Fisheries Stock Assessment User's Manual Part I
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Preface This manual was developed based on material presented during several stock assessment training courses sponsored by the Atlantic States Marine Fisheries Commission, and supplemented by class lecture notes of Dr. Joseph T. DeAlteris, Professor of Fisheries and Aquaculture, University of Rhode Island. It is intended to be used as a reference for stock assessment biologists and students, and as a course handbook for future ASMFC stock assessment training courses. ii Acknowledgments The Commission would like to thank all of those people who assisted with the stock assessment training courses including Dr. Lisa Kline (ASMFC), Dr. Alan Temple (U.S. Fish and Wildlife Service, National Conference and Training Center), Dr. Joseph T. DeAlteris (University of Rhode Island), Mr. Najih Lazar (Rhode Island Division of Fish and Wildlife), and all the presenters and lecturers (Dr. Don Orth, Virginia Tech; Dr. Joseph DeAlteris; Mr. Mark Gibson, Rhode Island Division of Fish and Wildlife; Mr. Najih Lazar; Dr. Wendy Gabriel, National Marine Fisheries Service; Dr. Jeremy Collie, University of Rhode Island; and Dr. Josef Idoine, National Marine Fisheries Service). We are grateful to the National Conference and Training Center (U.S. Fish andWildlife Service, Shepherdstown, WV) and the University of Rhode Island for assisting with the development of the training courses, and for providing access to classrooms and computer facilities. Grateful appreciation is extended to Dr. Matthew Mitro (ASMFC/Rhode Island Division of Fish and Wildlife) for reviewing the document and providing useful comments and suggestions, and Ms. Vanessa Jones (ASMFC) and Ms. Laura Lee (ASMFC) for assistance with formatting and editing. Special thanks go to Dr. DeAlteris for providing his lecture notes, time, and experience to this manual. iii Table of Contents Preface................................................................................................................................................... ii Acknowledgements ............................................................................................................................. iii List of Figures.................................................................................................................................... viii List of Tables ..................................................................................................................................... xiii Introduction to Fish Stock Assessment, Fisheries Management, Fisheries and Fishery-Dependent Data, and Research Surveys and Fishery-Independent Data Joseph T. DeAlteris and Laura G. Skrobe .........................................................................................I - 1 Background ................................................................................................................................... I - 1 Fisheries Management .................................................................................................................I - 1 Fish Stock Assessment..................................................................................................................I - 3 Fisheries and Fishery Dependent Data..........................................................................................I - 4 Hooks and Line Gear................................................................................................................I - 4 Pots and Traps..........................................................................................................................I - 5 Dragged Gear...........................................................................................................................I - 7 Seines ....................................................................................................................................... I - 9 Gillnets ................................................................................................................................... I - 11 Fishery-Dependent Data and Analyses .................................................................................. I - 12 Research Surveys........................................................................................................................ I - 13 Bibliography................................................................................................................................ I - 15 Mathematics and Biostatistics Review Joseph T. DeAlteris...........................................................................................................................II - 1 Functions......................................................................................................................................II - 1 Powers and Logarithms................................................................................................................II - 6 Transforming or Linearizing Functions .......................................................................................II - 7 Differential Calculus....................................................................................................................II - 9 Integral Calculus........................................................................................................................II - 12 Differential Equations................................................................................................................II - 14 Descriptive Statistics..................................................................................................................II - 15 Hypothesis Testing.....................................................................................................................II - 18 Fitting Models to Data ...............................................................................................................II - 19 Exercises ....................................................................................................................................II - 21 Bibliography...............................................................................................................................II - 23 Growth Joseph T. DeAlteris and Laura G. Skrobe ...................................................................................... III - 1 Introduction................................................................................................................................ III - 1 Von Bertalanffy Growth Equation............................................................................................. III - 3 Estimating Length................................................................................................................. III - 3 iv Estimating Weight................................................................................................................. III - 5 Estimating Age...................................................................................................................... III - 6 Estimating Growth Equation Parameters................................................................................... III - 6 Gulland-Holt Method............................................................................................................ III - 6 Ford-Walford Plot................................................................................................................. III - 8 Non-linear Regression Methods.......................................................................................... III - 10 Gompertz Growth Equation................................................................................................ III - 11 Exercises .................................................................................................................................. III - 12 Bibliography............................................................................................................................. III - 13 Estimation of Mortality Rates Don Orth, Najih Lazar, and Joseph T. DeAlteris ........................................................................... IV - 1 Introduction................................................................................................................................ IV - 1 Estimating Total Mortality from Catch Curve Analysis............................................................ IV - 8 Estimating Total and Fishing Mortality from Tagging Experiments....................................... IV - 10 One Time Releases or Single Census (Petersen Type) ....................................................... IV - 11 Recaptures in a Series of Years from a Single Year Release.............................................. IV - 12 Estimating Natural Mortality from Fishing Mortality and Effort Data ................................... IV - 14 Other Methods for Estimating Natural Mortality..................................................................... IV - 15 Exercises .................................................................................................................................. IV - 17 Bibliography............................................................................................................................. IV - 18 Selectivity of Marine Fish Harvesting Gears: General Theory, Size Selection Experiments, and Determination of Size Selection Curves Joseph T. DeAlteris.......................................................................................................................... V - 1 Background