Scientific Publications

BIOS-SCOPE Publications

Blanco-Bercial, L. (2020). Metabarcoding analysis and seasonality of the zooplankton community at BATS. Frontiers in Marine Science 7: 173.

Buchholz, H.H., Michelsen, M.L., Allen, M.J. and Temperton, B., (2020). Efficient Dilution-to-Extinction isolation of novel virus-host model systems for fastidious heterotrophic bacteria. bioRxiv

Liu, S., Baetge, N., Comstock, J., Opalk, K., Parsons, R., Halewood, E., English, C.J., Giovannoni, S., Bolaños, L.M., Nelson, C.E. and Vergin, K., 2020. Stable isotope probing identifies bacterioplankton lineages capable of utilizing dissolved organic matter across a range of bioavailability. Frontiers in Microbiology 11: 2364.

Liu, S., Parsons, R., Opalk, K., Baetge, N., Giovannoni, S., Bolanos, L.M., Kujawinski, E.B., Longnecker, K., Lu, Y., Halewood, E., Carlson, C.A. (2020). Different carboxyl-rich alicyclic molecules proxy compounds select distinct bacterioplankton for oxidation of dissolved organic matter in the mesopelagic Sargasso Sea. Limnology and Oceanography 65(7): 1532-1553.

Maas, A.E., Liu, S., Bolaños, L.M., Widner, B., Parsons, R., Kujawinski, E.B., Blanco-Bercial, L. and Carlson, C.A., 2020. Migratory Zooplankton Excreta and Its Influence on Prokaryotic Communities. Frontiers in Marine Science

Saw, J.H.W., Nunoura, T., Hirai, M., Takaki, Y., Parsons, R., Michelsen, M., Longnecker, K., Kujawinski, E.B., Stepanauskas, R., Landry, Z., Carlson, C.A., and Giovannoni, S.J. (2020) Pangenomics reveal diversification of enzyme families and nich specialization in globally abundant SAR202 bacteria. mBio 11(1).

Wear, E.K., Carlson, C.A., Church, M.J. (2020). Bacterioplankton metabolism of phytoplankton lysates across a cyclone-anticyclone eddy dipole impacts the cycling of semi-labile matter in the photic zone. Limnology and Oceanography 65(7): 1608-1622.

McDonald, N., Achterberg, E.P., Carlson, C.A., Gledhill, M., Liu, S. Matheson-Barker, J.R., Nelson, N.B., Parsons, R.J. (2019). The role of heterotrophic bacteria and Archaea in the transformation of lignin in the open ocean. Frontiers in Marine Science 6:743.

Giovannoni, S.J., Halsey, K.H., Saw, J., Muslin, O., Suffridge, C., Sun, J., Lee, C., Moore, E.R., Temperton, B., and Noell, S. (2019). A parasitic arsenic cycle that shuttles energy from phytoplankton to heterotrophic baterioplankton. mBio 10(2)

Foreman, R.K., Bjorkman, K.M., Carlson, C.A., Opalk, K., and Karl, D.M. (2019) Improved ultraviolet photo-oxidation system yields estimates for deep-sea dissolved organic nitrogen and phosphorus. Limnol. Oceanogr.: Methods, 17(4): 277-291.

Johnson, W.M., Longnecker, K., Kido Soule, M.C., Arnold, W.A., Bhatia, M.P., Hallam, S.J., Van Mooy, B.A.S., and Kujawinski, E.B. (2019) Metabolite composition of sinking particles reflects a changing microbial community and differential metabolite degradation. Limnology and Oceanography 65(1): 111-127

Warwick-Dugdale, J., Holger, H.B., Allen, M.J., and Temperton, B. (2019) Host-hijacking and planktonic piracy: how phages command the microbial high seas. Virology Journal 16(1):15.

Warwick-Dugdale, J., Solonenko, N., Moore, K., Chittick, L., Gregory, AC., Allen, MJ., Sullivan, MB., and Temperton, B. (2019) Long-read viral metagenomics captures abundant and microdiverse viral populations and their niche-defining genomic islands. PeerJ 7:e6800.

White, A.E., Giovannoni, S.J., Zhao, Y., Vergi, K., and Carlson, C.A. (2019) Elemental content and stoichiometry of SAR11 chemoheterotrophic marine bacteria. Limnology and Oceanography Letters 4(2): 44-51.

Landry, Z.C., Vergin, K., Mannenbach, C., Block, S., Yang, Q., Blainey, P., Carlson, C., and Giovannnoni, S. (2018) Optofluidic single-cell genome amplification of sub-micron bacteria in the ocean subsurface. Front. Microbiol. 9:1152.

Maas, A.E., Blanco-Bercial, L., Lo, A., Tarrant, A.M., and Timmins-Schiffman, E. (2018) Variations in copepod proteome and respiration rate in association with diel vertical migration and circadian cycle. Biol. Bull. 235(1): 30-42.

Roux, S., et. al. (2018) Minimum information about an uncultivated virus genome. Nature Biotechnology 37(1): 29-37.

Giovannoni, SJ. (2017). SAR11 bacteria: the most abundant plankton in the oceans. Ann Rev Mar Sci 9: 231-55.

James, A.K., Passow, U., Brzezinski, M.A., Parsons, R.J., Trapani, J.N. and Carlson, C.A. (2017) Elevated pCO2 enhances bacterioplankton removal of organic carbonPloS One 12(3), p.e0173145.

Johnson, W.M., Kido Soule, M.C., and Kujawinski, E.B. (2017) Interpreting the impact of matrix on extraction efficiency and instrument response in a targeted metabolomics method. Limnol. Oceanogr. Methods 15(4): 417-428.

Landry, Z., Swan, B.K., Herndl, G.J., Stepanauskas, R., and Giovannoni, S.J. (2017) SAR202 genomes from the dark ocean predict pathways for the oxidation of recalcitrant dissolved organic matter. mBio 8(2) doi:10.1128/mBio.00413-17.

Vergin, K.L., Jhirad, N., Dodge, J., Carlson, C.A., and Giovannoni, S.J. (2017) Marine bacterioplankton consortia follow deterministic, non-neutral community assembly rules. Aquat. Microb. Ecol. 79(2): 165-175.

Motivating Studies for BIOS-SCOPE
Carlson, C.A., Morris, R., Parsons, R., Treusch, A.H., Giovannoni, S.J., Vergin, K. (2009) Seasonal dynamics of SAR11 populations in the euphotic and mesopelagic zones of the northwestern Sargasso SeaThe ISME Journal 3: 283-295.

Carlson, C.A., Giovannoni, S.J., Hansell, D.A., Goldberg, S.J., Parsons, R., and Vergin K. (2004) Interactions among dissolved organic carbon, microbial processes, and community structure in the mesopelagic zone of the northwestern Sargasso Sea. Limnol. Oceanogr. 49(4): 1073-1083.

Carlson, C.A., Giovannoni, S.J., Hansell, D.A., Goldberg, S.J., Parsons, R., Otero, M.P., Vergin, K., and Wheeler, B.R. (2002) Effect of nutrient amendments on bacterioplankton production, community structure, and DOC utilization in the northwestern Sargasso Sea. Aquatic Microbial Ecology 30: 19-36.

Giovannoni, S., Vergin, K. and Carlson, C. (2014). Twenty-five years of omics at BATS. OCB News 7(1): 1-6.

Giovannoni, S.J. and Vergin, K.L. (2012) Seasonality in ocean microbial communities. Science 335: 671-676.

Giovannoni, S.J., Bibbs, L., Cho, J-C., Stapels, M.D., Desiderio, R., Vergin, K.L., Rappe, M.S., Laney, S., Wilhelm, L.J., Tripp, H.J., Mathur, E.J., Barofsky, D.F. (2005) Proteorhodopsin in the ubiquitous marine bacterium SAR11Nature 438(3): 82-85

Giovannoni, S.J., Tripp, H.J., Givan, S., Podar, M., Vergin, K.L., Baptista, D., Bibbs, L., Eads, J., Richardson, T.H., Noordewier, M., Rappe, M.S., Short, J.M., Carrington, J.C., Mathur, E.J. (2005) Genome streamlining in a cosmopolitan oceanic bacteriumScience 309: 1242-1245

Giovannoni, S. (2004) Oceans of bacteriaNature 430: 515-516

Goldberg, S.J., Carlson, C.A., Hansell, D.A., Nelson, N.B. and Siegel, D.A. (2009) Temporal dynamics of dissolved combined neutral sugars and the quality of dissolved organic matter in the Northwest Sargasso Sea. Deep-Sea Research I 56: 672-685.

Kujawinski EB, Longnecker K, Barott KL, Weber RJM, and Kido Soule MC. (2016) Microbial community structure affects marine dissolved organic matter composition. Frontiers in Marine Science 3: 1-15

Kujawinski EB (2011) The impact of microbial metabolism on marine dissolved organic matter. Annu Rev Mar Sci 3: 567-599.

Kujawinski EB, Longnecker K, Blough NV, Del Vecchio R, Finlay L, Kitner JB, and Giovannoni SJ. (2009) Identification of possible source markers in marine dissolved organic matter using ultrahigh resolution mass spectrometry. Geochim Cosmochim Acta 73: 4384-4399.

Kujawinski EB. (2002) Electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry (ESI FT-ICR MS): characterization of complex environmental mixtures. Environmental Forensics 3: 207-216.

Morris, R.M., Rappe, M.S., Urbach, E., Connon, S.A., and Giovannoni, S.J. (2004) Prevalence of the Chlorfexi-related SAR202 bacterioplankton cluster throughout the mesopelagic zone and deep ocean. Applied and Environmental Microbiology 70(5): 2836-2842.

Morris, R.M., Rappe, M.S., Connon, S.A., Vergin, K.L., Siebold, W.A., Carlson, C.A., Giovannoni, S.J. (2002) SAR11 clade dominates ocean surface bacterioplankton communitiesNature 420: 806-810

Nelson, C.E., Carlson, C.A., Ewart, C.S., and Halewood, E.R. (2013) Community differentiation and population enrichment of Sargasso Sea bacterioplankton in the euphotic zone of a mesoscale mode-water eddy. Environmental Microbiology 16(3): 871-887. doi:10.1111/1462-2920.12241

Parsons, R.J., Breitbart, M., Lomas, M.W., Carlson, C. (2011) Ocean time-series reveals recurring seasonal patterns of virioplankton dynamics in the northwestern Sargasso SeaThe ISME Journal (August): 1-12.

Truesch, A.H., Demir-Hilton, E., Vergin, K.L., Worden, A.Z., Carlson, C.A., Donatz, M.G., Burton, R.M., and Giovannoni, S.J. (2012). Phytoplankton distribution patterns in the northwestern Sargasso Sea revealed by small subunit rRNA genes from plastids. The ISME Journal 6: 481-492.

Truesch, A.H., Vergin, K.L., Finlay, L.A., Donatz, M.G., Burton, R.M., Carlson, C.A. and Giovannoni, S.J. (2009) Seasonality and vertical structure of microbial communities in an ocean gyre. The ISME Journal 3(10): 1-16.

Vergin, K.L., Beszteri, B., Monier, A., Thrash, J.C., Temperton, B., Treusch, A.H., Kilpert, F., Worden, A.Z., and Giovannoni, S.J. (2013) High-resolution SAR11 ecotype dynamics at the Bermuda Atlantic Time-series Study site by phylogenetic placement of pyrosequences. The ISME Journal 7: 1322-1332.

Vergin, K.L., Done, B., Carlson, C.A. and Giovannoni, S.J. (2013) Spatiotemporal distributions of rare bacterioplankton populations indicate adaptive strategies in the oligotrophic ocean. Aquatic Microbial Ecology 71: 1-13.