Meile C, Porubsky WP, Walker RL, Payne K.  2010.  Natural attenuation of nitrogen loading from septic effluents: Spatial and environmental controls. Water research. 44:1399–1408.
Feller I.C., Lovelock C., McKee K., Berger U., Joye SB, Ball M..  2010.  Biocomplexity in Mangrove Ecosystems. Annual Review of Marine Science. 2:395-417.
Orcutt B.N., Joye SB, Kleindienst S., Knittel K., Ramette A., Reitz A., Samarkin V.A., Truede T., Boetius A..  2010.  Impact of natural oil and higher hydrocarbons on microbial diversity, distribution and activity in Gulf of Mexico cold seep sediments. Deep Sea Research. 10:doi:10.1016/j.dsr2.2010.05.014.
Bowles M.W., Samarkin V.A., Bowles K.L.M., Joye SB.  2010.  Weak coupling between sulfate reduction and the anaerobic oxidation of methane in methane-rich seafloor sediments in ex situ incubations. Geochimica et Cosmochimica Acta. 75:500-519.
Wankel S.D., Joye SB, Samarkin V.A., Shah S., Friderich G., Melas-Kryiazi J., Girguis P.R..  2010.  New constraints on diffusive methane fluxes and rates of anaerobic methane oxidation in a Gulf of Mexico brine pool through the use of a deep sea in situ mass spectrometer. Deep Sea Research. 10:doi:10.1016/j.dsr2.2010.05.009.
Bowles M.W., Joye SB.  2010.  High rates of denitrification and nitrate consumption in cold seep sediments. The ISME Journal. 5:565-567.
Burd AB, Jackson GA.  2009.  Particle Aggregation. Annual Review of Marine Science. 1(1):65-90.
Spencer RGM, Stubbins A, Hernes PJ, Baker A, Mopper K, Aufdenkampe AK, Dyda RY, Mwamba VL, Mangangu AM, Wabakanghanzi JN et al..  2009.  Photochemical degradation of dissolved organic matter and dissolved lignin phenols from the Congo River. Journal of Geophysical Research. 114(G3)
Boetius A., Joye SB.  2009.  Thriving in Salt: Life in hypersaline habitats. Science. 324
Joye SB, Samarkin VA, MacDonald IR, Hinrichs K-U, Elvert M, Teske AP, Lloyd KG, Lever MA, Montoya JP, Meile CD et al..  2009.  Metabolic variability in seafloor brines revealed by carbon and sulphur dynamics. Nature Geoscience. 2:349–354.