Species identification is pivotal in biodiversity assessments and proteomic fingerprinting by MALDI-TOF mass spectrometry has already been shown to reliably identify calanoid copepods to species level. However, MALDI-TOF data may contain more information beyond mere species identification. In this study, we investigated different ontogenetic stages (copepodids C1-C6 females) of three co-occurring Calanus species from the Arctic Fram Strait, which cannot be identified to species level based on morphological characters alone. Differentiation of the three species based on mass spectrometry data was without any error. In addition, a clear stage-specific signal was detected in all species, supported by clustering approaches as well as machine learning using Random Forest. More complex mass spectra in later ontogenetic stages as well as relative intensities of certain mass peaks were found as the main drivers of stage distinction in these species. Through a dilution series, we were able to show that this did not result from the higher amount of biomass that was used in tissue processing of the larger stages. Finally, the data were tested in a simulation for application in a real biodiversity assessment by using Random Forest for stage classification of specimens absent from the training data. This resulted in a successful stage-identification rate of almost 90%, making proteomic fingerprinting a promising tool to investigate polewards shifts of Atlantic Calanus species and, in general, to assess stage compositions in biodiversity assessments of Calanoida, which can be notoriously difficult using conventional identification methods.

Small copepod genera play an important role in marine food webs and biogeochemical fluxes but have been neglected in many studies. This is the first study determining biomass, carbon consumption and egestion rates of small- (<1 mm prosome length, PL), medium- (1–1.5 mm PL) and large-sized (>2 mm PL) copepods along a cross-shelf transect in the southern Benguela upwelling system. Calanoids contributed on average 55 ± 19% to total copepod abundance and 82 ± 13% to total copepod biomass. Small-sized Oithona spp. (114–119 mg C m−2 d−1) and Clausocalanidae/Paracalanidae (87–263 mg C m−2 d−1) as well as large-sized Calanoides natalis (47–193 mg C m−2 d−1) were the dominant consumers at the most inshore stations. Small- and medium-sized copepodite stages of Metridia lucens were also important, especially towards the continental slope. At offshore stations, Clausocalanidae/Paracalanidae, Oithona spp., Pleuromamma spp., Calanus agulhensis, Acartia spp., C. natalis and M. lucens were dominant consumers. Hence, usually small- and medium-sized copepods dominated total copepod ingestion and egestion, emphasizing that inadequate representation of small copepods will lead to significant underestimations and misinterpretations of the functioning of zooplankton communities and finally to inadequate biogeochemical models.

The Arctic Ocean is rapidly changing. Air temperature is rising two to four times faster in the Arctic than the global average, with dramatic consequences for the ecosystems. Polar zooplankton species have to cope with those increasing temperatures, whilst simultaneously facing increasing competition by boreal-Atlantic sister species advected into the Arctic Ocean via a stronger Atlantic inflow. To assess the sensitivity of Arctic and Atlantic zooplankton to rising temperatures, respiration rates of dominant Arctic species (Calanus hyperboreus, Calanus glacialis, Paraeuchaeta glacialis, Themisto libellula) and their co-occurring Atlantic congeners (Calanus finmarchicus, Paraeuchaeta norvegica, Themisto abyssorum) were measured at ambient temperatures and simulated conditions of ocean warming from 0 to 10°C during three expeditions with RV Polarstern to the Arctic Fram Strait. Arctic zooplankton showed only slowly increasing respiration rates with increasing temperatures, also indicated by low Q10 ratios. In contrast, boreal-Atlantic representatives responded to higher temperatures by a rapid and steeper increase in their respiration rates (higher Q10), suggesting higher metabolic activity. These results imply that Arctic species are physiologically more tolerant to ocean warming than expected but might be outcompeted by their Atlantic congeners beyond a certain temperature threshold in areas of strong distribution overlap. Thus, the ‘Atlantification’ of the Arctic zooplankton community seems to be driven rather by ecological interactions than by physiological limitations. Changes in zooplankton community composition and biodiversity will have major consequences for trophodynamics and energy flux in Arctic ecosystems, since polar species tend to be larger than their southern counterparts and have a higher lipid content, providing more energy-rich food for higher trophic levels.

Life strategies, ecophysiological performances and diel vertical migration (DVM) of zooplankton key species affect the efficiency and strength of the biological carbon pump (BCP). However, it is unclear to what extent different functional groups affect the BCP. Depth-stratified day and night samples (0-800 m) from the subtropical South Atlantic were analyzed focusing on the calanoid copepod community. Calanoid abundance, biomass distribution and species-specific impact on the passive (fecal pellets) and active (via DVM) vertical flux of carbon were determined. Species were assigned to different migrant groups where, their contributions were estimated by using the proportion of the migratory community instead of simple day-night differences in biomass. This novel approach leads to more robust flux estimates, particularly for small sample sizes. According to migration ranges and day/night residence depth, functional groups were characterized, i.e. small- and large-scale epipelagic and mesopelagic migrants. Epipelagic small-scale migrants transported respiratory (1.5 mg C m-2 d-1) and fecal pellet (1.1 mg C m-2 d-1) carbon from the upper to the lower epipelagic zone, where the latter can fuel the microbial loop, and thus deep chlorophyll maxima, or be ingested by other zooplankton. Large-scale migrants actively transported up to 10.5 mg C m-2 d-1 of respiratory carbon from the epipelagic layer into the twilight zone. The majority was transported by Pleuromamma borealis (5.7 mg C m-2 d-1) into the upper mesopelagic. In addition, up to 8.0 mg C m-2 d-1 was potentially egested as fecal material by large-scale zone shifters. Mesopelagic migrants transported respiratory (0.2 mg C m-2 d-1) and fecal pellet carbon (0.1 mg C m-2 d-1) even deeper into the ocean. Community consumption of migrants in the epipelagic layer during the night was 98 mg C m-2 d-1, while non-migrants consumed 98-208 mg C m-2 d-1 in the epipelagic zone, with a potential subsequent egestion of 29-62 mg C m-2 d-1. This carbon may fuel omnivorous-detritivorous feeding, the microbial loop and/or may sink as fecal pellets. This case study shows how calanoid functional groups mediate carbon fluxes in the subtropical South Atlantic Ocean and demonstrates how detailed community analyses can elucidate the complexity of pelagic carbon budgets.