Quantitative Fish Dynamics

, by Quinn, Terrance J.; Deriso, Richard B.

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ISBN: 9780195076318 | 0195076311
Cover: Hardcover
Copyright: 3/25/1999

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This book serves as an advanced text on fisheries and fishery population dynamics and as a reference for fisheries scientists. It provides a thorough treatment of contemporary topics in quantitative fisheries science and emphasizes the link between biology and theory by explaining the assumptions inherent in the quantitative methods. The analytical methods are accessible to a wide range of biologists, and the book includes numerous examples. The book is unique in covering such advanced topics as optimal harvesting, migratory stocks, age-structured models, and size models.

1. Population Growth, Mortality, and the Fishing Process

(49)

1.1 Simple Population Growth Models

(9)

1.1.1. The Geometric and Exponential Growth Laws

(3)

1.1.2. The Logistic Model

(2)

1.1.3. Time-Varying Parameters

(3)

1.1.4. Multispecies Extensions

(1)

1.2 Theory of Mortality

(5)

1.2.1. Deterministic Theory of Fishing

(2)

1.2.2. Stochastic Theory of Fishing

(2)

1.3. Catch-per-unit-effort and the Fishing Process

(35)

1.3.1. Regional Considerations

(1)

1.3.2. Standardization and Gear Selectivity

(7)

1.3.3. Sampling for Catch and Effort

(3)

1.3.4. More Complex Models

(8)

1.3.5. Schooling and Search

(4)

1.3.6. Effects of Catchability Differing Between Individuals

(2)

1.3.7. Stochastic Fishing Models

(8)

2. Stock Productivity and Surplus Production

(36)

2.1. Theory of Stock Productivity

(16)

2.1.1. Graham-Schaefer Model

(4)

2.1.2. Pella-Tomlinson Model

(5)

2.1.3. Gompertz-Fox Model

(1)

2.1.4. Fletcher Quadratic Model

(2)

2.1.5. Threshold Models

(2)

2.1.6. Models with Enviornmental Variables

(1)

2.2. Parameter Estimation

(16)

2.2.1. Annual Surplus Production

(1)

2.2.2. Surplus Production-Biomass Relationship

(3)

2.2.3. Recruitment Adjustments

(1)

2.2.4. Surplus Production-Fishing Effort Relationship

(1)

2.2.5. Equilibrium Approximation

(1)

2.2.6. Schnute's Nonequilibrium Method

(1)

2.2.7. Difference Equations for Surplus Production

(2)

2.2.8. Prager's Nonequilibrium Method

(1)

2.2.9. Example

(4)

2.3. Relation of Surplus Production to Recruitment, Growth, and Natural Morality

(4)

3. Stock and Recruitment

(42)

3.1. Spawner-Recruit Models

(14)

3.1.1. Beverton-Holt

(2)

3.1.2. Ricker

(4)

3.1.3. Cushing

(1)

3.1.4. Deriso-Schnute

(3)

3.1.5. Shepherd

(1)

3.1.6. Gamma

(1)

3.1.7. Miscellany

(2)

3.2. Parameter Estimation

100

(17)

3.2.1. Linear Regression Approach

100

(3)

3.2.2. Nonlinear Regression Approach

103

(5)

3.2.3. Measurement Error Approach

108

(9)

3.2.4. Autocorrelated Errors

117

(1)

3.3. Dynamics for Semelparous Populations

117

(7)

3.4. Bayesian Considerations

124

(4)

4. Growth and Fecundity

128

(80)

4.1. Weight-Length Models

129

(3)

4.2. LVB Growth Model

132

(11)

4.2.1. Length-Age

132

(7)

4.2.2. Difference Equation for Weight-Age

139

(1)

4.2.3. Combining Weight-Length and Length-Age Models

139

(4)

4.3. Size-Age Models

143

(12)

4.3.1. Allometric Model

143

(1)

4.3.2. Ad hoc Models

143

(2)

4.3.3. Gompertz Growth Model

145

(2)

4.3.4. Verhulst and Richards Growth Models

147

(1)

4.3.5. Schnute Growth Model

148

(6)

4.3.6. Schnute-Richards Growth Model

154

(1)

4.4. Mark-Recapture Data

155

(9)

4.4.1. Elapsed Time Models

155

(7)

4.4.2. Models with Aging Data

162

(2)

4.5. Comparison of Growth Models

164

(16)

4.5.1. Choosing the Best Models

164

(1)

4.5.2. Comparing Different Data Sets

165

(15)

4.6. Scale and Otolith Measurements

180

(2)

4.7. Variation in Growth

182

(18)

4.7.1. Seasonal Growth

183

(1)

4.7.2. Individual Variation in Growth

184

(7)

4.7.3. Stochastic Growth

191

(6)

4.7.4. Comparison

197

(3)

4.8. Fecundity and Maturity

200

(8)

4.8.1. Maturity

200

(2)

4.8.2. Fecundity

202

(2)

4.8.3. Population Statistics and the Egg Production Method

204

(4)

5. Delay-Difference Models

208

(31)

5.1. Allen-Clark Abundance Models

208

(4)

5.2. Deriso-Schnute Biomass Models

212

(6)

5.2.1. Deriso's Model

212

(3)

5.2.2. Schnute's Extension

215

(1)

5.2.3. Moments of the Weight Distribution of Adults

216

(2)

5.3. Alternative Models and Representations

218

(6)

5.3.1. Use of a Net Growth Parameter

218

(1)

5.3.2. Horbowy's Approach

218

(2)

5.3.3. Some Generalizations

220

(1)

5.3.4. Mortality Models

220

(3)

5.3.5. Stock Reduction Analysis

223

(1)

5.4. Parameter Estimation

224

(15)

5.4.1. Measurement Error Model

224

(2)

5.4.2. Process Error Model

226

(5)

5.4.3. Combined Measurement and Process Error Model

231

(4)

5.4.4. Kalman Filters

235

(4)

6. Age-structured Models: Per-Recruit and Year-Class Models

239

(29)

6.1. Beverton-Holt Models

241

(8)

6.1.1. LVB Isometric Weight-Age Model

244

(4)

6.1.2. LVB Allometric Weight-Age Model

248

(1)

6.1.3. Brody-LVB Weight-Age Model

248

(1)

6.2. Stochastic Model with Recruitment by Size Group

249

(6)

6.3. Generic Per-Recruit Models

255

(3)

6.4. Spawning Stock and Egg Production per Recruit

258

(5)

6.4.1. Beverton-Holt Approach

259

(1)

6.4.2. Generic Approach

260

(1)

6.4.3. Effects of Harvesting

261

(2)

6.5. Model Variations

263

(5)

6.5.1. Discard Mortality

263

(1)

6.5.2. Trophy Fish and Slot Limits

264

(1)

6.5.3. Per-Recruit Models by Sex

265

(1)

6.5.4. Per-Recruit Models by Multispecies and Multiple Fisheries

266

(2)

7. Age-structured Models: Renewal Theory

268

(27)

7.1. Leslie Matrix Discrete Model

268

(10)

7.2. Time-varying Linear Matrix Models

278

(1)

7.3. Stochastic Linear Matrix Models

279

(5)

7.4. Nonlinear Discrete Leslie-type Models

284

(6)

7.5. Forecasting

290

(2)

7.6. Continuous Linear Models

292

(3)

8. Catch-age and Age-structured Assessment Methods

295

(68)

8.1. Estimation of Age Composition

295

(22)

8.1.1. Length Frequency Analysis

295

(6)

8.1.2. Simple Random Sampling

301

(1)

8.1.3. Estimating the Catch

302

(1)

8.1.4. Two-Stage Random Sampling

303

(3)

8.1.5. Sample Size Considerations

306

(5)

8.1.6. Separate Length and Age Samples and Other Approaches

311

(6)

8.2. Estimation of Abundance and Population Parameters

317

(38)

8.2.1. General Catch-Age Relationship

317

(2)

8.2.2. Catch Curve Analysis

319

(4)

8.2.3. Virtual Population Analysis and Cohort Analysis

323

(7)

8.2.4. Relative Abundance Analysis

330

(3)

8.2.5. Catch-Age Analysis with Auxiliary Information

333

(16)

8.2.6. Stratified Catch-Age Analysis

349

(1)

8.2.7. Miscellaneous Alternative Approaches

350

(5)

8.2.8. Computer Programs

355

(1)

8.3. Estimation of Natural Mortality

355

(8)

8.3.1. Catch Curve Analysis

357

(1)

8.3.2. LFA and Related Analyses

357

(1)

8.3.3. Mark-recapture Experiments

358

(2)

8.3.4. Collection of Dead Organisms

360

(1)

8.3.5. Use of Population Models; Multispecies VPA

360

(1)

8.3.6. Life-History or Meta-analysis

360

(3)

9. Size-structured Models and Assessment Methods

363

(35)

9.1. Basic Models

364

(5)

9.1.1. Beverton-Holt Approach

364

(4)

9.1.2. Basic Size-based Models

368

(1)

9.2. Stage-structured Matrix Models

369

(3)

9.3. Stochastic Models

372

(8)

9.4. Length-based Assesment Methods

380

(18)

9.4.1. Length Cohort Analysis

380

(2)

9.4.2. Catch-Length Analysis and Length-Based Stock Synthsis Analysis

382

(16)

10. Migration, Movement, and Other Spatiotemporal Considerations

398

(39)

10.1. Population Models

399

(13)

10.1.1. Deterministic Model, Non-Age-structured Populations

399

(5)

10.1.2. Stochastic Model, Non-Age-structured Populations

404

(3)

10.1.3. Age-structured Populations

407

(5)

10.2. Estimation of Migration

412

(9)

10.2.1. Darroch's Method and Extensions

412

(2)

10.2.2. Hilborn's Method and Extensions

414

(5)

10.2.3. Miscellaneous Methods

419

(2)

10.3. Migratory Cohort and Catch-Age Analyses

421

(7)

10.3.1. Migratory Cohort Analysis

421

(2)

10.3.2. Migratory Catch-Age Analysis

423

(5)

10.4. Run Reconstruction

428

(4)

10.5. Geographic Apportionment

432

(2)

10.6. Migratory Per-Recruit Analyses

434

(3)

11. Optimal Harvesting

437

(49)

11.1. Harvest Policies and Equilibrium Concepts

438

(4)

11.2. Goals, Objectives, and Constraints

442

(5)

11.2.1. Stochasticity

446

(1)

11.2.2. Bioeconomic Objectives

446

(1)

11.3. Optimization Methods

447

(12)

11.3.1. Biological Models

448

(1)

11.3.2. Fixed-Parameter Harvest Control

449

(5)

11.3.3. Time-varying Harvest Control

454

(5)

11.4. Biological Reference Points

459

(23)

11.4.1. Yield-Effort Parameters F(m) and F(ey)

459

(1)

11.4.2. Natural Mortality Parameter M

460

(2)

11.4.3. Yield-per-Recruit Parameter F(max)

462

(2)

11.4.4. Relationships among F(m), F(max), and F(p)

464

(4)

11.4.5. Yield-per-Recruit Parameter F(0.1)

468

(4)

11.4.6. Spawning Population per Recruit Parameters F(x%)

472

(2)

11.4.7. Spawning Population Parameters F(rep), F(med), F(low), F(high)

474

(5)

11.4.8. Age-structured Population Parameter F(st)

479

(1)

11.4.9. Threshold Reference Points

480

(2)

11.5. Risk, Uncertainty, and Decision Analysis

482

(4)

References

486

(31)

Index

517

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Quantitative Fish Dynamics

Summary

Table of Contents

Supplemental Materials