a b s t r a c tVMStools is a package of open-source software, build using the freeware environment R, specifically developed for the processing, analysis and visualisation of landings (logbooks) and vessel location data (VMS) from commercial fisheries. Analyses start with standardized data formats for logbook (EFLALO) and VMS (TACSAT), enabling users to conduct a variety of analyses using generic algorithms. Embedded functionality handles erroneous data point detection and removal, métier identification through the use of clustering techniques, linking logbook and VMS data together in order to distinguish fishing from other activities, provide high-resolution maps of both fishing effort and -landings, interpolate vessel tracks, calculate indicators of fishing impact as listed under the Data Collection Framework at different spatiotemporal scales. Finally data can be transformed into other existing formats, for example to populate regional databases like FishFrame. This paper describes workflow examples of these features while online material allows a head start to perform these analyses. This software incorporates state-of-the art VMS and logbook analysing methods standardizing the process towards obtaining pan-European, or even worldwide indicators of fishing distribution and impact as required for spatial planning.

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Environmental DNA (eDNA) has attracted interest in relation to fisheries, with its possibilities for species identification and promises for species quantification. In the context of fisheries catches, eDNA can be most useful for the estimation of bycatch proportions. The assessment of species mixtures in large catches (>1000 t) is challenging, especially when morphologically similar species are to be differentiated. We used an experimental set-up to simulate industrial sprat fishery catches, and tested two types of water (blood water and discharge water) derived from this simulated fishery for their suitability in reliable species quantification. We analysed nine mixtures of sprat and herring—the main bycatch species. Species-specific quantitative PCR was used for species identification and quantification. Species-to-species weight fractions and eDNA fractions in mixtures showed a strong correlation. Accounting for size-based differences in DNA abundance (allometrically scaled weight) reduced the estimated standard error on weight fraction prediction from 0.064 to 0.054 in blood water, and from 0.080 to 0.075 in discharge water when comparing the weight-based model with the allometrically scaled weight model, respectively. Accounting for allometric scalling in genetic analyses of fisheries process water can serve as a more precise method for the assessment of bycatch, thus in a wider sense improve the quality of fisheries-dependent data.