Methylation-based classification of benign and malignant peripheral nerve sheath tumors

Manuel Röhrich, Christian Koelsche, Daniel Schrimpf, David Capper, Felix Sahm, Annekathrin Kratz, Jana Reuss, Volker Hovestadt, David T.W. Jones, Melanie Bewerunge-Hudler, Albert Becker, Joachim Weis, Christian Mawrin, Michel Mittelbronn, Arie Perry, Victor Felix Mautner, Gunhild Mechtersheimer, Christian Hartmann, Ali Fuat Okuducu, Mirko ArpMarcel Seiz-Rosenhagen, Daniel Hänggi, Stefanie Heim, Werner Paulus, Jens Schittenhelm, Rezvan Ahmadi, Christel Herold-Mende, Andreas Unterberg, Stefan M. Pfister, Andreas von Deimling, David E. Reuss*

*Corresponding author for this work

Research output: Contribution to journalArticleResearchpeer-review

136 Citations (Scopus)

Abstract

The vast majority of peripheral nerve sheath tumors derive from the Schwann cell lineage and comprise diverse histological entities ranging from benign schwannomas and neurofibromas to high-grade malignant peripheral nerve sheath tumors (MPNST), each with several variants. There is increasing evidence for methylation profiling being able to delineate biologically relevant tumor groups even within the same cellular lineage. Therefore, we used DNA methylation arrays for methylome- and chromosomal profile-based characterization of 171 peripheral nerve sheath tumors. We analyzed 28 conventional high-grade MPNST, three malignant Triton tumors, six low-grade MPNST, four epithelioid MPNST, 33 neurofibromas (15 dermal, 8 intraneural, 10 plexiform), six atypical neurofibromas, 43 schwannomas (including 5 NF2 and 5 schwannomatosis associated cases), 11 cellular schwannomas, 10 melanotic schwannomas, 7 neurofibroma/schwannoma hybrid tumors, 10 nerve sheath myxomas and 10 ganglioneuromas. Schwannomas formed different epigenomic subgroups including a vestibular schwannoma subgroup. Cellular schwannomas were not distinct from conventional schwannomas. Nerve sheath myxomas and neurofibroma/schwannoma hybrid tumors were most similar to schwannomas. Dermal, intraneural and plexiform neurofibromas as well as ganglioneuromas all showed distinct methylation profiles. Atypical neurofibromas and low-grade MPNST were indistinguishable with a common methylation profile and frequent losses of CDKN2A. Epigenomic analysis finds two groups of conventional high-grade MPNST sharing a frequent loss of neurofibromin. The larger of the two groups shows an additional loss of trimethylation of histone H3 at lysine 27 (H3K27me3). The smaller one retains H3K27me3 and is found in spinal locations. Sporadic MPNST with retained neurofibromin expression did not form an epigenetic group and most cases could be reclassified as cellular schwannomas or soft tissue sarcomas. Widespread immunohistochemical loss of H3K27me3 was exclusively seen in MPNST of the main methylation cluster, which defines it as an additional useful marker for the differentiation of cellular schwannoma and MPNST.

Original languageEnglish
Pages (from-to)877-887
Number of pages11
JournalActa Neuropathologica
Volume131
Issue number6
DOIs
Publication statusPublished - 1 Jun 2016
Externally publishedYes

Keywords

  • 450k
  • Atypical neurofibroma
  • Clone NFC
  • Ganglioneuroma
  • H3K27me3
  • MPNST
  • Methylation
  • NF1
  • PRC2
  • Peripheral nerve sheath tumor
  • Schwannoma

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