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Abstract
Renal cell carcinoma (RCC) represents a heterogeneous group of malignancies derived from the kidney, of which clear cell RCC (ccRCC) accounts for nearly 75% of cases. Despite major advances in effective therapies, metastatic ccRCC is still associated with a 10%-20% 5-year survival and remains quite lethal. Great effort has been placed into understanding the genetics and genomics of ccRCC and their prognostic and therapeutic implications. Large-scale cancer genomics sequencing studies have identified several driver genes beyond VHL, particularly PBRM1 (40%), SETD2 (15%), and BAP1 (10%), drastically changing the concept of single-gene pathology underlying sporadic ccRCC. In this mini-review, we explore the pathways by which the loss of VHL, PBRM1, SETD2, and/or BAP1 induce ccRCC through discussion of gene function, disease models, prognostic indications, and therapeutic advances.
Keywords
Kidney cancer
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oncogene
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tumor suppressor gene
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VHL
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HIF
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PBRM1
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BAP1
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MTOR
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Valerie H. Le, James J. Hsieh.
Genomics and genetics of clear cell renal cell carcinoma: a mini-review.
Journal of Translational Genetics and Genomics 17 DOI:10.20517/jtgg.2018.28
| [1] |
HsiehJJ,SignorettiS,AlbigesL.Renal cell carcinoma..Nat Rev Dis Primers2017;3:17009 PMCID:PMC5936048
|
| [2] |
HakimiAA,HsiehJJ.A clear picture of renal cell carcinoma..Nat Genet2013;45:849-50
|
| [3] |
HakimiAA,LeeCH,BrannonAR.An integrated metabolic atlas of clear cell renal cell carcinoma..Cancer Cell2016;29:104-16 PMCID:PMC4809063
|
| [4] |
Cancer Genome Atlas Research NetworkComprehensive molecular characterization of clear cell renal cell carcinoma..Nature2013;499:43-9 PMCID:PMC3771322
|
| [5] |
HsiehJJ,CaoD.Genomic classifications of renal cell carcinoma: a critical step towards the future personalized kidney cancer care with pan-omics precision..J Pathol2018;244:525-37
|
| [6] |
HsiehJJ,KhanN,CarloMI.Overcome tumor heterogeneity-imposed therapeutic barriers through convergent genomic biomarker discovery: a braided cancer river model of kidney cancer..Semin Cell Dev Biol2017;64:98-106 PMCID:PMC5522717
|
| [7] |
SemenzaGL.HIF-1 mediates metabolic responses to intratumoral hypoxia and oncogenic mutations..J Clin Invest2013;123:3664-71 PMCID:PMC3754249
|
| [8] |
MassonN.Hypoxia signaling pathways in cancer metabolism: the importance of co-selecting interconnected physiological pathways..Cancer Metab2014;2:3 PMCID:PMC3938304
|
| [9] |
CourtneyKD,LamET.Phase I dose-escalation trial of PT2385, a first-in-class hypoxia-inducible factor-2α antagonist in patients with previously treated advanced clear cell renal cell carcinoma..J Clin Onc2018;36:867-74 PMCID:PMC5946714
|
| [10] |
HakimiAA,JacobsenA,SfakianosJP.TCEB1-mutated renal cell carcinoma: a distinct genomic and morphological subtype..Mod Pathol2015;28:845-53 PMCID:PMC4449825
|
| [11] |
KibelA,DeCaprioJA.Binding of the von Hippel-Lindau tumor suppressor protein to Elong B and C..Science1995;269:1444-6
|
| [12] |
RohanSM,LiangY,Al-AhmadieHA.Clear-cell papillary renal cell carcinoma: molecular and immunohistochemical analysis with emphasis on the von Hippel-Lindau gene and hypoxia-inducible factor pathway related proteins..Mod Pathol2011;24:1207-20
|
| [13] |
CarrollVA.Role of hypoxia-induced factor (HIF)-1 alpha versus HIF-2 alpha in regulation of HIF target genes in response to hypoxia, insulin-like growth factor-I, or loss of von Hippel-Lindau function: implications for targeting the pathway..Cancer Res2006;66:6264-70
|
| [14] |
ShenC.The VHL/HIF axis in clear cell renal carcinoma..Semin Cancer Biol2013;23:18-25 PMCID:PMC3663044
|
| [15] |
SemenzaGL.Defining the role of hypoxia-inducible factor 1 in cancer biology and therapeutics..Oncogene2010;29:625-34 PMCID:PMC2969168
|
| [16] |
FuL,ShevchukMM,GudasLJ.Generation of a mouse model of Von Hippel-Lindau kidney disease leading to renal cancers by expression of a constitutively active mutant of HIF1alpha..Cancer Res2011;71:6848-56 PMCID:PMC3214086
|
| [17] |
FuL,ShevchukMM,GudasLJ.Activation of HIF2alpha in kidney proximal tubule cells causes abnormal glyogen deposition but not tumorgenesis..Cancer Res2013;73:2916-25 PMCID:PMC3642229
|
| [18] |
KondoK,NakamuraE.Inhibition of HIF is necessary for tumor suppression by von Hippel-Lindau protein..Cancer Cell2002;1:237-46
|
| [19] |
ZimmerM,SiddiquiN.Inhibition of hypoxia-inducible factor is sufficient for growth suppression of VHL -/- tumors..Mol Cancer Res2004;2:89-95
|
| [20] |
PurdueMP,ZelenikaD.Genome-wide association study of renal cell carcinoma identifies two susceptibility loci on 2p21 and 11q13.3..Nat Genet2011;43:60-5 PMCID:PMC3049257
|
| [21] |
KroegerN,ChamieK.Deletions of chromosomes 3p and 14q molecularly subclassify clear cell renal cell carcinoma..Cancer2013;119:1547-54
|
| [22] |
MotzerRJ,AgarwalN,BroWP.Kidney Cancer, Version 2.2017, NCCN Clinical Practice Guidelines in Oncology..J Natl Compr Canc Netw2017;15:804-34
|
| [23] |
RodgersJL,ScheuermannTH,KeyJ.Development of inhibitors of the PAS-B domain of the HIF-2α transcription factor..J Med Chem2013;56:1739-47 PMCID:PMC3676484
|
| [24] |
WallaceEM,HanG,CaoZ.A small molecule antagonist of HIF-2α is efficacious in pre-clinical models of renal cell carcinoma..Cancer Res2016;76:5491-500
|
| [25] |
KapitsinouPP.The VHL tumor suppressor and HIF: insights from genetic studies in mice..Cell Death Differ2008;15:650-9 PMCID:PMC3799983
|
| [26] |
Cancer Genome Atlas Research NetworkComprehensive molecular profiling of lung adenocarcinoma..Nature2014;511:543-50 PMCID:PMC4231481
|
| [27] |
HakimiAA,WrenJ,Abdel-WahabO.Clinical and pathologic impact of select chromatin-modulating tumor suppressors in clear cell renal cell carcinom..Eur Urol2013;63:848-54 PMCID:PMC3615105
|
| [28] |
Pena-LlopisS,LiaoA,Pavía-JiménezA.BAP1 loss defines a new class of renal cell carcinoma..Nat Genet2012;44:751-9 PMCID:PMC3788680
|
| [29] |
VarelaI,RaineK,OngCK.Exome sequencing identifies frequent mutation of SWI/SNF complex gene PBRM1 in renal carcinoma..Nature2011;469:539-42 PMCID:PMC3030920
|
| [30] |
NargundAM,DongY,OsmangeyogluHU.The SWI/SNF protein PBRM1 restrains VHL-loss-driven clear cell renal cell carcinoma..Cell Rep2017;18:2893-906 PMCID:PMC5431084
|
| [31] |
BiegelJA,WeissmanBE.SWI/SNF chromatin remodeling complexes and cancer..Am J Med Genet2014;166:350-66 PMCID:PMC4516040
|
| [32] |
HargreavesDC.ATP-dependent chromatin remodeling genetics, genomics, and mechanisms..Cell Res2011;21:396-420 PMCID:PMC3110148
|
| [33] |
KadochC,HodgesC,HoL.Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes identifies extensive roles in human malignancy..Nat Genet2013;45:592-601 PMCID:PMC3667980
|
| [34] |
DawsonMA.Cancer epigenetics: from mechanism to therapy..Cell2012;150:12-27
|
| [35] |
GaoW,XiaoT,KaelinWG Jr.Inactivation of the PBRM1 tumor suppressor gene amplifies the HIF-response in VHL -/- clear cell renal carcinoma..Proc Natl Acad Sci USA2017;114:1027-32 PMCID:PMC5293026
|
| [36] |
SaxtonRA.mTOR signaling in growth, metabolism, and disease..Cell2017;169:361-71
|
| [37] |
BrugarolasJ,HurleyRL,ReilingJH.Regulation of mTOR function in response to hypoxia by REDD1 and the TSC1/SC2 tumor suppressor complex..Genes Dev2004;18:2893-904 PMCID:PMC534650
|
| [38] |
RobbV,SzantoAJ.Activation of the mTOR signaling pathway in renal clear cell carcinoma..J Urol2007;177:346-52
|
| [39] |
WeiEY.A river model to map convergent cancer evolution and guide therapy in RCC..Nat Rev Urol2015;12:706-12
|
| [40] |
HsiehJJ,WangPI,RedzematovicA.Genomic biomarkers of a randomized trial comparing first-line everolimus and sunitinib in patients with metastatic renal cell carcinoma..Eur Urol2017;71:405-14 PMCID:PMC5431298
|
| [41] |
HsiehJJ,ChenYB,MarkerM..Identification of efficacy biomarkers in a large metastatic renal cell carcinoma (mRCC) cohort through next generation sequencing (NGS): results from RECORD-3..J Clin Oncol2015;33:abstr4509
|
| [42] |
VossMH.Therapeutic guide for mTOuRing through the braided kidney cancer genomic river..Clin Cancer Res2016;22:2320-2 PMCID:PMC5431075
|
| [43] |
KwiatkowskiDJ,FayAP,ThornerAR.Muttions in TSC1, TSC2, and MTOR are associated with response to rapalogs in patients with metastatic renal cell carcinoma..Clin Cancer Res2016;22:2445-52 PMCID:PMC4976069
|
| [44] |
NargundAM,ChengEH.SWI/SNF tumor suppressor gene PBRM1/BAF180 in human clear cell kidney cancer..Mol Cell Oncol2017;4:e1342747 PMCID:PMC5540208
|
| [45] |
DalglieshGL,GreenmanC,BignellG.Systematic sequencing of renal carcinoma reveals inactivation of histone modifying enzymes..Nature2010;463:360-3 PMCID:PMC2820242
|
| [46] |
SunXJ,WeiXY,WangL..Identification and characterization of a novel human histone H3 lysine 36-specific methyltransferase..J Biol Chem2005;280:35261-71
|
| [47] |
SimonJM,SinghD,ParkerJS.Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects..Genome Res2014;24:241-50 PMCID:PMC3912414
|
| [48] |
SarakbiAW,JiangWG,NewboldRF.The mRNA expression of SETD2 in human breast cancer: correlation with clinico-pathological parameters..BMC Cancer2009;9:290 PMCID:PMC3087337
|
| [49] |
ZhangJ,HolmfeldtL,HeatleySL.The genetic basis of early T-cell precursor acute lymphoblastic leukemia..Nature2012;481:157-63 PMCID:PMC3267575
|
| [50] |
XiangW,HuangC,TaoD.miR-106b-5p targets tumor suppressor gene SETD2 to inactive its function in clear cell renal cell carcinoma..Oncotarget2015;6:4066-79 PMCID:PMC4414173
|
| [51] |
DunsG,van-DuivenbodeI,HollemaH.Histone methyltransferase gene SETD2 is a novel tumor suppressor gene in clear cell renal carcinoma..Cancer Res2010;70:4287-91
|
| [52] |
ManleyBJ,CasuscelliJ,RedzematovicA.Integration of recurrent somatic mutations with clinical outcomes: a pooled analysis of 1049 patients with clear cell renal cell carcinoma..Eur Urol Focus2017;3:421-7 PMCID:PMC5650556
|
| [53] |
TennenbaumDM,ZaborE,CarloMI.Genomic alterations as predictors of survival among patients within a combined cohort with clear cell renal cell carcinoma undergoing cytoreductive nephrectomy..Urol Oncol2017;35:532 PMCID:PMC5545055
|
| [54] |
GerlingerM,HorswellS,LarkinJ.Intratumor heterogeneity and branched evolution revealed by multiregion sequencing..N Engl J Med2012;366:883-92 PMCID:PMC4878653
|
| [55] |
NishikawaH,KoikeA,GomiH.BRCA1-associated protein 1 interferes with BRCA1/BARD1 RING heterodimer activity..Cancer Res2009;69:111-9
|
| [56] |
MalleryDL,HiomK..Activation of the E3 ligase function of the BRCA1/BARD1 complex by polyubiquitin chains..EMBO J2002;21:6755-62 PMCID:PMC139111
|
| [57] |
PivaF,MatranaMR,GiuliettiM.BAP1, PBRM1 and SETD2 in clear-cell renal cell carcinoma: molecular diagnostics and possible targets for personalized therapies..Expert Rev Mol Diagn2015;15:1201-10
|
| [58] |
WangSS,WolffN,ChristieA.Bap1 is essential for kidney function and cooperates with VHL in renal tumorigenesis..Proc Natl Acad Sci USA2014;111:16538-43 PMCID:PMC4246264
|
| [59] |
ChoueiriTK,PowlesT,MainwaringPN.Cabozantinib versus everolimus in advanced renal-cell carcinoma..N Engl J Med2015;373:1814-23 PMCID:PMC5024539
|
| [60] |
EscudierB,StadlerWM,OudardS.Sorafenib in advanced clear cell renal cell carcinoma..N Engl J Med2007;357:203
|
| [61] |
MotzerRJ,GlenH,MolinaA.Lenvatinib, everolimus, and the combination in patients with metastatic renal cell carcinoma: a randomised, phase 2, open-label, multicentre trial..Lancet Oncol2015;16:1473-82
|
| [62] |
MotzerRJ,TomczakP,BukowskiRM.Sunitinb versus interferon alfa in metastatic renal cell carcinoma..N Engl J Med2007;356:115-24
|
| [63] |
MotzerRJ,DeenK..Pazopanib versus sunitinib in renal cancer..N Engl J Med2013;369:1970
|
| [64] |
RiniBI,TomczakP,SzczylikC.Comparative effectiveness of axitinib versus sorafenib in advanced renal cell carcinoma (AXIS): a randomised phase 3 trial..Lancet2011;378:1931-9
|
| [65] |
EscudierB,KoralewskiP,BracardaS.Bevacizumab plus interferon alfa-2a for treatment of metastatic renal cell carcinoma: a randomised, double-blind phase III trial..Lancet2007;370:2103-11
|
| [66] |
HudesG,TomczakP..Temsirolimus, interferon alfa, or both for advanced renal-cell carcinoma..N Engl J Med2007;356:2271-81
|
| [67] |
MotzerRJ,OudardS,PortaC.Efficacy of everolimus in advanced renal cell carcinoma: a double-blind, randomised, placebo-controlled phase III trial..Lancet2008;372:449-56
|
| [68] |
McDermottDF,ClarkJI,WeissGR.Randomized phase III trial of high-dose interleukin-2 versus subcutaneous interleukin-2 and interferon in patients with metastatic renal cell carcinoma..J Clin Oncol2005;23:133-41
|
| [69] |
MotzerRJ,McDermottDF,HammersHJ.Nivolumab versus everolimus in advanced renal-cell carcinoma..N Engl J Med2015;373:1803-13 PMCID:PMC5719487
|
| [70] |
MotzerRJ,McDermottDF,MelicharB.Nivolumab plus ipilimumab versus sunitinib in advanced renal cell carcinoma..N Engl J Med2018;378:1277-90 PMCID:PMC5972549
|