Tug-of-war between driver and passenger mutations in cancer and other adaptive processes

Proceedings of the National Academy of Sciences of the United States of America

Volumn 111, Issue 42, 2014, Pages 15138-15143

  McFarland, Christopher D ^a   Mirny, Leonid A ^a,b,c   Korolev, Kirill S ^b,d  

^a HARVARD UNIVERSITY   (United States)

^b MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^c USA   (United States)

^d BOSTON UNIVERSITY   (United States)

Author keywords

Cancer genomics; Chemotherapy; Evolution; Mathematical modeling; Simulations

Indexed keywords

TUMOR MARKER;

BIOLOGICAL MODEL; COMPUTER SIMULATION; DISEASE COURSE; GENETICS; GENOMICS; HUMAN; INCIDENCE; MARKOV CHAIN; METABOLISM; MUTATION RATE; NEOPLASM; ONCOGENESIS AND MALIGNANT TRANSFORMATION; POPULATION GENETICS; PROBABILITY; THEORETICAL MODEL;

BIOMARKERS, TUMOR; COMPUTER SIMULATION; DISEASE PROGRESSION; GENETICS, POPULATION; GENOMICS; HUMANS; INCIDENCE; MODELS, GENETIC; MODELS, THEORETICAL; MUTATION RATE; NEOPLASMS; NEOPLASTIC PROCESSES; PROBABILITY; STOCHASTIC PROCESSES;

EID: 84908032938     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1404341111     Document Type: Article

References (38)

1. Kawashima Y, et al. (2009) Adaptation of HIV-1 to human leukocyte antigen class I. Nature 458(7238):641-645.
2. Zhang Q, et al. (2011) Acceleration of emergence of bacterial antibiotic resistance in connected microenvironments. Science 333(6050):1764-1767.
3. Wright SI, et al. (2005) The effects of artificial selection on the maize genome. Science 308(5726):1310-1314.
4. Bozic I, et al. (2010) Accumulation of driver and passenger mutations during tumor progression. Proc Natl Acad Sci USA 107(43):18545-18550.
5. Cameron TC, O'Sullivan D, Reynolds A, Piertney SB, Benton TG (2013) Eco-evolutionary dynamics in response to selection on life-history. Ecol Lett 16(6):754-763.
6. Hanahan D, Weinberg RA (2011) Hallmarks of cancer: The next generation. Cell 144(5):646-674.
7. Beckman RA, Loeb LA (2005) Negative clonal selection in tumor evolution. Genetics 171(4):2123-2131.
8. Lawrence MS, et al. (2013) Mutational heterogeneity in cancer and the search for new cancer-associated genes. Nature 499(7457):214-218.
9. Domingues JS (2012) Gompertz model: Resolution and analysis for tumors. J Math Model Appl 1(7):70-77.
10. Lawrence MS, et al. (2014) Discovery and saturation analysis of cancer genes across 21 tumour types. Nature 505(7484):495-501.
11. Zack TI, et al. (2013) Pan-cancer patterns of somatic copy number alteration. Nat Genet 45(10):1134-1140.
12. McFarland CD, Korolev KS, Kryukov GV, Sunyaev SR, Mirny LA (2013) Impact of deleterious passenger mutations on cancer progression. Proc Natl Acad Sci USA 110(8):2910-2915.
13. MacArthur DG, et al.; 1000 Genomes Project Consortium (2012) A systematic survey of loss-of-function variants in human protein-coding genes. Science 335(6070):823-828.
14. Sheltzer JM, Amon A (2011) The aneuploidy paradox: Costs and benefits of an incorrect karyotype. Trends Genet 27(11):446-453.
15. Vesely MD, Schreiber RD (2013) Cancer immunoediting: Antigens, mechanisms, and implications to cancer immunotherapy. Ann N Y Acad Sci 1284:1-5.
16. Lynch M (2008) The cellular, developmental and population-genetic determinants of mutation-rate evolution. Genetics 180(2):933-943.
17. Johnson T, Barton NH (2002) The effect of deleterious alleles on adaptation in asexual populations. Genetics 162(1):395-411.
18. Goyal S, et al. (2012) Dynamic mutation-selection balance as an evolutionary attractor. Genetics 191(4):1309-1319.
19. Neher RA, Shraiman BI (2012) Fluctuations of fitness distributions and the rate of Muller's ratchet. Genetics 191(4):1283-1293.
20. May R, Lawton J, Stork N (1995) Assessing Extinction Rates (Oxford Univ Press, Oxford).
21. Page DL, Dupont WD, Rogers LW, Rados MS (1985) Atypical hyperplastic lesions of the female breast. A long-term follow-up study. Cancer 55(11):2698-2708.
22. Korolev KS, Xavier JB, Gore J (2014) Turning ecology and evolution against cancer. Nat Rev Cancer 14(5):371-380.
23. Vermeulen L, et al. (2013) Defining stem cell dynamics in models of intestinal tumor initiation. Science 342(6161):995-998.
24. S Datta R, Gutteridge A, Swanton C, Maley CC, Graham TA (2013) Modelling the evolution of genetic instability during tumour progression. Evol Appl 6(1):20-33.
25. National Cancer Institute (2014) Surveillance, Epidemiology, and End Results (SEER) Program Research Data (1973-2011). Available at http://seer.cancer.gov/archive/csr/1975-2009-pops09/results-single/sect-01-table.10-2pgs.pdf. Accessed March 7, 2014.
26. Bota S, et al. (2001) Follow-up of bronchial precancerous lesions and carcinoma in situ using fluorescence endoscopy. Am J Respir Crit Care Med 164(9):1688-1693.
27. Tong WWY, et al. (2013) Progression to and spontaneous regression of high-grade anal squamous intraepithelial lesions in HIV-infected and uninfected men. AIDS 27(14):2233-2243.
28. Boyko AR, et al. (2008) Assessing the evolutionary impact of amino acid mutations in the human genome. PLoS Genet 4(5):e1000083.
29. Haigh J (1978) The accumulation of deleterious genes in a population - Muller's Ratchet. Theor Popul Biol 14(2):251-267.
30. Peck JR (1994) A ruby in the rubbish: Beneficial mutations, deleterious mutations and the evolution of sex. Genetics 137(2):597-606.
31. Birkbak NJ, et al. (2011) Paradoxical relationship between chromosomal instability and survival outcome in cancer. Cancer Res 71(10):3447-3452.
32. Ciriello G, et al. (2013) Emerging landscape of oncogenic signatures across human cancers. Nat Genet 45(10):1127-1133.
33. Wang ZC, et al.; Australian Ovarian Cancer Study Group (2012) Profiles of genomic instability in high-grade serous ovarian cancer predict treatment outcome. Clin Cancer Res 18(20):5806-5815.
34. Lee AJX, Swanton C (2012) Tumour heterogeneity and drug resistance: Personalising cancer medicine through functional genomics. Biochem Pharmacol 83(8):1013-1020.
35. Jordan DM, Ramensky VE, Sunyaev SR (2010) Human allelic variation: Perspective from protein function, structure, and evolution. Curr Opin Struct Biol 20(3):342-350.
36. Rossi-Fanelli A, Cavaliere R, Mondov B, Moricca G (1977) Selective Heat Sensitivity of Cancer Cells (Springer, Berlin), pp 1-192.
37. Segal NH, et al. (2008) Epitope landscape in breast and colorectal cancer. Cancer Res 68(3):889-892.
38. Bell G, Gonzalez A (2009) Evolutionary rescue can prevent extinction following environmental change. Ecol Lett 12(9):942-948.