Virchows Archiv

, Volume 467, Issue 2, pp 203–210

Next-generation sequencing is highly sensitive for the detection of beta-catenin mutations in desmoid-type fibromatoses

  • Sarah J. Aitken
  • Nadège Presneau
  • Sangeetha Kalimuthu
  • Palma Dileo
  • Fitim Berisha
  • Roberto Tirabosco
  • M. Fernanda Amary
  • Adrienne M. Flanagan
Original Article

DOI: 10.1007/s00428-015-1765-0

Cite this article as:
Aitken, S.J., Presneau, N., Kalimuthu, S. et al. Virchows Arch (2015) 467: 203. doi:10.1007/s00428-015-1765-0

Abstract

Desmoid-type fibromatoses are locally aggressive and frequently recurrent tumours, and an accurate diagnosis is essential for patient management. The majority of sporadic lesions harbour beta-catenin (CTNNB1) mutations. We used next-generation sequencing to detect CTNNB1 mutations and to compare the sensitivity and specificity of next-generation sequencing with currently employed mutation detection techniques: mutation-specific restriction enzyme digestion and polymerase chain reaction amplification. DNA was extracted from formalin-fixed paraffin-embedded needle biopsy or resection tissue sections from 144 patients with sporadic desmoid-type fibromatoses, four patients with syndrome-related desmoid-type fibromatoses and 11 morphological mimics. Two primer pairs were designed for CTNNB1 mutation hotspots. Using ≥10 ng of DNA, libraries were generated by Fluidigm and sequenced on the Ion Torrent Personal Genome Machine. Next-generation sequencing had a sensitivity of 92.36 % (133/144, 95 % CIs: 86.74 to 96.12 %) and a specificity of 100 % for the detection of CTNNB1 mutations in desmoid-type fibromatoses-like spindle cell lesions. All mutations detected by mutation-specific restriction enzyme digestion were identified by next-generation sequencing. Next-generation sequencing identified additional mutations in 11 tumours that were not detected by mutation-specific restriction enzyme digestion, two of which have not been previously described. Next-generation sequencing is highly sensitive for the detection of CTNNB1 mutations. This multiplex assay has the advantage of detecting additional mutations compared to those detected by mutation-specific restriction enzyme digestion (sensitivity 82.41 %). The technology requires minimal DNA and is time- and cost-efficient.

Keywords

Next-generation sequencing Desmoid-type fibromatosis Beta-catenin CTNNB1 Molecular pathology 

Copyright information

© Springer-Verlag Berlin Heidelberg 2015

Authors and Affiliations

  • Sarah J. Aitken
    • 1
    • 2
    • 5
  • Nadège Presneau
    • 1
    • 6
  • Sangeetha Kalimuthu
    • 3
  • Palma Dileo
    • 4
  • Fitim Berisha
    • 3
  • Roberto Tirabosco
    • 3
  • M. Fernanda Amary
    • 1
    • 3
  • Adrienne M. Flanagan
    • 1
    • 3
  1. 1.Research Department of PathologyUCL Cancer InstituteLondonUK
  2. 2.Department of HistopathologyAddenbrooke’s HospitalCambridgeUK
  3. 3.Royal National Orthopaedic Hospital NHS TrustStanmoreUK
  4. 4.University College HospitalLondonUK
  5. 5.Cancer Research UK Cambridge InstituteUniversity of CambridgeCambridgeUK
  6. 6.Department of Biomedical SciencesUniversity of WestminsterLondonUK