Dynamics of genomic clones in breast cancer patient xenografts at single-cell resolution

Nature

Volumn 518, Issue 7539, 2015, Pages 422-426

  Eirew, Peter ^a,b   Steif, Adi ^a,b   Khattra, Jaswinder ^a,b   Ha, Gavin ^a,b   Yap, Damian ^a,b   Farahani, Hossein ^a,b   Gelmon, Karen ^a   Chia, Stephen ^a   Mar, Colin ^a   Wan, Adrian ^a   Laks, Emma ^a,b   Biele, Justina ^a,b   Shumansky, Karey ^a   Rosner, Jamie ^a   McPherson, Andrew ^a,b   Nielsen, Cydney ^a,b   Roth, Andrew J L ^a,b   Lefebvre, Calvin ^a,b   Bashashati, Ali ^a,b   De Souza, Camila ^a   Siu, Celia ^a   Aniba, Radhouane ^a,b   Brimhall, Jazmine ^a   Oloumi, Arusha ^a,b   Osako, Tomo ^a,b   Bruna, Alejandra ^c   Sandoval, Jose L ^c   Algara, Teresa ^a,b   Greenwood, Wendy ^c   Leung, Kaston ^b   Cheng, Hongwei ^a,b   Xue, Hui ^a,b   Wang, Yuzhuo ^a,b   Lin, Dong ^a,b   Mungall, Andrew J ^d   Moore, Richard ^d   Zhao, Yongjun ^d   Lorette, Julie ^a   Nguyen, Long ^b,e   Huntsman, David ^a,b   Eaves, Connie J ^b,e   Hansen, Carl ^b   Marra, Marco A ^d   Caldas, Carlos ^c   Shah, Sohrab P ^a,b,d   Aparicio, Samuel ^a,b,d   more..

^a BRITISH COLUMBIA CANCER AGENCY   (Canada)

^b UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^c UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^d CANADA'S MICHAEL SMITH GENOME SCIENCES CENTRE   (Canada)

^e BRITISH COLUMBIA CANCER AGENCY   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; BREAST CANCER; CLINICAL EVALUATION; CLINICAL FEATURE; CLUSTER ANALYSIS; CONTROLLED STUDY; GENE MUTATION; GENETIC MARKER; GENOME ANALYSIS; GENOMICS; GENOTYPE; HUMAN; HUMAN CELL; MAJOR CLINICAL STUDY; MOLECULAR CLONING; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; MOUSE; NONHUMAN; POPULATION; POPULATION DYNAMICS; POPULATION STRUCTURE; PREVALENCE; PRIORITY JOURNAL; SINGLE CELL ANALYSIS; TUMOR ENGRAFTMENT; TUMOR XENOGRAFT; XENOTRANSPLANTATION; ANIMAL; BREAST TUMOR; CANCER TRANSPLANTATION; CELL CLONE; DRUG SCREENING; GENETICS; HIGH THROUGHPUT SEQUENCING; HUMAN GENOME; METABOLISM; NUCLEOTIDE SEQUENCE; PATHOLOGY; PROCEDURES; SECONDARY; TIME; XENOGRAFT;

ANIMALS; BREAST NEOPLASMS; CLONE CELLS; DNA MUTATIONAL ANALYSIS; GENOME, HUMAN; GENOMICS; GENOTYPE; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HUMANS; MICE; NEOPLASM TRANSPLANTATION; SINGLE-CELL ANALYSIS; TIME FACTORS; TRANSPLANTATION, HETEROLOGOUS; XENOGRAFT MODEL ANTITUMOR ASSAYS;

EID: 84925229458     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature13952     Document Type: Article

References (25)

1. Aparicio, S. & Caldas, C. The implications of clonal genome evolution for cancer medicine. N. Engl. J. Med. 368, 842-851 (2013).
2. Nowell, P. C. The clonal evolution of tumor cell populations. Science 194, 23-28 (1976).
3. Diaz, L. A. Jr et al. Themolecular evolution of acquired resistance to targeted EGFR blockade in colorectal cancers. Nature 486, 537-540 (2012).
4. Shah, S. P. et al. The clonal and mutational evolution spectrum of primary triple-negative breast cancers. Nature 486, 395-399 (2012).
5. Gerlinger, M. et al. Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. N. Engl. J. Med. 366, 883-892 (2012).
6. Campbell, P. J. et al. The patterns and dynamics of genomic instability in metastatic pancreatic cancer. Nature 467, 1109-1113 (2010).
7. Bashashati, A. et al. Distinct evolutionary trajectories of primary high-grade serous ovarian cancers revealed through spatial mutational profiling. J. Pathol. 231, 21-34 (2013).
8. DeRose, Y. S. et al. Tumor grafts derived from women with breast cancer authentically reflect tumor pathology, growth, metastasis and disease outcomes. Nature Med. 17, 1514-1520 (2011).
9. Zhang, X. et al. A renewable tissue resource of phenotypically stable, biologically and ethnically diverse, patient-derived human breast cancer xenograft models. Cancer Res. 73, 4885-4897 (2013).
10. Ding, L. et al. Genome remodelling in a basal-like breast cancer metastasis and xenograft. Nature 464, 999-1005 (2010).
11. Pearson, T. et al. Non-obese diabetic-recombination activating gene-1 (NOD-Rag1null) interleukin (IL)-2 receptor common gamma chain (IL2rcnull) null mice: a radioresistant model for human lymphohaematopoietic engraftment. Clin. Exp. Immunol. 154, 270-284 (2008).
12. Cancer Genome Atlas Network. Comprehensive molecular portraits of human breast tumours. Nature 490, 61-70 (2012).
13. Ha, G. et al. Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer. Genome Res. 22, 1995-2007 (2012).
14. Nik-Zainal, S. et al. The life history of 21 breast cancers. Cell 149, 994-1007 (2012).
15. Ellis, M. J. et al. Whole-genome analysis informs breast cancer response to aromatase inhibition. Nature 486, 353-360 (2012).
16. Banerji, S. et al. Sequence analysis of mutations and translocations across breast cancer subtypes. Nature 486, 405-409 (2012).
17. Curtis, C. et al. The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature 486, 346-352 (2012).
18. Roth, A. et al. PyClone: statistical inference of clonal population structure in cancer. Nature Methods 11, 396-398 (2014).
19. Ha, G. et al. Titan: inference of copynumber architectures in clonal cell populations from tumor whole genome sequence data. 24, 1881-1893 (2014).
20. Ronquist, F. et al. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61, 539-542 (2012).
21. Kreso, A. et al. Variable clonal repopulation dynamics influence chemotherapy response in colorectal cancer. Science 339, 543-548 (2013).
22. Nolan-Stevaux, O. et al. Measurement of cancer cell growth heterogeneity through lentiviral barcoding identifies clonal dominance as a characteristic of in vivo tumor engraftment. PLoS ONE 8, e67316 (2013).
23. Li, S. et al. Endocrine-therapy-resistant ESR1 variants revealed by genomic characterization of breast-cancer-derived xenografts. Cell Rep. 4, 1116-1130 (2013).
24. Notta, F. et al. Evolution of human BCR-ABL1 lymphoblastic leukaemia-initiating cells. Nature 469, 362-367 (2011).
25. Clappier, E. et al. Clonal selection in xenografted humanT cell acute lymphoblastic leukemia recapitulates gain of malignancy at relapse. J. Exp. Med. 208, 653-661 (2011).