Detecting germline BAP1 mutations in patients with peritoneal mesothelioma: benefits to patient and family members
Journal of Translational Medicine volume 16, Article number: 194 (2018)
Germline mutations in the BRCA-1 associated tumor protein 1 (BAP1) increase susceptibility to mesothelioma and other cancers. We describe a patient with a family history of peritoneal mesothelioma, who developed malignant peritoneal mesothelioma at age 45 in the absence of known asbestos exposure. These findings lead us to hypothesize that the mesothelioma occurred in the setting of germline a BAP1 mutation. This was confirmed by genetic testing. The subsequent therapeutic choices for the patient and testing of at-risk family members highlight the importance of recognizing this genetic syndrome and screening for individuals at high risk.
Germline mutations in the BRCA-1 associated tumor protein 1 (BAP1) increase susceptibility to mesothelioma, uveal and cutaneous melanomas, renal cell carcinomas, basal cell and squamous cell carcinomas, as well as, although less frequently, to other cancer types [1,2,3,4,5,6]. This condition, named as the “BAP1 cancer syndrome” [5,6,7] is transmitted in a Mendelian fashion. Thus, about 50% of the progeny of carriers of BAP1 mutations are expected to inherit the mutation. Initially described, in two families from Louisiana to Wisconsin , BAP1 cancer syndrome has now been described in multiple families across the world [2, 7, 9, 10]. Among about 100 BAP1 families reported in the literature so far, a very large multi-generation family originating from a couple who immigrated to the US in the early 1700’s from Germany has been described in the US . Similarly to patients with the Li-Fraumeni syndrome, BAP1 mutations are highly penetrant, and so far most carriers of BAP1 mutations have developed one or more malignancies during their lifetime . The biological reasons that account for the powerful tumor suppressor activity of BAP1, a deubiquitylating enzyme, have been recently elucidated [12,13,14,15,16,17]. It has been shown that BAP1 localizes both in the nucleus and in the cytoplasm. In the nucleus BAP1 regulates DNA repair by homologous recombination [12, 13]. In the cytoplasm, BAP1 deubiquitinases and thus stabilizes IP3R3, the channel that allows calcium (Ca2+) to leave the endoplasmic reticulum—where Ca2+ is normally stored-, and reach the mitochondria, where Ca2+ regulates aerobic respiration and programmed cell death/apoptosis [14, 15]. Cells in carriers of germline BAP1 mutations have reduced levels of BAP1, about 50% than normal as these cells have only one normal BAP1 allele . Human cells derived from carriers of germline BAP1 mutations showed reduced ability to repair DNA by homologous recombination and to execute apoptosis following exposure to asbestos, ultraviolet light and irradiation . Moreover these same cells derive energy largely through aerobic glycolysis (Warburg effect) probably as a consequence of the reduced mitochondrial Ca2+ levels which are required for the activity of several enzymes that regulate the Kreb’s cycle . The consequence of these alterations are that when cells carrying heterozygous mutations are exposed to environmental carcinogens, they accumulate but cannot properly repair DNA mutations (because of the reduced levels of nuclear BAP1) . Under normal circumstances accumulation of DNA mutations triggers apoptosis, but BAP1 mutant cells have impaired apoptosis because of the reduced Ca2+ mitochondrial levels . Therefore these cells accumulate genetic alterations that are passed to daughter cells that are prone to malignant transformation . When these cells become transformed, they are already capable of invading nearby tissues and of growing in a hypoxic environment since they derive energy largely through aerobic glycolysis . These mechanisms account for the high rate of cancer, especially those cancers caused by environmental carcinogens in carriers of germline BAP1 mutations . Cancers that develop in carriers of germline BAP1 mutations are less aggressive, have a better prognosis and improved survival . The reasons for the improved survival are presently unclear. However, early detection, resulting from close monitoring of affected families is a likely factor . Detecting BAP1 mutations in appropriate cancer patients is important since management may be affected. Family members can be screened for the same mutation. If a BAP1 mutation is present, then screening and early detection of BAP1-associated cancers can be undertaken. Other preventative measures can be instituted including minimizing exposure to ultraviolet light and asbestos.
Here we describe a female patient with a strong family history of peritoneal mesothelioma, who developed malignant peritoneal mesothelioma at a young age in the absence of known asbestos exposure.
A 45-year-old female presented with bilateral upper-quadrant abdominal pain. She is a non-smoker and had no known exposure to asbestos. Family history was significant for peritoneal mesothelioma in two family members—a sister who developed peritoneal mesothelioma at age 29, and a first degree male cousin who developed peritoneal mesothelioma at age 45. Physical examination revealed tenderness in the upper quadrants. Computerized tomography of the abdomen revealed omental stranding in the upper-quadrants (Fig. 1). Laparoscopy showed studding and multiple white plaques on the diaphragm and peritoneum with adhesions (Fig. 2a, b). Biopsies revealed epithelioid malignant mesothelioma (Fig. 3). Germline DNA was extracted from a blood sample, DNA extracted and BAP1 testing was performed by polymerase chain reaction followed by Sanger sequencing, as described [8, 9]. Genetic testing revealed that our patient carried the following inactivating truncating germline BAP1 mutation: chr3.52406884A > G, c.604T > C, p.Trp202Arg. This mutation inactivates the catalytic domain of BAP1, preventing autodeubiquitylation of the BAP1 protein and nuclear translocation .
She was treated with cytoreductive surgery, hyperthermic intraoperative peritoneal chemotherapy with cisplatin and doxorubicin, followed by adjuvant systemic chemotherapy, specifically six cycles of cisplatin and pemetrexed. She has been followed by clinical surveillance and utilizing diffusion weighted (DW)-MRI imaging every 6 months. She is doing well without any evidence of recurrence 24 months since treatment.
The identification of a germline BAP1 mutation in this young lady with peritoneal mesothelioma, led to meetings with family members in which we explained the potential advantages and possible disadvantages of genetic testing for BAP1 mutations, consistent with the guidelines of the Consensus report on mesothelioma . Eight family members elected to get tested: 6 were found to carry the same germline BAP1 mutation. The patient pedigree is illustrated in Fig. 4. Among them, 2 are tumor free and 1 has well differentiated papillary mesothelioma. Three of the carriers have other BAP1 related malignancies. Those who had not inherited the mutation were reassured that they did not carry a higher risk of developing mesothelioma or other cancers compared to the general population at large. Those who were found to carry germline BAP1 mutations, were informed of the increased risk for mesothelioma and other BAP1-associated cancers, and advised to reduce sun-exposure, minimize radiation exposure, including diagnostic/therapeutic radiation for the increased risk of cancer because of impaired DNA repair and apoptosis, and to avoid trades that could lead to asbestos exposure. In addition two of them had elected to enroll in a screening program, consisting of weighted (DW)-MRI imaging every 12 months utilizing diffusion weighted (DW)-MRI imaging rather than CT scans to avoid radiation exposure. All carriers are also undergoing annual detailed retinal exam by a retina specialist.
Carriers of germline BAP1 mutations have a very high incidence of cancer, most commonly uveal melanoma, malignant mesothelioma, cutaneous melanoma and clear cell renal cell carcinoma [1,2,3,4,5,6, 18, 19]. These malignancies occur at a younger age of onset than the general population. Inheritance is autosomal dominant with high penetrance. Other malignancies often reported in carriers of germline BAP1 mutations include most types of skin cancers [20,21,22], breast cancer, cholangiocarcinoma, non-small cell lung adenocarcinoma, meningioma, sarcomas, peripheral nerve sheath tumor, and neuroendocrine carcinoma [1,2,3,4,5,6, 9, 11, 23, 24].
Carriers of germline BAP1 mutations can also develop characteristic benign melanocytic skin lesions that were initially called as “atypical Spitz tumors” , and later when the unique histological and molecular characteristics of these lesions were elucidated, named as “melanocytic BAP1 mutated atypical intradermal tumors” (MBAITs) [6, 22].
Peritoneal and pleural mesotheliomas have both been associated with sporadic and germline BAP1 mutations [11, 24]. It has been estimated that only about 1% of mesotheliomas are associated with germline BAP1 mutations [7, 8, 10]. These mesotheliomas usually occur in patients younger than 55 and often without a history of asbestos exposure [9, 11]. This contrasts with the majority of pleural mesothelioma, which develop mostly among older people at an average age of 72 years. Most (70–90%) of these mesotheliomas are attributable to asbestos exposure [26, 27]. It is presently unclear if germline BAP1 mutations are sufficient per se to cause mesothelioma, as suggested by the spontaneous development of mesothelioma in mice carrying germline BAP1 mutations , or whether germline BAP1 mutations lower the threshold of asbestos exposure required to cause mesothelioma, as suggested by experiments in which lower amounts of asbestos were required to induce mesothelioma in heterozygous BAP1 mutant mice . The possibility that germline BAP1 mutations increase susceptibility to low amounts of asbestos—amounts that would not be considered harmful for the population at large—is important, as rural areas continue to be developed exposing some cohort to asbestos and to other carcinogenic mineral fibers [30, 31]. Of note, asbestos is a term that was used for regulatory purposes to identify 6 different types of mineral fibers that were used commercially in the 1970’s. However, in nature there are over 300 additional mineral fibers that are potentially as carcinogenic as those called “asbestos” . These fibers are not regulated and humans are increasingly exposed to them as rural areas are being developed [30,31,32]. Relatively low levels of carcinogenic fibers, as those found in areas with environmental exposure, might increase the risk of developing mesothelioma among carriers of germline BAP1 mutations .
The ratio of peritoneal to pleural mesothelioma is significantly higher in carriers of germline BAP1 mutations compared to the rate in the sporadic mesotheliomas . In addition, in carriers of BAP1 mutations the majority of peritoneal mesothelioma occurs in women, and have a better prognosis, in contrast to sporadic mesotheliomas [4, 5, 11].
The critical role of normal levels BAP1 in preventing mesothelioma development is highlighted by multiple factors: (1) In families, BAP1 mutations specifically segregate among patients, while individuals who do not inherit the mutation are cancer free [5,6,7,8,9]; (2) tumors in carriers of germline BAP1 mutations always show loss of heterozygosity [5,6,7,8,9], i.e., biallelic BAP1 inactivation; (3) BAP1 is the most common acquired somatic mutation in sporadic mesothelioma [33,34,35,36,37].
Malignant mesothelioma or other BAP1 associated cancers occurring at a young age, i.e., 50 years old or younger, or occurring in multiple family members—regardless of age—should trigger testing for germline BAP1 mutations. This has important implications for the patient and for their relatives. Consensus guidelines suggest that screening for germline BAP1 mutations in mesothelioma patients who are members of families with multiple cases of mesothelioma, melanoma, renal cell carcinoma, cholangiocarcinoma, basal cell carcinoma, can lead to early detection that can be life saving for several of these malignancies, or at least to better therapeutic options when cancers are treated at an early stage .
Studies in a remote region of Cappadocia led to the discovery that some families where uniquely susceptible to develop mesothelioma and that susceptibility was transmitted in a Mendelian fashion [38,39,40]. Those studies led to the discovery that inherited germline BAP1 mutations cause a high incidence of mesothelioma and of certain other cancer types in some families [5,6,7,8,9]. The challenge is to identify these cases of mesotheliomas because when mesothelioma and other cancers develop in carriers of germline BAP1 mutations, they often have a better prognosis. Moreover, management may be influenced by this information. For example, in our patient with BAP1 associated mesothelioma, monitoring for recurrence was accomplished using MRI rather than CT scans to reduce the risk of radiation-induced cancers. This risk cannot be underestimated in carriers of genetic mutations that impair DNA repair and apoptosis, as demonstrated in cancer patients affected by the Li-Fraumeni cancer syndrome who are also monitored preferentially by MRI [41, 42].
Moreover family members who inherited the same BAP1 mutations can benefit from prevention, screening and early detection . Here we describe a case of malignant peritoneal mesothelioma occurring in a young lady with a strong family history of mesothelioma and no known asbestos exposure. These unusual findings—young age, family history, no history of exposure to asbestos made us suspect that the mesothelioma in our patient might have a genetic basis and that the patient might carry a germline BAP1 mutation. Testing confirmed our hypothesis. This finding led to genetic counseling for family members, and the identification of 6/8 who carried the same mutation. They have been informed about preventive measures to reduce the risk of cancer and are being followed for early detection that can be lifesaving. We feel our female patients early age of onset of peritoneal mesothelioma in the absence of known asbestos exposure occurred as a result of a genetic susceptibility. Whether a low level of environmental exposure to asbestos or other fibers  played a role is unclear.
Based on our experience we strongly recommend that mesothelioma occurring at a young age (< 50 years old), or in patients with multiple family members affected by mesothelioma or other cancers associated with germline BAP1 mutations should be tested for BAP1 gene mutations. Educating physicians about this rare disease is important. Early recognition of signs and symptoms of peritoneal mesothelioma in patients who carry germline BAP1 mutations can impact outcome and survival.
BRCA-1 associated tumor protein 1
melanocytic BAP1 mutated atypical intradermal tumors
Pilarski R, Rai K, Cebulla C, et al. BAP1 tumor predisposition syndrome. In: Adam MP, Ardinger HH, Pagon RA, et al., editors. Gene reviews. Seattle: University of Washington; 2016.
Klebe S, Nasu M, Pastorino S, et al. BAP1 hereditary cancer predisposition syndrome: a case report and review of literature. Biomark Res. 2015;3:14.
Pilarski R, Cebulla CM, Massengill JB, et al. Expanding the clinical phenotype of hereditary BAP1 cancer predisposition syndrome, reporting three new cases. Genes Chromosomes Cancer. 2014;53:177–82.
Rai K, Pilarski R, Cebulla CM, et al. Comprehensive review of BAP1 tumor predisposition syndrome with report of two new cases. Clin Genet. 2016;89:285–94.
Carbone M, Yang H, Pass HI, et al. BAP1 and cancer. Nat Rev Cancer. 2013;13:153–9.
Carbone M, Ferris LK, Baumann F, et al. BAP1 cancer syndrome: malignant mesothelioma, uveal and cutaneous melanoma, and MBAITS. J Transl Med. 2012;30:179.
Carbone, et al. Consensus report of the 2015 Weinman International Conference on mesothelioma. J Thorac Oncol. 2016;11:1246–62.
Testa JR, Cheung M, Pei J, et al. Germline BAP1 mutations predispose to malignant mesothelioma. Nat Genet. 2011;43:1022–5.
Carbone M, Flores EG, Emi M, Johnson TA, Tsunoda T, Behner D, et al. Combined genetic and genealogic studies uncover a large BAP1 cancer syndrome kindred tracing back nine generations to a common ancestor from the 1700s. PLoS Genet. 2015;11(12):e1005633.
Betti M, Casalone E, Ferrante D, Romanelli A, Grosso F, Guarrera S, et al. Inference on germline BAP1 mutations and asbestos exposure from the analysis of familial and sporadic mesothelioma in a high-risk area. Genes Chromosomes Cancer. 2015;54(1):51–62.
Baumann F, Flores E, Napolitano A, Kanodia S, Taioli E, Pass H, et al. Mesothelioma patients with germline BAP1 mutations have 7-fold improved long-term survival. Carcinogenesis. 2015;36(1):76–81.
Yu H, Pak H, Hammond-Martel I, Ghram M, Rodrigue A, Daou S, et al. Tumor suppressor and deubiquitinase BAP1 promotes DNA double-strand break repair. Proc Natl Acad Sci USA. 2014;111(1):285–90.
Ismail IH, Davidson R, Gagne JP, Xu ZZ, Poirier GG, Hendzel MJ. Germline mutations in BAP1 impair its function in DNA double-strand break repair. Cancer Res. 2014;74(16):4282–94.
Bononi A, Giorgi C, Patergnani S, Larson D, Verbruggen K, Tanji M, et al. BAP1 regulates IP3R3-mediated Ca2+ flux to mitochondria suppressing cell transformation. Nature. 2017;546(7659):549–53.
Bononi A, Yang H, Giorgi C, Patergnani S, Pellegrini L, Su M, et al. Germline BAP1 mutations induce a Warburg effect. Cell Death Differ. 2017;24(10):1694–704.
Amelio I. Genes versus environment: cytoplasmic BAP1 determines the toxic response to environmental stressors in mesothelioma. Cell Death Dis. 2017;8(6):e2907.
Mashtalir N, Daou S, Barbour H, Sen NN, Gagnon J, Hammond-Martel I, Dar HH, Therrien M, el Affar B, et al. Autodeubiquitination protects the tumor suppressor BAP1 from cytoplasmic sequestration mediated by the atypical ubiquitin ligase UBE2ON. Mol Cell. 2014;54(3):392–406. https://doi.org/10.1016/j.molcel.2014.03.002 (Epub 2014 Apr 3).
Farley MN, Schmidt LS, Mester JL, et al. A novel germline mutation in BAP1 predisposes to familial clear-cell renal cell carcinoma. Mol Cancer Res. 2013;11:1061–71.
Popova T, Hebert L, Jacquemin V, et al. Germline BAP1 mutations predispose to renal cell carcinomas. Am J Hum Genet. 2013;92:974–80.
Wadt KA, Aoude LG, Johansson P, et al. A recurrent germline BAP1 mutation and extension of the BAP1 tumor predisposition spectrum to include basal cell carcinoma. Clin Genet. 2015;88:267–72.
de la Fouchardiere A, Cabaret O, Savin L, et al. Germline BAP1 mutations predispose also to multiple basal cell carcinomas. Clin Genet. 2015;88:273–7.
Haugh AM, Njauw CN, Bubley JA, et al. Genotypic and phenotypic features of BAP1 cancer syndrome: a report of 8 new families and review of cases in the literature. JAMA Dermatol. 2017;153:999–1006.
Shankar GM, Abedalthagafi M, Vaubel RA, et al. Germline and somatic BAP1 mutations in high-grade rhabdoid meningioma. Neurol Oncol. 2017;19:535–45.
Kaszuba MC, Pulido JS, Folpe AL, et al. Malignant peripheral nerve sheath tumor in a Patient with BAP1 tumor predisposition syndrome. World Neurosurg. 2018;109:362–4.
Wiesner T, Obenauf AC, Murali R, et al. Germline mutations in BAP1 predispose to melanocytic tumors. Nat Genet. 2011;43:1018–21.
Carbone M, Bedrossian CWM. The pathogenesis of mesothelioma. Seminars Diagn Pathol. 2006;23:56–60.
Carbone M, Yang H. Mesothelioma: recent highlights. Ann Transl Med. 2017;5(11):238. https://doi.org/10.21037/atm.2017.04.29.
Kadariya Y, Cheung M, Xu J, et al. BAP1 is a bona fide tumor suppressor: genetic evidence from mouse models carrying heterozygous germline BAP1 mutations. Cancer Res. 2016;76:2836–44.
Napolitano A, Pellegrini L, Dey A, et al. Minimal asbestos exposure in germline BAP1 heterozygous mice is associated with deregulated inflammatory response and increased risk of mesothelioma. Oncogene. 2016;35:1996–2002.
Baumann F, Buck BJ, Metcalf RV, McLaurin BT, Merkler DJ, Carbone M. The presence of asbestos in the natural environment is likely related to mesothelioma in young individuals and women from Southern Nevada. J Thorac Oncol. 2015;10(5):731–7.
Carbone M, Baris YI, Bertino P, Brass B, Comertpay S, Dogan AU, Gaudino G, Jube S, Kanodia S, Partridge CR, Pass HI, Rivera ZS, Steele I, Tuncer M, Way S, Yang H, Miller A. Erionite exposure in North Dakota and Turkish villages with mesothelioma. Proc Natl Acad Sci USA. 2011;108:13618–23.
Baumann F, Ambrosi JP, Carbone M. Asbestos is not just asbestos: an unrecognised health hazard. Lancet Oncol. 2013;14(7):576–8.
Lo Iacono M, Monica V, Righi L, et al. Targeted next-generation sequencing of cancer genes in advanced stage malignant pleural mesothelioma: a retrospective study. J Thorac Oncol. 2015;10:492–9.
Guo G, Chmielecki J, Goparaju C, et al. Whole-exome sequencing reveals frequent genetic alterations in BAP1, NF2, CDKN2A, and CUL1 in malignant pleural mesothelioma. Cancer Res. 2015;75:264–9.
Nasu M, Emi M, Pastorino S, Tanji M, Powers A, Luk H, et al. High incidence of somatic BAP1 alterations in sporadic malignant mesothelioma. J Thorac Oncol. 2015;10(4):565–76.
Bueno R, Stawiski EW, Goldstein LD, et al. Comprehensive genomic analysis of malignant pleural mesothelioma identifies recurrent mutations, gene fusions and splicing alterations. Nat Genet. 2016;48:407–16.
Yoshikawa Y, Emi M, Hashimoto-Tamaoki T, Ohmuraya M, Sato A, Tsujimura T, et al. High-density array-CGH with targeted NGS unmask multiple noncontiguous minute deletions on chromosome 3p21 in mesothelioma. Proc Natl Acad Sci USA. 2016;113(47):13432–7.
Roushdy-Hammady I, Siegel J, Emri S, et al. Genetic-susceptibility factor and malignant mesothelioma in the Cappadocian region of Turkey. Lancet. 2001;357:444–5.
Carbone M, Emri S, Dogan AU, et al. A mesothelioma epidemic in Cappadocia: scientific developments and unexpected social outcomes. Nat Rev Cancer. 2007;7:147–54.
Emri SA. The Cappadocia mesothelioma epidemic: its influence in Turkey and abroad. Ann Transl Med. 2017;5(11):239.
Heymann Steve, Delaloge Suzette, Rahal Arslane, Caron Olivier, Frebourg Thierry, Barreau Lise, Pachet Corinne, Mathieu Marie-Christine, Marsiglia Hugo. Céline Bourgier Radio-induced malignancies after breast cancer postoperative radiotherapy in patients with Li-Fraumeni syndrome. Radiat Oncol. 2010;5:104.
Villani A, Shore A, Wasserman JD, Stephens D, Kim RH, Druker H, Gallinger B, Naumer A, Kohlmann W, Novokmet A, Tabori U, Tijerin M, Greer ML, Finlay JL, Schiffman JD, Malkin D. Biochemical and imaging surveillance in germline TP53 mutation carriers with Li-Fraumeni syndrome: 11 year follow-up of a prospective observational study. Lancet Oncol. 2016;17(9):1295–305.
Carbone M, Rizzo P, Pass H. Simian virus 40: the link with human malignant mesothelioma is well established. Anticancer Res. 2000;20:875–8.
Both authors read and approved the final manuscript.
We acknowledge Michele Carbone for reviewing the pathology slides and performing the BAP1 testing in his lab.
The authors declare that they have no competing interests.
Availability of data and materials
Consent for publication
The patient and family provided consent to this publication.
Ethics approval and consent to participate
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
About this article
Cite this article
Kittaneh, M., Berkelhammer, C. Detecting germline BAP1 mutations in patients with peritoneal mesothelioma: benefits to patient and family members. J Transl Med 16, 194 (2018). https://doi.org/10.1186/s12967-018-1559-7