Gomes-Goncalves, A. | bioRxiv Science

bioRxiv2025

The ATO gene family governs Candida albicans colonisation in the dysbiotic gastrointestinal tract

The fungal pathogen Candida albicans colonises the human gut where short-chain fatty acids (SCFAs) offer sources of carbon. This fungus harbours one of the largest microbial families of ATO (Acetate Transport Ortholog) genes, which encode putative SCFA transport proteins. Here, we generate C. albicans null mutants lacking individual or all known putative SCFA transporter genes and compare their phenotypes in vitro and in vivo. We show that blocking ATO function in C. albicans impairs SCFA uptake and growth, particularly on acetate. The uptake of acetate is largely dependent on a functional Ato1 (also known as Frp3/Ato3) and it is effectively abolished upon deletion of all ATO genes. We further demonstrate that deletion of the entire ATO gene family, but not inactivation of ATO1 alone, compromises the stable colonisation of C. albicans in the murine gastrointestinal tract following bacterial disruption by broad-spectrum antibiotics. Our data suggest that the ATO gene family has expanded and diversified during the evolution of C. albicans to promote the fitness of this fungal commensal during gut colonisation, in part through SCFA utilisation. IMPORTANCEThe human gut is rich in microbial fermentation products such as SCFAs, which serve as key nutrients for both bacteria and fungi. C. albicans, a common fungal resident of the gut and a cause of opportunistic infections, carries an unusually large family of ATO genes. This study reveals that this ATO gene family is required for the efficient uptake of acetate, the most abundant SCFA in the gut, and for stable colonisation of the gut. These findings uncover a new layer of metabolic adaptation in fungal commensals of humans and suggest that transporter gene expansion can shape microbial fitness in response to environmental nutrient signals.

microbiology↗

bioRxiv2025

Lactic acid influences iron assimilation by a fungal pathogen via the iron reductive uptake pathway

Candida albicans is a fungal commensal of humans that often causes mucosal infections in otherwise healthy individuals, and also serious infections in immunocompromised patients. The capacity of this fungus to colonise and cause disease relies on its ability to grow within the host, adapting to various nutrient restrictions and physicochemical conditions. The presence of alternative carbon sources, such as the lactate produced by the local microbiota, influences C. albicans antifungal drug resistance and immune evasion. In this study, we used genome-wide transcriptomic analysis to investigate the effect of lactate exposure upon metabolic rewiring. We provide evidence that C. albicans cells respond to growth in the presence of lactate at pH 5 by regulating genes encoding micronutrient transporters, notably iron transporters. More specifically, lactate triggers the downregulation of genes on the reductive iron uptake pathway, inferring a diminished requirement for high-affinity iron uptake. This is supported by the observation that lactate promotes the intracellular accumulation of iron by C. albicans cells. Lactate even enhances the growth of iron-transport defective C. albicans cells under iron-limited conditions. Lactate is known to activate protein kinase A (PKA) signalling. However, lactate-induced iron assimilation is PKA-independent. This work provides new insights into the role of lactate in iron homeostasis - two important factors that promote C. albicans virulence in the mammalian host, where nutritional immunity is a key antimicrobial strategy. ImportanceCandida albicans is a major opportunistic fungal pathogen capable of causing life- threatening infections, particularly in immunocompromised individuals. Its ability to adapt to diverse host environments underlies its success as a commensal and pathogen. This study provides new insights into the metabolic flexibility of C. albicans, with a specific focus on how lactate, a common carbon source in host niches, influences iron acquisition and homeostasis. Our findings reveal that, during growth at pH 5, lactate modulates the expression of micronutrient transporters and enhances iron assimilation in C. albicans. These results suggest a role of lactate in promoting iron uptake, potentially facilitating fungal colonization and persistence within the host. By elucidating the molecular and phenotypic consequences of lactate exposure upon iron metabolism, this study contributes to a deeper understanding of host-pathogen interactions.

cell biology↗