Description: The damselfish Neopomacentrus cyanomos were collected twice under an oil-loading platform 1.5 km from the Cayo Arcas reef (20.21°N, −91.98°W), in August 2016 (n = 16) and August 2017 (n = 30). All fish sampled in August 2016 were submitted to an acute-thermal-decline protocol (−4 °C over a period of 1 h, and maintaining the temperature for 23 h), while the ones collected in August were acclimated 45 days at 18, 20, 22, and 26 °C. Finally, half of the acclimated fish were submitted to a high temperature challenge to assess the effect of cold thermal acclimation on heat tolerance scope. Data of routine metabolic rates, blood metabolites and biochemical stress indicators from each fish are provided in this data set.

Description: Little is known about ecosystem structure and nutrient flux in the pelagic zone of seasonal upwelling systems in the tropics, despite their global importance to marine production. The Tropical Eastern Pacific (TEP) is responsible for around 10 % of global ocean productivity, largely due to wind-driven seasonal upwelling areas between Mexico and Panama. The Gulf of Panama has a detectable outflow for hundreds of kilometres into the Pacific Ocean and the upwelling system there is an important productivity source in the TEP. In this study, we aim to determine the spatio-temporal patterns in variability of carbon and nitrogen stable isotope composition throughout the pelagic ecosystem of the Bay of Panama in upwelling and non-upwelling conditions, and how these patterns are recorded throughout the ecosystem from primary producers to apex predators. We characterise the stable isotope composition of basal production in the ecosystem to quantify spatial variability during the non-upwelling season. We use the δ15N composition outside of upwelling season as an ecosystem baseline and quantify the overall δ15N separation between all trophic levels (TL) from primary producers to apex predators (e.g. yellowfin tuna and mahi mahi) within the pelagic ecosystem (2.9±0.1 ‰ per TL). The ecosystem has a relatively simple, linear structure with size-based TL increase. We calculate the predator-prey mass ratio of this ecosystem (c. 113:1 for fishes, 376:1 for the whole ecosystem, uncertainty range: 77:1 to 1272:1). These values are low for existing estimates in other marine ecosystems, although within the expected range for animals of the mass sampled. The calculated predator-prey mass ratios and maximum TL indicate that this pelagic ecosystem may have a relatively long trophic chain, with inefficient nutrient transfer from low to high TLs. Using a monthly time series of stable isotope values of resident, planktivorous fishes and co-occurring sea surface temperature measurements, we determine nutrient transfer time between primary production and TL3 fish. We calculate a rapid nutrient turnover time within this ecosystem as 0.5 - 1 month per TL. The incorporation of upwelled nutrients, which are enriched in the 13C, leads to higher consumer δ13C values. Carbon isotopes can therefore be used to track timing, duration, and use of upwelling zones. Our findings give novel, empirical insights into the functional ecology of the pelagic ecosystem in the Gulf of Panama, and provide a baseline for comparison and quantification of ecosystem structure and dynamics in the tropics, and in other pelagic upwelling systems.