Complex marine-terrestrial interactions characterize Chilean fjords, where benthic communities influence the distribution of organic matter (OM). We examined spatial and seasonal changes in the hydrography, sediment conditions and soft-bottom macrobenthic, meiobenthic, and total microbial biomass in a glacial Patagonian fjord (Martinez Channel, Chile). The transport of a high load of glacial mineral and particulate OM to the fjord in the austral summer coincided with low total live benthic biomass. Multivariate analysis evidenced temporal-related macrofaunal groups influenced by the different environments produced by the advection of sediment transport and terrestrial OM from the Baker River, Chile. The relationships between density/biomass and respiration versus body size varied considerably with distance from major riverine inputs, but the slopes of density size spectra and normalized biomass size spectra were less negative in summer than in winter. Occasional large-scale advective processes in the water column affected sediment conditions and removed surface macrofauna, influencing the slope and intercept of the regression models. In the outer fjord, lateral advection and subsequent sedimentation of terrestrial OM contributed a significant fraction to total OM sediments (<14.76%). Stable carbon isotopes measured in benthic organisms suggest that benthic communities in the inner fjord may assimilate a significant fraction of terrestrial OM via heterotrophic bacteria in contrast to the minor input of terrestrial OM in the outer fjord

The Eastern South Pacific coastal zone is characterized by seasonal and interannual variability, driven by upwelling and El Niño Southern Oscillation (ENSO), respectively. These oceanographical conditions influence microbial communities and their contribution to nutrient and greenhouse gases recycling, especially in bottom waters due to oxygenation. This article addresses the seasonal hydrographic and biogeochemical conditions in the water and sediments during El Niño 2015. Bottom water active microbial communities, including nitrifiers, were studied using amplicon sequencing of 16S rRNA (cDNA) and RT-qPCR, respectively. The results of the hydrographic analysis showed changes in the water column associated with the predominance of sub-Antarctic Waters characterized by warmed and low nutrients in the surface and more oxygenated conditions at the bottom in comparison with El Niño 2014. The organic matter quantity and quality decreased during fall and winter. The bottom water active microbial assemblages were dominated by archaea (Ca. Poseidoniales) and putative ammonia oxidizing archaea. Active bacteria affiliated to SAR11, Marinimicrobia and Nitrospina, and oxygen deficient realms (Desulfobacterales, SUP05 clade and anammox) suffered variations, possibly associated with oxygen and redox conditions in the benthic boundary layer. Nitrifying functional groups contributed significantly more during late fall and winter which was consistent with higher bottom water oxygenation. Relationships between apparent oxygen utilization nitrate and nitrous oxide in the water support the contribution of nitrification to this greenhouse gas distribution in the water. In general, our study suggests that seasonal oceanographic variability during an El Niño year influences the microbial community and thus remineralization potential, which supports the need to carry out longer time series to identify the relevance of seasonality under ENSO in Eastern Boundary Upwelling Systems (EBUS) areas.