Water Framework Directive requires reliable and effective monitoring tools, and hydroacoustics has a potential to be one of them. The effect of pulse duration on in situ acoustical estimates of fish density and their size distribution was investigated. Measurements were performed in the oligo-mesotrophic Lake Hancza (Poland) using a SIMRAD EK60 split-beam echo-sounder at 70 kHz frequency. During the survey, two similar transducers pinged alternatively through the multiplexer using 4 different pulse lengths, from short to long ones. The results show that the volume backscattering coefficient (Sv) values, equivalent of the fish biomass, were not influenced by the pulse length. However, the number of the detected fish, the mean target strength (TS), and consequently the fish density, differed significantly for the long pulse duration data. This was especially noticeable in the layer above the thermocline with dense fish populations. In this upper layer, for the long pulse the Sawada index frequently exceeded value of 0.1 leading to overestimation of the mean TS and underestimation of the fish density.

Fish schools are aggregative structures encountered in all types of aquatic environments but have as yet been little studied in freshwaters except at small spatial scales. This study represents the three dimensional description of juvenile fish schools (Perca fluviatilis and Rutilus rutilus) in a lake environment using high resolution multibeam sonar system operating at a frequency of 455 kHz, composed of 60 beams of 1.5° allowing a 90° observation plane. The in situ diurnal schooling behaviour of young-of-the-year fish of both species is confirmed. The morphological, energetic and spatial variables of these schools are described and related to one another. The structures described are of the same order of magnitude as those described in the marine environment. The school shape is elliptical, they are shallow and they display a temporal and spatial stability over the course of a day but a highly variable morphology. The number of vacuoles, a descriptor of the internal morphology of the schools, was found to be significantly (p < 0.01) correlated with the volume of the school, and showed two distinct relationships, with proportions similar to the percentage occurrence of both species sampled by a pelagic trawl. The relation may be efficient for fish species discrimination by 3-D acoustics methods in this lake with two main aggregative fish species.

The Gambia Estuary is one of the last estuaries in West Africa not to have been affected by strong environmental changes and adverse human disturbances. In order to describe the spatio-temporal change in fish biomass in this estuary, and the seasonal changes in fish size classes, five research surveys have been conducted at characteristic periods in the river's water regime and meteorological seasons. The fish assemblages were sampled by two vertical echosounding protocols: mobile surveys (zigzag transects) in the estuary and moored stations. The two sampling methods produced a similar image of the fish assemblages in terms of the distribution of total biomass and target strength distributions. Large fish aggregations were detected in the most marine area at the end of the wet season, and fish biomass increased through the dry season in the upstream zone. Fish were smaller at the beginning of the wet season and they were always larger in downstream areas.

The development of acoustics tools and methods for monitoring anthropized ecosystems represents a new field for the application of acoustics. Monitoring such an environment was not possible with single vertical echo sounders, due to the fact that the artificial structures and the natural targets were not distinguishable. Monitoring data were collected along the French Mediterranean coastline, during five short surveys of mussel culture longline areas. Both the Reson Seabat 6012 multibeam sonar (455 kHz) and the Simrad SR 240 omnidirectional sonar (23.75 kHz) were used for target detection. The former tools allow accurate allocation of the different types of echoes to artefacts, fish schools and scattered fish. The school characteristics collected included morphological, geographical (GPS, school location), and behavioural (connections with the longlines). An acoustic survey undertaken with the same hardware near the study area allowed the comparison of fish schools and the TS distribution of individual fish in the open sea and in the mussel area. These data permitted us to evaluate the ecological impact of a mussel culture on the ecosystem, in a context of predation behaviour of fish on these longlines. Finally, the acoustic data revealed the configuration of each concession and the level of charge of each line. We discuss the applicability of this technology for in situ real time monitoring for joint management of such ecosystems. The information can allow littoral cooperative management or incorporating it into an ecosystem approach.

The application of fisheries acoustics in shallow waters opens new fields of observation and allows new methods for abundance estimates. In this paper we deal with echocounting of migrating fish crossing the Beaucaire-Vallabrègues lock, the first obstacle encountered on the Rhône, using a SIMRAD EY500 split-beam sounder, 70 kHz frequency. Two transducers sampled a section of water and evaluated approximately 35% of the lock section, based on a calibration sphere. The number of fish crossing the lock was calculated for each fish lock. Crossing data for the fish were recorded (dates, position, exit time). The present analysis did not allow the identification of the two major species that cross the dam: shad (Alosa fallax) and mullet (Mugil cephalus). The number of fish counted was positively correlated with the catches per unit effort (CPUE) by recreating fishermen below the dam and with increasing water temperature.

In order to manage the fish stock of the Senegal coastal zone it is necessary to carry out direct assessment surveys by acoustic methods. Acoustic surveys were carried out in this region from a sports-fishing boat, using a split-beam echo sounder in vertical mode, in areas with depth less than 15 m. On a short time scale, spatial structure of the fish population remained stable. The average acoustic biomass detected was variable, but we observed a relative stability of target strength distribution of single fish. The use of acoustic methods in these areas of shallow depths, the consequences of escape behaviour of the fish, and sampling strategies are discussed.