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Lombardo, J.

Publications and source records attributed to Lombardo, J..

2 recordsLinked to original sources

Deep Learning Identifies BMI-Associated Morphologic Features in Breast Cancer Tissue

Multiple epidemiological studies have established obesity as an adverse factor in breast cancer incidence, progression, and clinical outcomes. However, the biological mechanisms underlying these associations remain incompletely understood. In peritumoral adipose tissue, obesity is associated with chronic inflammation, macrophage recruitment, and broader alterations in the local microenvironment. Whether these obesity-associated changes are accompanied by distinct morphologic features within the tumor and non-adipose stromal compartments remains unclear. In this study, we investigated whether an AI-based pathology foundation model could support the development of machine learning algorithms capable of identifying obesity-associated morphologic patterns in histopathology images, with a particular focus on tumor and stromal regions. In a cohort of 195 patients with breast cancer, machine learning models using vector embeddings from non-adipose stromal regions classified high BMI ([&ge;]30 kg/m2) versus low BMI (<25 kg/m2) with an average AUC of 0.78 (95% CI: 0.73-0.83), consistently outperforming models based on tumor-only or combined tumor-stroma regions. These obesity-associated stromal signatures were observed across subgroups defined by hormone-receptor status and age, indicating that they are not restricted to specific clinical populations. Complementary embedding-based dissimilarity analysis further showed that higher BMI was associated with reduced inter-patient heterogeneity in both tumor and stromal tissues. Overall, these findings suggest that obesity is associated with distinct morphologic alterations in both tumor and non-adipose stromal tissues. Notably, the stromal compartment emerged as a particularly informative indicator of obesity-associated morphology and demonstrated reduced inter-patient heterogeneity among individuals with high BMI.

cancer biology↗

Experimental evolution to identify undescribed mechanisms of resistance to a novel cationic peptide antibiotic

A key strategy for resolving the antibiotic resistance crisis is the development of new drugs with antimicrobial properties. The engineered cationic antimicrobial peptide WLBU2 (also known as PLG0206) is a promising broad-spectrum antimicrobial compound that has completed Phase I clinical studies. It has activity against Gram-negative and Gram-positive bacteria including infections associated with biofilm. No definitive mechanisms of resistance to WLBU2 have been identified. Here, we used experimental evolution under different levels of mutation supply and whole genome sequencing (WGS) to detect the genetic pathways and probable mechanisms of resistance to this peptide. We propagated populations of wild-type and mutator Pseudomonas aeruginosa in the presence of WLBU2 and performed WGS of evolved populations and clones. Populations that survived WLBU2 treatment acquired a minimum of two mutations, making the acquisition of resistance more difficult than for most antibiotics, which can be tolerated by mutation of a single target. Major targets of resistance to WLBU2 included the orfN and pmrB genes, previously described to confer resistance to other cationic peptides. More surprisingly, mutations that increase aggregation such as the wsp pathway were also selected despite the ability of WLBU2 to kill cells growing in a biofilm. The results show how the experimental evolution and WGS can identify genetic targets and actions of new antimicrobial compounds and predict pathways to resistance of new antibiotics in clinical practice.

microbiology↗