From molecules to behavior and the clinic: Integration in chronobiology

Studies in History and Philosophy of Science Part C :Studies in History and Philosophy of Biological and Biomedical Sciences

Volumn 44, Issue 4, 2013, Pages 493-502

  Bechtel, William ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHRONOBIOLOGY; CIRCADIAN RHYTHM; HUMAN; PROCEDURES;

CHRONOBIOLOGY DISCIPLINE; CHRONOBIOLOGY PHENOMENA; CIRCADIAN RHYTHM; HUMANS;

EID: 84908461953     PISSN: 13698486     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.shpsc.2012.10.001     Document Type: Article

References (86)

1. Archer S.N., Carpen J.D., Gibson M., Lim G.H., Johnston J.D., Skene D.J., Schantz M.V. Polymorphism in the PER3 promoter associates with diurnal preference and delayed sleep phase disorder. Sleep 2010, 33:695-701.
2. Aton S.J., Colwell C.S., Harmar A.J., Waschek J., Herzog E.D. Vasoactive intestinal polypeptide mediates circadian rhythmicity and synchrony in mammalian clock neurons. Nature Neuroscience 2005, 8:476-483.
3. Bechtel W. The nature of scientific integration. Integrating scientific disciplines 1986, 3-52. Martinus Nijhoff, Dordrecht. W. Bechtel (Ed.).
4. Bechtel W. Discovering cell mechanisms: The creation of modern cell biology 2006, Cambridge University Press, Cambridge.
5. Bechtel W. From molecules to networks: Adoption of systems approaches in circadian rhythm research. New challenges to philosophy of science 2012, Springer, New York. H. Andersen, D. Dieks, W.J. Gonzalez, T. Uebel, G. Wheeler (Eds.).
6. Bechtel W., Abrahamsen A. Explanation: A mechanist alternative. Studies in History and Philosophy of Biological and Biomedical Sciences 2005, 36:421-441.
7. Bechtel W., Abrahamsen A. Decomposing, recomposing, and situating circadian mechanisms: Three tasks in developing mechanistic explanations. Reduction and elimination in philosophy of mind and philosophy of neuroscience 2009, 173-186. Ontos Verlag, Frankfurt. H. Leitgeb, A. Hieke (Eds.).
8. Bechtel W., Abrahamsen A. Dynamic mechanistic explanation: Computational modeling of circadian rhythms as an exemplar for cognitive science. Studies in History and Philosophy of Science Part A 2010, 41:321-333.
9. Bechtel W., Abrahamsen A. Complex biological mechanisms: Cyclic, oscillatory, and autonomous. Philosophy of complex systems. Handbook of the philosophy of science 2011, Vol. 10:257-285. Elsevier, New York.
10. Bechtel W., Hamilton A. Reduction, integration, and the unity of science: Natural, behavioral, and social sciences and the humanities. Philosophy of science: Focal issues 2007, 377-430. Elsevier, New York. T. Kuipers (Ed.).
11. Bechtel W., Richardson R.C. Discovering complexity: Decomposition and localization as strategies in scientific research 1993, 2010, MIT Press, Cambridge, MA, 1993 edition published by Princeton University Press.
12. Bernard S., Gonze D., Čajavec B., Herzel H., Kramer A. Synchronization-induced rhythmicity of circadian oscillators in the suprachiasmatic nucleus. PLoS Computational Biology 2007, 3:e68.
13. Bickle J. Philosophy and neuroscience: A ruthlessly reductive account 2003, Kluwer, Dordrecht.
14. Brigandt I. Beyond reduction and pluralism: Toward an epistemology of explanatory integration in biology. Erkenntnis 2010, 73:295-311.
15. Brigandt, I. (in press). Evolutionary developmental biology and the limits of philosophical accounts of mechanistic explanation. In P.-A. Braillard, & C. Malaterre (Eds.), Explanation in biology: An enquiry into the diversity of explanatory patterns in the life sciences. Berlin: Springer.
16. Brigandt, I. (in this issue). Systems biology and the integration of mechanistic explanation and mathematical explanation. Studies in History and Philosophy of Biological and Biomedical Sciences.
17. Brigandt, I., & Love, A. C. (2012). Reductionism in biology. In E. N. Zalta (Ed.), The stanford encyclopedia of philosophy. http://plato.stanford.edu/entries/reduction-biology/.
18. Bünning E. Die Physiologische Uhr 1958, Springer-Verlag, Berlin.
19. Bünning E. Opening address: Biological clocks. Cold Spring Harbor Symposia on Quantitative Biology 1960, 25:1-9.
20. Castanon-Cervantes O., Wu M., Ehlen J.C., Paul K., Gamble K.L., Johnson R.L., Besing R.C., Menaker M., Gewirtz A.T., Davidson A.J. Dysregulation of inflammatory responses by chronic circadian disruption. The Journal of Immunology 2010, 185:5796-5805.
21. Craver C.F. Beyond reduction: Mechanisms, multifield integration and the unity of neuroscience. Studies in History and Philosophy of Biological and Biomedical Sciences 2005, 36:373-395.
22. Craver C.F. Explaining the brain: Mechanisms and the mosaic unity of neuroscience 2007, Oxford University Press, New York.
23. Daan S. A history of chronobiological concepts. The circadian clock 2010, Vol. 12:1-35. Springer, New York.
24. Darden L. Relations among fields: Mendelian, cytological and molecular mechanisms. Studies in History and Philosophy of Biological and Biomedical Sciences 2005, 36:349-371.
25. Darden L. Reasoning in biological discoveries 2006, Cambridge University Press, Cambridge.
26. Davidson A.J., Yamazaki S., Menaker M. SCN: Ringmaster of the circadian circus or conductor of the circadian orchestra?. Molecular clocks and light signalling 2004, 110-125. John Wiley, Chichester, UK. D.J. Chadwick, J.A. Goode (Eds.).
27. Davis S., Mirick D.K., Stevens R.G. Night shift work, light at night, and risk of breast cancer. Journal of the National Cancer Institute 2001, 93:1557-1562.
28. De Mairan J.-J.d.O. Observation botanique. Histoire de l'Academie Royale Sciences 1729, 35.
29. Deboer T., Détári L., Meijer J.H. Long term effects of sleep deprivation on the mammalian circadian pacemaker. Sleep 2007, 30:257-262.
30. Deboer T., Vansteensel M.J., Detari L., Meijer J.H. Sleep states alter activity of suprachiasmatic nucleus neurons. Nature Neuroscience 2003, 6:1086-1090.
31. Duong H.A., Robles M.S., Knutti D., Weitz C.J. A molecular mechanism for circadian clock negative feedback. Science 2011, 332:1436-1439.
32. Edmunds L.N. Cellular and molecular bases of biological clocks: Models and mechanisms for circadian timekeeping 1988, Springer-Verlag, New York.
33. Elliott W.J. Circadian variation in the timing of stroke onset: A meta-analysis. Stroke 1998, 29:992-996.
34. Feldman J.A., Hoyle M.N. Isolation of circandian clock mutants of Neurospora crasa. Genetics 1973, 75:605-613.
35. Fu L., Pelicano H., Liu J., Huang P., Lee C.C. The circadian gene Period2 plays an important role in tumor suppression and DNA damage response in vivo. Cell 2002, 111:41-50.
36. Gerson, E. (in this issue). Integration of specialties: An institutional and organizational view. Studies in History and Philosophy of Biological and Biomedical Sciences.
37. Goldbeter A. A model for circadian oscillations in the Drosophila period protein (PER). Proceedings of the Royal Society of London B: Biological Sciences 1995, 261:319-324.
38. Gonze D., Bernard S., Waltermann C., Kramer A., Herzel H. Spontaneous synchronization of coupled circadian oscillators. Biophysical Journal 2005, 89:120-129.
39. Goodwin B.C. Temporal organization in cells: A dynamic theory of cellular control processes 1963, Academic, London.
40. Gréchez-Cassiau A., Rayet B., Guillaumond F., Teboul M., Delaunay F. The circadian clock component BMAL1 is a critical regulator of p21WAF1/CIP1 expression and hepatocyte proliferation. Journal of Biological Chemistry 2008, 283:4535-4542.
41. Halberg F., Halberg E., Barnum C.P., Bittner J.J. Physiologic 24-hour periodicity in human beings and mice, the lighting regimen, and daily routine. Photoperiodism and related phenomena in plants and animals 1959, 803-878. American Association for the Advancement of Science, Washington, DC. R.B. Withrow (Ed.).
42. Hardin P.E., Hall J.C., Rosbash M. Feedback of the Drosophila period gene product on circadian cycling of its messenger RNA levels. Nature 1990, 343:536-540.
43. Herzog E.D., Aton S.J., Numano R., Sakaki Y., Tei H. Temporal precision in the mammalian circadian system: A reliable clock from less reliable neurons. Journal of Biological Rhythms 2004, 19:35-46.
44. Hua H., Wang Y., Wan C., Liu Y., Zhu B., Yang C., Wang X., Wang Z., Cornelissen-Guillaume G., Halberg F. Circadian gene mPer2 overexpression induces cancer cell apoptosis. Cancer Science 2006, 97:589-596.
45. Inouye S.-I.T., Kawamura H. Persistence of circadian rhythmicity in a mammalian hypothalamic "island" containing the suprachiasmatic nucleus. Proceedings of the National Academy of Sciences of the United States of America 1979, 76:5962-5966.
46. Johnson M.S. Effect of continuous light on periodic spontaneous activity of white-footed mice (Peromyscus). Journal of Experimental Zoology 1939, 82:315-328.
47. Konopka R.J., Benzer S. Clock mutants of Drosophila melanogaster. Proceedings of the National Academy of Sciences of the United States of America 1971, 89:2112-2116.
48. Kubo T., Ozasa K., Mikami K., Wakai K., Fujino Y., Watanabe Y., Miki T., Nakao M., Hayashi K., Suzuki K., Mori M., Washio M., Sakauchi F., Ito Y., Yoshimura T., Tamakoshi A. Prospective cohort study of the risk of prostate cancer among rotating-shift workers: Findings from the Japan collaborative cohort study. American Journal of Epidemiology 2006, 164:549-555.
49. Leloup J.-C., Goldbeter A. A model for circadian rhythms in Drosophila incorporating the formation of a complex between the PER and TIM proteins. Journal of Biological Rhythms 1998, 13:70-87.
50. Leloup J.-C., Goldbeter A. Modeling the mammalian circadian clock: Sensitivity analysis and multiplicity of oscillatory mechanisms. Journal of Theoretical Biology 2004, 230:541-562.
51. Logan R.W., Sarkar D.K. Circadian nature of immune function. Molecular and Cellular Endocrinology 2012, 249:82-90.
52. Machamer P., Darden L., Craver C.F. Thinking about mechanisms. Philosophy of Science 2000, 67:1-25.
53. Mackowiak P.A., Worden G. Carl Reinhold August Wunderlich and the evolution of clinical thermometry. Clinical Infectious Diseases 1994, 18:458-467.
54. Matsuo T., Yamaguchi S., Mitsui S., Emi A., Shimoda F., Okamura H. Control mechanism of the circadian clock for timing of cell division in vivo. Science 2003, 302:255-259.
55. Miller B.H., McDearmon E.L., Panda S., Hayes K.R., Zhang J., Andrews J.L., Antoch M.P., Walker J.R., Esser K.A., Hogenesch J.B., Takahashi J.S. Circadian and CLOCK-controlled regulation of the mouse transcriptome and cell proliferation. Proceedings of the National Academy of Sciences 2007, 104:3342-3347.
56. Moore R.Y., Eichler V.B. Loss of a circadian adrenal corticosterone rhythm following suprachiasmatic lesions in the rat. Brain Research 1972, 42:201-206.
57. Moore R.Y., Lenn N.J. A retinohypothalamic projection in the rat. The Journal of Comparative Neurology 1972, 146:1-14.
58. Nakahata Y., Kaluzova M., Grimaldi B., Sahar S., Hirayama J., Chen D., Guarente L.P., Sassone-Corsi P. The NAD+-dependent deacetylase SIRT1 modulates CLOCK-mediated chromatin remodeling and circadian control. Cell 2008, 134:329-340.
59. Ohta H., Yamazaki S., McMahon D.G. Constant light desynchronizes mammalian clock neurons. Nature Neuroscience 2005, 8:267-269.
60. Rafnsson V., Tulinius H., Jónasson J., Hrafnkelsson J. Risk of breast cancer in female flight attendants: A population-based study (Iceland). Cancer Causes and Control 2001, 12:95-101.
61. Ralph M.R., Foster R.G., Davis F.C., Menaker M. Transplanted suprachiasmatic nucleus determines circadian period. Science 1990, 247:975-978.
62. Ralph M.R., Menaker M. A mutation of the circadian system in golden hamsters. Science 1988, 241:1225-1227.
63. Relógio A., Westermark P.O., Wallach T., Schellenberg K., Kramer A., Herzel H. Tuning the mammalian circadian clock: Robust synergy of two loops. PLoS Computational Biology 2011, 7:e1002309.
64. Richter C.P. Sleep and activity: Their relation to the 24hour clock. Sleep and altered states of consciousness 1967, 8-29. Williams and Wilkins, Baltimore. S.S. Kety, E.V. Evarts, H.L. Williams (Eds.).
65. Sack R.L., Auckley D., Auger R.R., Carskadon M.A., Wright K.P., Vitiello M.V., Zhdanova I.V. Circadian rhythm sleep disorders. Part II: Advanced sleep phase disorder, delayed sleep phase disorder, free-running disorder, and irregular sleep-wake rhythm. Sleep 2007, 30:1484-1501.
66. Sehgal A., Price J.L., Man B., Young M.W. Loss of circadian behavioral rhythms and per RNA oscillations in the Drosophila mutant timeless. Science 1994, 263:1603-1606.
67. Simon H.A. The architecture of complexity: Hierarchic systems. Proceedings of the American Philosophical Society 1962, 106:467-482.
68. Smolen P., Baxter D.A., Byrne J.H. Modeling circadian oscillations with interlocking positive and negative feedback loops. Journal of Neuroscience 2001, 21:6644-6656.
69. Stephan F.K., Zucker I. Circadian rhythms in drinking behavior and locomotor activity of rats are eliminated by hypothalamic lesions. Proceedings of the National Academy of Sciences of the United States of America 1972, 69:1583-1586.
70. Takahashi J.S., Hong H.-K., Ko C.H., McDearmon E.L. The genetics of mammalian circadian order and disorder: Implications for physiology and disease. Nature Review Genetics 2008, 9:764-775.
71. To T.-L., Henson M.A., Herzog E.D., Doyle F.J. A molecular model for intercellular synchronization in the mammalian circadian clock. Biophysical Journal 2007, 92:3792-3803.
72. Toh K.L., Jones C.R., He Y., Eide E.J., Hinz W.A., Virshup D.M., Ptáček L.J., Fu Y.-H. An hPer2 phosphorylation site mutation in familial advanced sleep phase syndrome. Science 2001, 291:1040-1043.
73. Vasalou C., Herzog E.D., Henson M.A. Small-world network models of intercellular coupling predict enhanced synchronization in the suprachiasmatic nucleus. Journal of Biological Rhythms 2009, 24:243-254.
74. Virey J.-J. Ephémerides de la vie humaine, ou recherches sur la révolution journaliere et la periodicité de ses phénomènes dans la santé et les malades 1814, Sorbonne, Paris.
75. Vitaterna M.H., King D.P., Chang A.-M., Kornhauser J.M., Lowrey P.L., McDonald J.D., Dove W.F., Pinto L.H., Turek F.W., Takahashi J.S. Mutagenesis and mapping of a mouse gene, Clock, essential for circadian behavior. Science 1994, 264:719-725.
76. Vosshall L.B., Price J.L., Sehgal A., Saez L., Young M.W. Block in nuclear localization of period protein by a second clock mutation, timeless. Science 1994, 263:1606-1609.
77. Watts D., Strogratz S. Collective dynamics of small worlds. Nature 1998, 393:440-442.
78. Welsh D.K., Logothetis D.E., Meister M., Reppert S.M. Individual neurons dissociated from rat suprachiasmatic nucleus express independently phased circadian firing rhythms. Neuron 1995, 14:697-706.
79. Wimsatt W.C. Complexity and organization. PSA 1972 1974, 67-86. Reidel, Dordrecht. K.F. Schaffner, R.S. Cohen (Eds.).
80. Wimsatt W.C. Re-engineering philosophy for limited beings: Piecewise approximations to reality 2007, Harvard University Press, Cambridge, MA.
81. Woelfle M.A., Ouyang Y., Phanvijhitsiri K., Johnson C.H. The adaptive value of circadian clocks: An experimental assessment in cyanobacteria. Current Biology 2004, 14:1481-1486.
82. Wunderlich K.R.A. Das Verhalten der Eigenwärme in Krankheiten 1868, Otto Wigard, Leipzig.
83. Xu Y., Padiath Q.S., Shapiro R.E., Jones C.R., Wu S.C., Saigoh N., Saigoh K., Ptacek L.J., Fu Y.-H. Functional consequences of a CKIδ mutation causing familial advanced sleep phase syndrome. Nature 2005, 434:640-644.
84. Yamazaki S., Numano R., Abe M., Hida A., Takahashi R.-I., Ueda M., Block G.D., Sakaki Y., Menaker M., Tei H. Resetting central and peripheral circadian oscillators in transgenic rats. Science 2000, 288:682-685.
85. Yin L., Wu N., Curtin J.C., Qatanani M., Szwergold N.R., Reid R.A., Waitt G.M., Parks D.J., Pearce K.H., Wisely G.B., Lazar M.A. Rev-erbα, a heme sensor that coordinates metabolic and circadian pathways. Science 2007, 318:1786-1789.
86. Zhao Z., Lee C.C. Circadian clock, cell cycle and cancer. The circadian clock 2012, Vol. 12:139-155. Springer, New York. U. Albrecht (Ed.).