Targeting the gut microbiome to inhibit melanoma lymph node metastases

PROJECT SUMMARY Melanoma is a devastating skin cancer that kills nearly 8,000 patients in the US annually. Patients with thicker melanomas, invading deeper and closer to lymphatics and blood vessels, are more likely to have metastasis to regional lymph nodes (LNs). For patients without clinically evident LN metastases, the presence of occult

metastases in the sentinel LN (SLN) or first tumor-draining LN (TDLN) is the most important prognostic factor. However, why melanoma metastasizes to LNs in some patients and not in others remain poorly understood; therefore, it is critical to determine the factors regulating metastasis to inform the development of novel

therapeutic approaches to prevent and target metastasis. We demonstrated that not only is the gut microbiome a critical modulator of response to immune checkpoint blockade (ICB) but also that a favorable gut microbiome can augment anti-tumor immunity at distant sites, including the skin. We have also identified differences in the

gut microbiome of melanoma patients with early-stage (0-II) compared to late-stage (III-IV) disease. The gap in knowledge is the effect of the gut microbiome on the natural evolution of melanoma at the primary tumor and on metastasis to regional LNs. Our hypothesis is that microbes in the gut of melanoma patients influence

primary tumor development and risk for LN metastasis, such that targeted modulation of the gut microbiome can prevent melanoma LN metastases. To test this hypothesis, we will: 1) Identify gut microbial and immunologic features associated with tumor progression and LN metastasis in melanoma patients.

We will compare gut microbiome profiles and paired tissue immune profiles using GeoMx digital spatial profiling to characterize the immune microenvironment (IME) of the primary melanoma and SLN, and 16S gene amplicon sequencing and/or whole metagenomic sequencing to analyze fecal samples of melanoma patients with: 1.1)

Low-risk vs High-risk primary tumors; 1.2) Negative vs Positive SLNs; and 1.3) Clinical Stage III melanoma receiving neoadjuvant ICB. Statistical correlation analyses will be applied to identify gut microbial features associated with immune modulation, melanoma progression and metastasis. 2) Delineate strategies to

modulate gut microbes to prevent melanoma progression and LN metastasis. We will investigate the causal relationship between the gut microbiome, tumor progression, and LN metastasis using an inducible model of murine melanoma (cKit:ERT2;BrafV600E;Ptenfl/fl) by assessing the: 2.1) Impact of FMT from responder and non-

responder patients on primary tumor progression and LN metastasis; 2.2) IME in both the primary tumor and SLN to identify the microbiome-dependent immunological mechanisms of tumor progression; 2.3) Effect of perturbation of the gut microbiota on the development of regional LN metastasis. The impact of this work will be

recognition of the gut microbiome as a critical determinant of melanoma progression at the primary and metastasis to regional LNs, aiding the development of next generation approaches to prevent LN metastasis in melanoma and other cancers.