The dataset contains data from fyke nets deployed in the Minho Estuary (Portugal) from 2010 to 2019. The fyke nets were used for fish sampling and data collection. The sampling frequency varied but, on average, data was collected weekly using five different fyke nets. However, due to technical issues, the sampling pattern is not constant, with some fyke nets staying underwater for shorter or longer periods, and occasionally having fewer than five fyke nets per event. The dataset includes various variables such as parentEventID, eventID, eventDate, year, startDayOfYear, endDayOfYear, decimalLatitude, decimalLongitude, habitat, samplingProtocol, sampleSizeValue, sampleSizeUnit, samplingEffort, occurrenceStatus, occurrenceID, organismQuantity, organismQuantityType, degreeOfEstablishment, vernacularName, scientificName, acceptedNameUsageID, taxonRank, kingdom, phylum, order, family, genus, and scientificNameAuthorship.