Lemos, L. N. | Search bioRxiv

bioRxiv2025

Microbial signatures define the ecosystem functions of the pelagic microbiome in a basin-scale, Southwest Atlantic Ocean

BackgroundThe pelagic environment may present a mosaic of biogeographical domains that regional oceanographic processes can influence. Here, a coastal-to-open ocean microbiome investigation was conducted on 64 water samples from the Santos Basin (SB), South Atlantic Ocean. Using metagenomics and machine learning approaches, we assessed the diversity and distribution of pelagic microbes, identified key bacterial and archaeal taxa, and inferred their ecosystem functions. ResultsUnsupervised machine learning revealed a clear spatial and vertical (light availability) distribution pattern across SB, with some indicator taxa previously observed in other marine waters. Supervised learning further revealed that environmental variables, notably phosphate, salinity, and nitrate, which are key markers of local upwelling and the La Plata River plume, are primary drivers of microbial community structure. Furthermore, we recovered 307 metagenome-assembled genomes with 45% of Archaea and 42% of Bacteria possible new taxa. In terms of functionality, the SB dataset revealed a pelagic ecosystem resembling typical marine (e.g., Atlantic Ocean) waters, with photoautotrophs and nitrogen fixers in the photic zone and different autotrophic pathways in the aphotic environment. Surprisingly, the SB dataset revealed genes for CO bio-oxidation and algal dimethylsulfoniopropionate (DMSP) degradation at all depths. Furthermore, we observed potential non- cyanobacterial diazotrophs in dark water. ConclusionsOur results revealed that the SB represents a unique ecosystem with local oceanographic processes shaping the distribution of diverse and uncharacterized microbiomes. Additionally, these findings highlight the importance of mixotrophic microbes in SB biogeochemical cycles. This massive investigation of the SB pelagic microbiome provided knowledge-based data for understanding local ecosystem health, services, and dynamics, which are essential for future sustainable ocean management.

microbiology↗

bioRxiv2025

Cannabinoid receptor deficiencies drive immune response dynamics in Salmonella infection

This study investigated the roles of cannabinoid receptors 1 and 2 (CB1R and CB2R) in regulating host responses to Salmonella Typhimurium in C57BL/6 mice. The absence of both receptors significantly impaired host resilience, as evidenced by increased weight loss, deteriorated body condition, and reduced survival following infection. Notably, CB1R deficiency resulted in more pronounced weight loss and heightened susceptibility to bacterial proliferation, as demonstrated by increased Salmonella dissemination to organs. In addition, both CB1R and CB2R knockout mice exhibited alterations in immune cell recruitment and cytokine production. CB1R-KO mice displayed increased T cell and macrophage populations, whereas CB2R-KO mice showed a reduction in NK cells, indicating receptor-specific effects on immune cell mobilization. Cytokine profiling of macrophages post-infection revealed that CB1R-KO mice had reduced IL-10 levels, along with increased IL-6 and TGF-{beta}, suggesting a dysregulated polarization state that combines pro-inflammatory and regulatory elements. In contrast, CB2R-KO mice exhibited a profile consistent with a more straightforward pro-inflammatory shift. Furthermore, microbiota analysis demonstrated that CB2R-KO mice experienced significant gut dysbiosis, including reduced levels of beneficial Lactobacillus and Bifidobacterium species and an increase in pro-inflammatory Alistipes species post-infection. Functional microbiome analysis further indicated declines in key metabolic pathways, such as the Bifidobacterium shunt, L-glutamine biosynthesis, and L-lysine biosynthesis, suggesting microbiota-driven immune dysregulation. Together, these findings highlight the distinct, non-redundant roles of CB1R and CB2R in modulating innate immunity, host defense, and microbiota composition during bacterial infections. Significance StatementUnderstanding the role of cannabinoid receptors in immune regulation is important for identifying new therapeutic targets for bacterial infections. Our study demonstrates that CB1R and CB2R play distinct, non-redundant roles in host defense against Salmonella Typhimurium. The absence of these receptors impairs host resilience, increases bacterial dissemination, and alters immune cell recruitment and cytokine production. Notably, CB1R deficiency leads to enhanced weight loss, increased bacterial spread, and a dysregulated macrophage cytokine profile--characterized by reduced IL-10 and elevated IL-6 and TGF-{beta}--while CB2R deficiency is associated with reduced NK cell numbers and a more pronounced pro-inflammatory cytokine profile. These findings reveal a receptor-specific balance in immune responses, suggesting that cannabinoid signaling modulates infection outcomes. Targeting CB1R and CB2R pathways may offer novel strategies to enhance host immunity and improve treatments for bacterial infections in the future.

microbiology↗