Case Reports in Medicine

Case Reports in Medicine / 2012 / Article

Case Report | Open Access

Volume 2012 |Article ID 418672 |

Sonika Dahiya, Jinsheng Yu, Aparna Kaul, Jeffrey R. Leonard, David H. Gutmann, "Novel BRAF Alteration in a Sporadic Pilocytic Astrocytoma", Case Reports in Medicine, vol. 2012, Article ID 418672, 4 pages, 2012.

Novel BRAF Alteration in a Sporadic Pilocytic Astrocytoma

Academic Editor: Mark E. Shaffrey
Received17 Dec 2011
Accepted07 Feb 2012
Published03 Apr 2012


Pilocytic astrocytoma (PA) is the most frequently encountered glial tumor (glioma or astrocytoma) in children. Recent studies have identified alterations in the BRAF serine/threonine kinase gene as the likely causative mutation in these childhood brain tumors. The majority of these genetic changes involve chromosome 7q34 tandem duplication, resulting in aberrant BRAF fusion transcripts. In this paper, we describe a novel KIAA1549:BRAF fusion transcript in a sporadic PA tumor associated with increased ERK activation and review the spectrum of BRAF genetic alterations in this common pediatric low-grade central nervous system neoplasm.

1. Introduction

Pilocytic astrocytomas are the most common nonmalignant brain tumor in the pediatric population. Children with the Neurofibromatosis type 1 (NF1) inherited cancer predisposition syndrome are prone to the development of these glial cell neoplasms, such that 15–20% of affected individuals will develop gliomas involving the optic pathway, hypothalamus, and brainstem [1]. Molecular analysis of these tumors has revealed biallelic inactivation of the NF1 tumor suppressor gene, resulting in loss of NF1 protein (neurofibromin) expression. However, sporadic PA tumors do not exhibit mutational inactivation of the NF1 gene, suggesting that other genetic mutations are responsible for the genesis of these histologically-identical low-grade brain tumors in the general population [2].

Over the past several years, the molecular basis for these nonsyndromic pediatric brain cancers has been elucidated with the identification of signature molecular changes involving the BRAF serine/threonine kinase gene. The most frequently encountered genetic alteration is a tandem duplication of the BRAF gene on chromosome 7q34, leading to fusion of the KIAA1549 gene to the carboxyl terminal region of the BRAF gene containing the kinase domain. This molecular change has been reported in 50–65% of sporadic pilocytic astrocytoma and is more frequent in cerebellar (~80%) tumors. The majority of these alterations involve fusions between KIAA1549 exon 16 and BRAF exon 9, KIAA1549 exon 15 and BRAF exon 9, and KIAA1549 exon 16 and BRAF exon 11 [39], while less common alterations include tandem duplications involving SRGAP3 and RAF1 or FAM131B and BRAF [10, 11]. In this paper, we describe a novel KIAA1549-BRAF fusion event in a sporadic pediatric pilocytic astrocytoma.

2. Case Presentation

The patient was a 14-year-old boy who presented with a 6-month history of headache that progressed to a two-day period of nausea, vomiting, and ataxia. Magnetic resonance imaging (MRI) at that time showed a cystic mass in the cerebellum compressing the fourth ventricle (Figure 1(a)). He was taken to the operating room where a gross total resection was performed. Neuropathological review revealed a classic pilocytic astrocytoma with alternating areas of compact and loose tissue architecture (Figure 1(b)). The compact areas were composed of piloid neoplastic cells containing numerous Rosenthal fibers and few eosinophilic granular bodies (Figure 1(c)), while the paucicellular areas were largely myxoid with scattered pleomorphic tumor cells, often containing multiple nuclei. Consistent with the glial nature of this tumor, there was diffuse and strong glial fibrillary acidic protein (GFAP) expression in the neoplastic cells (Figure 1(d)). The Ki67 labeling (proliferative) index was <1% (Figure 1(e)), and mitotic figures were not identified. Upon two-year followup, there was no evidence of recurrent tumor on MRI. To identify the molecular alteration in this pilocytic astrocytoma, RNA was extracted from a snap-frozen tumor specimen using the RNeasy mini-kit (QIAGEN), reverse transcribed, and amplified by PCR using BRAF and KIAA1549 primers as previously reported [8]. Both strands of the resulting novel 599 base pair (bp) product were directly sequenced on an ABI 3730xl DNA Analyzer. In contrast to previously reported KIAA1549:BRAF alterations, this tumor harbored a novel fusion transcript in which exon 16 of the KIAA1549 gene was fused to sequences within exon 10 of the BRAF gene (Figure 1(f)), generating a protein product in which the BRAF kinase domain is intact. This would result in a molecule in which the carboxyl terminal kinase domain is not bound by the amino terminal BRAF regulatory domain and is thus “constitutively” active, leading to downstream MEK and ERK activation. Consistent with this prediction, we found increased ERK activation using activation-specific (phospho-Thr202/Tyr204) antibodies in the tumor by both immunohistochemistry (Figure 1(g)) and Western immunoblotting (Figure 1(h)).

3. Discussion

The vast majority of previously reported molecular alterations in sporadic involve BRAF exons 9 (85% of reported KIAA1549:BRAF fusion transcripts) and 11 (12% of reported KIAA1549:BRAF transcripts) (Table 1). Similarly, all of the FAM131B:BRAF fusion products also included BRAF exon 9 sequences [11]. The current paper describes only the second KIAA1549:BRAF fusion event involving exon 10 [7] and is the first in which the alteration eliminates nearly half of the exon 10-encoded BRAF protein sequence. The inclusion of this specific genetic alteration to the growing list of BRAF molecular changes supports a model in which fusion events that maintain the BRAF open reading frame and include the BRAF protein sequences encoded by exons 11–18 (BRAF kinase domain) are potentially tumorigenic.

Fusion partnerBRAFNumber of cases% cases

KIAA1549 exon 16exon 913662.4
KIAA1549 exon 15exon 94722.6
KIAA1549 exon 11exon 112912.3
KIAA1549 exon 18exon 101<1
KIAA1549 exon 19exon 91<1
KIAA1549 exon 16exon 10*1<1
FAM131Bexon 931.4


This proposed tumorigenicity is attributed to constitutive activation of the BRAF kinase domain as a result of the removal of the amino terminal inhibitory domain, leading to increased signaling to its immediate downstream effectors, MEK and ERK. Similar to other BRAF mutations, this novel KIAA1549:BRAF molecular alteration is also associated with increased ERK activity. However, the exact mechanism by which deregulated MEK/ERK activation resulting from KIAA1549:BRAF leads to pilocytic astrocytoma development is unclear. In this regard, several groups have shown that the expression of constitutively active (oncogenic) BRAF ( ; V600E mutation within the BRAF activation domain) in human astrocytes and glial progenitor cells leads to cellular senescence in vitro [12], and neither oncogenic nor RAF1 expression in mice results in glioma formation in vivo [13, 14]. However, forced expression of the kinase domain of , but not of wild-type BRAF (as exists in KIAA1549:BRAF fusion protein products), is transforming in primary human astrocytes in vitro and can induce tumors in mice in vivo [13].

NF1-associated pilocytic astrocytomas also exhibit increased ERK activation as a result of mutation loss of the NF1 tumor suppressor protein, neurofibromin. In primary mouse astrocytes, loss of neurofibromin Ras GTPase activating protein (GAP) activity leads to high levels of Ras effector (ERK, AKT) activation. However, Nf1 genetically engineered mouse optic glioma growth is attenuated by inhibiting AKT pathway signaling [15]. In these studies, inhibition of AKT-mediated mammalian target of rapamycin (mTOR) activity using the macrolide rapamycin resulted in reduced optic glioma volume and proliferation. In light of these observations, the molecular mechanism shared by BRAF activation and neurofibromin loss will require further experimental investigation.

In this regard, future studies will likewise be required to determine precisely how BRAF activation leads to glioma formation either alone or in concert with other genetic or stromal (microenvironment) changes. Despite these seemingly contradictory experimental observations, the identification of BRAF as a seminal genetic alteration in pilocytic astrocytoma sets the stage for therapeutic trials aimed at restoring deregulated BRAF/RAF signaling in this common pediatric brain tumor.


The authors appreciate the technical assistance of Mr. Ryan Emnett. The authors have no disclosures to report. Sequencing core support was provided by a Grant from the National Institutes of Health (UL RR024992).


  1. R. Listernick, J. Charrow, M. J. Greenwald, and N. B. Esterly, “Optic gliomas in children with neurofibromatosis type 1,” Journal of Pediatrics, vol. 114, no. 5, pp. 788–792, 1989. View at: Google Scholar
  2. L. Kluwe, C. Hagel, M. Tatagiba et al., “Loss of NF1 alleles distinguish sporadic from NF1-associated pilocytic astrocytomas,” Journal of Neuropathology and Experimental Neurology, vol. 60, no. 9, pp. 917–920, 2001. View at: Google Scholar
  3. S. Pfister, W. G. Janzarik, M. Remke et al., “BRAF gene duplication constitutes a mechanism of MAPK pathway activation in low-grade astrocytomas,” Journal of Clinical Investigation, vol. 118, no. 5, pp. 1739–1749, 2008. View at: Publisher Site | Google Scholar
  4. E. E. Bar, A. Lin, T. Tihan, P. C. Burger, and C. G. Eberhart, “Frequent gains at chromosome 7q34 involving BRAF in pilocytic astrocytoma,” Journal of Neuropathology and Experimental Neurology, vol. 67, no. 9, pp. 878–887, 2008. View at: Publisher Site | Google Scholar
  5. D. T. W. Jones, S. Kocialkowski, L. Liu et al., “Tandem duplication producing a novel oncogenic BRAF fusion gene defines the majority of pilocytic astrocytomas,” Cancer Research, vol. 68, no. 21, pp. 8673–8677, 2008. View at: Publisher Site | Google Scholar
  6. A. J. Sievert, E. M. Jackson, X. Gai et al., “Duplication of 7q34 in pediatric low-grade astrocytomas detected by high-density single-nucleotide polymorphism-based genotype arrays results in a novel BRAF fusion gene,” Brain Pathology, vol. 19, pp. 449–458, 2009. View at: Publisher Site | Google Scholar
  7. T. Forshew, R. G. Tatevossian, A. R. J. Lawson et al., “Activation of the ERK/MAPK pathway: a signature genetic defect in posterior fossa pilocytic astrocytomas,” Journal of Pathology, vol. 218, no. 2, pp. 172–181, 2009. View at: Publisher Site | Google Scholar
  8. J. Yu, H. Deshmukh, R. J. Gutmann et al., “Alterations of BRAF and HIPK2 loci predominate in sporadic pilocytic astrocytoma,” Neurology, vol. 73, no. 19, pp. 1526–1531, 2009. View at: Publisher Site | Google Scholar
  9. K. Jacob, S. Albrecht, C. Sollier et al., “Duplication of 7q34 is specific to juvenile pilocytic astrocytomas and a hallmark of cerebellar and optic pathway tumours,” British Journal of Cancer, vol. 101, no. 4, pp. 722–733, 2009. View at: Publisher Site | Google Scholar
  10. D. T. W. Jones, S. Kocialkowski, L. Liu, D. M. Pearson, K. Ichimura, and V. P. Collins, “Oncogenic RAF1 rearrangement and a novel BRAF mutation as alternatives to KIAA1549:BRAF fusion in activating the MAPK pathway in pilocytic astrocytoma,” Oncogene, vol. 28, no. 20, pp. 2119–2123, 2009. View at: Publisher Site | Google Scholar
  11. H. Cin, C. Meyer, R. Herr et al., “Oncogenic FAM131B-BRAF fusion resulting from 7q34 deletion comprises an alternative mechanism of MAPK pathway activation in pilocytic astrocytoma,” Acta Neuropathologica, vol. 121, no. 6, pp. 763–774, 2011. View at: Publisher Site | Google Scholar
  12. E. H. Raabe, K. S. Lim, J. M. Kim et al., “BRAF activation induces transformation and then senescence in human neural stem cells: a pilocytic astrocytoma model,” Clinical Cancer Research, vol. 17, no. 11, pp. 3590–3599, 2011. View at: Publisher Site | Google Scholar
  13. J. Gronych, A. Korshunov, J. Bageritz et al., “An activated mutant BRAF kinase domain is sufficient to induce pilocytic astrocytoma in mice,” Journal of Clinical Investigation, vol. 121, no. 4, pp. 1344–1348, 2011. View at: Publisher Site | Google Scholar
  14. Y. Lyustikman, H. Momota, W. Pao, and E. C. Holland, “Constitutive activation of raf-1 induces glioma formation in mice,” Neoplasia, vol. 10, no. 5, pp. 501–510, 2008. View at: Publisher Site | Google Scholar
  15. B. Hegedus, D. Banerjee, T. H. Yeh et al., “Preclinical cancer therapy in a mouse model of neurofibromatosis-1 optic glioma,” Cancer Research, vol. 68, no. 5, pp. 1520–1528, 2008. View at: Publisher Site | Google Scholar

Copyright © 2012 Sonika Dahiya et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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