Final Technical Report: - Southwest Fisheries Science Center - NOAA

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Forney KA, Barlow J (1993) Preliminary winter abundance estimates for cetaceans along the California coast based on a 1991 aerial survey. Report No. Report of the International Whaling Commission 43 Forney KA, Barlow J (1998) Seasonal Patterns in the Abundance and Distribution of California Cetaceans, 1991-1992. Mar Mamm Sci 14:460-489 Forney KA, Barlow J, Carretta JV (1995) The abundance of cetaceans in California waters. Part II: Aerial surveys in winter and spring of 1991 and 1992. Fish Bull 93:15-26 Gerrodette T, Perrin C (1991) Calibration of shipboard estimates of dolphin school size from aerial photographs. Report No. Administrative report LJ-91-36, U.S. Department of Commerce, National Marine Fisheries Service, Southwest Fisheries Science Center, La Jolla, CA Golden Software (2002) Surfer 8 User’s Guide. 640 pp. Guisan A, Edwards TC, Hastie T (2002) Generalized linear and generalized additive models in studies of species distribution: setting the scene. Ecol Model 157:89-100 Hastie TJ, Tibshirani RJ (1990) Generalized Additive Models, Vol 43. Chapman & Hall/CRC, Boca Raton Hedley SL (2000) Modelling heterogeneity in cetacean surveys. PhD Dissertation, University of St. Andrews Hedley SL, Buckland ST, Borchers DL (1999) Spatial modelling from line transect data. Journal of Cetacean Research and Management 1:255-264 Holm-Hansen O, Lorenzen CJ, Holmes RW, Strickland JD (1965) Fluorometric determination of chlorophyll. J Cons Perm Int Explor Mer 30:3-15 Holt RS (1987) Estimating density of dolphin schools in the eastern tropical Pacific Ocean using line transect methods. Fish Bull 85:419-434 Holt RS, Powers JE (1982) Abundance estimation of dolphin stocks involved in the eastern tropical Pacific yellowfin tuna fishery determined from aerial and ship surveys to 1979. Report No. NOAA Technical Memorandum NMFS-SWFC-23, U.S. Department of Commerce, National Marine Fisheries Service, Southwest Fisheries Science Center, La Jolla, CA Holt RS, Sexton SN (1989) Monitoring trends in dolphin abundance in the eastern tropical Pacific using research vessels over a long sampling period: analyses of 1986 data, the first year. Fish Bull 88:105-111 100
Jaquet N, Whitehead H, Lewis M (1996) Coherence between 19th century sperm whale distributions and satellite-derived pigments in the tropical Pacific. Mar Ecol Prog Ser 145:1-10 Keitt T, Bjørnstad O, Dixon P, Citron-Pousty S (2002) Accounting for spatial pattern when modeling organism-environment interactions. Ecography 25:616-625 Kim YJ, Gu C (2004) Smoothing spline Gaussian regression: more scalable computation via efficient approximation. Journal of the Royal Statistical Society: Series B (Statistical Methodology) 66:337-356 Kinzey D, Olson P, Gerrodette T (2000) Marine mammal data collection procedures on research ship line-transect surveys by the Southwest Fisheries Science Center. Report No. Administrative Report LJ-00-08, U.S. Department of Commerce, National Marine Fisheries Service, Southwest Fisheries Science Center, La Jolla, CA Marques FC (2001) Spatio-temporal modelling of dolphin distribution and abundance in the eastern tropical Pacific Ocean. Ph.D. Dissertation, University of St Andrews Moore SE, Watkins WA, Daher MA, Davies JR, Dahlheim ME (2002) Blue whale habitat associations in the northwest Pacific: analysis of remotely-sensed data using a Geographic Information System. Oceanography 15:20-25 Oksanen J, Minchin PR (2002) Continuum theory revisited: what shape are species responses along ecological gradients? Ecol Model 157:119-129 Philbrick VA, Fiedler PC, Ballance LT, Demer DA (2003) Report of ecosystem studies conducted during the 2001 Oregon, California and Washington (ORCAWALE) marine mammal survey on the research vessels David Starr Jordan and McArthur. Report No. NOAA Technical Memorandum NMFS-SWFSC-349, U.S. Department of Commerce, National Marine Fisheries Service, Southwest Fisheries Science Center, La Jolla, CA Philbrick VA, Fiedler PC, Fluty JT, Reilly SB (2001) Report of oceanographic studies conducted during the 2000 Eastern Tropical Pacific Ocean survey on the research vessels David Starr Jordan and McArthur. Report No. NOAA Technical Memorandum NMFS-SWFSC-309, U.S. Department of Commerce, National Marine Fisheries Service, Southwest Fisheries Science Center, La Jolla, CA Pitman RL, Lynn MS (2001) Biological observations of an unidentified mesoplodont whale in the eastern tropical Pacific and probable identity: Mesoplodon peruvianus. Mar Mamm Sci 17:648-657 101
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U N I R A P E D T T E M D S E N TA
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C O L A N IO T A N U N C I EA .S. D
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This report was prepared under cont
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Table of Contents Acronyms and Abbr
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C.1 Journal Publications ..........
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Figure 18. Encounter rate models bu
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List of Tables Table 1. Summary of
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Appendix B, Table B-6. Summary of m
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Acknowledgements This project was f
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of these choices as possible and us
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Although our models include most of
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2.0 Background The Navy and other m
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comparison is based on a separate s
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Figure 1. Transects (green lines) s
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used to evaluate the ability of sum
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3.1.5 Mid-trophic Sampling with Net
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variable. Interpolated maps of the
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Table 2. Variogram model results. A
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“number of individuals” as the
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Encounter Rate and Group Size Model
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were built separately for each of t
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Expanding models to the entire U.S.
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Table 4. Summary of the weighted ef
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Consistent with Barlow and Forney (
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incorporation of geographic coordin
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overwhelming majority of “Bryde
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the genera Ziphius and Mesoplodon.
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Table 7. Geographically stratified
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above, and the data themselves, are
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(hereafter “summer”). SWFSC has
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avoid these problems, we decided to
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Figure 9. Thermocline depth (m) obs
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Attempts to adjust search parameter
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CAMMS 1991 PODS 1993 ORCAWALE 1996
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4.2 Modeling Framework : GLM and GA
Page 72 and 73: 4.2.4 Conclusions Regardings Modeli
Page 74 and 75: Table 10 cont. Comparison of the si
Page 76 and 77: Table 11 cont. Comparison of the si
Page 78 and 79: Figure 15. The transect lines used
Page 80 and 81: A) Striped dolphin 10 km B) Short-b
Page 82 and 83: dependent. For example, the number
Page 84 and 85: Figure 19. Predicted average densit
Page 86 and 87: ecosystem, eastern spinner dolphins
Page 88 and 89: Table 13. Variables selected for mo
Page 90 and 91: Table 14. Starting and final AIC va
Page 92 and 93: Table 17. Ratios of observed to pre
Page 94 and 95: species represented in the acoustic
Page 96 and 97: 0.29 (Risso’s dolphin) to 3.20 (n
Page 98 and 99: Figure 25. Sample 2005 validation p
Page 100 and 101: Table 18. (continued) 1991 1993 Nor
Page 102 and 103: Blue whales had the greatest deviat
Page 104 and 105: Table 20. Abundance (number of anim
Page 106 and 107: Table 22. Proportion of deviance ex
Page 108 and 109: Figure 27. Average density (AveDens
Page 110 and 111: Table 23. Effective degrees of free
Page 112 and 113: We attempted to build encounter rat
Page 114 and 115: 5.0 Conclusion The field of predict
Page 116 and 117: 6.0 Transition Plan The models of c
Page 118 and 119: needed to ensure that the SDSS rema
Page 120 and 121: Administrative Report LJ-07-02. NOA
Page 124 and 125: Redfern JV, Barlow J, Ballance LT,
Page 126 and 127: Appendix A: Detailed Model Results
Page 128 and 129: Table A-1 (continued) Blue whale 19
Page 130 and 131: Figure A-1a. Striped dolphin 108
Page 132 and 133: Figure A-1c. Risso’s dolphin 110
Page 134 and 135: Figure A-1e. Northern right whale d
Page 136 and 137: Figure A-1g. Sperm whale 114
Page 138 and 139: Figure A-1i. Blue whale 116
Page 140 and 141: Figure A-1k. Baird’s beaked whale
Page 142 and 143: Figure A-2. Predicted average densi
Page 144 and 145: Figure A-2b. Short-beaked common do
Page 146 and 147: Figure A-2d. Pacific white-sided do
Page 148 and 149: Figure A-2f. Dall’s porpoise 126
Page 150 and 151: Figure A-2h. Fin whale 128
Page 152 and 153: Figure A-2j. Humpback whale 130
Page 154 and 155: Figure A-2l. Small beaked whales 13
Page 156 and 157: Table B-2. Summary of model validat
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Table B-10. Summary of model valida
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Figure B-1. Predicted yearly and av
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Figure B-1. b) Eastern spinner dolp
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Figure B-1. c) Whitebelly spinner d
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Figure B-1. d) Striped dolphin 168
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Figure B-1. e) Rough-toothed dolphi
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Figure B-1. f) Short-beaked common
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Figure B-1. g) Bottlenose dolphin 1
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Figure B-1. h) Risso’s dolphin 17
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Figure B-1. i) Cuvier’s beaked wh
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Figure B-1. j) Blue whale 180
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Figure B-1. k) Bryde’s whale 182
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Figure B-1. l) Short-finned pilot w
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Figure B-1. m) Dwarf sperm whale 18
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Figure B-1. n) Mesoplodon beaked wh
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Figure B-1. o) Small beaked whales
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Figure B-2. Predicted average densi
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Figure B-2. (cont.) c) Whitebelly s
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Figure B-2. (cont.) g) Bottlenose d
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Figure B-2. (cont.) k) Bryde’s wh
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Figure B-2. (cont.) o) Small beaked
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Ferguson MC (2005) Cetacean Populat
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Barlow J, Kahru M, Mitchell BG (In
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Memorandum NMFS-SWFSC-374, U.S. Dep
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