Clonal selection confers distinct evolutionary trajectories in BRAF-driven cancers

Nat Commun. 2019 Nov 13;10(1):5143. doi: 10.1038/s41467-019-13161-x.

Abstract

Molecular determinants governing the evolution of tumor subclones toward phylogenetic branches or fixation remain unknown. Using sequencing data, we model the propagation and selection of clones expressing distinct categories of BRAF mutations to estimate their evolutionary trajectories. We show that strongly activating BRAF mutations demonstrate hard sweep dynamics, whereas mutations with less pronounced activation of the BRAF signaling pathway confer soft sweeps or are subclonal. We use clonal reconstructions to estimate the strength of "driver" selection in individual tumors. Using tumors cells and human-derived murine xenografts, we show that tumor sweep dynamics can significantly affect responses to targeted inhibitors of BRAF/MEK or DNA damaging agents. Our study uncovers patterns of distinct BRAF clonal evolutionary dynamics and nominates therapeutic strategies based on the identity of the BRAF mutation and its clonal composition.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adenocarcinoma of Lung / pathology
  • Animals
  • Cell Line, Tumor
  • Cell Survival / drug effects
  • Clonal Evolution / genetics*
  • Clone Cells
  • DNA Damage
  • Gene Dosage
  • Genetic Loci
  • Humans
  • Mice
  • Mitogen-Activated Protein Kinase Kinases / antagonists & inhibitors
  • Mitogen-Activated Protein Kinase Kinases / metabolism
  • Mutation / genetics
  • Neoplasms / genetics*
  • Phenotype
  • Protein Kinase Inhibitors / pharmacology
  • Proto-Oncogene Proteins B-raf / genetics*

Substances

  • Protein Kinase Inhibitors
  • Proto-Oncogene Proteins B-raf
  • Mitogen-Activated Protein Kinase Kinases