The Napo Basin in Ecuador is an important drainage of the Amazon Basin, the most biodiverse ecosystem for freshwater species. At the same time, this basin has conspicuous information gaps on its biodiversity patterns and human threats. Here, we estimated the diversity distribution patterns of freshwater vertebrates and invertebrates in the Napo Basin, as a tool for present and future management and conservation efforts. Also, we assessed the spatial congruence of the diversity patterns observed between aquatic vertebrates and invertebrates. For this, we compiled occurrence records for 481 freshwater vertebrate species (amphibians, birds, mammals, reptiles, and fish), and 54 invertebrate families obtained across an altitudinal gradient of the basin (200-4500 m). Using these occurrence records and environmental variables, we modeled the distribution of each vertebrate species and invertebrate family. Then, we stacked these distributions to build species richness maps for vertebrates, and a family richness map for invertebrates. We found that the most diverse areas for vertebrate species are the lowlands (<600 m), whereas richness of invertebrate families peaks at higher elevations (lower montane forests). Congruence among species richness patterns of the five vertebrate groups was high (r = 0.66), with fish being the best predictor for vertebrates (r = 0.78). However, congruence decreased at higher elevations (r = 0.14), suggesting that specific species or habitat-based approaches should be used in the highlands. Also, we found a high correlation between species and family richness of freshwater invertebrates (r = 0.66), suggesting that family richness of invertebrates could be used as a surrogate of species richness in this basin. We highlight this correlation because, at the watershed scale, it allows working with family groups where species-level taxonomy is challenging. Our results provide the first comprehensive representation of freshwater biodiversity patterns at high resolution in an Andean-Amazon basin, and calls attention to the need for incorporating different taxonomic groups when assessing diversity patterns. Given these different diversity patterns, conservation programs for this basin should incorporate both vertebrate and invertebrate groups as biodiversity indicators. Finally, our study provides a practical methodological guidance in the estimation of freshwater diversity in regions of scarce information with high conservation priority, such as the Andean-Amazon basins.

Combined effects of climate change and increasing anthropogenic water demand have increased and extended dry period occurrences in rivers worldwide. Riverbed drying can significantly affect sediment microorganisms, crucial drivers of biogeochemical processes in lotic systems. In this study, we evaluated how sediment bacterial and fungal community structure and composition (based on 16S rRNA gene and ITS metabarcoding) and microbial functions (community respiration and extracellular enzymatic activities) respond to different riverbed drying intensities over 90 days. Riverbed sediment collected in a flowing reach of the Spree river in northeastern Germany was dried under different rates in outdoor mesocosms during the summer months of 2018. Our results demonstrate that drying attributes (duration and intensity) and sediment organic matter (OM) content play a crucial role in sediment microbial community assembly and functioning throughout drying. Milder drying surprisingly triggered a more rapid and drastic change in the microbial community composition and diversity. After 90 days of drying, Bacilli (Firmicutes) became the dominant bacterial class in most treatments, except in sediments with low OM content under the most severe drying treatment. Fungal amplicon sequence variants (ASVs) from Dothideomycetes (Ascomycota) had by far the highest relative abundance in all our treatments at the end of the drying experiment, making up 65.1% to 94.0% of the fungal reads. CO2 fluxes, a proxy for sediment community respiration, were rapidly and strongly affected by drying in all treatments. Our results imply that even short riverbed drying periods are likely to have significant consequences for the biogeochemical dynamics in recently formed non-perennial temperate rivers.

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Climate change and erosion from agricultural areas cause increased drying periods and bedform migration of riverbeds, respectively, worldwide. Both sediment drying and bedform migration can independently stress the microbial community residing in the riverbed. Here, we investigated the microbial response after exposure to these stressors with a focus on long-term recovery. We conducted an in situ experiment to investigate the long-term (8 months) functional and structural recovery of benthic microbial communities from either sediment drying (episodic severe stressor) or bedform migration (frequent moderate stressor). Stressed sediment associated communities were rewetted (dried sediments) and immobilized (migrated sediments) and exposed in the River Spree (north-eastern Germany) to initiate the recovery process. We then evaluated the microbial function (community respiration, net community production and extracellular enzymatic activities) as well as the bacterial, fungal and diatom community structure (16S rRNA gene and ITS region metabarcoding, and microscopic diatom morphotype classification). We observed different recovery times for community respiration (less than 7 days) and gross primary production (more than 5 months), implying a shift toward net heterotrophy in the first few months after stress exposure. Similarly, we observed a strong autotrophic community response (particularly associated with the diatoms Navicula and Fragilaria), especially in migrated sediments. The bacterial and fungal community response to sediment drying was stronger than to bedform migration (particularly associated with the bacterium Flavobacterium and the fungi Alternaria sp. and Aureobasidium pullulans). Our results show that sediment drying and bedform migration had a significant impact on the microbial community function and structure, which persisted for several months after the stress. Due to the surprising long period of recovery, successive stress events combined with seasonal effects will likely hamper the ongoing recovery process with severe alterations to the microbial function and structure. These findings extend the concept of ecosystem resilience and stability on the dimensions of timescale and seasonal environmental variations. Legacy effects are expected to play a key role when facing future stress.