Cancer genome evolution

Translational Cancer Research

Volumn 4, Issue 3, 2015, Pages 303-313

  Horne, Steven D ^a   Ye, Christine J ^b   Abdallah, Batoul Y ^a   Liu, Guo ^a   Heng, Henry H Q ^a  

^a WAYNE STATE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF MICHIGAN   (United States)

Author keywords

Genome chaos; Genome theory; Macro cellular evolution; Punctuated cancer evolution; System inheritance

Indexed keywords

ARTICLE; CANCER GROWTH; CANCER MODEL; CANCER RESEARCH; CANCER SURVIVAL; CHROMOSOME ABERRATION; CHROMOSOME ANALYSIS; DNA SEQUENCE; GENE EXPRESSION; GENE INTERACTION; GENE MUTATION; GENETIC HETEROGENEITY; GENETIC VARIATION; GENOME ANALYSIS; GENOMIC INSTABILITY; HUMAN; HUMAN GENOME; INHERITANCE; MALIGNANT NEOPLASM; MARKOV CHAIN; MOLECULAR EVOLUTION; TUMOR GENE;

EID: 84962763387     PISSN: 2218676X     EISSN: 22196803     Source Type: Journal    
DOI: 10.3978/j.issn.2218-676X.2015.06.01     Document Type: Article

References (63)

1. Heng HH. Cancer genome sequencing: the challenges ahead. Bioessays 2007;29:783-94
2. Collins FS, Barker AD. Mapping the cancer genome. Pinpointing the genes involved in cancer will help chart a new course across the complex landscape of human malignancies. Sci Am 2007;296:50-7
3. Heng HH, Bremer SW, Stevens JB, et al. Chromosomal instability (CIN): what it is and why it is crucial to cancer evolution. Cancer Metastasis Rev 2013;32:325-40
4. Heng HH, Stevens JB, Bremer SW, et al. Evolutionary mechanisms and diversity in cancer. Adv Cancer Res 2011;112:217-53
5. Weinberg RA. Coming full circle-from endless complexity to simplicity and back again. Cell 2014;157:267-71
6. Roberts NJ, Vogelstein JT, Parmigiani G, et al. The predictive capacity of personal genome sequencing. Sci Transl Med 2012;4:133ra58
7. Horne SD, Stevens JB, Abdallah BY, et al. Why imatinib remains an exception of cancer research. J Cell Physiol 2013;228:665-70
8. Gatenby RA, Silva AS, Gillies RJ, et al. Adaptive therapy. Cancer Res 2009;69:4894-903
9. Greaves M, Maley CC. Clonal evolution in cancer. Nature 2012;481:306-13
10. Heng HH, Stevens JB, Liu G, et al. Stochastic cancer progression driven by non-clonal chromosome aberrations. J Cell Physiol 2006;208:461-72
11. Merlo LM, Pepper JW, Reid BJ, et al. Cancer as an evolutionary and ecological process. Nat Rev Cancer 2006;6:924-35
12. Nowell PC. The clonal evolution of tumor cell populations. Science 1976;194:23-8
13. Heng HH, Bremer SW, Stevens JB, et al. Genetic and epigenetic heterogeneity in cancer: a genome-centric perspective. J Cell Physiol 2009;220:538-47
14. Heppner GH. Tumor heterogeneity. Cancer Res 1984;44:2259-65
15. Gerlinger M, Rowan AJ, Horswell S, et al. Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. N Engl J Med 2012;366:883-92
16. Baca SC, Prandi D, Lawrence MS, et al. Punctuated evolution of prostate cancer genomes. Cell 2013;153:666-77
17. Wang Y, Waters J, Leung ML, et al. Clonal evolution in breast cancer revealed by single nucleus genome sequencing. Nature 2014;512:155-60
18. Podlaha O, Riester M, De S, et al. Evolution of the cancer genome. Trends Genet 2012;28:155-63
19. Stephens PJ, Greenman CD, Fu B, et al. Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell 2011;144:27-40
20. Heng HH. The genome-centric concept: resynthesis of evolutionary theory. Bioessays 2009;31:512-25
21. Heng HH. Bio-complexity: challenging reductionism. In: Sturmberg JP, Martin CM, editors. Handbook on Systems and Complexity in Health. New York: Springer 2013:193-208
22. Heng HH, Liu G, Stevens JB, et al. Decoding the genome beyond sequencing: the new phase of genomic research. Genomics 2011;98:242-52
23. Patel AP, Tirosh I, Trombetta JJ, et al. Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma. Science 2014;344:1396-401
24. Stevens JB, Liu G, Abdallah BY, et al. Unstable genomes elevate transcriptome dynamics. Int J Cancer 2014;134:2074-87
25. Pavelka N, Rancati G, Zhu J, et al. Aneuploidy confers quantitative proteome changes and phenotypic variation in budding yeast. Nature 2010;468:321-5
26. Abdallah BY, Horne SD, Stevens JB, et al. Single cell heterogeneity: Why unstable genomes are incompatible with average profiles. Cell Cycle 2013;12:3640-9
27. Liu G, Stevens JB, Horne SD, et al. Genome chaos: Survival strategy during crisis. Cell Cycle 2014;13:528-37
28. Gisselsson D, Hoglund M. Connecting mitotic instability and chromosome aberrations in cancer-can telomeres bridge the gap? Semin Cancer Biol 2005;15:13-23
29. Heng HH, Stevens JB, Liu G, et al. Imaging genome abnormalities in cancer research. Cell Chromosome 2004;3:1
30. Horne SD, Chowdhury SK, Heng HH. Stress, genomic adaptation, and the evolutionary trade-off. Front Genet 2014;5:92
31. Heng HH, Stevens JB, Bremer SW, et al. The evolutionary mechanism of cancer. J Cell Biochem 2010;109:1072-84
32. Ye CJ, Stevens JB, Liu G, et al. Genome based cell population heterogeneity promotes tumorigenicity: the evolutionary mechanism of cancer. J Cell Physiol 2009;219:288-300
33. Huang S. Genetic and non-genetic instability in tumor progression: link between the fitness landscape and the epigenetic landscape of cancer cells. Cancer Metastasis Rev 2013;32:423-48
34. Weisenberger DJ, Liang G. Contributions of DNA methylation aberrancies in shaping the cancer epigenome. Transl Cancer Res 2015;4:219-34
35. Heng HH. Missing heritability and stochastic genome alterations. Nat Rev Genet 2010;11:813
36. Heng HH, Horne SD, Stevens JB, et al. Heterogeneity mediated system complexity: the ultimate challenge for studying common and complex diseases. Proceedings of the First International Conference on Systems and Complexity in Health. Washington DC, USA. New York: Springer 2015. (In press)
37. Heng HH. Debating Cancer: The Paradox in Cancer Research. Singapore: World Scientific Publishing Company, 2015. (In press)
38. Navin N, Kendall J, Troge J, et al. Tumour evolution inferred by single-cell sequencing. Nature 2011;472:90-4
39. Klein CA. Selection and adaptation during metastatic cancer progression. Nature 2013;501:365-72
40. Heng HH, Bremer SW, Stevens J, et al. Cancer progression by non-clonal chromosome aberrations. J Cell Biochem 2006;98:1424-35
41. Stevens JB, Abdallah BY, Liu G, et al. Diverse system stresses: common mechanisms of chromosome fragmentation. Cell Death Dis 2011;2:e178
42. Stevens JB, Liu G, Bremer SW, et al. Mitotic cell death by chromosome fragmentation. Cancer Res 2007;67:7686-94
43. Horne SD, Wexler M, Stevens JB, et al. Insights on processes of evolutionary tumor growth. Atlas Genet Cytogenet Oncol Haematol 2015;
44. Heng HH, Liu G, Stevens JB, et al. Karyotype heterogeneity and unclassified chromosomal abnormalities. Cytogenet Genome Res 2013;139:144-57
45. Gorelick R, Heng HH. Sex reduces genetic variation: a multidisciplinary review. Evolution 2011;65:1088-98
46. Heng HH. Elimination of altered karyotypes by sexual reproduction preserves species identity. Genome 2007;50:517-24
47. Wilkins AS, Holliday R. The evolution of meiosis from mitosis. Genetics 2009;181:3-12
48. Hojsak I, Gagro A, Petkovic I, et al. Chromosomal aberrations in peripheral blood lymphocytes in patients with newly diagnosed celiac and Crohn's disease. Eur J Gastroenterol Hepatol 2013;25:22-7
49. Iourov IY, Vorsanova SG, Kurinnaia OS, et al. Molecular karyotyping by array CGH in a Russian cohort of children with intellectual disability, autism, epilepsy and congenital anomalies. Mol Cytogenet 2012;5:46
50. Iourov IY, Vorsanova SG, Yurov YB. Chromosomal mosaicism goes global. Mol Cytogenet 2008;1:26
51. Iourov IY, Vorsanova SG, Yurov YB. Single cell genomics of the brain: focus on neuronal diversity and neuropsychiatric diseases. Curr Genomics 2012;13:477-88
52. Ye CJ, Liu G, Bremer SW, et al. The dynamics of cancer chromosomes and genomes. Cytogenet Genome Res 2007;118:237-46
53. Biesterfeld S, Gerres K, Fischer-Wein G, et al. Polyploidy in non-neoplastic tissues. J Clin Pathol 1994;47:38-42
54. Celton-Morizur S, Desdouets C. Polyploidization of liver cells. Adv Exp Med Biol 2010;676:123-35
55. Davoli T, de Lange T. The causes and consequences of polyploidy in normal development and cancer. Annu Rev Cell Dev Biol 2011;27:585-610
56. Fragouli E, Wells D. Aneuploidy in the human blastocyst. Cytogenet Genome Res 2011;133:149-59
57. Hultén MA, Jonasson J, Iwarsson E, et al. Trisomy 21 mosaicism: we may all have a touch of Down syndrome. Cytogenet Genome Res 2013;139:189-92
58. 1000 Genomes Project Consortium, Abecasis GR, Auton A, et al. An integrated map of genetic variation from 1,092 human genomes. Nature 2012;491:56-65
59. Horne SD, Pollick SA, Heng HH. Evolutionary mechanism unifies the hallmarks of cancer. Int J Cancer 2015;136:2012-21
60. King M. Species Evolution: The Role of Chromosome Change. New York: Cambridge University Press, 1993
61. Duesberg P, Mandrioli D, McCormack A, et al. Is carcinogenesis a form of speciation? Cell Cycle 2011;10:2100-14
62. Duesberg P, Rasnick D. Aneuploidy, the somatic mutation that makes cancer a species of its own. Cell Motil Cytoskeleton 2000;47:81-107
63. Vincent MD. The animal within: carcinogenesis and the clonal evolution of cancer cells are speciation events sensu stricto. Evolution 2010;64:1173-83