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The world's most endangered marine cetacean, the vaquita (  Phocoena sinus), continues to be caught in small‐mesh gillnet fisheries throughout much of its range. We monitored fishing effort and incidental vaquita mortality in the upper Gulf of California, Mexico, from January 1993 to January 1995 to study the magnitude and causes of the incidental take. Of those factors studied, including net mesh size, soaktime, and geographic area, none contributed significantly to the incidental mortality rate of the vaquita, implying that the principal cause of mortality is fishing with gillnets per se. The total estimated incidental mortality caused by the fleet of El Golfo de Santa Clara was 39 vaquitas per year (95% CI = 14, 93), over 17% of the most recent estimate of population size. El Golfo de Santa Clara is one of three main ports that support gillnet fisheries throughout the range of the vaquita. Preliminary results indicate that fishing effort for San Felipe, Baja California, is comparable to that of El Golfo de Santa Clara, suggesting that this estimate of incidental mortality of vaquitas represents a minimum. We strongly recommend a complete and permanent ban on gillnets in the area. Alternative or supplemental mitigation strategies include (1) a maximum annual allowable mortality limit of vaquitas; (2) mandatory observer coverage of all boats fishing within the Upper Gulf of California and Colorado River Delta Biosphere Reserve; (3) extension of the Upper Gulf of California and Colorado River Delta Biosphere Reserve to encompass all known vaquita habitat; (4) rigorous enforcement of new and existing regulations; and (5) development of alternative sources of income for gillnet fishers.

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Summary1. Ecologists often use nonlinear fitting techniques to estimate the parameters of complex ecological models, with attendant frustration. This paper compares three open-source model fitting tools and discusses general strategies for defining and fitting models. 2. R is convenient and (relatively) easy to learn, AD Model Builder is fast and robust but comes with a steep learning curve, while BUGS provides the greatest flexibility at the price of speed. 3. Our model-fitting suggestions range from general cultural advice (where possible, use the tools and models that are most common in your subfield) to specific suggestions about how to change the mathematical description of models to make them more amenable to parameter estimation. 4. A companion web site (https://groups.nceas.ucsb.edu/non-linear-modeling/projects) presents detailed examples of application of the three tools to a variety of typical ecological estimation problems; each example links both to a detailed project report and to full source code and data.

The artisanal fisheries of Ecuador operate within one of the most dynamic and productive marine ecosystems of the world. This study investigates the catch composition of the Ecuadorian artisanal fishery for large pelagic fishes, including aspects of its spatio-temporal dynamics. The analyses of this study are based on the most extensive dataset available to date for this fishery: a total of 106,963 trip-landing inspection records collected at its five principal ports during 2008 ‒ 2012. Ecuadorian artisanal fisheries remove a substantial amount of biomass from the upper trophic-level predatory fish community of the eastern tropical Pacific Ocean. It is estimated that at least 135 thousand metric tons (mt) (about 15.5 million fish) were landed in the five principal ports during the study period. The great novelty of Ecuadorian artisanal fisheries is the “oceanic-artisanal” fleet component, which consists of mother-ship (nodriza) boats with their towed fiber-glass skiffs (fibras) operating with pelagic longlines. This fleet has fully expanded into oceanic waters as far offshore as 100°W, west of the Galapagos Archipelago. It is estimated that nodriza operations produce as much as 80% of the total catches of the artisanal fishery. The remainder is produced by independent fibras operating in inshore waters with pelagic longlines and/or surface gillnets. A multivariate regression tree analysis was used to investigate spatio-environmental effects on the nodriza fleet (n = 6,821 trips). The catch species composition of the nodriza fleet is strongly influenced by the northwesterly circulation of the Humboldt Current along the coast of Peru and its associated cold waters masses. The target species and longline gear-type used by nodrizas change seasonally with the incursion of cool waters (< 25°C) from the south and offshore. During this season, dolphinfish (Coryphaena hippurus) dominates the catches. However, in warmer waters, the fishery changes to tuna-billfish-shark longline gear and the catch composition becomes much more diverse.