Dorrestein, P. C. (2021). Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment. Nature Communications, 12(1). https://doi.org/10.1038/s41467-021-23953-9
Petras, D., Minich, J. J., Cancelada, L. B., Torres, R. R., Kunselman, E., Wang, M. X., White, M. E., Allen, E. E., Prather, K. A., Aluwihare, L. I., & Dorrestein, P. C. (2021). Non-targeted tandem mass spectrometry enables the visualization of organic matter chemotype shifts in coastal seawater. Chemosphere, 271. https://doi.org/10.1016/j.chemosphere.2020.129450
Stephens, B. M., Opalk, K., Petras, D., Liu, S., Comstock, J., Aluwihare, L. I., Hansell, D. A., & Carlson, C. A. (2020). Organic matter composition at Ocean Station Papa affects its bioavailability, bacterioplankton growth efficiency and the responding taxa. Frontiers in Marine Science, 7. https://doi.org/10.3389/fmars.2020.590273
Ludwig, M., Nothias, L. F., Duhrkop, K., Koester, I., Fleischauer, M., Hoffmann, M. A., Petras, D., Vargas, F., Morsy, M., Aluwihare, L., Dorrestein, P. C., & Bocker, S. (2020). Database-independent molecular formula annotation using Gibbs sampling through ZODIAC. Nature Machine Intelligence, 2(10), 629-+. https://doi.org/10.1038/s42256-020-00234-6
Swalethorp, R., Aluwihare, L., Thompson, A. R., Ohman, M. D., & Landry, M. R. (2020). Errors associated with compound-specific delta N-15 analysis of amino acids in preserved fish samples purified by high-pressure liquid chromatography. Limnology and Oceanography-Methods. https://doi.org/10.1002/lom3.10359
Stephens, B. M., Wankel, S. D., Beman, J. M., Rabines, A. J., Allen, A. E., & Aluwihare, L. I. (2019). Euphotic zone nitrification in the California Current Ecosystem. Limnology and Oceanography. https://doi.org/10.1002/lno.11348
Stukel, M. R., Kelly, T. B., Aluwihare, L. I., Barbeau, K. A., Goericke, R., Krause, J. W., Landry, M. R., & Ohman, M. D. (2019). The Carbon:(234)Thorium ratios of sinking particles in the California current ecosystem 1: relationships with plankton ecosystem dynamics. Marine Chemistry, 212, 1–15. https://doi.org/10.1016/j.marchem.2019.01.003
Malfatti, F., Lee, C., Tinta, T., Pendergraft, M. A., Celussi, M., Zhou, Y. Y., Sultana, C. M., Rotter, A., Axson, J. L., Collins, D. B., Santander, M. V., Morales, A. L. A., Aluwihare, L. I., Riemer, N., Grassian, V. H., Azam, F., & Prather, K. A. (2019). Detection of active microbial enzymes in nascent sea spray aerosol: Implications for atmospheric chemistry and climate. Environmental Science & Technology Letters, 6(3), 171–177. https://doi.org/10.1021/acs.estlett.8b00699
Stephens, B. M., Porrachia, M., Dovel, S., Roadman, M., Goericke, R., & Aluwihare, L. I. (2018). Nonsinking Organic Matter Production in the California Current. Global Biogeochemical Cycles, 32(9), 1386–1405. https://doi.org/10.1029/2018gb005930
Paulsen, M. L., Andersson, A. J., Aluwihare, L., Cyronak, T., D’Angelo, S., Davidson, C., Elwany, H., Giddings, S. N., Page, H. N., Porrachia, M., & Schroeter, S. (2018). Temporal changes in seawater carbonate chemistry and carbon export from a Southern California estuary. Estuaries and Coasts, 41(4), 1050–1068. https://doi.org/10.1007/s12237-017-0345-8
Kharbush, J. J., Thompson, L. R., Haroon, M. F., Knight, R., & Aluwihare, L. I. (2018). Hopanoid-producing bacteria in the Red Sea include the major marine nitrite oxidizers. Fems Microbiology Ecology, 94(6). https://doi.org/10.1093/femsec/fiy063
Petras, D., Koester, I., Da Silva, R., Stephens, B. M., Haas, A. F., Nelson, C. E., Kelly, L. W., Aluwihare, L. I., & Dorrestein, P. C. (2017). High-resolution liquid chromatography tandem mass spectrometry enables large scale molecular characterization of dissolved organic matter. Frontiers in Marine Science, 4(405). https://doi.org/10.3389/fmars.2017.00405
Arakawa, N., Aluwihare, L. I., Simpson, A. J., Soong, R., Stephens, B. M., & Lane-Coplen, D. (2017). Carotenoids are the likely precursor of a significant fraction of marine dissolved organic matter. Science Advances, 3. https://doi.org/10.1126/sciadv.1602976
Hansman, R. L., Thurber, A. R., Levin, L. A., & Aluwihare, L. I. (2017). Methane fates in the benthos and water column at cold seep sites along the continental margin of Central and North America. Deep-Sea Research Part I-Oceanographic Research Papers, 120, 122–131. https://doi.org/10.1016/j.dsr.2016.12.016
Stukel, M. R., Aluwihare, L. I., Barbeau, K. A., Chekalyuk, A. M., Goericke, R., Miller, A. J., Ohman, M. D., Ruacho, A., Song, H., Stephens, B. M., & Landry, M. R. (2017). Mesoscale ocean fronts enhance carbon export due to gravitational sinking and subduction. Proceedings of the National Academy of Sciences of the United States of America, 114(6), 1252–1257. https://doi.org/10.1073/pnas.1609435114
Kumar, A., Borgen, M., Aluwihare, L. I., & Fenical, W. (2017). Ozone-activated halogenation of mono- and dimethylbipyrrole in seawater. Environmental Science & Technology, 51(1), 589–595. https://doi.org/10.1021/acs.est.6b03601
Mackintosh, S. A., Dodder, N. G., Shaul, N. J., Aluwihare, L. I., Maruya, K. A., Chivers, S. J., Danil, K., Weller, D. W., & Hoh, E. (2016). Newly identified DDT-related compounds accumulating in Southern California bottlenose dolphins. Environmental Science & Technology, 50(22), 12129–12137. https://doi.org/10.1021/acs.est.6b03150
Tolar, B. B., Ross, M. J., Wallsgrove, N. J., Liu, Q., Aluwihare, L. I., Popp, B. N., & Hollibaugh, J. T. (2016). Contribution of ammonia oxidation to chemoautotrophy in Antarctic coastal waters. Isme Journal, 10(11), 2605–2619. https://doi.org/10.1038/ismej.2016.61
Haskell, W. Z., Prokopenko, M. G., Hammond, D. E., Stanley, R. H. R., Berelson, W. M., Baronas, J. J., Fleming, J. C., & Aluwihare, L. (2016). An organic carbon budget for coastal Southern California determined by estimates of vertical nutrient flux, net community production and export. Deep-Sea Research Part I-Oceanographic Research Papers, 116, 49–76. https://doi.org/10.1016/j.dsr.2016.07.003
Kharbush, J. J., Allen, A. E., Moustafa, A., Dorrestein, P. C., & Aluwihare, L. I. (2016). Intact polar diacylglycerol biomarker lipids isolated from suspended particulate organic matter accumulating in an ultraoligotrophic water column. Organic Geochemistry, 100, 29–41. https://doi.org/10.1016/j.orggeochem.2016.07.008
Moran, M. A., Kujawinski, E. B., Stubbins, A., Fatland, R., Aluwihare, L. I., Buchan, A., Crump, B. C., Dorrestein, P. C., Dyhrman, S. T., Hess, N. J., Howe, B., Longnecker, K., Medeiros, P. M., Niggemann, J., Obernosterer, I., Repeta, D. J., & Waldbauer, J. R. (2016). Deciphering ocean carbon in a changing world. Proceedings of the National Academy of Sciences of the United States of America, 113(12), 3143–3151. https://doi.org/10.1073/pnas.1514645113
Kharbush, J. J., Kejriwal, K., & Aluwihare, L. I. (2016). Distribution and abundance of hopanoid producers in low-oxygen environments of the Eastern Pacific Ocean. Microbial Ecology, 71(2), 401–408. https://doi.org/10.1007/s00248-015-0671-y
Sherwood, B. P., Shaffer, E. A., Reyes, K., Longnecker, K., Aluwihare, L. I., & Azam, F. (2015). Metabolic characterization of a model heterotrophic bacterium capable of significant chemical alteration of marine dissolved organic matter. Marine Chemistry, 177, 357–365. https://doi.org/10.1016/j.marchem.2015.06.027
Arakawa, N., & Aluwihare, L. (2015). Direct identification of diverse alicyclic terpenoids in Suwannee River fulvic acid. Environmental Science & Technology, 49(7), 4097–4105. https://doi.org/10.1021/es5055176
Goldberg, S. J., Ball, G. I., Allen, B. C., Schladow, S. G., Simpson, A. J., Masoom, H., Soong, R., Graven, H. D., & Aluwihare, L. I. (2015). Refractory dissolved organic nitrogen accumulation in high-elevation lakes. Nature Communications, 6. https://doi.org/10.1038/ncomms7347
Agarwal, V., Li, J., Rahman, I., Borgen, M., Aluwihare, L. I., Biggs, J. S., Paul, V. J., & Moore, B. S. (2015). Complexity of naturally produced polybrominated diphenyl ethers revealed via mass spectrometry. Environmental Science & Technology, 49(3), 1339–1346. https://doi.org/10.1021/es505440j
Meador, T. B., & Aluwihare, L. I. (2014). Production of dissolved organic carbon enriched in deoxy sugars representing an additional sink for biological C drawdown in the Amazon River plume. Global Biogeochemical Cycles, 28(10), 1149–1161. https://doi.org/10.1002/2013gb004778
Ball, G. I., & Aluwihare, L. I. (2014). CuO-oxidized dissolved organic matter (DOM) investigated with comprehensive two dimensional gas chromatography-time of flight-mass spectrometry (GC x GC-TOF-MS). Organic Geochemistry, 75, 87–98. https://doi.org/10.1016/j.orggeochem.2014.06.010
Pedler, B. E., Aluwihare, L. I., & Azam, F. (2014). Single bacterial strain capable of significant contribution to carbon cycling in the surface ocean. Proceedings of the National Academy of Sciences of the United States of America, 111(20), 7202–7207. https://doi.org/10.1073/pnas.1401887111
Kharbush, J. J., Ugalde, J. A., Hogle, S. L., Allen, E. E., & Aluwihare, L. I. (2013). Composite bacterial hopanoids and their microbial producers across oxygen gradients in the water column of the California Current. Applied and Environmental Microbiology. https://doi.org/10.1128/aem.02367-13
Collins, D. B., Ault, A. P., Moffet, R. C., Ruppel, M. J., Cuadra-Rodriguez, L. A., Guasco, T. L., Corrigan, C. E., Pedler, B. E., Azam, F., Aluwihare, L. I., Bertram, T. H., Roberts, G. C., Grassian, V. H., & Prather, K. A. (2013). Impact of marine biogeochemistry on the chemical mixing state and cloud forming ability of nascent sea spray aerosol. Journal of Geophysical Research-Atmospheres, 118(15), 8553–8565. https://doi.org/10.1002/jgrd.50598
Close, H. G., Shah, S. R., Ingalls, A. E., Diefendorf, A. F., Brodie, E. L., Hansman, R. L., Freeman, K. H., Aluwihare, L. I., & Pearson, A. (2013). Export of submicron particulate organic matter to mesopelagic depth in an oligotrophic gyre. Proceedings of the National Academy of Sciences of the United States of America, 110(31), 12565–12570. https://doi.org/10.1073/pnas.1217514110
Prather, K. A., Bertram, T. H., Grassian, V. H., Deane, G. B., Stokes, M. D., DeMott, P. J., Aluwihare, L. I., Palenik, B. P., Azam, F., Seinfeld, J. H., Moffet, R. C., Molina, M. J., Cappa, C. D., Geiger, F. M., Roberts, G. C., Russell, L. M., Ault, A. P., Baltrusaitis, J., Collins, D. B., … Zhao, D. F. (2013). Bringing the ocean into the laboratory to probe the chemical complexity of sea spray aerosol. Proceedings of the National Academy of Sciences of the United States of America, 110(19), 7550–7555. https://doi.org/10.1073/pnas.1300262110
Samo, T. J., Pedler, B. E., Ball, G. I., Pasulka, A. L., Taylor, A. G., Aluwihare, L. I., Azam, F., Goericke, R., & Landry, M. R. (2012). Microbial distribution and activity across a water mass frontal zone in the California Current Ecosystem. Journal of Plankton Research, 34(9), 802–814. https://doi.org/10.1093/plankt/fbs048
Ball, G. I., Xu, L., McNichol, A. P., & Aluwihare, L. I. (2012). A two-dimensional, heart-cutting preparative gas chromatograph facilitates highly resolved single-compound isolations with utility towards compound-specific natural abundance radiocarbon (C-14) analyses. Journal of Chromatography A, 1220, 122–131. https://doi.org/10.1016/j.chroma.2011.11.021
Gaston, C. J., Furutani, H., Guazzotti, S. A., Coffee, K. R., Bates, T. S., Quinn, P. K., Aluwihare, L. I., Mitchell, B. G., & Prather, K. A. (2011). Unique ocean-derived particles serve as a proxy for changes in ocean chemistry. Journal of Geophysical Research-Atmospheres, 116. https://doi.org/10.1029/2010jd015289
Beaupre, S. R., & Aluwihare, L. (2010). Constraining the 2-component model of marine dissolved organic radiocarbon. Deep-Sea Research Part Ii-Topical Studies in Oceanography, 57(16), 1494–1503. https://doi.org/10.1016/j.dsr2.2010.02.017
Hansman, R. L., Griffin, S., Watson, J. T., Druffel, E. R. M., Ingalls, A. E., Pearson, A., & Aluwihare, L. I. (2009). The radiocarbon signature of microorganisms in the mesopelagic ocean. Proceedings of the National Academy of Sciences of the United States of America, 106(16), 6513–6518. https://doi.org/10.1073/pnas.0810871106
Meador, T. B., Aluwihare, L. I., & Mahaffey, C. (2007). Isotopic heterogeneity and cycling of organic nitrogen in the oligotrophic ocean. Limnology and Oceanography, 52(3), 934–947.
McNichol, A. P., & Aluwihare, L. I. (2007). The power of radiocarbon in biogeochemical studies of the marine carbon cycle: Insights from studies of dissolved and particulate organic carbon (DOC and POC). Chemical Reviews, 107(2), 443–466. https://doi.org/10.1021/cr050374g
Ingalls, A. E., Shah, S. R., Hansman, R. L., Aluwihare, L. I., Santos, G. M., Druffel, E. R. M., & Pearson, A. (2006). Quantifying archaeal community autotrophy in the mesopelagic ocean using natural radiocarbon. Proceedings of the National Academy of Sciences of the United States of America, 103(17), 6442–6447. https://doi.org/10.1073/pnas.0510157103