Article
Environmental Sciences
Rui Wang, Puqing Song, Yuan Li, Longshan Lin
Summary: The Antarctic krill fishery, operating for over 45 years, faces conservation concerns due to high fishing effort and climate change. An integrated model was used to estimate key parameters of krill resources, but uncertainties exist in the estimates. Future studies should take a comprehensive and multimethod approach to manage krill resources based on scientific evidence considering various factors.
FRONTIERS IN MARINE SCIENCE
(2021)
Article
Fisheries
Fan Zhang, Noel G. Cadigan
Summary: Estimating cohort dynamics from length-based data for hard-to-age stocks is challenging in fisheries stock assessment. The age-structured catch-at-length models (ACL) currently used are unable to account for length-dependent processes within each cohort. However, with the increasing availability of high-quality survey data, a new situation emerges where a stock assessment model based only on survey data can provide good estimation of population dynamics. We introduce an age- and length-structured statistical catch-at-length model (ALSCL) that can estimate age-based dynamics from survey catch-at-length data, while also providing a basis to integrate fisheries-dependent data. ALSCL includes length-dependent mortality and growth within each cohort by simultaneously tracking the three-dimensional dynamics across time, age, and length. Simulation results show that ALSCL outperforms ACL in estimating age-based population dynamics when length-dependent processes are important. ALSCL is considered a hybrid model between ACL and length-structured stock assessment models, and its ability to track age and length dynamics simultaneously is an important step towards the next-generation of fisheries stock assessment models.
FISH AND FISHERIES
(2022)
Article
Fisheries
Ian G. Taylor, Kathryn L. Doering, Kelli F. Johnson, Chantel R. Wetzel, Ian J. Stewart
Summary: Stock assessment analysts are facing a more diverse and complex range of models, but are striving to increase efficiency in the assessment process through tools like the r4ss package. Originally designed for simple model diagnostics, r4ss has evolved into a comprehensive set of functions supporting various aspects of the assessment process. Lessons learned from the ongoing development of r4ss can be applied to future efforts in stock assessment packages.
FISHERIES RESEARCH
(2021)
Article
Fisheries
James T. Thorson, Timothy J. Miller, Brian C. Stock
Summary: Weighting data appropriately is necessary in stock assessment models. The multivariate-Tweedie (MVTW) provides a better estimation of data weights and the ability to increase weights when needed. We recommend exploring the sensitivity of likelihood functions in stock assessments.
ICES JOURNAL OF MARINE SCIENCE
(2022)
Article
Fisheries
Nicholas Fisch, Ed Camp, Kyle Shertzer, Robert Ahrens
Summary: This study evaluated the performance of alternative likelihoods in fitting composition data. The results suggest that the degree of process error and the sample size of the composition data have a larger effect on the relative performance of different likelihoods.
FISHERIES RESEARCH
(2021)
Article
Fisheries
Andre E. Punt, Geoffrey N. Tuck, Jemery Day, Paul Burch, Robin B. Thomson, Pia Bessell-Browne
Summary: The study found that the quality of composition data is crucial for stock assessments, with effective sample size for length-composition and conditional age-at-length data playing a significant role in estimation errors. While the effect of sample size on estimation errors is neither linear nor exponential, larger effective sample sizes generally lead to less estimation errors for management-related quantities.
FISHERIES RESEARCH
(2021)
Article
Computer Science, Software Engineering
Jing Zhou, Ke Chen, Jinsheng Liu
Summary: The study introduces a novel definition of weighted entropy to enhance clustering performance for small and diverse datasets. Experimental results on the UC-Irvine dataset show that the proposed algorithm outperforms existing algorithms in terms of clustering performance.
CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE
(2021)
Article
Mathematics, Applied
Majid Amirfakhrian, Faramarz Samavati
Summary: This paper presents the construction of ellipsoidal neighborhoods for meshless interpolation and approximation methods, which allows for easier identification of local data trends and provides advantages over current methods.
APPLIED MATHEMATICS AND COMPUTATION
(2021)
Article
Ecology
Donald E. E. Weller, Matthew E. E. Baker, Ryan S. S. King
Summary: The study developed a distance-weighted regression method to explain how the effects of land use on aquatic systems attenuate with the arrangement of source areas within catchments. They derived a framework to resolve issues with weighting and quantified the spatial distribution of land areas. The methods enable more comprehensive analyses of the effects of spatial arrangement on scientific investigations and applications.
Article
Multidisciplinary Sciences
Charu Sharma, Niteesh Sahni
Summary: This paper explores mutual information based stock networks to build regular vine copula structure on high frequency log returns of stocks for estimating Value at Risk (VaR) of a stock portfolio. The data-driven model learns from the high frequency time series data of log returns of top 50 stocks listed on the National Stock Exchange (NSE) in India for 2014. The best fit GARCH model observed was ARMA(1,1)-EGARCH(1,1), and using mutual information in constructing the R-Vine copula structure led to superior VaR estimations compared to using Kendall's Tau.
Article
Fisheries
Brenda Temperoni, Rocio Isla Naveira, Carla Derisio, Agueda E. Massa
Summary: This research aimed to determine the fatty acid (FA) profiles of age-0 + hake and their zooplankton prey, identify FA trophic markers, infer their diet based on stomach analysis, and evaluate spatial changes in FA indicators in the Patagonian nursery ground. The results showed that FAs play a crucial role in the energy transfer and food web structure of the study area, providing valuable insights for ongoing recruitment studies of hake in the region.
FISHERIES RESEARCH
(2023)
Article
Physics, Multidisciplinary
Fushing Hsieh, Elizabeth P. Chou, Ting-Li Chen
Summary: CEDA with mimicking explores and exhibits the complexity and structural dependency of data matrices, revealing information content and feature associations from fine-scale to global structures. It enhances data visualization reliability and robustness, clarifying which covariate feature-groups have major-vs.-minor predictive powers on response features at specific scales.
Article
Fisheries
Kristin M. M. Privitera-Johnson, Richard D. D. Methot, Andre E. E. Punt
Summary: The specification of selectivity in integrated stock assessments is crucial for accurate management estimates. This paper compares 12 approaches using simulation and finds that double normal selectivity is most robust to uncertainty in the true form of selectivity.
FISHERIES RESEARCH
(2022)
Article
Fisheries
Jonathan Babyn, Divya Varkey, Paul Regular, Danny Ings, Joanna Mills Flemming
Summary: The study introduces a novel spatial Age Length Key (ALK) model that incorporates a Gaussian Field approximation and accounts for physical barriers in the study area. Results show that spatial ALK approaches reduce errors in age-stratified abundance estimates compared to non-spatial approaches, and incorporating physical barriers leads to more realistic results.
FISHERIES RESEARCH
(2021)
Article
Mathematics, Applied
Yunfei Lv, Yongzhen Pei, Rong Yuan
Summary: This paper discusses a general age-structured model with diffusion, covering factors such as intra-specific competition and periodic delay. The concept of basic reproduction number R-0 is introduced to establish threshold dynamics on mosquito extinction and persistence. The global stability of the positive periodic solution is obtained by decoupling the adult equation and introducing a suitable phase space.
NONLINEAR ANALYSIS-REAL WORLD APPLICATIONS
(2021)
Article
Fisheries
Andre E. Punt, Claudio Castillo-Jordan, Owen S. Hamel, Jason M. Cope, Mark N. Maunder, James N. Ianelli
Summary: Natural mortality (M) is a crucial parameter in fish stock assessment, but estimating it accurately can be challenging and errors can impact management decisions. Using feedback management strategies can mitigate the effects of errors in M, but achieving management objectives may be compromised when errors are present.
FISHERIES RESEARCH
(2021)
Article
Biodiversity Conservation
Andre E. Punt, Margaret C. Siple, Tessa B. Francis, Philip S. Hammond, Dennis Heinemann, Kristy J. Long, Jeff Moore, Maritza Sepulveda, Randall R. Reeves, Gudjon Mar Sigurdsson, Gisli Vikingsson, Paul R. Wade, Rob Williams, Alexandre N. Zerbini
Summary: The study addresses the challenge of determining acceptable rates of human-caused mortality in low-data situations for marine mammals and conservation species. Three alternative methods are developed to identify acceptable levels of human-caused mortality for long-lived, slowly reproducing species, using relative abundance indices and estimates of bycatch mortality in fisheries. The study shows that these methods can achieve conservation performance similar to the traditional PBR approach, but are more sensitive to uncertainties in estimating bycatch mortality.
JOURNAL OF APPLIED ECOLOGY
(2021)
Article
Fisheries
Cristian M. Canales, Andre E. Punt, Mauricio Mardones
Summary: This study introduces a Length-Based Pseudo-cohort Analysis (LBPA) model for estimating stock status in data-poor fisheries using multiple length-frequency samples, showing better performance compared to traditional methods. Simulations indicate that LBPA outperforms the length-based spawning potential ratio (LBSPR), especially under high exploitation rates.
FISHERIES RESEARCH
(2021)
Article
Fisheries
Catherine M. Dichmont, Roy A. Deng, Natalie Dowling, Andre E. Punt
Summary: Stock assessments are crucial for fisheries management, and there is a growing demand for assessments based on population dynamics models. The trend is shifting towards using flexible, documented software packages to improve efficiency and consistency. A website has been developed to collate available stock assessment packages and facilitate feedback between users and developers for designing the next generation of assessment tools.
FISHERIES RESEARCH
(2021)
Article
Fisheries
Cole C. Monnahan, James T. Thorson, Stan Kotwicki, Nathan Lauffenburger, James N. Ianelli, Andre E. Punt
Summary: Abundance indices from scientific surveys play a crucial role in stock assessment, but variations in fish availability over space and time can lead to inaccuracies. A vertically integrated index that considers spatiotemporal correlation and gear availability is essential for estimating more accurate indices for semi-pelagic fish species like walleye pollock. Understanding the spatial and temporal patterns in vertical distribution and gear availability is important for improving stock assessment methods.
ICES JOURNAL OF MARINE SCIENCE
(2021)
Article
Biodiversity Conservation
Cecilia A. O'Leary, Stan Kotwicki, Gerald R. Hoff, James T. Thorson, Vladimir V. Kulik, James N. Ianelli, Robert R. Lauth, Daniel G. Nichol, Jason Conner, Andre E. Punt
Summary: The study highlights the importance of intercalibrating disparate data to accurately index populations as they move beyond historical survey footprints. By combining US and Russian data, the research assesses changes in the availability of groundfish biomass in the Bering Sea, emphasizing the need for international cooperation on assessing spatial availability of stocks common to multiple countries.
JOURNAL OF APPLIED ECOLOGY
(2021)
Article
Oceanography
Andre E. Punt, Michael G. Dalton, Wei Cheng, Albert J. Hermann, Kirstin K. Holsman, Thomas P. Hurst, James N. Ianelli, Kelly A. Kearney, Carey R. McGilliard, Darren J. Pilcher, Matthieu Veron
Summary: Climate-enhanced stock assessment models integrate environmental variables into population dynamics models to better manage marine resources under climate change. These models can help calculate biological and economic reference points and projections under alternative harvest strategies.
DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY
(2021)
Article
Fisheries
Tobias K. Mildenberger, Casper W. Berg, Alexandros Kokkalis, Adrian R. Hordyk, Chantel Wetzel, Nis S. Jacobsen, Andre E. Punt, J. Rasmus Nielsen
Summary: The study compares the effectiveness of two precautionary approaches in recovering over-exploited fish stocks, finding that both methods reduce the risk of overfishing at the expense of expected yield. The success of these strategies depends on HCRs, life-history parameters, and the level of scientific uncertainty.
FISH AND FISHERIES
(2022)
Article
Fisheries
Margaret C. Siple, Laura E. Koehn, Kelli F. Johnson, Andre E. Punt, T. Mariella Canales, Piera Carpi, Carryn L. de Moor, Jose A. A. De Oliveira, Jin Gao, Nis S. Jacobsen, Mimi E. Lam, Roberto Licandeo, Martin Lindegren, Shuyang Ma, Gudmundur J. Oskarsson, Sonia Sanchez-Marono, Szymon Smolinski, Szymon Surma, Yongjun Tian, Desiree Tommasi, Mariano T. Gutierrez, Verena Trenkel, Stephani G. Zador, Fabian Zimmermann
Summary: Management strategy evaluation (MSE) is a cutting-edge approach for testing and comparing management strategies, accounting for various uncertainties. Small pelagic fish play a vital ecological role in marine food webs, but present challenges to MSE and other evaluation methods due to their substantial ecological and life history uncertainties.
FISH AND FISHERIES
(2021)
Article
Fisheries
Kristin McQuaw, Andre E. Punt, Ray Hilborn
Summary: Rebuilding overfished stocks is crucial for fisheries policy. Evaluating the rebuilding plans in the US West Coast groundfish fishery reveals that adopting a strategy with slower rebuilding rates could minimize adverse impacts to stakeholders while achieving stock rebuilding targets.
FISHERIES RESEARCH
(2021)
Article
Oceanography
Georgina A. Gibson, Matthew R. Baker, William T. Stockhausen, Sarah Hinckley, Carolina Parada, Kerim Aydin, Kenneth O. Coyle, Albert J. Hermann, Thomas P. Hurst, Andre E. Punt
Summary: The Gulf of Alaska Integrated Ecosystem Research Program (GOAIERP) conducted a multi-disciplinary study to examine the influence of the environment on the survival and recruitment of early life stages of commercially and ecologically important groundfish species. The integration of Eulerian ecosystem models and Lagrangian Individual-Based Models provided valuable insights into recruitment processes and their potential application to fisheries management. However, coordination between model development, experimentation, and field sampling is challenging and requires careful consideration of data analysis and model validation.
DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY
(2022)
Review
Fisheries
Daniel R. Goethel, Kristen L. Omori, Andre E. Punt, Patrick D. Lynch, Aaron M. Berger, Carryn L. de Moor, Eva E. Plaganyi, Jason M. Cope, Natalie A. Dowling, Richard McGarvey, Ann L. Preece, James T. Thorson, Milani Chaloupka, Sarah Gaichas, Eric Gilman, Sybrand A. Hesp, Catherine Longo, Nan Yao, Richard D. Methot
Summary: Marine population modeling is an important research field that supports fisheries interventions. It has made recent advancements to address challenges like climate change and enduring issues such as data limitations. The review highlights the integration of various dimensions in fisheries models, facilitated by interdisciplinary research teams and improved data collection protocols. However, the implementation of model-based advice and sharing of confidential data remain challenges. The authors recommend participatory co-management approaches, wider inclusion of local knowledge and stakeholder input, and improved communication and engagement in fisheries management to make better informed decisions.
REVIEWS IN FISH BIOLOGY AND FISHERIES
(2023)
Article
Fisheries
Sean Pascoe, Andre E. Punt, Trevor Hutton, Paul Burch, Pia Bessell-Browne, L. Richard Little
Summary: Consideration of economic outcomes is common in fisheries management globally, but few jurisdictions prioritize economic objectives. Australia's federally managed fisheries have adopted maximum economic yield (MEY) as their primary objective, with biomass-based target reference points used in harvest control rules. In the absence of explicit estimates for biomass-based MEY (BMEY), proxy estimates based on maximum sustainable yield (BMSY) are used. However, estimating BMEY in multi-species fisheries is challenging due to assessments conducted at the individual species level, while economic activity spans across species. This complexity is further compounded in fisheries with multiple fishing gears and targeting practices. Using an age-structured bioeconomic model, this study estimates BMEY for key species in a multi-species, multi-metier fishery, revealing higher optimal biomass levels compared to the current proxy-based system, with economic targets sensitive to changing prices and fishing costs.
CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES
(2023)
Article
Fisheries
Cody S. Szuwalski, Anne B. Hollowed, Kirstin K. Holsman, James N. Ianelli, Christopher M. Legault, Michael C. Melnychuk, Dan Ovando, Andre E. Punt
Summary: Climate change can impact global fisheries productivity. Maintaining current management targets is more beneficial for biodiversity protection than increasing catch through climate adaptation in maximum sustainable yield (MSY) based management. The conservation gain of maintaining management targets increases as the harmful impacts of climate change on productivity worsen. New management tools are needed to balance conservation and food production in ecosystems with non-stationary productivity.
FISH AND FISHERIES
(2023)
Article
Biodiversity Conservation
A. J. Warlick, G. K. Himes Boor, T. L. McGuire, K. E. W. Shelden, E. K. Jacobson, C. Boyd, P. R. Wade, A. E. Punt, S. J. Converse
Summary: Knowledge about demographic and environmental factors is crucial for designing effective conservation measures. This study used an integrated population model to analyze the endangered Cook Inlet population of beluga whales. The research revealed possible depression in survival and fecundity, and predicted a continued decline with a 17-32% probability of extinction in 150 years. The study highlights the usefulness of integrated population modeling in understanding population dynamics and identifying factors contributing to the failure of protected populations to recover.
ANIMAL CONSERVATION
(2023)
Article
Fisheries
Miguel Petrere Jr, Davi Butturi-Gomes
Summary: This short communication aims to raise awareness about the misuse of confidence intervals in Ecology and Fisheries statistical models that ignore the lack of independence.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Peter-John F. Hulson, Benjamin C. Williams
Summary: This study evaluates the impact of considering ageing error and growth variability on the determination of input sample size (ISS) in statistical catch-at-age assessment models. The results show that including these sources of uncertainty decreases the ISS determined through bootstrap methods. This indicates that there is more variability in age composition and conditional age-at-length data than previously accounted for. Including these sources of uncertainty improves the estimation of ISS and subsequently improves the quality of stock assessment models.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Jason M. Cope
Summary: Fishery resource assessment is a complex and challenging task, but with the use of different analysis methods and tools, effective management guidance can be provided even with limited data and resources.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Regina L. Cunha, Joana I. Robalo, Sara M. Francisco, Ines Farias, Rita Castilho, Ivone Figueiredo
Summary: Recent advances in genomics have greatly contributed to the assessment of fish stocks by providing precise identification of genetic boundaries. This study used a genotyping-by-sequencing approach to reveal the existence of an additional genetic cluster of blackspot seabream in the northeast Atlantic, which was not previously identified. Factors such as ocean circulation patterns and local upwelling may play a role in the genetic differentiation observed in this study.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Huihua Lee, Mark N. Maunder, Kevin R. Piner
Summary: Estimating growth is important for fish population assessment. Integrated assessment models and the influence of misfitting size composition data have renewed interest in how growth is modeled. The available data types control how the length-at-age relationship is estimated. Estimating length-at-age is complex due to multiple sources of biological variability and difficulties in obtaining representative samples.
FISHERIES RESEARCH
(2024)
Article
Fisheries
A. Ladino, I. Perez-Arjona, V. Espinosa, M. Chillaron, V. Vidal, L. M. Godinho, G. Moreno, G. Boyra
Summary: This study examines the acoustic properties of skipjack tuna and Atlantic mackerel, both bladderless pelagic fish species, and explains the significant differences observed. The research shows that the differences in material properties of their tissues predict a more than 10 dB greater reduced target strength in skipjack compared to mackerel at certain frequencies.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Nelly Pena-Cutimbo, Cristel Cordero-Maldonado, Clara Ortiz-Alvarez, Joanna Alfaro-Shigueto, Jeffrey C. Mangel
Summary: Bycatch is a global problem for marine megafauna. This study assessed the bycatch interactions of the Peruvian artisanal purse-seine fishery in 2019 and found that all taxa groups were affected by bycatch. Dusky dolphins, guanay cormorants, and eagle rays were the most frequently reported bycatch species.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Jen-Ming Liu, Po-Yuk So
Summary: The set-net fishery is an environmentally friendly fishery posing little risk to the marine ecosystem. This study identified ocean temperature, sea surface factors, and climatic factors as the main factors affecting the installation of set-nets.
FISHERIES RESEARCH
(2024)
Article
Fisheries
Josie L. Palmer, Carina Armstrong, Hasan D. Akbora, Damla Beton, Cigdem Caglar, Brendan J. Godley, Kristian Metcalfe, Meryem Ozkan, Robin T. E. Snape, Annette C. Broderick
Summary: Small-scale fisheries are vital for global food security and cultural heritage, but the lack of information hampers effective management and mitigation of ecological impacts. This study provides the first comprehensive overview of the small-scale fishery fleet in Northern Cyprus. The fleet operates mainly over the continental shelf, using static and demersal gear types, and catches a diverse range of species, some of which are threatened. The findings can be used to improve fisheries management and conservation measures.
FISHERIES RESEARCH
(2024)