Castelao RM, Barth JA.  2006.  The Relative Importance of Wind Strength and Along-Shelf Bathymetric Variations on the Separation of a Coastal Upwelling Jet. Journal of Physical Oceanography. 36:412-425.
Howard E.C., Henricksen J.R., Buchan A., Reisch C.R., Burgmann B., Welsh R., Ye W., Gonzalez J.M., Joye SB, Keine R.P. et al..  2006.  Bacterial taxa that limit sulfur flux from the ocean. Science. 314:649-652.
Meile C, Tuncay K.  2006.  Scale dependence of reaction rates in porous media. Advances in water resources. 29:62–71.
Moore W.S., Blanton J., Joye SB.  2006.  Estimates of flushing times, submarine groundwater discharge, and nutrient fluxes to Okatee Estuary, South Carolina. Journal of Geophysical Research. 111:No.C9,C09006,10.1029/2005JC003041.
Barth J.A.  2005.  Time-dependent, wind-driven flow over a shallow midshelf submarine bank. Journal of Geophysical Research. 110(C10)
Castelao RM, Barth JA, Mavor TP.  2005.  Flow-topography interactions in the northern California Current System observed from geostationary satellite data. Geophysical Research Letters. 32(24)
Magalhães C.M., Wiebe W.J., Joye SB, Bordalo A.A..  2005.  Nitrogen cycle dynamics and processes in intertidal rocky biofilms and adjacent sediment of the Douro River estuary (Portugal). Estuaries. 28(4):592-607.
Hollibaugh JT, Carini S, Gürleyük H, Jellison R, Joye SB, LeCleir G, Meile C, Vasquez L, Wallschläger D.  2005.  Arsenic speciation in Mono Lake, California: Response to seasonal stratification and anoxia. Geochimica et Cosmochimica Acta. 69:1925–1937.
Weston N.B., Joye SB.  2005.  Temperature driven accumulation of labile dissolved organic carbon in marine sediments. Proceedings of the National Academy of Sciences (US). 102:17036-17040.