A case of interdigitating dendritic cell sarcoma studied by whole-exome sequencing

Genes Genomics. 2018 Dec;40(12):1279-1285. doi: 10.1007/s13258-018-0724-y. Epub 2018 Aug 11.

Abstract

Interdigitating dendritic cell sarcoma (IDCS) is an aggressive neoplasm and is an extremely rare disease, with a challenging diagnosis. Etiology of IDCS is also unknown and most studies with only case reports. In our case, immunohistochemistry showed that the tumor cells were positive for S100, CD45, and CD68, but negative for CD1a and CD21. This study aimed to investigate the causative factors of IDCS by sequencing the protein-coding regions of IDCS. We performed whole-exome sequencing with genomic DNA from blood and sarcoma tissue of the IDCS patient using the Illumina Hiseq 2500 platform. After that, we conducted Sanger sequencing for validation of sarcoma-specific variants and gene ontology analysis using DAVID bioinformatics resources. Through comparing sequencing data of sarcoma with normal blood, we obtained 15 nonsynonymous single nucleotide polymorphisms (SNPs) as sarcoma-specific variants. Although the 15 SNPs were not validated by Sanger sequencing due to tumor heterogeneity and low sensitivity of Sanger sequencing, we examined the function of the genes in which each SNP is located. Based on previous studies and gene ontology database, we found that POLQ encoding DNA polymerase theta enzyme and FNIP1 encoding tumor suppressor folliculin-interacting protein might have contributed to the IDCS. Our study provides potential causative genetic factors of IDCS and plays a role in advancing the understanding of IDCS pathogenesis.

Keywords: FNIP1; Interdigitating dendritic cell sarcoma; POLQ; Whole-exome sequencing.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Carrier Proteins / genetics*
  • DNA-Directed DNA Polymerase / genetics*
  • Dendritic Cell Sarcoma, Interdigitating / diagnostic imaging
  • Dendritic Cell Sarcoma, Interdigitating / genetics*
  • Dendritic Cell Sarcoma, Interdigitating / pathology
  • Dendritic Cells / metabolism
  • Dendritic Cells / pathology
  • Female
  • Humans
  • Immunohistochemistry
  • Middle Aged
  • Polymorphism, Single Nucleotide
  • Sarcoma / genetics*
  • Sarcoma / pathology
  • Whole Exome Sequencing

Substances

  • Carrier Proteins
  • FNIP1 protein, human
  • DNA polymerase theta
  • DNA-Directed DNA Polymerase