Wells RDJ, Harper JO, Rooker JR, Landry AM, Dellapenna TM (2009)  Fish assemblage structure on a drowned barrier island in the northwestern Gulf of Mexico. Hydrobiologia 625:207221 [PDF]

Rooker JR, Secor DH, DeMetrio G, Schloesser R, Block BA, Neilson JD (2008) Natal homing and connectivity in Atlantic bluefin tuna populations. Science 322: 742-744 [PDF]

Rooker JR, Secor DH, DeMetrio G, Kaufman, JA, Belmonte Rios A, Ticina A (2008) Evidence of trans-Atlantic mixing and natal homing of bluefin tuna. Marine Ecology Progress Series 368: 231-239 [PDF]

Glass LA, Rooker JR, Kraus RT, Holt GJ (2008). Distribution, condition, and growth of newly settled southern flounder (Paralichthys lethostigma) in the Galveston Bay Estuary, Texas. Journal of Sea Research 59: 259-268 [PDF]

Mikulas JJ, Rooker JR (2008). Habitat use, growth, and mortality of post-settlement lane snapper (Lutjanus synagris) on natural banks in the northwestern Gulf of Mexico. Fisheries Research 93: 77-84 [PDF]

Beck JL, Rooker JR (2008) The impact of habitat exposure and ontogeny on the survival skills of hatchery red drum, Sciaenops ocellatus (Linnaeus) North American Journal of Aquaculture [PDF]

Geary BW, Mikulas JJ G, Rooker JR, Landry AM (2007) Patterns of habitat use by newly settled red snapper in the northwestern Gulf of Mexico. In Patterson WF, Cowan, JH, Fitzhugh GR, Nieland DL (eds.). Red snapper ecology and fisheries in the U.S. Gulf of Mexico. American Fisheries Society Special Publication 60 [PDF]

Rooker JR, Alvarado Bremer JR, Block BA, Dewar H, De Metrio G, Kraus RT, Prince ED, Rodriquez-Marin E, Secor DH (2007). Life history and stock structure of Atlantic bluefin tuna (Thunnus thynnus). Reviews in Fisheries Science 15(4):265-310 [PDF]

Kraus RT, Rooker JR (2007). Patterns of vertical habitat use by Atlantic blue marlin (Makaira nigricans) in the Gulf of Mexico. Gulf and Caribbean Research 19: 89-97

Cai Y, Rooker JR, Gill G, Turner JP (2007) Bioaccumulation of mercury in pelagic fishes from the Gulf of Mexico: evaluating links to dietary history and trophic position using stable isotopes and fatty acids. Canadian Journal of Fisheries and Aquatic Sciences 64: 458-469 [PDF]

Turner JP, Rooker JR (2006) Fatty acid composition of flora and fauna associated with Sargassum mats in the Gulf of Mexico. Marine Biology 149: 1025-1036 [PDF]

Rooker JR, Secor DH, De Metrio, Rodrquez-Marn E, A. and Fenech Farrugia (2006) Evaluation of population structure and mixing rates of Atlantic bluefin tuna from chemical signatures in otoliths. ICCAT Collective Volume of Scientific Papers 59(3): 813-818

Rooker JR, Turner JP, Holt SA (2006) Trophic ecology of Sargassum-associated fishes in the Gulf of Mexico determined from stable isotope and fatty acid analysis. Marine Ecology Progress Series 313: 249-259 [PDF]

Turner JP, Rooker JR (2005) Effect of diet on fatty acid compositions in Sciaenops ocellatus. Journal of Fish Biology 67: 1119-1138 [PDF]

Turner JP, Rooker JR (2005) Effect of dietary fatty acids on the body tissues of larval and juvenile cobia and their prey. Journal of Experimental Marine Biology and Ecology 322: 13-27 [PDF]

Rooker JR, Secor DH (eds.) (2005) Connectivity in the life cycles of fishes and invertebrates that use estuaries. Estuarine, Coastal and Shelf Science 64: 1-148

Secor DH, Rooker JR (2005) Connectivity in the life histories of fishes that use estuaries. Estuarine, Coastal and Shelf Science 64: 1-3

Rooker JR, Kraus R, Secor DH (2004) Dispersive behaviors of black drum and red drum: is otolith Sr:Ca a reliable indicator of salinity history? Estuaries 27: 334-441 [PDF]

Rooker JR, Landry AM, Geary BW, Harper JA (2004) Assessment of a bathymetric high and associated habitats as nursery grounds of postsettlement red snapper. Estuarine, Coastal and Shelf Science 59: 653-661 [PDF]

Wells RJD, Rooker JR (2004) Distribution, age, and growth of young-of-the year greater amberjack, Seriola dumerili, associated with pelagic Sargassum. Fishery Bulletin 102:545-554 [PDF]

Wells RJD, Rooker JR (2004) Spatial and temporal habitat use by fishes associated with Sargassum mats in the NW Gulf of Mexico. Bulletin of Marine Science 74: 81-99 [PDF]

Rooker JR, Secor DH, Zdanowicz VS, DeMetrio, Relini LO (2003) Identification of Atlantic bluefin tuna stocks from putative nurseries using otolith chemistry. Fisheries Oceanography 12: 75-84 [PDF]

Secor DH, Campana SE, Zdanowicz VS, Lam JWH, McLaren JW, Rooker JR (2002) Inter-laboratory comparison of Atlantic and Mediterranean bluefin tuna otolith microconstituents. ICES Journal of Marine Science 59:1294-1304 [PDF]

Rooker JR, Secor DH, Zdanowicz VS, Relini LO, Santamaria N, Deflorio M, Palandri, Relini M (2002) Otolith elemental fingerprints of Atlantic bluefin tuna from eastern and western nurseries. ICCAT Collective Volume of Scientific Papers 54: 498-506

Johnson MW, Rooker, JR, HoltJ, Gatlin D (2002) Effects of variable ration levels on direct and indirect measures of growth in juvenile red drum. Journal of Experimental Marine Biology and Ecology 274: 141-157

Rooker JR, Secor DH, Zdanowicz VS, Itoh T (2001) Discrimination of northern bluefin tuna from nursery areas in the Pacific Ocean using otolith chemistry. Marine Ecology Progress Series 218: 275-282 [PDF]

Rooker JR, Zdanowicz VS, Secor DH. (2001) Chemistry of tuna otoliths: assessment of base composition and post-mortem handling effects. Marine Biology 139: 35-43 [PDF]

Secor DH, Rooker JR, Zlokovitz E, Zdanowicz VS (2001) Identification of riverine, estuarine, and coastal contingents of Hudson River striped bass based upon otolith elemental fingerprints. Marine Ecology Progress Series 211: 245-253 [PDF]

Geary BW, Rooker JR, Webb JW (2001) Utilization of salt marsh shorelines by newly settled scieanids in a Texas estuary. Gulf and Caribbean Research 13: 37-49

Secor DH, Rooker JR (2000) Is otolith strontium a useful scalar of life-cycles in estuarine fishes? Fisheries Research 1032: 1-14 [PDF]

Rooker JR, Holt SA, Holt GJ, Fuiman LA (1999) Spatial and temporal variability in growth, mortality, and recruitment potential of post-settlement red drum (Sciaenops ocellatus). Fishery Bulletin 97: 581-590 [PDF]

Rooker JR, Holt SA, Soto MA, Holt GJ (1998) Post-settlement patterns of habitat use by sciaenid fishes in subtropical seagrass meadows. Estuaries 21: 315-324 [PDF]

Rooker JR, Holt gJ, Holt SA (1998) Vulnerability of newly settled red drum (Sciaenops ocellatus) to predatory fish: is early-life survival enhanced by seagrass meadows? Marine Biology 131: 145-151 [PDF]

Soto MA, Holt GJ, Holt SA, Rooker JR (1998) Food habits and dietary overlap of newly settled red drum (Sciaenops ocellatus) and Atlantic croaker (Micropogonias undulatus). Gulf Research Reports 10: 41-56

Rooker JR, Holt SA (1997) Utilization of subtropical seagrass meadows by newly settled red drum (Sciaenops ocellatus): patterns of distribution and growth. Marine Ecology Progress Series 158: 139-149

Rooker JR, Holt GJ, Holt SA (1997) Condition of larval and juvenile red drum (Sciaenops ocellatus) from estuarine nursery habitats. Marine Biology 127: 387-394 [PDF]

Rooker JR, Dokken QR, Pattengill CV, Holt GJ (1997) Fish assemblages on artificial and natural reefs in the Flower Garden Banks National Marine Sanctuary, U.S.A. Coral Reefs 16: 83-92 [PDF]

Rooker JR, Holt GJ (1996) Application of RNA:DNA ratios to evaluate the condition and growth of larval and early juvenile red drum (Sciaenops ocellatus). Marine and Freshwater Research 47: 283-290

Rooker JR, Dennis GD, Goulet D (1996) Sampling larval fishes with a nightlight lift-net device in tropical inshore waters. Fisheries Research 26: 1-15

Rooker JR (1995) Feeding ecology of the schoolmaster snapper, Lutjanus apodus (Walbaum), from southwestern Puerto Rico. Bulletin of Marine Science 56: 886-899