Publications
111. Wang, Y-H., B.I. Ruttenberg, R.K. Walker, F. Pendleton, J.F. Samhouri, O.R. Liu, C. White. In press. High resolution assessment of commercial fisheries activity along the US West Coast using Vessel Monitoring System data with a case study using California groundfish fisheries. PLoS One.
110. Samhouri, J.F., B.E. Feist, M. Jacox, O.R. Liu, K. Richerson, E. Steiner, J. Wallace, K. Andrews, L. Barnett, A. Beaudreau, L. Bellquist, M. Pozo Buil, M.A. Haltuch, A. Harley, C.J. Harvey, I. Kaplan, K. Norman, A. Phillips, L. Rasmuson, E. Ward, C. Whitmire, R.L. Selden. 2024. Stay or go? Geographic variation in risks due to climate change for fishing fleets that adapt in-place or adapt on-the-move. PLoS Climate.
109. Riekkola, L., O. R. Liu, E. J. Ward, D. S. Holland, B. E. Feist, and J. F. Samhouri. 2024. Modeling the spatiotemporal patterns and drivers of Dungeness crab fishing effort to inform whale entanglement risk mitigation on the U.S. West Coast. Journal of Environmental Management 351:119735.
108. Welch, H., O.R. Liu, L. Riekkola, B. Abrahms, E.L. Hazen, J.F. Samhouri. 2024. Designing dynamic management strategies to reduce human-wildlife conflict. Conservation Biology.
107. Free, C.M., L.F. Bellquist, K.A. Forney, J. Humberstone, K. Kauer, Q. Lee, O.R. Liu, J.F. Samhouri, J.R. Wilson, D. Bradley. 2023. Static management presents a simple solution to a dynamic fishery and conservation challenge. Biological Conservation.
106. Mason, J.G., S.J. Weisberg, J.L. Morano, R.D. Bell, M. Fitchett, R.B. Griffis, E.L. Hazen, W.D. Heyman, K. Holsman, K.M. Kleisner, K. Westfall, M.K. Conrad, M. Daly, A.S. Golden, C.J. Harvey, L.A. Kerr, G. Kirchner, A.Levine, R. Lewison, S.M. Lucey, W. Morrison, B. Muffley, J.F. Samhouri, M. Seeley, S.K. Shotwell, D.L. Stram. 2023. Linking knowledge and action for climate-ready fisheries: emerging best practices. Marine Policy.
105. Liu, O. R., E. J. Ward, S. C. Anderson, K. S. Andrews, L. A. K. Barnett, S. Brodie, G. Carroll, J. Fiechter, M. A. Haltuch, C. J. Harvey, E. L. Hazen, P.-Y. Hernvann, M. Jacox, I. C. Kaplan, S. Matson, K. Norman, M. Pozo Buil, R. L. Selden, A. Shelton, and J. F. Samhouri. 2023. Species redistribution creates unequal outcomes for multispecies fisheries under projected climate change. Science Advances 9:eadg5468.
104. Riekkola, L., O.R. Liu, B. Feist, K. Forney, B. Abrahms, E. Hazen, J.F. Samhouri. 2023. Retrospective analysis of measures to reduce large whale entanglements in a lucrative commercial fishery. Biological Conservation. https://doi.org/10.1016/j.biocon.2022.109880
103. McClure, M., M. Haltuch, E. Willis-Norton, E. Hazen, L.G. Crozier, M. Jacox, M.W. Nelson, K. Andrews, L. Barnett, A.M. Berger, S. Beyer, J. Bizzarro, D. Boughton, J.M. Cope, M.H. Carr, H. Dewar, E. Dick, E. Dorval, J. Dunham, V. Gertseva, C. Greene, R.G. Gustafson, O.S. Hamel, C. Harvey, M.J. Henderson, D.D. Huff, C.E. Jordan, I.C. Kaplan, S. Lindley, N. Mantua, S.E. Matson, M.H. Monk, P. Moyle, C. Nicol, J. Pohl, R. Rykaczewski, J.F. Samhouri, S. Sogard, N. Tolimieri, J.R. Wallace, C. Wetzel, and S.J. Bograd. 2023. Vulnerability to climate change of managed stocks in the California Current large marine ecosystem. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2023.1103767
102. Samhouri, J. F., A. O. Shelton, G. D. Williams, B. E. Feist, S. Hennessey, K. K. Bartz, R.P. Kelly, J. L. O'Donnell, M. B. Sheer, A.C. Stier, P. S. Levin. 2022. How much city is too much city? Biodiversity and ecosystem functioning along an urban gradient. Frontiers in Marine Science 9. https://www.frontiersin.org/articles/10.3389/fmars.2022.931319
101. Liu, O.R., M. Fisher, B.E. Feist, B. Abrahms, K. Richerson, J.F. Samhouri. 2023. Mobility and flexibility enable resilience of human harvesters to environmental perturbation. Global Environmental Change. https://doi.org/10.1016/j.gloenvcha.2022.102629
100. Tolimieri, N., A.O. Shelton, J.F. Samhouri, C.J. Harvey, B. Feist, G.D. Williams, K. Andrews, K. Frick, S. Lonhart, O. Liu, H. Berry, J. Waddell. 2023. Response of kelp forest communities along the coast of Washington, USA to the 2014-2016 marine heatwave and sea star wasting syndrome. Marine Ecology Progress Series. https://www.int-res.com/abstracts/meps/v703/p47-66/
99. Brodie, S., J. A. Smith, B. A. Muhling, L. A. K. Barnett, G. Carroll, P. Fiedler, S. J. Bograd, E. L. Hazen, M. G. Jacox, K. S. Andrews, C. L. Barnes, L. G. Crozier, J. Fiechter, A. Fredston, M. A. Haltuch, C. J. Harvey, E. Holmes, M. A. Karp, O. R. Liu, M. J. Malick, M. Pozo Buil, K. Richerson, C. N. Rooper, J.F. Samhouri, R. Seary, R. L. Selden, A. R. Thompson, D. Tommasi, E. J. Ward, and I. C. Kaplan. In press. Recommendations for quantifying and reducing uncertainty in climate projections of species distributions. Global Change Biology. doi: 10.1111/gcb.16371
98. Johnson, C.J., J.R. Hale, M.T. Tinker, E.U. Foster, J.F. Samhouri, A.O. Shelton, K.L. Laidre. 2023. Rapid kelp crab consumption: implications for Washington state sea otters. Northwestern Naturalist. https://doi.org/10.1898/NWN20-07
97. Karp, M., S. Brodie, J. Smith, K. Richerson, R. Selden, O. Liu, B. Muhling, J.F. Samhouri, L. Barnett, E. Hazen, D. Ovando, J. Fiechter, M. Jacox, M. Pozo Buil. In press. Projecting species distributions using fishery-dependent data. Fish and Fisheries. https://doi.org/10.1111/faf.12711
96. Koehn, L.E., L.K. Nelson, J.F. Samhouri, K. Norman, M. Jacox, A. Cullen, J. Feichter, M. Pozo, P.S. Levin. 2022. Social-ecological vulnerability of fishing communities to climate change: a US West Coast case study. PLoS One 17(8): e0272120. https:// doi.org/10.1371/journal.pone.0272120
95. Stier, A. C., T. E. Essington, J. F. Samhouri, B. S. Halpern, C. White, J. Lynham, A. Salomon, P. S. Levin. 2022. Avoiding critical thresholds through effective monitoring. Proceedings of the Royal Society B 289: 20220526. https://doi.org/10.1098/rspb.2022.0526
94. Ettinger, A. K., C. J. Harvey, C. Emmons, M. B. Hanson, E. J. Ward, J. K. Olson, and J. F. Samhouri. 2022. Shifting phenology of an endangered apex predator mirrors changes in its favored prey. Endangered Species Research 48:211–223.
93. Francis, T.B., G.H. Sullaway, E. Chui, C. Daley, B.E. Feist, K.E. Frick, A.O. Shelton, N. Tolimieri, G.D. Williams, J.F. Samhouri. 2022. Equivocal associations between small-scale shoreline restoration and subtidal fishes in an urban estuary. Restoration Ecology. https://doi.org/10.1111/rec.13652
92. Frick, K.E., A.N. Kagley, K.L. Fresh, J.F. Samhouri, L.S. Ward, A.O. Shelton. 2022. Spatio-temporal variation and habitat perturbation response in a nearshore forage fish community. Marine and Coastal Fisheries 14(2): e10202. https://10.1002/mcf2.10202
91. Nomura, K., J.F. Samhouri, A.F. Johnson, A. Giron, J.R. Watson. 2022. Fisheries connectivity measures of adaptive capacity in small-scale fisheries. ICES Journal of Marine Science 79(2): 519-531.
90. Samhouri, J. F., B. E. Feist, M. C. Fisher, O. Liu, S. Woodman, B. Abrahms, K. A. Forney, E. L. Hazen, D. Lawson, J. Redfern, L. E. Saez. 2021. Marine heatwave challenges solutions to human-wildlife conflict. Proceedings of the Royal Society B 288(1964): 20211607. https://doi.org/10.1098/rspb.2021.1607 [Featured in 2022 NOAA Science Report]
89. Wood, C., L. Lora, A. Greene, L. Lam, B. Basnett, S.L. Hamilton, J.F. Samhouri. 2021. The weaker sex: male lingcod (Ophiodon elongatus) with blue color polymorphism are more burdened by parasites than are other sex–color combinations. PLoS One 16(12):e0261202. DOI: 10.1371/journal.pone.0261202
88. Sullaway, G., A.O. Shelton, J.F. Samhouri. 2021. Climate induced synchrony erodes spatial portfolios of an anadromous fish and alters availability for resource users. Journal of Animal Ecology 90(11): 2692-2703.
87. Galloway, A.W.E., A.H. Beaudreau, M.D. Thomas, B.L. Basnett, L.S. Lam, S.L. Hamilton, K.S. Andrews, J.B. Schram, J. Watson, J.F. Samhouri. 2021. Why so blue? Assessing drivers of blue-colored flesh in lingcod (Ophiodon elongatus). Marine Biology 168(9): 139.
86. Samhouri, J. F. and A.C. Stier. 2021. Ecological impacts of an invasive mesopredator do not differ from those of a native mesopredator: lionfish in Caribbean Panama. Coral Reefs 40(5): 1593-1600. doi: 10.1007/s00338-021-02132-8
85. Lam, L.S., B. Basnett, M.A. Haltuch, J. Cope, K. Andrews, K.M. Nichols, G.C. Longo, J.F. Samhouri, S.L. Hamilton. 2021. Geographic variability in lingcod (Ophiodon elongatus) life-history and demography along the U.S. West Coast: oceanographic drivers and management implications. Marine Ecology Progress Series 670: 203-222.
84. Hausner, A., J.F. Samhouri, E.L.Hazen, D. Delgerjargal, B. Abrahms. 2021. Tradeoffs in dynamic ocean management strategies to reduce ship strikes to large whales. Marine Policy 130: 104565.
83. Fisher, M.C., S.K. Moore, S. Jardine, J. Watson, J.F. Samhouri. 2021. Climate shock effects and mediation in fisheries. Proceedings of the National Academy of Sciences USA 118 (2) e2014379117. https://doi.org/10.1073/pnas.2014379117
82. Feist, B.E., J.F. Samhouri, K.A. Forney, L.A. Saez. 2021. Footprints of fixed gear fisheries in relation to rising whale entanglements on the U.S. West Coast. Fisheries Management and Ecology 28(3): 283-294. DOI: 10.1111/fme.12478
81. Dunn, R., J.F. Samhouri, M. Baskett. 2021. Transient dynamics during kelp forest recovery from fishing across multiple trophic levels. Ecological Applications 31(6): e02367.
80. Barceló, C., R.D. Brodeur, L. Ciannelli, E.A. Daly, C.M. Risien, G.S. Saldías, J.F. Samhouri. 2021. Time-varying epipelagic community seascapes: assessing and predicting species composition in the northeastern Pacific Ocean. Frontiers in Marine Science. Research Topic: Marine Biodiversity Observation Network. https://www.frontiersin.org/articles/10.3389/fmars.2021.586677/full
79. Bastille, K., S. Hardison, L. DeWitt, J. Brown, J.F. Samhouri, S. Gaichas, S. Lucey, K. Kearney, B. Best, S. Cross, S. Large, E. Spooner. 2021. Improving the IEA approach using principles of open data science. Coastal Management 49(1):72-89. https://doi.org/10.1080/08920753.2021.1846155
78. Spooner, E., M. Karnauskas, C.J. Harvey, C.R. Kelble, J.M. Rosellon-Druker, S. Kasperski, S. Lucey, K.S. Andrews, S. Gittings, J.H. Moss, J. Gove, J.F. Samhouri, R. Allee, S. J. Bograd, M.E. Monaco, P. Clay, L.A. Rogers, A.R. Marshak, S. Wongbusarakum, K. Broughton, and P.D. Lynch. 2021. Using integrated ecosystem assessments to build resilient ecosystems, communities, and economies. Coastal Management 49(1): 26-45.
77. Munsch, S.H., K.S. Andrews, L.G. Crozier, R. Fonner, J.L. Gosselin, C.M. Greene, C.J. Harvey, J. Lundin, G.R. Pess, J.F. Samhouri, W.H. Satterthwaite. 2020. Potential for ecological thresholds to inform Pacific salmon management. Ecosphere 11(12):e03302. 10.1002/ecs2.3302.
76. Stier, A. C., A. O. Shelton, J. F. Samhouri, B. E. Feist, P. S. Levin. 2020. Fishing, environment, and the erosion of a population portfolio. Ecosphere 11(11):e03283. 10.1002/ecs2.3283
75. Good, T.P., J.F. Samhouri, B.E. Feist, C. Wilcox, J. Jahnke. 2020. Plastics in the Pacific: assessing risk from ocean debris for marine birds in the California Current Large Marine Ecosystem. Biological Conservation 250: 108743.
74. Lester, S.E., A. Rassweiler, S.J. McCoy, M. Donovan, A. Dubel, M.M. Miller, S.D. Miller, B.I. Ruttenberg, J.F. Samhouri, M.E. Hay. 2020. Caribbean reefs of the Anthropocene: variance in ecosystem metrics indicate bright spots on coral depauperate reefs. Global Change Biology 26: 4785-4799. doi:10.1111/gcb.15253
73. Longo, G.C., L. Lam, B. Brown, J.F. Samhouri, S.L. Hamilton, K. Andrews, G. Williams, M. McClure, K.M. Nichols. 2020. Strong population differentiation in lingcod (Ophiodon elongatus) is driven by a small portion of the genome. Evolutionary Applications 13(10): 2536-2554.
72. Jardine, S., M. Fisher, S. Moore, J.F. Samhouri. 2020. Inequality in the economic impacts from climate shocks in fisheries: the case of harmful algal blooms. Ecological Economics 176: 106691.
71. Dundas, S.J., A.S. Levine, R.L. Lewison, J.F. Samhouri, C. White, A.W.E. Galloway, E.L. Hazen, A. Spalding, A. Stier, A. Doerr, C. Garza, T. Hill, J. Padilla-Gamino, J.W. White. 2020. Integrating oceans into climate policy: any green new deal needs a splash of blue. Conservation Letters: e12716.
70. Harvey, C.J., J.L. Fisher, J.F. Samhouri, G.D. Williams, T.B. Francis, K.C. Jacobson, Y.L. deReynier, M.E. Hunsicker, N. Garfield. 2020. The importance of long-term ecological time series for integrated ecosystem assessment and ecosystem-based management. Progress in Oceanography: 102418.
69. Fiorenza, E.A., C.A. Wendt, K.A. Dobkowski, T.L. King, M. Pappaionou, P. Rabinowitz, J.F. Samhouri, C.L. Wood. 2020. It’s a wormy world: Meta-analysis reveals several decades of change in the global abundance of the parasitic nematodes Anisakis spp. and Pseudoterranova spp. in marine fishes and invertebrates. Global Change Biology 26(5): 2854-2866. http://dx.doi.org/10.1111/gcb.15048
68. Selden, R.L., J.T. Thorson, J.F. Samhouri, S.J. Bograd, S. Brodie, G. Carroll, M.A. Haltuch, E.L. Hazen, K.K. Holsman, M.L. Pinsky, N. Tolimieri, E. Willis-Norton. 2020. Coupled changes in biomass and distribution drive trends in availability of fish stocks to US west coast ports. ICES Journal of Marine Science 77(1): 188-199. doi:10.1093/icesjms/fsz211
67. Okamoto, D. K., M. Hessing-Lewis, J. F. Samhouri, A. O. Shelton, A. C. Stier, P. S. Levin, A. Salomon. 2020. Spatial variation in exploited metapopulations obscures risk of collapse. Ecological Applications 30(3): e02051.
66. Brodie, S., J. Thorson, G. Carroll, E. Hazen, S. Bograd, M. Haltuch, K. Holsman, S. Kotwicki, J.F. Samhouri, E. Willis-Norton, R. Selden. 2020. Trade-offs in covariate selection for species distribution models: a methodological comparison. Ecography 43(1): 11-24. https://doi.org/10.1111/ecog.04707
65. Arkema, K.K., L.A. Rogers, J. Toft, A. Mesher, K.H. Wyatt, S. Albury-Smith, S. Moultrie, M.H. Ruckelshaus, J.F. Samhouri. (2019). Integrating fisheries management into sustainable development planning. Ecology and Society, 24(2): 1.
64. Satterthwaite, W.H., K.S. Andrews, B.J. Burke, J.L. Gosselin, C.M. Greene, C.J. Harvey, S.H. Munsch, M.R. O’Farrell, J.F. Samhouri, K.L. Sobocinski. 2019. Ecological thresholds in forecast performance for key United States West Coast Chinook salmon stocks. ICES Journal of Marine Science 77(4): 1503-1515. https://doi.org/10.1093/icesjms/fsz189
63. Hodgson, E.E., T.E. Essington, J.F. Samhouri, E.H. Allison, N.J. Bennett, A. Bostrom, A.C. Cullen, S. Kasperski, P.S. Levin, M.R. Poe. 2019. Integrated risk assessment for the blue economy. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2019.00609
62. Arkema, K.K. and J.F. Samhouri. 2019. Living on the edge: variation in the abundance and
demography of a kelp forest epiphyte. Diversity 1(8): 120. https://doi.org/10.3390/d11080120
61. Carroll, G., K.K. Holsman, S. Brodie, J.T. Thorson, E.L. Hazen, S.J. Bograd, M.A. Haltuch, S. Kotwicki, J.F. Samhouri, P. Spencer, E. Willis-Norton, R.L. Selden. 2019. A review of methods for quantifying spatial predator-prey overlap. Global Ecology and Biogeography 28(11): 1561-1577.
60. Samhouri, J.F., Ramanujam, E., Bizzarro, J.J., Carter, H., Sayce, K., Shen, S., 2019. An ecosystem-based risk assessment for California fisheries co-developed by scientists, managers, and stakeholders. Biological Conservation 231: 103–121. https://doi.org/10.1016/j.biocon.2018.12.027
59. Ingeman, K.E., Samhouri, J.F., Stier, A.C., 2019. Ocean recoveries for tomorrow’s Earth: Hitting a moving target. Science 363: eaav1004. https://doi.org/10.1126/science.aav1004
58. Holsman, K. K., E. L. Hazen, A. C. Haynie, A. Hollowed, S. J. Bograd, J. F. Samhouri, K. Y. Aydin. 2019. Towards climate-resiliency in fisheries management. ICES Journal of Marine Science 76(5): 1368-1378. https://doi.org/10.1093/icesjms/fsz031
57. Shelton, A.O, C.J. Harvey, J.F. Samhouri, K.S. Andrews, B.E. Feist, K.E. Frick, N. Tolimieri, G.D. Williams, L.D. Antrim, H.D. Berry. 2018. From the predictable to the unexpected: kelp forest and benthic invertebrate community dynamics following decades of sea otter expansion. Oecologia 188: 1105-119119.
56. Tallis, H., G. Bratman, J. F. Samhouri, J. Fargione. 2018. Are elementary school test scores more strongly associated with urban trees than poverty? Frontiers in Psychology 9: 2074. doi: 10.3389/fpsyg.2018.02074
55. Watson, J.R., E. Fuller, F. Catsruccio, J.F. Samhouri. 2018. Fishermen follow fine-scale physical ocean features for finance. Frontiers in Marine Science 5: 46. https://doi.org/10.3389/fmars.2018.00046
54. Buckner, E.V., D. Hernández, J.F. Samhouri. 2018. Conserving connectivity: human influence on subsidy transfer and relevant restoration efforts. Ambio 47(4): 493-503. doi: 10.1007/s13280-017-0989-4
53. Tam, J., J. Link, S. Large, K.S. Andrews, K. Friedland, J. Gove, E. Hazen, K. Holsman, M. Karnauskas, J.F. Samhouri, R. Shuford, N. Tolimieri, S. Zador. 2017. Comparing apples to oranges: common trends in anthropogenic and environmental pressures across multiple marine ecosystems. Frontiers in Marine Science 4: 282. https://doi.org/10.3389/fmars.2017.00282
52. Samhouri, J.F., A.C. Stier, S.M. Hennessey, M. Novak, B.S. Halpern, P.S. Levin. 2017. Rapid and direct recoveries of predators and prey through synchronized ecosystem management. Nature Ecology & Evolution 1: 0068.
51. Samhouri, J. F., K.S. Andrews, G. Fay, C.J. Harvey, E.L. Hazen, S.M. Hennessey, K. Holsman, M.E. Hunsicker, S.I. Large, K.N. Marshall, A.C. Stier, J. C. Tam, S.G. Zador. 2017. Defining ecosystem thresholds for human activities and environmental pressures in the California Current. Ecosphere 8: e01860.
50. Fuller, E., J.F. Samhouri, J.S. Stoll, S.A. Levin, J.R. Watson. 2017. Characterizing fisheries connectivity in marine social–ecological systems. ICES Journal of Marine Science 74(8): 2087-2096. [Editor’s Choice]
49. Helyer, J. and J.F. Samhouri. 2017. Fishing and environmental influences on herbivorous fish biomass across the Hawaiian Archipelago. Marine Ecology Progress Series 575: 1-15.
48. O’Donnell, J.L., R.P. Kelly, A.O. Shelton, J.F. Samhouri, N.C. Lowell, G.D. Williams. 2017. Spatial distribution of environmental DNA in a nearshore marine habitat. PeerJ 5: e3044.
47. Holsman, K., J.F. Samhouri, G. Cook, E. Hazen, E. Olsen, M. Dillard, S. Kasperski, S. Gaichas, C. Kelble, M. Fogarty, K. Andrews. 2017. An ecosystem-based approach to risk assessment. Ecosystem Health and Sustainability 3: e01256.
46. Tommasi, D., C. Stock, A. Hobday, R. Methot, I. Kaplan, P. Eveson, K. Holsman, T. Miller, S. Gaichas, M. Gehlen, A. Pershing, G. Vecchi, R. Msadek, T. Delworth, M. Eakin, M. Haltuch, R. Sefarian, C. Spillman, J. Hartog, S. Siedlecki, J.F. Samhouri, B. Muhling, R. Asch, M. Pinsky, V. Saba, S. Kapnick, C. Gaitan, R. Rykaczewski, M. Alexander, Y. Xue, K. Pegion, P. Lynch, M. Payne, T. Kristiansen, P. Lehodey, C. Werner. 2017. Managing living marine resources in a dynamic environment: the role of seasonal to decadal climate forecasts. Progress in Oceanography 152: 15-49.
45. Kelly, R.P., C.J. Closek, J.L. O'Donnell, J.E. Kralj, A.O. Shelton, J.F. Samhouri. 2017. Genetic and manual survey methods yield different and complementary views of an ecosystem. Frontiers in Marine Science 3: 283. doi.org/10.3389/fmars.2016.00283
44. Stier, A.C., C.D. Stallings, J.F. Samhouri, M.A. Albins. 2017. Biodiversity effects of the predation gauntlet. Coral Reefs 36(2): 601-606.
43. Kelly, R., J. L. O'Donnell, N. Lowell, A.O. Shelton, J.F. Samhouri, S.M. Hennessey, B.E. Feist, G.D. Williams. 2016. Genetic signatures of ecological diversity along an urbanization gradient. PeerJ 4:e2444; DOI 10.7717/peerj.2444.
42. Stier, A. C., J. F. Samhouri, K. N. Marshall, E. J. Ward, M. Novak, P. S. Levin. 2016. Ecosystem context and historical contingency in apex predator recoveries. Science Advances 2: e1501769.
41. Stier, A. C., J. F. Samhouri, S. Gray, R. G. Martone, M. Mach, B. S. Halpern, C. Kappel, C. Scarborough, P. S. Levin. 2016. Expert opinion and the potential for conservation conflict. Conservation Letters 10: 67-76. DOI: 10.1111/conl.12245
40. Shelton, A.O., J.L. O’Donnell, J.F. Samhouri, N. Lowell, G.D. Williams, R.P. Kelly. 2016. A framework for inferring biological communities from environmental DNA. Ecological Applications 26: 1645-1659. DOI: 10.1890/15-1733.1
39. Marshall, K. N., A. C. Stier, J. F. Samhouri, E. J. Ward. 2016. Conservation challenges of predator recovery. Conservation Letters 9: 70-78. DOI: 10.1111/conl.12186
38. Selkoe, K. A., T. Blenckner, M.R. Caldwell, L. Crowder, A. Erickson, T. Essington, J. Estes, R. Fujita, B.S. Halpern, M. Hunsicker, C.V. Kappel, R. Kelly, J.N. Kittinger, P.S. Levin, J. Lynham, M. Mach, R. Martone, L. Mease, A. Salomon, J.F. Samhouri, C. Scarborough, A. Stier, C. White, and J. Zedler. 2015. Principles for managing marine ecosystems prone to tipping points. Ecosystem Health and Sustainability 1: 1-18.
37. Andrews, K.A., G.D. Williams, J.F. Samhouri, K.N. Marshall, V. Gertseva, P.S. Levin. 2015. The legacy of a crowded ocean: indicators, status, and trends of anthropogenic pressures in the California Current ecosystem. Environmental Conservation 42: 139-151. doi: 10.1111/faf.12061.
36. Thorson, J.T., J. Cope, K.M. Kleisner, J.F. Samhouri, A.O. Shelton, E.J. Ward. 2015. Giant shoulders 15 years later: lessons, challenges, and guidelines in fisheries meta-analysis. Fish and Fisheries 16: 342-361. doi: 10.1111/faf.12061.
35. Boldt, J., R. Martone, J.F. Samhouri, R.I. Perry, S. Itoh, I.K. Chung, M. Takahashi, N. Yoshie. 2014. Developing ecosystem indicators for responses to multiple stressors. Progress in Oceanography 27: 116-133.
34. Shelton, A.O., J.F. Samhouri, A.C. Stier, P.S. Levin. 2014. Assessing trade-offs to inform ecosystem-based fisheries management of forage fish. Nature Scientific Reports 4: 7110.
33. Tallis, H., J. Lubchenco, and 238 co-signatories including J. F. Samhouri. 2014. A call for inclusive conservation. Nature 515: 27-28.
32. Samhouri, J.F., S. Kim, C.I. Zhang, M. Fogarty. 2014. Marine ecosystem-based management in temperate systems. Pages 325-367 in Marine ecosystem-based management. M.J. Fogarty and J.J. McCarthy, editors. Vol. 16 of The Sea. Harvard University Press, Boston.
31. White, J.W., A. Rassweiler, J.F. Samhouri, A.C. Stier, C. White. 2014. Ecologists should not use statistical significance tests to interpret simulation model results. Oikos 123: 385-388.
30. Halpern, B.S., C. Longo, C. Scarborough, D. Hardy, B.D. Best, S.C. Doney, S.K. Katona, K.L. McLeod, A.A. Rosenberg, and J.F. Samhouri. 2014. Assessing the health of the US west coast with a regional-scale application of the Ocean Health Index. PLoS One 9: e98995
29. Kleisner, K. M., C. Longo, M. Coll, B. S. Halpern, D. Hardy, S. K. Katona, F. Le Manach, D. Pauly, A. A. Rosenberg, J. F. Samhouri, C. Scarborough, U. R. Sumaila, R. Watson, and D. Zeller. 2013. Exploring patterns of seafood provision revealed in the global Ocean Health Index. Ambio 42: 910-922.
28. Samhouri, J. F., A. J. Haupt, P. S. Levin, J. S. Link, and R. Shuford. 2013. Lessons learned from developing integrated ecosystem assessments to inform marine ecosystem-based management in the USA. ICES Journal of Marine Science: Journal du Conseil: fst141.
27. Tolimieri, N., J. F. Samhouri, V. Simon, B. E. Feist, and P. S. Levin. 2013. Linking the trophic fingerprint of groundfishes to ecosystem structure and function in the California Current. Ecosystems 16: 1216–1229.
26. Leslie, H. M., E. Goldman, K. L. Mcleod, L. Sievanen, H. Balasubramanian, R. Cudney-Bueno, A. Feuerstein, N. Knowlton, K. Lee, R. Pollnac, and J.F. Samhouri. 2013. How good science and stories can go hand-in-hand. Conservation Biology 27: 1126-1129.
25. Halpern, B. S., S. D. Gaines, K. Kleisner, C. Longo, D. Pauly, A. A. Rosenberg, J. F. Samhouri, and D. Zeller. 2013. Halpern et al. reply. Nature 495: E7.
24. Halpern, B. S., C. Longo, K. L. McLeod, R. Cooke, B. Fischhoff, J. F. Samhouri, C. Scarborough. 2013. Elicited preferences for components of ocean health in the California Current. Marine Policy 42: 68-73.
23. Samhouri, J.F., S. Lester, E.R. Selig, B.S. Halpern, M.J. Fogarty, C. Longo, K.L. McLeod. 2012. Sea sick? Setting targets for ocean health and ecosystem services. Ecosphere 3(5): 41. http://dx.doi.org/10.1890/ES11-00366.1
22. Samhouri, J.F. and P.S. Levin. 2012. Linking land- and sea-based activities to risk in coastal ecosystems. Biological Conservation 145:118-129. doi: 10.1016/j.biocon.2011.10.021
21. Arkema, K.K. and Samhouri, J.F. 2012. Linking ecosystem health and services to inform marine ecosystem-based management. Advancing an Ecosystem Approach in the Gulf of Maine. R. Stephenson, J. Annala, J. Runge, and M. Hall-Arber, editors. American Fisheries Society Symposium Special Volume 79: 9-25.
20. Halpern, B. S., C. Longo, D. Hardy, K. L. McLeod, J. F. Samhouri, S. K. Katona, K. Kleisner, S. E. Lester, J. O/'Leary, M. Ranelletti, A. A. Rosenberg, C. Scarborough, E. R. Selig, B. D. Best, D. R. Brumbaugh, F. S. Chapin, L. B. Crowder, K. L. Daly, S. C. Doney, C. Elfes, M. J. Fogarty, S. D. Gaines, K. I. Jacobsen, L. B. Karrer, H. M. Leslie, E. Neeley, D. Pauly, S. Polasky, B. Ris, K. St Martin, G. S. Stone, U. R. Sumaila, and D. Zeller. 2012. An index to assess the health and benefits of the global ocean. Nature 488: 615-620.
19. James, C.A., J. Kershner, J.F. Samhouri, S. O’Neill, and P.S. Levin. 2012. A methodology for evaluating and ranking water quantity indicators in support of ecosystem-based management. Environmental Management 49: 703-719. doi: 10.1007/s00267-012-9808-7
18. Samhouri, J.F., P.S. Levin, C.A. James, J. Kershner, G. Williams. 2011. Using existing scientific capacity to set targets for ecosystem-based management: a Puget Sound case study. Marine Policy 35: 508-518. doi: 10.1016/j.marpol.2010.12.002.
17. Andrews, K.S., N. Tolimieri, G.D. Williams, J.F. Samhouri, C.J. Harvey, and P.S. Levin. 2011. Comparison of fine-scale acoustic monitoring using home range size of a demersal fish: VRAP versus VPS. Marine Biology 158: 2377-2387.
16. Kershner, J., J.F. Samhouri, C.A. James, and P.S. Levin. 2011. Selecting indicator portfolios for marine species and food webs: a Puget Sound case study. PLoS One 6(10): e25248. doi:10.1371/journal.pone.0025248.
15. White, J.W. and J.F. Samhouri. 2011. Oceanographic coupling across three trophic levels shapes source-sink dynamics in marine metacommunities. Oikos 120(8): 1151-1164. (Featured in Faculty of 1000)
14. Ainsworth, C.H., J. F. Samhouri, D.S. Busch, W. Cheung, J. Dunne, and T. Okey. 2011. Potential impacts of climate change on Northeast Pacific marine foodwebs and fisheries. ICES Journal of Marine Science 68: 1217-1229. doi: 10.1093/icesjms/fsr043.
13. Botsford, L., M. Holland, J.F. Samhouri, J.W. White, and A. Hastings. 2011. Importance of age structure in models of the response of upper trophic levels to fishing and climate change. ICES Journal of Marine Science 68: 1270-1283. doi:10.1093/icesjms/fsr042.
12. Samhouri, J.F., P.S. Levin, C.H. Ainsworth. 2010. Identifying thresholds for ecosystem-based management. PLoS One 5: e8907.
11. Eakin, C.M., J.A. Morgan, and others, including J.F. Samhouri. 2010. Caribbean corals in crisis: record thermal stress, bleaching, and mortality in 2005. PLoS One 5: e13969.
10. White, J.W., J.F. Samhouri, A.C. Stier, C.L. Wormald, S.L. Hamilton, S.A. Sandin. 2010. Synthesizing mechanisms of density dependence in reef fishes: behavior, habitat configuration, and observation scale. Ecology 91(7): 1949-1961.
9. Levin, P.S., M. Damon, J.F. Samhouri. 2010. Developing meaningful marine ecosystem indicators in the face of a changing climate. Stanford Journal of Law, Science, and Policy 1: 36-48.
8. Samhouri, J.F., P.S. Levin, C.J. Harvey. 2009. Quantitative evaluation of marine ecosystem indicator performance using food web models. Ecosystems 12: 1283-1298.
7. Samhouri, J.F. 2009. Food supply influences offspring provisioning but not density-dependent fecundity in a marine fish. Ecology 90(12): 3478-3488.
6. Samhouri, J.F., M.A. Steele, G.E. Forrester. 2009b. Intercohort competition drives density dependence and selective mortality in a marine fish. Ecology 90(4): 1009-1020.
5. Samhouri, J.F., R.R. Vance, G.E. Forrester, M.A. Steele. 2009c. Musical chairs mortality functions: density-dependent deaths caused by competition for unguarded refuges. Oecologia 160(2): 257-265.
4. Forrester, G.E., M.A. Steele, J.F. Samhouri, B. Evans, R.R. Vance. 2008a. Spatial density dependence scales up but does not produce temporal density dependence in a coral reef fish. Ecology 89(11): 2980-2985.
3. Forrester, G.E., M.A. Steele, J.F. Samhouri, R.R. Vance. 2008b. Settling reef fish discriminate among habitats at large, but not small, spatial scales. Limnology and Oceanography 53(5): 1956-1962.
2. Vermeij, M.J.A., S.A. Sandin, J.F. Samhouri. 2007. Local habitat distribution determines the relative frequency and interbreeding potential for two Caribbean coral morphospecies. Evolutionary Ecology 21: 27-47.
1. Samhouri, J.F. and S.A. Sandin. 2006. Can density-dependent fecundity regulate coral reef fish populations? Proceedings of the 10th International Coral Reef Symposium 1: 122-131.
110. Samhouri, J.F., B.E. Feist, M. Jacox, O.R. Liu, K. Richerson, E. Steiner, J. Wallace, K. Andrews, L. Barnett, A. Beaudreau, L. Bellquist, M. Pozo Buil, M.A. Haltuch, A. Harley, C.J. Harvey, I. Kaplan, K. Norman, A. Phillips, L. Rasmuson, E. Ward, C. Whitmire, R.L. Selden. 2024. Stay or go? Geographic variation in risks due to climate change for fishing fleets that adapt in-place or adapt on-the-move. PLoS Climate.
109. Riekkola, L., O. R. Liu, E. J. Ward, D. S. Holland, B. E. Feist, and J. F. Samhouri. 2024. Modeling the spatiotemporal patterns and drivers of Dungeness crab fishing effort to inform whale entanglement risk mitigation on the U.S. West Coast. Journal of Environmental Management 351:119735.
108. Welch, H., O.R. Liu, L. Riekkola, B. Abrahms, E.L. Hazen, J.F. Samhouri. 2024. Designing dynamic management strategies to reduce human-wildlife conflict. Conservation Biology.
107. Free, C.M., L.F. Bellquist, K.A. Forney, J. Humberstone, K. Kauer, Q. Lee, O.R. Liu, J.F. Samhouri, J.R. Wilson, D. Bradley. 2023. Static management presents a simple solution to a dynamic fishery and conservation challenge. Biological Conservation.
106. Mason, J.G., S.J. Weisberg, J.L. Morano, R.D. Bell, M. Fitchett, R.B. Griffis, E.L. Hazen, W.D. Heyman, K. Holsman, K.M. Kleisner, K. Westfall, M.K. Conrad, M. Daly, A.S. Golden, C.J. Harvey, L.A. Kerr, G. Kirchner, A.Levine, R. Lewison, S.M. Lucey, W. Morrison, B. Muffley, J.F. Samhouri, M. Seeley, S.K. Shotwell, D.L. Stram. 2023. Linking knowledge and action for climate-ready fisheries: emerging best practices. Marine Policy.
105. Liu, O. R., E. J. Ward, S. C. Anderson, K. S. Andrews, L. A. K. Barnett, S. Brodie, G. Carroll, J. Fiechter, M. A. Haltuch, C. J. Harvey, E. L. Hazen, P.-Y. Hernvann, M. Jacox, I. C. Kaplan, S. Matson, K. Norman, M. Pozo Buil, R. L. Selden, A. Shelton, and J. F. Samhouri. 2023. Species redistribution creates unequal outcomes for multispecies fisheries under projected climate change. Science Advances 9:eadg5468.
104. Riekkola, L., O.R. Liu, B. Feist, K. Forney, B. Abrahms, E. Hazen, J.F. Samhouri. 2023. Retrospective analysis of measures to reduce large whale entanglements in a lucrative commercial fishery. Biological Conservation. https://doi.org/10.1016/j.biocon.2022.109880
103. McClure, M., M. Haltuch, E. Willis-Norton, E. Hazen, L.G. Crozier, M. Jacox, M.W. Nelson, K. Andrews, L. Barnett, A.M. Berger, S. Beyer, J. Bizzarro, D. Boughton, J.M. Cope, M.H. Carr, H. Dewar, E. Dick, E. Dorval, J. Dunham, V. Gertseva, C. Greene, R.G. Gustafson, O.S. Hamel, C. Harvey, M.J. Henderson, D.D. Huff, C.E. Jordan, I.C. Kaplan, S. Lindley, N. Mantua, S.E. Matson, M.H. Monk, P. Moyle, C. Nicol, J. Pohl, R. Rykaczewski, J.F. Samhouri, S. Sogard, N. Tolimieri, J.R. Wallace, C. Wetzel, and S.J. Bograd. 2023. Vulnerability to climate change of managed stocks in the California Current large marine ecosystem. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2023.1103767
102. Samhouri, J. F., A. O. Shelton, G. D. Williams, B. E. Feist, S. Hennessey, K. K. Bartz, R.P. Kelly, J. L. O'Donnell, M. B. Sheer, A.C. Stier, P. S. Levin. 2022. How much city is too much city? Biodiversity and ecosystem functioning along an urban gradient. Frontiers in Marine Science 9. https://www.frontiersin.org/articles/10.3389/fmars.2022.931319
101. Liu, O.R., M. Fisher, B.E. Feist, B. Abrahms, K. Richerson, J.F. Samhouri. 2023. Mobility and flexibility enable resilience of human harvesters to environmental perturbation. Global Environmental Change. https://doi.org/10.1016/j.gloenvcha.2022.102629
100. Tolimieri, N., A.O. Shelton, J.F. Samhouri, C.J. Harvey, B. Feist, G.D. Williams, K. Andrews, K. Frick, S. Lonhart, O. Liu, H. Berry, J. Waddell. 2023. Response of kelp forest communities along the coast of Washington, USA to the 2014-2016 marine heatwave and sea star wasting syndrome. Marine Ecology Progress Series. https://www.int-res.com/abstracts/meps/v703/p47-66/
99. Brodie, S., J. A. Smith, B. A. Muhling, L. A. K. Barnett, G. Carroll, P. Fiedler, S. J. Bograd, E. L. Hazen, M. G. Jacox, K. S. Andrews, C. L. Barnes, L. G. Crozier, J. Fiechter, A. Fredston, M. A. Haltuch, C. J. Harvey, E. Holmes, M. A. Karp, O. R. Liu, M. J. Malick, M. Pozo Buil, K. Richerson, C. N. Rooper, J.F. Samhouri, R. Seary, R. L. Selden, A. R. Thompson, D. Tommasi, E. J. Ward, and I. C. Kaplan. In press. Recommendations for quantifying and reducing uncertainty in climate projections of species distributions. Global Change Biology. doi: 10.1111/gcb.16371
98. Johnson, C.J., J.R. Hale, M.T. Tinker, E.U. Foster, J.F. Samhouri, A.O. Shelton, K.L. Laidre. 2023. Rapid kelp crab consumption: implications for Washington state sea otters. Northwestern Naturalist. https://doi.org/10.1898/NWN20-07
97. Karp, M., S. Brodie, J. Smith, K. Richerson, R. Selden, O. Liu, B. Muhling, J.F. Samhouri, L. Barnett, E. Hazen, D. Ovando, J. Fiechter, M. Jacox, M. Pozo Buil. In press. Projecting species distributions using fishery-dependent data. Fish and Fisheries. https://doi.org/10.1111/faf.12711
96. Koehn, L.E., L.K. Nelson, J.F. Samhouri, K. Norman, M. Jacox, A. Cullen, J. Feichter, M. Pozo, P.S. Levin. 2022. Social-ecological vulnerability of fishing communities to climate change: a US West Coast case study. PLoS One 17(8): e0272120. https:// doi.org/10.1371/journal.pone.0272120
95. Stier, A. C., T. E. Essington, J. F. Samhouri, B. S. Halpern, C. White, J. Lynham, A. Salomon, P. S. Levin. 2022. Avoiding critical thresholds through effective monitoring. Proceedings of the Royal Society B 289: 20220526. https://doi.org/10.1098/rspb.2022.0526
94. Ettinger, A. K., C. J. Harvey, C. Emmons, M. B. Hanson, E. J. Ward, J. K. Olson, and J. F. Samhouri. 2022. Shifting phenology of an endangered apex predator mirrors changes in its favored prey. Endangered Species Research 48:211–223.
93. Francis, T.B., G.H. Sullaway, E. Chui, C. Daley, B.E. Feist, K.E. Frick, A.O. Shelton, N. Tolimieri, G.D. Williams, J.F. Samhouri. 2022. Equivocal associations between small-scale shoreline restoration and subtidal fishes in an urban estuary. Restoration Ecology. https://doi.org/10.1111/rec.13652
92. Frick, K.E., A.N. Kagley, K.L. Fresh, J.F. Samhouri, L.S. Ward, A.O. Shelton. 2022. Spatio-temporal variation and habitat perturbation response in a nearshore forage fish community. Marine and Coastal Fisheries 14(2): e10202. https://10.1002/mcf2.10202
91. Nomura, K., J.F. Samhouri, A.F. Johnson, A. Giron, J.R. Watson. 2022. Fisheries connectivity measures of adaptive capacity in small-scale fisheries. ICES Journal of Marine Science 79(2): 519-531.
90. Samhouri, J. F., B. E. Feist, M. C. Fisher, O. Liu, S. Woodman, B. Abrahms, K. A. Forney, E. L. Hazen, D. Lawson, J. Redfern, L. E. Saez. 2021. Marine heatwave challenges solutions to human-wildlife conflict. Proceedings of the Royal Society B 288(1964): 20211607. https://doi.org/10.1098/rspb.2021.1607 [Featured in 2022 NOAA Science Report]
89. Wood, C., L. Lora, A. Greene, L. Lam, B. Basnett, S.L. Hamilton, J.F. Samhouri. 2021. The weaker sex: male lingcod (Ophiodon elongatus) with blue color polymorphism are more burdened by parasites than are other sex–color combinations. PLoS One 16(12):e0261202. DOI: 10.1371/journal.pone.0261202
88. Sullaway, G., A.O. Shelton, J.F. Samhouri. 2021. Climate induced synchrony erodes spatial portfolios of an anadromous fish and alters availability for resource users. Journal of Animal Ecology 90(11): 2692-2703.
87. Galloway, A.W.E., A.H. Beaudreau, M.D. Thomas, B.L. Basnett, L.S. Lam, S.L. Hamilton, K.S. Andrews, J.B. Schram, J. Watson, J.F. Samhouri. 2021. Why so blue? Assessing drivers of blue-colored flesh in lingcod (Ophiodon elongatus). Marine Biology 168(9): 139.
86. Samhouri, J. F. and A.C. Stier. 2021. Ecological impacts of an invasive mesopredator do not differ from those of a native mesopredator: lionfish in Caribbean Panama. Coral Reefs 40(5): 1593-1600. doi: 10.1007/s00338-021-02132-8
85. Lam, L.S., B. Basnett, M.A. Haltuch, J. Cope, K. Andrews, K.M. Nichols, G.C. Longo, J.F. Samhouri, S.L. Hamilton. 2021. Geographic variability in lingcod (Ophiodon elongatus) life-history and demography along the U.S. West Coast: oceanographic drivers and management implications. Marine Ecology Progress Series 670: 203-222.
84. Hausner, A., J.F. Samhouri, E.L.Hazen, D. Delgerjargal, B. Abrahms. 2021. Tradeoffs in dynamic ocean management strategies to reduce ship strikes to large whales. Marine Policy 130: 104565.
83. Fisher, M.C., S.K. Moore, S. Jardine, J. Watson, J.F. Samhouri. 2021. Climate shock effects and mediation in fisheries. Proceedings of the National Academy of Sciences USA 118 (2) e2014379117. https://doi.org/10.1073/pnas.2014379117
82. Feist, B.E., J.F. Samhouri, K.A. Forney, L.A. Saez. 2021. Footprints of fixed gear fisheries in relation to rising whale entanglements on the U.S. West Coast. Fisheries Management and Ecology 28(3): 283-294. DOI: 10.1111/fme.12478
81. Dunn, R., J.F. Samhouri, M. Baskett. 2021. Transient dynamics during kelp forest recovery from fishing across multiple trophic levels. Ecological Applications 31(6): e02367.
80. Barceló, C., R.D. Brodeur, L. Ciannelli, E.A. Daly, C.M. Risien, G.S. Saldías, J.F. Samhouri. 2021. Time-varying epipelagic community seascapes: assessing and predicting species composition in the northeastern Pacific Ocean. Frontiers in Marine Science. Research Topic: Marine Biodiversity Observation Network. https://www.frontiersin.org/articles/10.3389/fmars.2021.586677/full
79. Bastille, K., S. Hardison, L. DeWitt, J. Brown, J.F. Samhouri, S. Gaichas, S. Lucey, K. Kearney, B. Best, S. Cross, S. Large, E. Spooner. 2021. Improving the IEA approach using principles of open data science. Coastal Management 49(1):72-89. https://doi.org/10.1080/08920753.2021.1846155
78. Spooner, E., M. Karnauskas, C.J. Harvey, C.R. Kelble, J.M. Rosellon-Druker, S. Kasperski, S. Lucey, K.S. Andrews, S. Gittings, J.H. Moss, J. Gove, J.F. Samhouri, R. Allee, S. J. Bograd, M.E. Monaco, P. Clay, L.A. Rogers, A.R. Marshak, S. Wongbusarakum, K. Broughton, and P.D. Lynch. 2021. Using integrated ecosystem assessments to build resilient ecosystems, communities, and economies. Coastal Management 49(1): 26-45.
77. Munsch, S.H., K.S. Andrews, L.G. Crozier, R. Fonner, J.L. Gosselin, C.M. Greene, C.J. Harvey, J. Lundin, G.R. Pess, J.F. Samhouri, W.H. Satterthwaite. 2020. Potential for ecological thresholds to inform Pacific salmon management. Ecosphere 11(12):e03302. 10.1002/ecs2.3302.
76. Stier, A. C., A. O. Shelton, J. F. Samhouri, B. E. Feist, P. S. Levin. 2020. Fishing, environment, and the erosion of a population portfolio. Ecosphere 11(11):e03283. 10.1002/ecs2.3283
75. Good, T.P., J.F. Samhouri, B.E. Feist, C. Wilcox, J. Jahnke. 2020. Plastics in the Pacific: assessing risk from ocean debris for marine birds in the California Current Large Marine Ecosystem. Biological Conservation 250: 108743.
74. Lester, S.E., A. Rassweiler, S.J. McCoy, M. Donovan, A. Dubel, M.M. Miller, S.D. Miller, B.I. Ruttenberg, J.F. Samhouri, M.E. Hay. 2020. Caribbean reefs of the Anthropocene: variance in ecosystem metrics indicate bright spots on coral depauperate reefs. Global Change Biology 26: 4785-4799. doi:10.1111/gcb.15253
73. Longo, G.C., L. Lam, B. Brown, J.F. Samhouri, S.L. Hamilton, K. Andrews, G. Williams, M. McClure, K.M. Nichols. 2020. Strong population differentiation in lingcod (Ophiodon elongatus) is driven by a small portion of the genome. Evolutionary Applications 13(10): 2536-2554.
72. Jardine, S., M. Fisher, S. Moore, J.F. Samhouri. 2020. Inequality in the economic impacts from climate shocks in fisheries: the case of harmful algal blooms. Ecological Economics 176: 106691.
71. Dundas, S.J., A.S. Levine, R.L. Lewison, J.F. Samhouri, C. White, A.W.E. Galloway, E.L. Hazen, A. Spalding, A. Stier, A. Doerr, C. Garza, T. Hill, J. Padilla-Gamino, J.W. White. 2020. Integrating oceans into climate policy: any green new deal needs a splash of blue. Conservation Letters: e12716.
70. Harvey, C.J., J.L. Fisher, J.F. Samhouri, G.D. Williams, T.B. Francis, K.C. Jacobson, Y.L. deReynier, M.E. Hunsicker, N. Garfield. 2020. The importance of long-term ecological time series for integrated ecosystem assessment and ecosystem-based management. Progress in Oceanography: 102418.
69. Fiorenza, E.A., C.A. Wendt, K.A. Dobkowski, T.L. King, M. Pappaionou, P. Rabinowitz, J.F. Samhouri, C.L. Wood. 2020. It’s a wormy world: Meta-analysis reveals several decades of change in the global abundance of the parasitic nematodes Anisakis spp. and Pseudoterranova spp. in marine fishes and invertebrates. Global Change Biology 26(5): 2854-2866. http://dx.doi.org/10.1111/gcb.15048
68. Selden, R.L., J.T. Thorson, J.F. Samhouri, S.J. Bograd, S. Brodie, G. Carroll, M.A. Haltuch, E.L. Hazen, K.K. Holsman, M.L. Pinsky, N. Tolimieri, E. Willis-Norton. 2020. Coupled changes in biomass and distribution drive trends in availability of fish stocks to US west coast ports. ICES Journal of Marine Science 77(1): 188-199. doi:10.1093/icesjms/fsz211
67. Okamoto, D. K., M. Hessing-Lewis, J. F. Samhouri, A. O. Shelton, A. C. Stier, P. S. Levin, A. Salomon. 2020. Spatial variation in exploited metapopulations obscures risk of collapse. Ecological Applications 30(3): e02051.
66. Brodie, S., J. Thorson, G. Carroll, E. Hazen, S. Bograd, M. Haltuch, K. Holsman, S. Kotwicki, J.F. Samhouri, E. Willis-Norton, R. Selden. 2020. Trade-offs in covariate selection for species distribution models: a methodological comparison. Ecography 43(1): 11-24. https://doi.org/10.1111/ecog.04707
65. Arkema, K.K., L.A. Rogers, J. Toft, A. Mesher, K.H. Wyatt, S. Albury-Smith, S. Moultrie, M.H. Ruckelshaus, J.F. Samhouri. (2019). Integrating fisheries management into sustainable development planning. Ecology and Society, 24(2): 1.
64. Satterthwaite, W.H., K.S. Andrews, B.J. Burke, J.L. Gosselin, C.M. Greene, C.J. Harvey, S.H. Munsch, M.R. O’Farrell, J.F. Samhouri, K.L. Sobocinski. 2019. Ecological thresholds in forecast performance for key United States West Coast Chinook salmon stocks. ICES Journal of Marine Science 77(4): 1503-1515. https://doi.org/10.1093/icesjms/fsz189
63. Hodgson, E.E., T.E. Essington, J.F. Samhouri, E.H. Allison, N.J. Bennett, A. Bostrom, A.C. Cullen, S. Kasperski, P.S. Levin, M.R. Poe. 2019. Integrated risk assessment for the blue economy. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2019.00609
62. Arkema, K.K. and J.F. Samhouri. 2019. Living on the edge: variation in the abundance and
demography of a kelp forest epiphyte. Diversity 1(8): 120. https://doi.org/10.3390/d11080120
61. Carroll, G., K.K. Holsman, S. Brodie, J.T. Thorson, E.L. Hazen, S.J. Bograd, M.A. Haltuch, S. Kotwicki, J.F. Samhouri, P. Spencer, E. Willis-Norton, R.L. Selden. 2019. A review of methods for quantifying spatial predator-prey overlap. Global Ecology and Biogeography 28(11): 1561-1577.
60. Samhouri, J.F., Ramanujam, E., Bizzarro, J.J., Carter, H., Sayce, K., Shen, S., 2019. An ecosystem-based risk assessment for California fisheries co-developed by scientists, managers, and stakeholders. Biological Conservation 231: 103–121. https://doi.org/10.1016/j.biocon.2018.12.027
59. Ingeman, K.E., Samhouri, J.F., Stier, A.C., 2019. Ocean recoveries for tomorrow’s Earth: Hitting a moving target. Science 363: eaav1004. https://doi.org/10.1126/science.aav1004
58. Holsman, K. K., E. L. Hazen, A. C. Haynie, A. Hollowed, S. J. Bograd, J. F. Samhouri, K. Y. Aydin. 2019. Towards climate-resiliency in fisheries management. ICES Journal of Marine Science 76(5): 1368-1378. https://doi.org/10.1093/icesjms/fsz031
57. Shelton, A.O, C.J. Harvey, J.F. Samhouri, K.S. Andrews, B.E. Feist, K.E. Frick, N. Tolimieri, G.D. Williams, L.D. Antrim, H.D. Berry. 2018. From the predictable to the unexpected: kelp forest and benthic invertebrate community dynamics following decades of sea otter expansion. Oecologia 188: 1105-119119.
56. Tallis, H., G. Bratman, J. F. Samhouri, J. Fargione. 2018. Are elementary school test scores more strongly associated with urban trees than poverty? Frontiers in Psychology 9: 2074. doi: 10.3389/fpsyg.2018.02074
55. Watson, J.R., E. Fuller, F. Catsruccio, J.F. Samhouri. 2018. Fishermen follow fine-scale physical ocean features for finance. Frontiers in Marine Science 5: 46. https://doi.org/10.3389/fmars.2018.00046
54. Buckner, E.V., D. Hernández, J.F. Samhouri. 2018. Conserving connectivity: human influence on subsidy transfer and relevant restoration efforts. Ambio 47(4): 493-503. doi: 10.1007/s13280-017-0989-4
53. Tam, J., J. Link, S. Large, K.S. Andrews, K. Friedland, J. Gove, E. Hazen, K. Holsman, M. Karnauskas, J.F. Samhouri, R. Shuford, N. Tolimieri, S. Zador. 2017. Comparing apples to oranges: common trends in anthropogenic and environmental pressures across multiple marine ecosystems. Frontiers in Marine Science 4: 282. https://doi.org/10.3389/fmars.2017.00282
52. Samhouri, J.F., A.C. Stier, S.M. Hennessey, M. Novak, B.S. Halpern, P.S. Levin. 2017. Rapid and direct recoveries of predators and prey through synchronized ecosystem management. Nature Ecology & Evolution 1: 0068.
51. Samhouri, J. F., K.S. Andrews, G. Fay, C.J. Harvey, E.L. Hazen, S.M. Hennessey, K. Holsman, M.E. Hunsicker, S.I. Large, K.N. Marshall, A.C. Stier, J. C. Tam, S.G. Zador. 2017. Defining ecosystem thresholds for human activities and environmental pressures in the California Current. Ecosphere 8: e01860.
50. Fuller, E., J.F. Samhouri, J.S. Stoll, S.A. Levin, J.R. Watson. 2017. Characterizing fisheries connectivity in marine social–ecological systems. ICES Journal of Marine Science 74(8): 2087-2096. [Editor’s Choice]
49. Helyer, J. and J.F. Samhouri. 2017. Fishing and environmental influences on herbivorous fish biomass across the Hawaiian Archipelago. Marine Ecology Progress Series 575: 1-15.
48. O’Donnell, J.L., R.P. Kelly, A.O. Shelton, J.F. Samhouri, N.C. Lowell, G.D. Williams. 2017. Spatial distribution of environmental DNA in a nearshore marine habitat. PeerJ 5: e3044.
47. Holsman, K., J.F. Samhouri, G. Cook, E. Hazen, E. Olsen, M. Dillard, S. Kasperski, S. Gaichas, C. Kelble, M. Fogarty, K. Andrews. 2017. An ecosystem-based approach to risk assessment. Ecosystem Health and Sustainability 3: e01256.
46. Tommasi, D., C. Stock, A. Hobday, R. Methot, I. Kaplan, P. Eveson, K. Holsman, T. Miller, S. Gaichas, M. Gehlen, A. Pershing, G. Vecchi, R. Msadek, T. Delworth, M. Eakin, M. Haltuch, R. Sefarian, C. Spillman, J. Hartog, S. Siedlecki, J.F. Samhouri, B. Muhling, R. Asch, M. Pinsky, V. Saba, S. Kapnick, C. Gaitan, R. Rykaczewski, M. Alexander, Y. Xue, K. Pegion, P. Lynch, M. Payne, T. Kristiansen, P. Lehodey, C. Werner. 2017. Managing living marine resources in a dynamic environment: the role of seasonal to decadal climate forecasts. Progress in Oceanography 152: 15-49.
45. Kelly, R.P., C.J. Closek, J.L. O'Donnell, J.E. Kralj, A.O. Shelton, J.F. Samhouri. 2017. Genetic and manual survey methods yield different and complementary views of an ecosystem. Frontiers in Marine Science 3: 283. doi.org/10.3389/fmars.2016.00283
44. Stier, A.C., C.D. Stallings, J.F. Samhouri, M.A. Albins. 2017. Biodiversity effects of the predation gauntlet. Coral Reefs 36(2): 601-606.
43. Kelly, R., J. L. O'Donnell, N. Lowell, A.O. Shelton, J.F. Samhouri, S.M. Hennessey, B.E. Feist, G.D. Williams. 2016. Genetic signatures of ecological diversity along an urbanization gradient. PeerJ 4:e2444; DOI 10.7717/peerj.2444.
42. Stier, A. C., J. F. Samhouri, K. N. Marshall, E. J. Ward, M. Novak, P. S. Levin. 2016. Ecosystem context and historical contingency in apex predator recoveries. Science Advances 2: e1501769.
41. Stier, A. C., J. F. Samhouri, S. Gray, R. G. Martone, M. Mach, B. S. Halpern, C. Kappel, C. Scarborough, P. S. Levin. 2016. Expert opinion and the potential for conservation conflict. Conservation Letters 10: 67-76. DOI: 10.1111/conl.12245
40. Shelton, A.O., J.L. O’Donnell, J.F. Samhouri, N. Lowell, G.D. Williams, R.P. Kelly. 2016. A framework for inferring biological communities from environmental DNA. Ecological Applications 26: 1645-1659. DOI: 10.1890/15-1733.1
39. Marshall, K. N., A. C. Stier, J. F. Samhouri, E. J. Ward. 2016. Conservation challenges of predator recovery. Conservation Letters 9: 70-78. DOI: 10.1111/conl.12186
38. Selkoe, K. A., T. Blenckner, M.R. Caldwell, L. Crowder, A. Erickson, T. Essington, J. Estes, R. Fujita, B.S. Halpern, M. Hunsicker, C.V. Kappel, R. Kelly, J.N. Kittinger, P.S. Levin, J. Lynham, M. Mach, R. Martone, L. Mease, A. Salomon, J.F. Samhouri, C. Scarborough, A. Stier, C. White, and J. Zedler. 2015. Principles for managing marine ecosystems prone to tipping points. Ecosystem Health and Sustainability 1: 1-18.
37. Andrews, K.A., G.D. Williams, J.F. Samhouri, K.N. Marshall, V. Gertseva, P.S. Levin. 2015. The legacy of a crowded ocean: indicators, status, and trends of anthropogenic pressures in the California Current ecosystem. Environmental Conservation 42: 139-151. doi: 10.1111/faf.12061.
36. Thorson, J.T., J. Cope, K.M. Kleisner, J.F. Samhouri, A.O. Shelton, E.J. Ward. 2015. Giant shoulders 15 years later: lessons, challenges, and guidelines in fisheries meta-analysis. Fish and Fisheries 16: 342-361. doi: 10.1111/faf.12061.
35. Boldt, J., R. Martone, J.F. Samhouri, R.I. Perry, S. Itoh, I.K. Chung, M. Takahashi, N. Yoshie. 2014. Developing ecosystem indicators for responses to multiple stressors. Progress in Oceanography 27: 116-133.
34. Shelton, A.O., J.F. Samhouri, A.C. Stier, P.S. Levin. 2014. Assessing trade-offs to inform ecosystem-based fisheries management of forage fish. Nature Scientific Reports 4: 7110.
33. Tallis, H., J. Lubchenco, and 238 co-signatories including J. F. Samhouri. 2014. A call for inclusive conservation. Nature 515: 27-28.
32. Samhouri, J.F., S. Kim, C.I. Zhang, M. Fogarty. 2014. Marine ecosystem-based management in temperate systems. Pages 325-367 in Marine ecosystem-based management. M.J. Fogarty and J.J. McCarthy, editors. Vol. 16 of The Sea. Harvard University Press, Boston.
31. White, J.W., A. Rassweiler, J.F. Samhouri, A.C. Stier, C. White. 2014. Ecologists should not use statistical significance tests to interpret simulation model results. Oikos 123: 385-388.
30. Halpern, B.S., C. Longo, C. Scarborough, D. Hardy, B.D. Best, S.C. Doney, S.K. Katona, K.L. McLeod, A.A. Rosenberg, and J.F. Samhouri. 2014. Assessing the health of the US west coast with a regional-scale application of the Ocean Health Index. PLoS One 9: e98995
29. Kleisner, K. M., C. Longo, M. Coll, B. S. Halpern, D. Hardy, S. K. Katona, F. Le Manach, D. Pauly, A. A. Rosenberg, J. F. Samhouri, C. Scarborough, U. R. Sumaila, R. Watson, and D. Zeller. 2013. Exploring patterns of seafood provision revealed in the global Ocean Health Index. Ambio 42: 910-922.
28. Samhouri, J. F., A. J. Haupt, P. S. Levin, J. S. Link, and R. Shuford. 2013. Lessons learned from developing integrated ecosystem assessments to inform marine ecosystem-based management in the USA. ICES Journal of Marine Science: Journal du Conseil: fst141.
27. Tolimieri, N., J. F. Samhouri, V. Simon, B. E. Feist, and P. S. Levin. 2013. Linking the trophic fingerprint of groundfishes to ecosystem structure and function in the California Current. Ecosystems 16: 1216–1229.
26. Leslie, H. M., E. Goldman, K. L. Mcleod, L. Sievanen, H. Balasubramanian, R. Cudney-Bueno, A. Feuerstein, N. Knowlton, K. Lee, R. Pollnac, and J.F. Samhouri. 2013. How good science and stories can go hand-in-hand. Conservation Biology 27: 1126-1129.
25. Halpern, B. S., S. D. Gaines, K. Kleisner, C. Longo, D. Pauly, A. A. Rosenberg, J. F. Samhouri, and D. Zeller. 2013. Halpern et al. reply. Nature 495: E7.
24. Halpern, B. S., C. Longo, K. L. McLeod, R. Cooke, B. Fischhoff, J. F. Samhouri, C. Scarborough. 2013. Elicited preferences for components of ocean health in the California Current. Marine Policy 42: 68-73.
23. Samhouri, J.F., S. Lester, E.R. Selig, B.S. Halpern, M.J. Fogarty, C. Longo, K.L. McLeod. 2012. Sea sick? Setting targets for ocean health and ecosystem services. Ecosphere 3(5): 41. http://dx.doi.org/10.1890/ES11-00366.1
22. Samhouri, J.F. and P.S. Levin. 2012. Linking land- and sea-based activities to risk in coastal ecosystems. Biological Conservation 145:118-129. doi: 10.1016/j.biocon.2011.10.021
21. Arkema, K.K. and Samhouri, J.F. 2012. Linking ecosystem health and services to inform marine ecosystem-based management. Advancing an Ecosystem Approach in the Gulf of Maine. R. Stephenson, J. Annala, J. Runge, and M. Hall-Arber, editors. American Fisheries Society Symposium Special Volume 79: 9-25.
20. Halpern, B. S., C. Longo, D. Hardy, K. L. McLeod, J. F. Samhouri, S. K. Katona, K. Kleisner, S. E. Lester, J. O/'Leary, M. Ranelletti, A. A. Rosenberg, C. Scarborough, E. R. Selig, B. D. Best, D. R. Brumbaugh, F. S. Chapin, L. B. Crowder, K. L. Daly, S. C. Doney, C. Elfes, M. J. Fogarty, S. D. Gaines, K. I. Jacobsen, L. B. Karrer, H. M. Leslie, E. Neeley, D. Pauly, S. Polasky, B. Ris, K. St Martin, G. S. Stone, U. R. Sumaila, and D. Zeller. 2012. An index to assess the health and benefits of the global ocean. Nature 488: 615-620.
19. James, C.A., J. Kershner, J.F. Samhouri, S. O’Neill, and P.S. Levin. 2012. A methodology for evaluating and ranking water quantity indicators in support of ecosystem-based management. Environmental Management 49: 703-719. doi: 10.1007/s00267-012-9808-7
18. Samhouri, J.F., P.S. Levin, C.A. James, J. Kershner, G. Williams. 2011. Using existing scientific capacity to set targets for ecosystem-based management: a Puget Sound case study. Marine Policy 35: 508-518. doi: 10.1016/j.marpol.2010.12.002.
17. Andrews, K.S., N. Tolimieri, G.D. Williams, J.F. Samhouri, C.J. Harvey, and P.S. Levin. 2011. Comparison of fine-scale acoustic monitoring using home range size of a demersal fish: VRAP versus VPS. Marine Biology 158: 2377-2387.
16. Kershner, J., J.F. Samhouri, C.A. James, and P.S. Levin. 2011. Selecting indicator portfolios for marine species and food webs: a Puget Sound case study. PLoS One 6(10): e25248. doi:10.1371/journal.pone.0025248.
15. White, J.W. and J.F. Samhouri. 2011. Oceanographic coupling across three trophic levels shapes source-sink dynamics in marine metacommunities. Oikos 120(8): 1151-1164. (Featured in Faculty of 1000)
14. Ainsworth, C.H., J. F. Samhouri, D.S. Busch, W. Cheung, J. Dunne, and T. Okey. 2011. Potential impacts of climate change on Northeast Pacific marine foodwebs and fisheries. ICES Journal of Marine Science 68: 1217-1229. doi: 10.1093/icesjms/fsr043.
13. Botsford, L., M. Holland, J.F. Samhouri, J.W. White, and A. Hastings. 2011. Importance of age structure in models of the response of upper trophic levels to fishing and climate change. ICES Journal of Marine Science 68: 1270-1283. doi:10.1093/icesjms/fsr042.
12. Samhouri, J.F., P.S. Levin, C.H. Ainsworth. 2010. Identifying thresholds for ecosystem-based management. PLoS One 5: e8907.
11. Eakin, C.M., J.A. Morgan, and others, including J.F. Samhouri. 2010. Caribbean corals in crisis: record thermal stress, bleaching, and mortality in 2005. PLoS One 5: e13969.
10. White, J.W., J.F. Samhouri, A.C. Stier, C.L. Wormald, S.L. Hamilton, S.A. Sandin. 2010. Synthesizing mechanisms of density dependence in reef fishes: behavior, habitat configuration, and observation scale. Ecology 91(7): 1949-1961.
9. Levin, P.S., M. Damon, J.F. Samhouri. 2010. Developing meaningful marine ecosystem indicators in the face of a changing climate. Stanford Journal of Law, Science, and Policy 1: 36-48.
8. Samhouri, J.F., P.S. Levin, C.J. Harvey. 2009. Quantitative evaluation of marine ecosystem indicator performance using food web models. Ecosystems 12: 1283-1298.
7. Samhouri, J.F. 2009. Food supply influences offspring provisioning but not density-dependent fecundity in a marine fish. Ecology 90(12): 3478-3488.
6. Samhouri, J.F., M.A. Steele, G.E. Forrester. 2009b. Intercohort competition drives density dependence and selective mortality in a marine fish. Ecology 90(4): 1009-1020.
5. Samhouri, J.F., R.R. Vance, G.E. Forrester, M.A. Steele. 2009c. Musical chairs mortality functions: density-dependent deaths caused by competition for unguarded refuges. Oecologia 160(2): 257-265.
4. Forrester, G.E., M.A. Steele, J.F. Samhouri, B. Evans, R.R. Vance. 2008a. Spatial density dependence scales up but does not produce temporal density dependence in a coral reef fish. Ecology 89(11): 2980-2985.
3. Forrester, G.E., M.A. Steele, J.F. Samhouri, R.R. Vance. 2008b. Settling reef fish discriminate among habitats at large, but not small, spatial scales. Limnology and Oceanography 53(5): 1956-1962.
2. Vermeij, M.J.A., S.A. Sandin, J.F. Samhouri. 2007. Local habitat distribution determines the relative frequency and interbreeding potential for two Caribbean coral morphospecies. Evolutionary Ecology 21: 27-47.
1. Samhouri, J.F. and S.A. Sandin. 2006. Can density-dependent fecundity regulate coral reef fish populations? Proceedings of the 10th International Coral Reef Symposium 1: 122-131.
In review
Bishop, E.E., T.E. Essington, J.F. Samhouri, B.E. Feist, G. Sullaway, J.D. Toft, and T.B. Francis. Nearshore fish abundance in an urban estuary is weakly associated with shoreline conditions across scales. Marine Ecology Progress Series.
Moore, S., et al., including J.F. Samhouri. Exploring the human dimensions of harmful algal blooms through a well-being framework to increase resilience in a changing world. PLoS Climate.
Nomura, K.J. et al., including J.F. Samhouri. Emergent geopolitical risks from fishing activities and conflict histories in the Pacific Ocean. Marine Policy.
Moore, S., et al., including J.F. Samhouri. Exploring the human dimensions of harmful algal blooms through a well-being framework to increase resilience in a changing world. PLoS Climate.
Nomura, K.J. et al., including J.F. Samhouri. Emergent geopolitical risks from fishing activities and conflict histories in the Pacific Ocean. Marine Policy.
White papers and technical reports
Harvey, C., et al., including J.F. Samhouri. In press. Ecosystem status report of the California Current for 2019-2020: a summary of ecosystem indicators compiled by the California Current Integrated Ecosystem Assessment team (CCIEA). NOAA Tech. Memo. NMFS-NWFSC-xxx.
Francis, T.B., Sullaway, G.H., Samhouri, J.F., Chui, E., Daley, C., Feist, B.E., Frick, K.E., Shelton, O., Tolimieri, N., and Williams, G.D. 2020. Benefits of shoreline restoration for subtidal fish species and communities. Close-out Grant Report for NTA 2016-0328 for the Habitat Strategic Initiative Lead.
Harvey, C., N. Garfield, G. Williams, N. Tolimieri, I. Schroeder, K. Andrews, K. Barnas, E. Bjorkstedt, S. Bograd, R. Brodeur, B. Burke, J. Cope, A. Coyne, L. deWitt, J. Dowell, J. Field, J. Fisher, P. Frey, T. Good, C. Greene, E. Hazen, D. Holland, M. Hunter, K. Jacobson, M. Jacox, C. Juhasz, I. Kaplan, S. Kasperski, D. Lawson, A. Leising, A. Manderson, S. Melin, S. Moore, C. Morgan, B. Muhling, S. Munsch, K. Norman, R. Robertson, L. Rogers-Bennett, K. Sakuma, J. Samhouri, R. Selden, S. Siedlecki, K. Somers, W. Sydeman, A. Thompson, J. Thorson, D. Tommasi, V. Trainer, A. Varney, B. Wells, C. Whitmire, M. Williams, T. Williams, J. Zamon, and S. Zeman. 2019. Ecosystem Status Report of the California Current for 2019: A Summary of Ecosystem Indicators Compiled by the California Current Integrated Ecosystem Assessment Team (CCEIA). U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-149.
Satterthwaite, W.H., K.S. Andrews, J.L. Gosselin, C.M. Greene, C.J. Harvey, M. Hunsicker, S.H. Munsch, and J.F. Samhouri. 2019. Patterns of synchrony and environmental thresholds in the performance of forecast models used for U.S. West Coast Chinook and coho salmon stocks. In: Jeongseok Park and Laura Tessier (eds.), Second NPAFC-IYS Workshop on Salmon Ocean Ecology in a Changing Climate. North Pacific Anadromous Fish Commission Technical Report 15:157–160. doi:10.23849/npafctr15/157.160
Harvey, C., N. Garfield, G. Williams, N. Tolimieri, I. Schroeder, E. Hazen, K. Andrews, K. Barnas, S. Bograd, R. Brodeur, B. Burke, J. Cope, L. deWitt, J. Field, J. Fisher, T. Good, C. Greene, D. Holland, M. Hunsicker, M. Jacox, S. Kasperski, S. Kim, A. Leising, S. Melin, C. Morgan, B. Muhling, S. Munsch, K. Norman, W. Peterson, M. Poe, J. Samhouri, W. Sydeman, J. Thayer, A. Thompson, D. Tommasi, A. Varney, B. Wells, T. Williams, J. Zamon, D. Lawson, S. Anderson, J. Gao, M. Litzow, S. McClatchie, E. Ward, and S. Zador. 2018. Ecosystem Status Report of the California Current for 2018: A Summary of Ecosystem Indicators Compiled by the California Current Integrated Ecosystem Assessment Team (CCEIA). U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-145. https://doi.org/10.25923/mvhf-yk36
Harvey, C., N. Garfield, G. Williams, K. Andrews, C. Barceló, K. Barnas, S. Bograd, R. Brodeur, B. Burke, J. Cope, L. deWitt, J. Field, J. Fisher, C. Greene, T. Good, E. Hazen, D. Holland, M. Jacox, S. Kasperski, S. Kim, A. Leising, S. Melin, C. Morgan, S. Munsch, K. Norman, W. T. Peterson, M. Poe, J. Samhouri, I. Schroeder, W. Sydeman, J. Thayer, A. Thompson, N. Tolimieri, A. Varney, B. Wells, T. Williams, and J. Zamon. 2017. Ecosystem Status Report of the California Current for 2017: A Summary of Ecosystem Indicators Compiled by the California Current Integrated Ecosystem Assessment Team (CCIEA). U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-139. https://doi.org/10.7289/V5/TM-NWFSC-139
Samhouri, J.F., Williams, G.D., Brodeur, R., and C. Barceló. 2014. Evaluation of Indicators for Ecological Integrity Using the Bonneville Power Administration Data Set. Appendix to: Ecological Integrity, In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
Samhouri, J.F., Williams, G.D., Brodeur, R., and C. Barceló. 2014. Evaluation of Indicators for Coastal Pelagic Species Using the Bonneville Power Administration Data Set. Appendix to: Coastal pelagics and forage fishes, In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
Samhouri, J.F., Earl, L., Barceló, C., Bograd, S., Brodeur, R., Cianelli, L., Hazen, E., Kaplan, I., Rykaczewski, R., Dickinson, M., and G.D. Williams. 2014. Assessment of risk due to climate change for coastal pelagic species in the California Current marine ecosystem. In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
Good, T.P., J.F. Samhouri, W. Sydeman. 2014. Seabirds – risk assessment. In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
McClure, M. M., J. H. Anderson, K. S. Andrews, M. A. Bellman, B. E. Feist, C. Greene, P. S. Levin, J. F. Samhouri, A. O. Shelton, N. Tolimieri, W. W. Wakefield, C. Whitmire, M. M. Yoklavich. 2013. Groundfish Essential Fish Habitat Synthesis: A Report to the Pacific Fishery Management Council. U.S. Dept. of Commerce, NOAA Tech. Memo., 110 p.
Samhouri, J.F., K.S. Andrews, S. DeBeukelaer, B.E. Feist, M.B. Sheer, R. Dunsmore, A. DeVogelaere, P.S. Levin. 2012. Ecological Integrity Risk Assessment – Habitats in Monterey Bay National Marine Sanctuary. Available from https://www.integratedecosystemassessment.noaa.gov/Assets/iea/california/Report/pdf/Ecological%20Integrity%20Risk%20CCIEA%202012.pdf.
Levin PS, Schwing F(eds.), from contributions by Ainsworth C, Andrews K, Bograd SJ, Burden M, Busch S, Cheung W, Dunne J, Francis T, Fulton E, Grimes C, Hazen EL, Horne P, Huff D, Kaplan I, Levin PS, Lindley S, Okey T, Samhouri J, Schroeder I, Schwing F, Sydeman WJ, Thompson SA, Tolimieri N, Wells B, Williams G. 2011. Technical background for an integrated ecosystem assessment of the California Current: Ecosystem health, salmon, groundfish, and green sturgeon. U.S. Dept. Commer., NOAA Tech. Memo. NMFS-NWFSC-XX.
Harvey, C.J., K.K Bartz, J. Davies, T.B. Francis, T.P. Good, A.D. Guerry, B. Hanson, K.K. Holsman, J. Miller, M.L. Plummer, J.C.P. Reum, L.D. Rhodes, C.A. Rice, J.F. Samhouri, G.D. Williams, N. Yoder, P.S. Levin and M.H. Ruckelshaus. 2010. A mass-balance model for evaluating food web structure and community-scale indicators in the Central Basin of Puget Sound. NOAA Tech. Memo. NMFS-NWFSC-106.
Levin, P.S., A. James, J. Kershner, S. O’Neill, T. Francis, J. F. Samhouri, C. Harvey, D. Schindler, M. Brett. 2010. The Puget Sound Ecosystem: what is our desired future and how do we measure progress along the way? Chapter 1A in The Puget Sound Science Update. http://pugetsoundscienceupdate.com/pmwiki.php?n=Chapter1a.Chapter1a
Samhouri, J.F., P.S. Levin, C.H. Ainsworth. 2009. Using ecological thresholds to inform targets for marine ecosystem-based management. In: Palomares, M.L.D., Morissette, L., Cisneros-Montemayor, A., Varkey, D., Coll, M., Piroddi, C. (eds.), Ecopath 25 Years Conference Proceedings: Extended Abstracts, pp. 117. Fisheries Centre Research Reports 17(3). Fisheries Centre, University of British Columbia [ISSN 1198-6727]. 165 p.
Costello, C., P. Levin, S. Lester, S. Gaines, B. Halpern, M. Fogarty and J. Samhouri. 2008. Scientific frameworks to inform ecosystem-based management for the oceans. White paper prepared for California Current Ecosystem-Based Management Initiative Meeting: Advancing the Science for Ecosystem-Based Management on the U.S. West Coast, Santa Cruz, CA, Jan. 30-31, 2008.
Samhouri, J.F. and K.K. Arkema. 2007. Potential impacts of anthropogenic climate change on the terrestrial and marine biodiversity of Madagascar. Report to World Wildlife Fund and Conservation International. 22 pp.
White, J.W., J.F. Samhouri, C.D. Stallings. 2006. Reply: Interspecific communicative and coordinated hunting between groupers and giant moray eels in the Red Sea. PLOS Biology 4(12): e431 doi:10.1371/journal.pbio.0040431.
Vance R.R., R.A. Ambrose, S.S. Anderson, M. Anghera, C. Everitt, F. Lai, J.F. Samhouri. 2002. Salt marsh restoration in Mugu Lagoon sewage ponds: 2000 progress report. Part B: metals. Report to the Naval Base Ventura County.
Francis, T.B., Sullaway, G.H., Samhouri, J.F., Chui, E., Daley, C., Feist, B.E., Frick, K.E., Shelton, O., Tolimieri, N., and Williams, G.D. 2020. Benefits of shoreline restoration for subtidal fish species and communities. Close-out Grant Report for NTA 2016-0328 for the Habitat Strategic Initiative Lead.
Harvey, C., N. Garfield, G. Williams, N. Tolimieri, I. Schroeder, K. Andrews, K. Barnas, E. Bjorkstedt, S. Bograd, R. Brodeur, B. Burke, J. Cope, A. Coyne, L. deWitt, J. Dowell, J. Field, J. Fisher, P. Frey, T. Good, C. Greene, E. Hazen, D. Holland, M. Hunter, K. Jacobson, M. Jacox, C. Juhasz, I. Kaplan, S. Kasperski, D. Lawson, A. Leising, A. Manderson, S. Melin, S. Moore, C. Morgan, B. Muhling, S. Munsch, K. Norman, R. Robertson, L. Rogers-Bennett, K. Sakuma, J. Samhouri, R. Selden, S. Siedlecki, K. Somers, W. Sydeman, A. Thompson, J. Thorson, D. Tommasi, V. Trainer, A. Varney, B. Wells, C. Whitmire, M. Williams, T. Williams, J. Zamon, and S. Zeman. 2019. Ecosystem Status Report of the California Current for 2019: A Summary of Ecosystem Indicators Compiled by the California Current Integrated Ecosystem Assessment Team (CCEIA). U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-149.
Satterthwaite, W.H., K.S. Andrews, J.L. Gosselin, C.M. Greene, C.J. Harvey, M. Hunsicker, S.H. Munsch, and J.F. Samhouri. 2019. Patterns of synchrony and environmental thresholds in the performance of forecast models used for U.S. West Coast Chinook and coho salmon stocks. In: Jeongseok Park and Laura Tessier (eds.), Second NPAFC-IYS Workshop on Salmon Ocean Ecology in a Changing Climate. North Pacific Anadromous Fish Commission Technical Report 15:157–160. doi:10.23849/npafctr15/157.160
Harvey, C., N. Garfield, G. Williams, N. Tolimieri, I. Schroeder, E. Hazen, K. Andrews, K. Barnas, S. Bograd, R. Brodeur, B. Burke, J. Cope, L. deWitt, J. Field, J. Fisher, T. Good, C. Greene, D. Holland, M. Hunsicker, M. Jacox, S. Kasperski, S. Kim, A. Leising, S. Melin, C. Morgan, B. Muhling, S. Munsch, K. Norman, W. Peterson, M. Poe, J. Samhouri, W. Sydeman, J. Thayer, A. Thompson, D. Tommasi, A. Varney, B. Wells, T. Williams, J. Zamon, D. Lawson, S. Anderson, J. Gao, M. Litzow, S. McClatchie, E. Ward, and S. Zador. 2018. Ecosystem Status Report of the California Current for 2018: A Summary of Ecosystem Indicators Compiled by the California Current Integrated Ecosystem Assessment Team (CCEIA). U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-145. https://doi.org/10.25923/mvhf-yk36
Harvey, C., N. Garfield, G. Williams, K. Andrews, C. Barceló, K. Barnas, S. Bograd, R. Brodeur, B. Burke, J. Cope, L. deWitt, J. Field, J. Fisher, C. Greene, T. Good, E. Hazen, D. Holland, M. Jacox, S. Kasperski, S. Kim, A. Leising, S. Melin, C. Morgan, S. Munsch, K. Norman, W. T. Peterson, M. Poe, J. Samhouri, I. Schroeder, W. Sydeman, J. Thayer, A. Thompson, N. Tolimieri, A. Varney, B. Wells, T. Williams, and J. Zamon. 2017. Ecosystem Status Report of the California Current for 2017: A Summary of Ecosystem Indicators Compiled by the California Current Integrated Ecosystem Assessment Team (CCIEA). U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-139. https://doi.org/10.7289/V5/TM-NWFSC-139
Samhouri, J.F., Williams, G.D., Brodeur, R., and C. Barceló. 2014. Evaluation of Indicators for Ecological Integrity Using the Bonneville Power Administration Data Set. Appendix to: Ecological Integrity, In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
Samhouri, J.F., Williams, G.D., Brodeur, R., and C. Barceló. 2014. Evaluation of Indicators for Coastal Pelagic Species Using the Bonneville Power Administration Data Set. Appendix to: Coastal pelagics and forage fishes, In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
Samhouri, J.F., Earl, L., Barceló, C., Bograd, S., Brodeur, R., Cianelli, L., Hazen, E., Kaplan, I., Rykaczewski, R., Dickinson, M., and G.D. Williams. 2014. Assessment of risk due to climate change for coastal pelagic species in the California Current marine ecosystem. In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
Good, T.P., J.F. Samhouri, W. Sydeman. 2014. Seabirds – risk assessment. In: Harvey, C. J., N. Garfield, P.S. Levin, B.K. Wells, M.B Sheer and G.D. Williams (Eds). 2014. California Current Integrated Ecosystem Assessment: Phase III Report. Available from http://www.noaa.gov/iea/CCIEA-Report/index (September 2014).
McClure, M. M., J. H. Anderson, K. S. Andrews, M. A. Bellman, B. E. Feist, C. Greene, P. S. Levin, J. F. Samhouri, A. O. Shelton, N. Tolimieri, W. W. Wakefield, C. Whitmire, M. M. Yoklavich. 2013. Groundfish Essential Fish Habitat Synthesis: A Report to the Pacific Fishery Management Council. U.S. Dept. of Commerce, NOAA Tech. Memo., 110 p.
Samhouri, J.F., K.S. Andrews, S. DeBeukelaer, B.E. Feist, M.B. Sheer, R. Dunsmore, A. DeVogelaere, P.S. Levin. 2012. Ecological Integrity Risk Assessment – Habitats in Monterey Bay National Marine Sanctuary. Available from https://www.integratedecosystemassessment.noaa.gov/Assets/iea/california/Report/pdf/Ecological%20Integrity%20Risk%20CCIEA%202012.pdf.
Levin PS, Schwing F(eds.), from contributions by Ainsworth C, Andrews K, Bograd SJ, Burden M, Busch S, Cheung W, Dunne J, Francis T, Fulton E, Grimes C, Hazen EL, Horne P, Huff D, Kaplan I, Levin PS, Lindley S, Okey T, Samhouri J, Schroeder I, Schwing F, Sydeman WJ, Thompson SA, Tolimieri N, Wells B, Williams G. 2011. Technical background for an integrated ecosystem assessment of the California Current: Ecosystem health, salmon, groundfish, and green sturgeon. U.S. Dept. Commer., NOAA Tech. Memo. NMFS-NWFSC-XX.
Harvey, C.J., K.K Bartz, J. Davies, T.B. Francis, T.P. Good, A.D. Guerry, B. Hanson, K.K. Holsman, J. Miller, M.L. Plummer, J.C.P. Reum, L.D. Rhodes, C.A. Rice, J.F. Samhouri, G.D. Williams, N. Yoder, P.S. Levin and M.H. Ruckelshaus. 2010. A mass-balance model for evaluating food web structure and community-scale indicators in the Central Basin of Puget Sound. NOAA Tech. Memo. NMFS-NWFSC-106.
Levin, P.S., A. James, J. Kershner, S. O’Neill, T. Francis, J. F. Samhouri, C. Harvey, D. Schindler, M. Brett. 2010. The Puget Sound Ecosystem: what is our desired future and how do we measure progress along the way? Chapter 1A in The Puget Sound Science Update. http://pugetsoundscienceupdate.com/pmwiki.php?n=Chapter1a.Chapter1a
Samhouri, J.F., P.S. Levin, C.H. Ainsworth. 2009. Using ecological thresholds to inform targets for marine ecosystem-based management. In: Palomares, M.L.D., Morissette, L., Cisneros-Montemayor, A., Varkey, D., Coll, M., Piroddi, C. (eds.), Ecopath 25 Years Conference Proceedings: Extended Abstracts, pp. 117. Fisheries Centre Research Reports 17(3). Fisheries Centre, University of British Columbia [ISSN 1198-6727]. 165 p.
Costello, C., P. Levin, S. Lester, S. Gaines, B. Halpern, M. Fogarty and J. Samhouri. 2008. Scientific frameworks to inform ecosystem-based management for the oceans. White paper prepared for California Current Ecosystem-Based Management Initiative Meeting: Advancing the Science for Ecosystem-Based Management on the U.S. West Coast, Santa Cruz, CA, Jan. 30-31, 2008.
Samhouri, J.F. and K.K. Arkema. 2007. Potential impacts of anthropogenic climate change on the terrestrial and marine biodiversity of Madagascar. Report to World Wildlife Fund and Conservation International. 22 pp.
White, J.W., J.F. Samhouri, C.D. Stallings. 2006. Reply: Interspecific communicative and coordinated hunting between groupers and giant moray eels in the Red Sea. PLOS Biology 4(12): e431 doi:10.1371/journal.pbio.0040431.
Vance R.R., R.A. Ambrose, S.S. Anderson, M. Anghera, C. Everitt, F. Lai, J.F. Samhouri. 2002. Salt marsh restoration in Mugu Lagoon sewage ponds: 2000 progress report. Part B: metals. Report to the Naval Base Ventura County.
Popular press
Samhouri, J.F., K.O. McLeod, and B.S. Halpern. Ocean Health Index: The Audacity of Necessity. 2011. Miller-McCune, 13 December 2011 http://www.miller-mccune.com/environment/ocean-health-index-the-audacity-of-necessity-38304/
McLeod, K.O., J.F. Samhouri, B.S. Halpern. Ocean Health Index accounts for human benefits. 2011. Miller-McCune, 8 November 2011. http://www.miller-mccune.com/environment/ocean-health-index-accounts-for-human-benefits-37657/
Halpern, B.S., K.O. McLeod, and J.F. Samhouri. Three reasons for creating a single Ocean Health Index. 2011. Miller-McCune, 11 October 2011. http://www.miller-mccune.com/environment/three-reasons-for-creating-a-single-ocean-health-index-36824/
Samhouri, J.F., B.S Halpern, and K.O. McLeod. Setting targets in the Ocean Health Index. 2011. Miller-McCune, 13 September 2011. http://www.miller-mccune.com/environment/setting-targets-in-the-ocean-health-index-36046/
K.O. McLeod, B.S. Halpern, and J.F. Samhouri. Ocean Index Navigates Between the Politic, the Pristine. 2011. Miller-McCune, 8 August 2011. http://www.miller-mccune.com/environment/ocean-index-navigates-between-the-politic-the-pristine-34757/
Halpern, B.S., K.O. McLeod, and J.F. Samhouri. The Making of the Ocean Health Index. 2011. Miller-McCune, 12 July 2011. http://www.miller-mccune.com/environment/the-making-of-the-ocean-health-index-33674/
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McLeod, K.O., J.F. Samhouri, B.S. Halpern. Ocean Health Index accounts for human benefits. 2011. Miller-McCune, 8 November 2011. http://www.miller-mccune.com/environment/ocean-health-index-accounts-for-human-benefits-37657/
Halpern, B.S., K.O. McLeod, and J.F. Samhouri. Three reasons for creating a single Ocean Health Index. 2011. Miller-McCune, 11 October 2011. http://www.miller-mccune.com/environment/three-reasons-for-creating-a-single-ocean-health-index-36824/
Samhouri, J.F., B.S Halpern, and K.O. McLeod. Setting targets in the Ocean Health Index. 2011. Miller-McCune, 13 September 2011. http://www.miller-mccune.com/environment/setting-targets-in-the-ocean-health-index-36046/
K.O. McLeod, B.S. Halpern, and J.F. Samhouri. Ocean Index Navigates Between the Politic, the Pristine. 2011. Miller-McCune, 8 August 2011. http://www.miller-mccune.com/environment/ocean-index-navigates-between-the-politic-the-pristine-34757/
Halpern, B.S., K.O. McLeod, and J.F. Samhouri. The Making of the Ocean Health Index. 2011. Miller-McCune, 12 July 2011. http://www.miller-mccune.com/environment/the-making-of-the-ocean-health-index-33674/
Google scholar profile
Click here for full CV