The genomic and epigenomic evolutionary history of papillary renal cell carcinomas

Zhu, Bin; Poeta, Maria Luana; Costantini, Manuela; Zhang, Tongwu; Shi, Jianxin; Sentinelli, Steno; Zhao, Wei; Pompeo, Vincenzo; Cardelli, Maurizio; Alexandrov, Boian S.; Otlu, Burcak; Hua, Xing; Jones, Kristine; Brodie, Seth; Dabrowska, Malgorzata Ewa; Toro, Jorge R.; Yeager, Meredith; Wang, Mingyi; Hicks, Belynda; Alexandrov, Ludmil B.; Brown, Kevin M.; Wedge, David C.; Chanock, Stephen; Fazio, Vito Michele; Gallucci, Michele; Landi, Maria Teresa

doi:10.1038/s41467-020-16546-5

Title: The genomic and epigenomic evolutionary history of papillary renal cell carcinomas

Journal Article · Thu Jun 18 00:00:00 EDT 2020 · Nature Communications

DOI:https://doi.org/10.1038/s41467-020-16546-5· OSTI ID:1815502

Zhu, Bin ^[1];

^[2]; Costantini, Manuela ^[3];

^[1]; Shi, Jianxin ^[1]; Sentinelli, Steno ^[4];

^[1]; Pompeo, Vincenzo ^[5];

^[6];

^[7];

^[8]; Hua, Xing ^[1]; Jones, Kristine ^[9];

^[9]; Dabrowska, Malgorzata Ewa ^[10]; Toro, Jorge R. ^[11]; Yeager, Meredith ^[9];

^[9];

^[8] more »

National Institutes of Health (NIH), Bethesda, MD (United States). National Cancer Inst., Division of Cancer Epidemiology and Genetics
Univ. of Bari (Italy). Dept. of Bioscience, Biotechnology and Biopharmaceutics
Univ. of Bari (Italy). Dept. of Bioscience, Biotechnology and Biopharmaceutics; “Regina Elena” National Cancer Inst., Rome (Italy). Dept. of Urology
“Regina Elena” National Cancer Inst., Rome (Italy). Dept. of Pathology
“Regina Elena” National Cancer Inst., Rome (Italy). Dept. of Urology
Istituto Nazionale di Riposo e Cura per Anziani (INRCA), Ancona (Italy). IRCCS (National Institute for Research and Treatment), Advanced Technology Center for Aging Research
Los Alamos National Lab. (LANL), Los Alamos, NM (United States). Theoretical Division
Univ. of California, San Diego La Jolla, CA (United States). Moores Cancer Center, Dept. of Cellular and Molecular Medicine and Dept. of Bioengineering
Frederick National Lab. for Cancer Research, Frederick, MD (United States). Cancer Genomics Research Laboratory (CGR)
“Regina Elena” National Cancer Inst., Rome (Italy). Dept. of Pathology; Univ. Campus Bio-Medico of Rome (Italy). Lab. of Molecular Medicine and Biotechnology
Washington DC Veteran Affairs Medical Center (United States)
Big Data Inst., Oxford (United Kingdom); Oxford NIHR Biomedical Research Centre (United Kingdom); Manchester Cancer Research Centre (United Kingdom)
Univ. Campus Bio-Medico of Rome (Italy). Lab. of Molecular Medicine and Biotechnology; IRCCS H. "Casa Sollievo della Sofferenza", San Giovanni Rotondo FG (Italy). Laboratory of Oncology

Intratumor heterogeneity (ITH) and tumor evolution have been well described for clear cell renal cell carcinomas (ccRCC), but they are less studied for other kidney cancer subtypes. Here we investigate ITH and clonal evolution of papillary renal cell carcinoma (pRCC) and rarer kidney cancer subtypes, integrating whole-genome sequencing and DNA methylation data. In 29 tumors, up to 10 samples from the center to the periphery of each tumor, and metastatic samples in 2 cases, enable phylogenetic analysis of spatial features of clonal expansion, which shows congruent patterns of genomic and epigenomic evolution. In contrast to previous studies of ccRCC, in pRCC, driver gene mutations and most arm-level somatic copy number alterations (SCNAs) are clonal. These findings suggest that a single biopsy would be sufficient to identify the important genetic drivers and that targeting large-scale SCNAs may improve pRCC treatment, which is currently poor. While type 1 pRCC displays near absence of structural variants (SVs), the more aggressive type 2 pRCC and the rarer subtypes have numerous SVs, which should be pursued for prognostic significance.

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Research Organization:: Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

Sponsoring Organization:: USDOE National Nuclear Security Administration (NNSA); National Institutes of Health (NIH); National Cancer Institute (NCI); USDOE Laboratory Directed Research and Development (LDRD) Program; Li Ka Shing Foundation; National Institute for Health Research

Grant/Contract Number:: 89233218CNA000001

OSTI ID:: 1815502

Journal Information:: Nature Communications, Vol. 11, Issue 1; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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