A model for estimating mortality of Atlantic salmon, Salmo salar,between spawning events

Canadian Journal of Fisheries and Aquatic Sciences

Volumn 68, Issue 9, 2011, Pages 1635-1650

  Hubley, P Bradford ^a   Gibson, A Jamie F ^a  

^a BEDFORD INSTITUTE OF OCEANOGRAPHY   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

BAYESIAN ANALYSIS; ENVIRONMENTAL CONDITIONS; HIERARCHICAL SYSTEM; LIFE HISTORY TRAIT; MORTALITY; NORTH ATLANTIC OSCILLATION; REPRODUCTIVE STRATEGY; SALMONID; SPAWNING POPULATION; SURVIVAL; TIME SERIES;

CANADA; NOVA SCOTIA;

SALMO SALAR;

EID: 80052538633     PISSN: 0706652X     EISSN: 12057533     Source Type: Journal    
DOI: 10.1139/f2011-074     Document Type: Article

References (54)

1. Amiro, P.G., Jefferson, E.M., and Harvie, C.J. 1996. Status of Atlantic salmon in Salmon Fishing Area 21, in 1995, with emphasis on the upper LaHave River, Lunenburg Co., Nova Scotia. DFO Atl. Fish. Res. Doc. 1996/126.
2. Amiro, P.G., Gibson, A.J.F., and Bowlby, H.D. 2006. Atlantic salmon (Salmo salar) overview for eastern Cape Breton, Eastern Shore, Southwest Nova Scotia and inner Bay of Fundy rivers (SFA 19 to 22) in 2005. Can. Sci. Advis. Sec. Res. Doc. 2006/024.
3. Beaugrand, G., and Reid, P.C. 2003. Long-term changes in phytoplankton, zooplankton and salmon related to climate. Glob. Change Biol. 9(6): 801-817. doi:10.1046/j.1365-2486.2003.00632.x.
4. Benoît, H.P., and Swain, D.P. 2008. Impacts of environmental change and direct and indirect harvesting effects on the dynamics of a marine fish community. Can. J. Fish. Aquat. Sci. 65(10): 2088-2104. doi:10.1139/F08-112.
5. Brooks, S.P., and Gelman, A. 1998. Alternative methods for monitoring convergence of iterative simulations. J. Comput. Graph. Statist. 7(4): 434-455. doi:10.2307/1390675.
6. Chaput, G. 2008. Ecosystem driven variations in return rates to a second spawning for Atlantic salmon from the Miramichi River. In Report of the Working Group on North Atlantic Salmon (WGNAS), 1-10 April 2008, Galway, Ireland. ICES WGNAS Working Paper 2008/35.
7. Chaput, G., and Jones, R. 2006. Reproductive rates and rebuilding potential for two multi-sea-winter Atlantic salmon (Salmo salar L.) stocks of the Maritime Provinces. Can. Sci. Advis. Sec. Res. Doc. 2006/027.
8. Chaput, G., Caron, F., and Marshall, L. 2003. Estimates of survival of Atlantic salmon (Salmo salar L.) in the first and second years at sea. In Marine mortality of Atlantic salmon, Salmo salar L.: methods and measures. Edited by E.C.E. Potter, N.O. Maoileidigh, and G. Chaput. Can. Sci. Advis. Sec. Res. Doc. 2003/101. pp. 83-109.
9. Choi, J., Frank, K.T., Leggett, W.C., and Drinkwater, K. 2004. Transition to an alternate state in a continental shelf ecosystem. Can. J. Fish. Aquat. Sci. 61(4): 505-510. doi:10.1139/f04-079.
10. Courchamp, F., Clutton-Brock, T., and Grenfell, B. 1999. Inverse density dependence and the Allee effect. Trends Ecol. Evol. 14(10): 405-410. doi:10.1016/S0169-5347(99)01683-3. PMID:10481205.
11. Dickson, R.R., and Turrell, W.R. 2000. The NAO: the dominant atmospheric process affecting oceanic variability in home, middle, and distant waters of European Atlantic salmon. In The ocean life of Atlantic salmon. Environmental and biological factors influencing survival. Edited by D. Mills. Fishing News Books, Malden, Mass. pp. 92-115.
12. Fisheries and Oceans Canada. 2010. Status of Atlantic salmon in Salmon Fishing Areas (SFAs) 19-21 and 23. DFO Can. Sci Advis. Sec. Sci. Rep. 2010/002.
13. Fleming, I.A. 1996. Reproductive strategies of Atlantic salmon: ecology and evolution. Rev. Fish Biol. Fish. 6(4): 379-416. doi:10. 1007/BF00164323.
14. Fleming, I.A. 1998. Pattern and variability in the breeding system of Atlantic salmon (Salmo salar), with comparisons to other salmonids. Can. J. Fish. Aquat. Sci. 55(Suppl. 1): 59-76. doi:10. 1139/d98-009.
15. Frank, K.T., Petrie, B., Choi, J.S., and Leggett, W.C. 2005. Trophic cascades in a formerly cod-dominated ecosystem. Science (Washington, D.C.), 308(5728): 1621-1623. doi:10.1126/science.1113075. PMID:15947186.
16. Friedland, K.D., Reddin, D.G., and Kocik, J.F. 1993. Marine survival of North American and European Atlantic salmon: effects of growth and environment. ICES J. Mar. Sci. 50(4): 481-492. doi:10.1006/jmsc.1993.1051.
17. Friedland, K.D., Hansen, L.P., Dunkley, D.A., and MacLean, J.C. 2000. Linkage between ocean climate, post-smolt growth, and survival of Atlantic salmon (Salmo salar L.) in the North Sea area. ICES J. Mar. Sci. 57(2): 419-429. doi:10.1006/jmsc.1999.0639.
18. Friedland, K.D., Reddin, D.G., McMenemy, J.R., and Drinkwater, K.F. 2003a. Multidecadal trends in North American Atlantic salmon (Salmo salar) stocks and climate trends relevant to juvenile survival. Can. J. Fish. Aquat. Sci. 60(5): 563-583. doi:10.1139/f03-047.
19. Friedland, K.D., Reddin, D.G., and Castonguay, M. 2003b. Ocean thermal conditions in the post-smolt nursery of North American Atlantic salmon. ICES J. Mar. Sci. 60(2): 343-355. doi:10.1016/ S1054-3139(03)00022-5.
20. Friedland, K.D., Chaput, G., and MacLean, J.C. 2005. The emerging role of climate in post-smolt growth of Atlantic salmon. ICES J. Mar. Sci. 62(7): 1338-1349. doi:10.1016/j.icesjms.2005.04.013.
21. Friedland, K.D., MacLean, J.C., Hansen, L.P., Peyronnet, A.J.,Karlsson, L., Reddin, D.G., Maoiléidigh, N.Ó., and McCarthy, J.L. 2009. The recruitment of Atlantic salmon in Europe. ICES J. Mar. Sci. 66(2): 289-304. doi:10.1093/icesjms/fsn210.
22. Gelman, A., Carlin, J.B., Stern, H.S., and Rubin, D.B. 2004. Bayesian data analysis. 2nd ed. Chapman and Hall/CRC, New York.
23. Gibson, A.J.F., Hubley, P.B., Chaput, G.P., Dempson, J.B., Caron, F., and Amiro, P.G. 2006. Summary of status and abundance trends for eastern Canadian Atlantic salmon (Salmo salar) populations. Can. Sci. Advis. Sec. Res. Doc. 2006/026.
24. Gibson, A.J.F., Jones, R.A., and Bowlby, H.D. 2009. Equilibrium analysis of a population's response to recovery activities: a case study with Atlantic salmon. N. Am. J. Fish. Manage. 29(4): 958-974. doi:10.1577/M08-006.1.
25. Gregg, W.W., Conkright, M.E., Ginoux, P., O'Reilly, J.E., and Casey, N.W. 2003. Ocean primary production and climate: global decadal changes. Geophys. Res. Lett. 30(15): 1809. doi:10.1029/ 2003GL016889.
26. Hubley, P.B., Amiro, P.G., Gibson, A.J.F., Lacroix, G.L., and Redden, A.M. 2008. Survival and behaviour of migrating Atlantic salmon (Salmo salar L.) kelts in river, estuarine, and coastal habitat. ICES J. Mar. Sci. 65(9): 1626-1634. doi:10.1093/icesjms/ fsn129.
27. Hurrell, J.W. 1995. Decadal trends in the North Atlantic Oscillation: regional temperatures and precipitation. Science (Washington,D.C.), 269(5224): 676-679. doi:10.1126/science.269.5224.676. PMID:17758812.
28. International Council for the Exploration of the Sea. 2008. Report of the Working Group on North Atlantic Salmon. ICES Document CM 2008/ACFM: 18.
29. Jonasson, J., Johannsson, V., and Oskarsson, S. 1994. Ocean mortality of ranched Atlantic salmon during the second year in the sea. Nord. J. Freshw. Res. 69: 79-83.
30. Jonsson, N., and Jonsson, B. 2003. Energy allocation among developmental stages, age groups, and types of Atlantic salmon (Salmo salar) spawners. Can. J. Fish. Aquat. Sci. 60: 506-516. doi:10.1139/f03-042.
31. Jonsson, B., and Jonsson, N. 2004a. Factors affecting marine production of Atlantic salmon (Salmo salar). Can. J. Fish. Aquat. Sci. 61(12): 2369-2383. doi:10.1139/f04-215.
32. Jonsson, N., and Jonsson, B. 2004b. Size and age of maturity of Atlantic salmon correlate with the North Atlantic Oscillation Index (NAOI). J. Fish Biol. 64(1): 241-247. doi:10.1111/j.1095-8649.2004.00269.x.
33. Jonsson, N., Jonsson, B., and Hansen, L.P. 1991a. Energetic cost of spawning in male and female Atlantic salmon (Salmo salar L.). J. Fish Biol. 39(5): 739-744. doi:10.1111/j.1095-8649.1991.tb04403.x.
34. Jonsson, N., Hansen, L.P., and Jonsson, B. 1991b. Variation in age, size and repeat spawning of adult Atlantic salmon in relation to river discharge. J. Anim. Ecol. 60(3): 937-947. doi:10.2307/5423.
35. Jonsson, B., Jonsson, N., and Hansen, L.P. 2003. The marine survival and growth of wild and hatchery-reared Atlantic salmon. J. Appl. Ecol. 40(5): 900-911. doi:10.1046/j.1365-2664.2003.00851.x.
36. Lacroix, G.L., Knox, D., and Stokesbury, M.J.W. 2005. Survival and behaviour of post-smolt Atlantic salmon in coastal habitat with extreme tides. J. Fish Biol. 66(2): 485-498. doi:10.1111/j.0022-1112.2005.00616.x.
37. Lunn, D.J., Thomas, A., Best, N., and Spiegelhalter, D. 2000. WinBUGS: a Bayesian modelling framework: concepts, structure, and extensibility. Stat. Comput. 10(4): 325-337. doi:10.1023/A:1008929526011.
38. Martin, J.H.A., and Mitchell, K.A. 1985. Influence of sea temperature upon the numbers of grilse and multi-sea-winter Atlantic salmon (Salmo salar) caught in the vicinity of the River Dee (Aberdeen- shire). Can. J. Fish. Aquat. Sci. 42(9): 1513-1521. doi:10.1139/f85-189.
39. Millar, R.B. 2002. Reference priors for Bayesian fisheries models. Can. J. Fish. Aquat. Sci. 59(9): 1492-1502. doi:10.1139/f02-108.
40. Mills, D.H. 1989. Ecology and management of Atlantic salmon. Chapman and Hall, London, UK.
41. Murphy, G.I. 1952. An analysis of silver salmon counts at Benbow Dam, South Fork of Eel River, California. Calif. Fish Game, 38: 105-112.
42. Narayanan, S., Carscadden, J., Dempson, J.B., O'Connell, M.F., Prinsenberg, S., Reddin, D.G., and Shackell, N. 1995. Marine climate off Newfoundland and its influence on Atlantic salmon (Salmo salar) and capelin (Mallotus villosus). In Climate change and northern fish populations. Edited by R.J. Beamish. Can. Spec. Publ. Fish. Aquat. Sci. 121. pp. 461-474.
43. Niemel, J., Mkinen, T.S., Moen, K., Hassinen, E., Erkinaro, J., Lnsman, M., and Julkunen, M. 2000. Age, sex ratio and timing of the catch of kelts and ascending Atlantic salmon in the subarctic River Teno. J. Fish Biol. 56(4): 974-985. doi:10.1111/j.1095-8649.2000.tb00886.x.
44. O'Connell, M.F., Dempson, J.B., and Chaput, G. 2006. Aspects of the life history, biology, and population dynamics of Atlantic salmon (Salmo salar L.) in eastern Canada. Can. Sci. Advis. Sec. Res. Doc. 2006/014.
45. Pyper, B.J., and Peterman, R.M. 1998. Comparison of methods to account for autocorrelation in correlation analyses of fish data. Can. J. Fish. Aquat. Sci. 55(9): 2127-2140. doi:10.1139/f98-104.
46. Reddin, D.G. 2006. Perspectives on the marine ecology of Atlantic salmon (Salmo salar) in the Northwest Atlantic. Can. Sci. Advis. Sec. Res. Doc. 2006/018.
47. Ricker, W.E. 1975. Computation and interpretation of biological statistics of fish populations. Bull. Fish. Res. Board Can. 191
48. Ricker, W.E. 1976. Review of the rate of growth and mortality of Pacific salmon in salt water, and noncatch mortality caused by fishing. J. Fish. Res. Board Can. 33(7): 1483-1524. doi:10.1139/f76-191.
49. Rivot, E., and Prévost, E. 2002. Hierarchical Bayesian analysis of capture-mark-recapture data. Can. J. Fish. Aquat. Sci. 59(11): 1768-1784. doi:10.1139/f02-145.
50. Rivot, E., Prévost, E., Parent, E., and Baglinière, J.L. 2004. A Bayesian state-space modelling framework for fitting a salmon stage-structured population dynamic model to multiple time series of field data. Ecol. Model. 179(4): 463-485. doi:10.1016/j.ecolmodel.2004.05.011.
51. Sokal, R.R., and Rohlf, F.J. 2003. Biometry. 3rd ed. W.H. Freeman and Co., New York.
52. Todd, C.D., Hughes, S.L., Marshall, S.T., MacLean, J.C., Lonergan, M. E., and Biuw, E.M. 2008. Detrimental effects of recent ocean surface warming on growth condition of Atlantic salmon. Glob. Change Biol. 14(5): 958-970. doi:10.1111/j.1365-2486.2007.01522.x.
53. Trzcinski, M.K., Gibson, A.J.F., Amiro, P.G., and Randall, R.G. 2004. Inner Bay of Fundy Atlantic salmon (Salmo salar) critical habitat case study. Can. Sci. Advis. Sec. Res. Doc. 2004/114.
54. Welch, D.W., Melnychuk, M.C., Rechisky, E.R., Porter, A.D., Jacobs, M.P., Ladouceur, A., McKinley, R.S., and Jackson, G.D. 2009. Freshwater and marine migration and survival of endan- gered Cultus Lake sockeye salmon (Oncorhynchus nerka) smolts using POST, a large-scale acoustic telemetry array. Can. J. Fish. Aquat. Sci. 66(5): 736-750. doi:10.1139/F09-032.