Spanning 20 years (1979–2007), this study is the longest time series pertaining to the resident shrimp species Palaemon longirostris in a European estuary. Data from monthly faunal surveys undertaken across the middle part of the Gironde estuary from April 1979 along with data from a statistical analysis of the commercial catches throughout the entire estuary and river were considered in order to explore their inter and intra-annual variability and long-term trends. Long-term densities series as well as environmental series (salinity, discharge, temperature and NAO) were decomposed and the effects of environmental variables were also examined using statistical models (GAMs). This revealed important spatio-temporal variability and a significant overall decrease in abundance of this species in the Gironde estuary since the beginning of the 1980s. This longterm decrease in abundance corresponded significantly to long-term decreases in both discharge and the NAO index, as well a long-term increase in temperature and salinity in the middle part of the estuary. However, models showed that environmental factors explained only a small part of the variability. The upstream shift of the population highlighted in this study, probably due to the intrusion of marine waters into the middle section of the estuary, may also have contributed to its decrease in abundance. Inter-annual variability of densities was also significantly linked with inter-annual fecundity fluctuations, and a significant decrease in both mean female size and fecundity was shown for preserved samples from 1992. Moreover, the breeding period has been temporally stretched out and began earlier in more recent years, potentially due to the increase in spring temperature.