Metabolic reprogramming by mutant GNAS creates an actionable dependency in intraductal papillary mucinous neoplasms of the pancreas

Yuki Makino; Kimal I Rajapakshe; Benson Chellakkan Selvanesan; Takashi Okumura; Kenjiro Date; Prasanta Dutta; Lotfi Abou-Elkacem; Akiko Sagara; Jimin Min; Marta Sans; Nathaniel Yee; Megan J Siemann; Jose Enriquez; Paytience Smith; Pratip Bhattacharya; Michael Kim; Merve Dede; Traver Hart; Anirban Maitra; Fredrik Ivar Thege

doi:10.1136/gutjnl-2024-332412

Metabolic reprogramming by mutant GNAS creates an actionable dependency in intraductal papillary mucinous neoplasms of the pancreas

Gut. 2024 Sep 25:gutjnl-2024-332412. doi: 10.1136/gutjnl-2024-332412. Online ahead of print.

Authors

Yuki Makino^{1

2}, Kimal I Rajapakshe^{3

2}, Benson Chellakkan Selvanesan^{3

2}, Takashi Okumura^{3

2}, Kenjiro Date^{3

2}, Prasanta Dutta⁴, Lotfi Abou-Elkacem^{3

2}, Akiko Sagara^{3

2}, Jimin Min^{3

2}, Marta Sans^{3

2}, Nathaniel Yee^{3

2}, Megan J Siemann^{3

2}, Jose Enriquez⁴, Paytience Smith⁴, Pratip Bhattacharya⁴, Michael Kim⁵, Merve Dede⁶, Traver Hart^{6

7}, Anirban Maitra^{3

2}, Fredrik Ivar Thege^{1

2}

Affiliations

¹ Translational Molecular Pathology, UTMDACC, Houston, Texas, USA fithege@mdanderson.org ymakino@mdanderson.org.
² Sheikh Ahmed Center for Pancreatic Cancer Research, UTMDACC, Houston, Texas, USA.
³ Translational Molecular Pathology, UTMDACC, Houston, Texas, USA.
⁴ Cancer Systems Imaging, UTMDACC, Houston, Texas, USA.
⁵ Surgical Oncology, UTMDACC, Houston, Texas, USA.
⁶ Bioinformatics & Computational Biology, UTMDACC, Houston, Texas, USA.
⁷ Department of Cancer Biology, UTMDACC, Houston, Texas, USA.

PMID: 39277181
DOI: 10.1136/gutjnl-2024-332412

Abstract

Background: Oncogenic 'hotspot' mutations of KRAS and GNAS are two major driver alterations in intraductal papillary mucinous neoplasms (IPMNs), which are bona fide precursors to pancreatic ductal adenocarcinoma. We previously reported that pancreas-specific Kras ^G12D and Gnas ^R201C co-expression in p48^Cre; Kras^LSL-G12D; Rosa26^LSL-rtTA; Tg (TetO-Gnas^R201C) mice ('Kras;Gnas' mice) caused development of cystic lesions recapitulating IPMNs.

Objective: We aim to unveil the consequences of mutant Gnas ^R201C expression on phenotype, transcriptomic profile and genomic dependencies.

Design: We performed multimodal transcriptional profiling (bulk RNA sequencing, single-cell RNA sequencing and spatial transcriptomics) in the 'Kras;Gnas' autochthonous model and tumour-derived cell lines (Kras;Gnas cells), where Gnas ^R201C expression is inducible. A genome-wide CRISPR/Cas9 screen was conducted to identify potential vulnerabilities in Kras^G12D;Gnas^R201C co-expressing cells.

Results: Induction of Gnas ^R201C-and resulting G_(s)alpha signalling-leads to the emergence of a gene signature of gastric (pyloric type) metaplasia in pancreatic neoplastic epithelial cells. CRISPR screening identified the synthetic essentiality of glycolysis-related genes Gpi1 and Slc2a1 in Kras ^G12D;Gnas ^R201C co-expressing cells. Real-time metabolic analyses in Kras;Gnas cells and autochthonous Kras;Gnas model confirmed enhanced glycolysis on Gnas ^R201C induction. Induction of Gnas ^R201C made Kras ^G12D expressing cells more dependent on glycolysis for their survival. Protein kinase A-dependent phosphorylation of the glycolytic intermediate enzyme 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3 (PFKFB3) was a driver of increased glycolysis on Gnas ^R201C induction.

Conclusion: Multiple orthogonal approaches demonstrate that Kras ^G12D and Gnas ^R201C co-expression results in a gene signature of gastric pyloric metaplasia and glycolytic dependency during IPMN pathogenesis. The observed metabolic reprogramming may provide a potential target for therapeutics and interception of IPMNs.

Keywords: gastric metaplasia; glucose metabolism; oncogenes; pancreatic cancer; pre-malignancy - GI tract.