Ochs, C. A. and Shields Jr, F. D. 2019. Fluxes of nutrients and primary production between the main channel and floodplain backwaters of the Lower Mississippi River—Development of a simulation model. River Research and Applications, 35(7), 979-988.

Shields, F.D., Coulton, K.G. and Nepf, H. 2017. Representation of vegetation in two-dimensional hydrodynamic models. Journal of Hydraulic Engineering. DOI: 10.1061/(ASCE) HY. 1943-7900.001320.

Surbeck, C. Q., Douglas Shields, F. and Cooper, A. M. 2016. Fecal indicator bacteria entrainment from streambed to water column: Transport by unsteady flow over a sand bed. Journal of environmental quality, 45(3), 1046-1053.

Knight, S.S. Shields Jr., F.D. 2014. Fish communities associated with a complex Mississippi stream system. International Journal of Ecological Science and Environmental Engineering, 1(3): 73-79.

Garbrecht, J. D., Nearing, M. A., Shields, F. D., Tomer, M. D., Salder, E. J., Bonta, J. V. and Baffaut, C. 2014. Impact of weather and climate scenarios on conservation assessment outcomes. Journal of Soil and Water Conservation, 69(5), 383-401.

Knight, S.S., Lizotte, R., and Shields, F.D. 2014. Effects of contaminated sediments on a backwater restoration project in the Mississippi River Delta. Journal of International Environmental Application and Science, 9(2), 231-237.

Shields, F. D., and Brooks, A. 2014. Stream restoration. In Reference Module in Earth Systems and Environmental Sciences, Elsevier. <http://www.sciencedirect.com/science/article/pii/B9780124095489090424> (April 29, 2014).

Murdock, J. N, Shields, F. D., Jr. and Lizotte, R.E., Jr. 2013. Periphyton responses to nutrient and atrazine mixtures introduced through agricultural runoff. Ecotoxicology 22:215-230.

Shields, F.D., Jr. Knight, S.S. 2013. Floodplain restoration with flood control: Fish habitat value of levee borrow pits. Ecological Engineering 53(2013) 217-227.

Lizotte, R. E., Jr., Shields, F. D., Jr., Knight, S. S., Cooper, C. M, Testa, S. III and Bryant, C. T. 2012. Effects of artificial flooding on water quality of a floodplain backwater. River Research and Applications 28(10): 1644-1657. DOI: 10.1002/rra.1553.

Knight, S.S., Shields, F. D., Jr., Smiley, P. C. 2012. Effects of channelization on fish biomass in river systems. Journal of Environmental Science and Engineering. A 1 (2012) 980-985.

Shields, F. D., Jr. and Alonso, C. V. 2012. Assessment of flow forces on large wood in rivers. Water Resources Research. DOI: 10.1029/2011WR011547

Doyle, M. W. and Shields, F. D., Jr. 2012. Compensatory mitigation for streams under the Clean Water Act: Reassessing science and redirecting policy. Journal of the American Water Resources Association (JAWRA) 48(3), 494-509. DOI: 10.1111/j.1752-1688.2011.00631.x

Shields, F. D., Jr. and Knight, S. S. 2011. Significance of riverine hypoxia for fish: The case of the Big Sunflower River, Mississippi. Journal of American Water Resources Association.48 (1): 170-186. Paper No. JAWRA-10-0164-P. DOI: 10.1111/j.1752-1688.2011.00606.x

Shields, F. D., Jr., Lizotte, R. E., Jr. and Knight, S. S. 2011. Spatial and temporal water quality variability in aquatic habitats of a cultivated floodplain. River Research and Applications.29(3): 313-329. DOI: 10.1002/rra.1596

Shields, F. D., Jr. 2010. Aquatic habitat bottom classification using ADCP. Journal of Hydraulic Engineering. 136 (5):336-342.

Shields, F. D., Jr. and Pearce, C. W. 2010. Control of agricultural nonpoint source pollution by natural wetland management. Journal of Environmental Science and Engineering. 4 (4):62-70.

Shields, F. D., Jr., Lizotte, R. E., Jr., Knight, S. S., Cooper, C. M. and Wilcox, D. L. 2010. The stream channel incision syndrome and water quality. Ecological Engineering. 36:78-90. DOI: 10.1016/j.ecoleng.2009.09.014.

Shields, F. D., Jr., Testa, S., III. and Cooper, C. M. 2009. Nitrogen and phosphorus levels in the Yazoo River Basin, Mississippi. Ecohydrology. 2 (3):270-278. DOI: 10.1002/eco.49.

Shields, F. D., Jr., Pezeshki, S. R., Wilson, G. V., Wu, W. and Dabney, S. M. 2008. Rehabilitation of an incised stream with plant materials: the dominance of geomorphic processes. Ecology and Society 13 (2): 54. [online] URL: http://www.ecologyandsociety.org/vol13/iss2/art54/

Shields, F. D., Jr. 2008. Effects of a regional channel stabilization project on suspended sediment yield. Journal of Soil and Water Conservation 63 (2):59-69.

Slate, L. O., Shields, F. D., Jr., Schwartz, J. S., Carpenter, D. D. and Freeman G. E. 2007. Engineering design standards for stream channel modification or restoration. Journal of Hydraulic Engineering 133 (10):1099-1185. DOI: 10.1061/(ASCE)0733-9429(2007)133:10(1099).

Shields, F. D., Jr., Knight, S. S. and Cooper, C. M. 2007. Can warmwater streams be rehabilitated using watershed-scale standard erosion control measures alone? Environmental Management. 40:62-79. DOI: 10.1007/s00267-006-0191-0.

Doyle, M. W., Shields, F. D., Jr., Boyd, K. F., Skidmore, P. B. and Dominick, D. 2007. Channel-forming discharge selection in river restoration design. Journal of Hydraulic Engineering. 133 (7):831-837. DOI: 10.1061/(ASCE)0733-9429(2007)133:7(831).

Shields, F. D., Jr., Knight, S. S. and Stofleth, J. M. 2006. Large wood addition for aquatic habitat rehabilitation in an incised, sand-bed stream, Little Topashaw Creek, Mississippi. River Research and Applications. 22 (7):803-817.

Wu, W., Shields, F. D., Jr., Bennett, S. J. and Wang, S. S. Y. 2005. A depth-averaged two-dimensional model for flow, sediment transport, and bed topography in curved channels with riparian vegetation. Water Resources Research. 41 (3): W03015. DOI: 10.1029/2004WR003730.

Shields, F. D., Jr., Morin, N. and Cooper, C. M. 2004. Large woody debris structures for sand bed channels. Journal of Hydraulic Engineering. 130 (3):208-217.

Shields, F. D., Jr., Copeland, R. R., Klingeman, P. C., Doyle, M. W. and Simon, A. 2003. Design for stream restoration. Journal of Hydraulic Engineering. 129 (3):575-584.

Shields, F. D., Jr., Simon, A. and Steffen, L. J. 2000. Reservoir effects on river channel migration. Environmental Conservation. 27 (1):54-66.

Shields, F. D., Jr., Knight, S. S. and Cooper, C. M. 1998. Rehabilitation of aquatic habitats in warmwater streams damaged by channel incision in Mississippi. Hydrobiologia. 382:63-86.

Shields, F. D., Jr. and Gippel, C. J. 1995. Prediction of effects of woody debris removal on flow resistance. Journal of Hydraulic Engineering. 121 (4):341-354.

Gore, J. A. and Shields, F. D., Jr. 1995. Can large rivers be restored? A focus on rehabilitation. Bioscience. 45 (3): 142-152.

Shields, F. D., Jr., Bowie, A. J. and Cooper, C. M. 1995. Control of streambank erosion due to bed degradation with vegetation and structure. Water Resources Bulletin. 31 (3):475-489.

Shields, F. D., Jr., Cooper, C. M. and Knight, S. S. 1995. Experiment in stream restoration. Journal of Hydraulic Engineering. 121 (6): 494-502.

Shields, F. D., Jr., Knight, S. S. and Cooper, C. M. 1994. Effects of channel incision on base flow stream habitats and fishes. Environmental Management. 18 (1):43-57.

Shields, F. D., Jr. and Gray, D. H. 1992. Effects of woody vegetation on sandy levee integrity. Water Resources Bulletin. 28 (5):917-931.

Shields, F. D., Jr. and Milhous, R. T. 1992. Sediment and aquatic habitat in river systems. Final Report, American Society of Civil Engineers Task Committee on Sediment Transport and Aquatic Habitat. Journal of Hydraulic Engineering. 118 (5):669-687.

Shields, F. D., Jr. 1991. Woody vegetation and riprap stability along the Sacramento river mile 84.5 to 119. Water Resources Bulletin. 27 (3):527-536.