A latitudinal cline in the Chinook salmon (Oncorhynchus tshawytscha) Clock gene: Evidence for selection on PolyQ length variants

Proceedings of the Royal Society B: Biological Sciences

Volumn 275, Issue 1653, 2008, Pages 2813-2821

  O'Malley, Kathleen G ^a,b   Banks, Michael A ^a  

^a OREGON STATE UNIVERSITY   (United States)

^b NORTHWEST FISHERIES SCIENCE CENTER   (United States)

Author keywords

Chinook salmon; Clock gene; Latitudinal cline; Migration timing; PolyQ

Indexed keywords

POLYGLUTAMINE;

ADAPTATION; ALLELE; CIRCADIAN RHYTHM; CLINE; GENE EXPRESSION; GENETIC ALGORITHM; GENETIC VARIATION; MIGRATORY BEHAVIOR; POLYMORPHISM; SALMONID; SEASONAL VARIATION;

ARTICLE; CONTROLLED STUDY; GENE; GENE FREQUENCY; GENE LOCUS; GENE STRUCTURE; GENETIC POLYMORPHISM; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; MICROSATELLITE MARKER; NONHUMAN; ONCORHYNCHUS TSHAWYTSCHA; OSTCLOCK 1A GENE; OSTCLOCK 1B GENE; POPULATION MIGRATION; PRIORITY JOURNAL; PROTEIN MOTIF;

ONCORHYNCHUS TSHAWYTSCHA;

EID: 57349139399     PISSN: 09628452     EISSN: 14712970     Source Type: Journal    
DOI: 10.1098/rspb.2008.0524     Document Type: Article

References (41)

1. Allada, R., White, N. E., So, W. V., Hall, J. C. & Rosbash, M. 1998 A mutant Drosophila homolog of mammalian Clock disrupts circadian rhythms and transcription of period and timeless. Cell 93, 791-804.
2. Avivi, A., Albrecht, U., Oster, H., Joel, A., Beiles, A. & Nevo, A. M. 2001 Biological clock in total darkness: the Clock/MOP3 circadian system of the blind subterranean mole rat. Proc. Natl Acad. Sci. USA 98, 13751-13756.
3. Beacham, T. D. & Murray, C. B. 1988 Influence of photoperiod and temperature on timing of sexual maturity of pink salmon (Oncorhynchus gorbucha). Can. J. Zool. 66, 1729-1732.
4. Belkhir, K. 2000 GENETIX, logiciel sous Windows pour la genetique des populations. Montpelier, France: Laboratoire Genome et Populations, CNRS UPR 9060, Universite de Montpellier II.
5. Bradshaw, W. E. & Holzapfel, C. M. 2001 Phenotypic evolution and the genetic architecture underlying photoperiodic time measurement. J. Insect Physiol. 47, 809-820.
6. Castiglione-Morelli, M. A., Guantieri, V., Villani, V., Kyriacou, C. P., Costa, R. & Tamburro, A. M. 1995 Conformational study of the Thr-Gly repeat in the Drosophila clock protein, PERIOD. Proc. R. Soc. B 260, 155-163.
7. Costa, R., Peixoto, A. A., Thackeray, J. R., Dalgleish, R. & Kyriacou, C. P. 1991 Length polymorphism in the Threonine-Glycine-encoding repeat region of the Period gene in Drosophila. J. Mol. Evol. 32, 238-246.
8. Costa, R., Peixoto, A. A., Barbujani, G. & Kyriacou, C. P. 1992 A latitudinal cline in a Drosophila clock gene. Proc. R. Soc. B 250, 43-49.
9. Darlington, T. K., Wager-Smith, K., Ceriani, M. F., Staknis, D., Gekakis, N., Steeves, T. D. L., Weitz, C. J., Takahashi, J. S. & Kay, S. A. 1998 Closing the circadian loop: clock-induced transcription of its own inhibitors per and tim. Science 280, 1599-1603.
10. DeBruyne, J. P., Noton, E., Lambert, C. M., Maywood, E. S., Weaver, D. R. & Reppert, S. M. 2006 A Clock shock: mouse CLOCK is not required for circadian oscillator function. Neuron 50, 465-477.
11. Gekakis, N., Staknis, D., Nguyen, H. B., Davis, F. C., Wilsbacher, L. D., King, D. P., Takahashi, J. S. & Weitz, C. J. 1998 Role of the CLOCK protein in the mammalian circadian mechanism. Science 280, 1564-1569.
12. Goldman, B. D. 2001 Mammalian photoperiodic system: formal properties and neuroendocrine mechanisms of photoperiodic time measurement. J. Biol. Rhythms 16, 283-301.
13. Hall, T. 1997 BIOEDIT sequence alignment editor. Carlsbad, CA: Ibis Therapeutics.
14. Johnson, A. et al. 2007 Avian Clock gene polymorphism: evidence for a latitudinal cline in allele frequencies. Mol. Ecol. 12, 4867-4880.
15. Kardailsky, I., Shukla, V. K., Ahn, J. H., Dagenais, N., Christensen, S. K., Nguyen, J. T., Chory, J., Harrison, M. J. & Weigel, D. 1999 Activation tagging of the floral inducer FT. Science 286, 1962-1965.
16. King, D. P. et al. 1997 Positional cloning of the mouse circadian Clock gene. Cell 89, 641-653.
17. Lewis P. O. & Zaykin D. 2001 Genetic data analysis: computer program for the analysis of allelic data. V. 1.0 (d16c). See http://hydrodictyon.eeb.uconn.edu/people/plewis/software.php.
18. Lowrey, P. L. & Takahashi, J. S. 2004 Mammalian circadian biology: elucidating genome-wide levels of temporal organization. Annu. Rev. Genom. Hum. Genet. 5, 407-441.
19. O'Malley, K. G. & Banks, M. A. 2008 Duplicated Clock genes with unique polyglutamine domains provide evidence for nonhomologous recombination in Chinook salmon (Oncorhynchus tshawytscha). Genetica 132, 87-94.
20. O'Malley, K. G., Camara, M. D. & Banks, M. A. 2007 Candidate loci reveal genetic differentiation between temporally divergent migratory runs of Chinook salmon (Oncorhynchus tshawytscha). Mol. Ecol. 16, 4930-4941.
21. Pittendrigh, C. S. 1981 Circadian organization and the photoperiodic phenomena. In Biological clocks in seasonal reproductive cycles (eds B. K. Follet &D. E. Follet), pp. 1-35. Bristol, UK: John Wright.
22. Pittendrigh, C. S., Kyner, W. T. & Takamura, T. 1991 The amplitude of circadian oscillations: temperature dependence, latitudinal clines, and the photoperiodic time measurement. J. Biol. Rhythms 6, 299-313.
23. Quinn, T. P. & Adams, D. J. 1996 Environmental changes affecting the migratory timing of American shad and sockeye salmon. Ecology 77, 1151-1162.
24. Quinn, T. P., Unwin, M. J. & Kinnison, M. T. 2000 Evolution of temporal isolation in the wild: genetic divergence in timing of migration and breeding in introduced Chinook salmon populations. Evolution 54, 1372-1385.
25. Raymond, M. & Rousset, F. 1995 An exact test for population differentiation. Evolution 49, 1280-1283.
26. Reppert, S. M. & Weaver, D. J. 2002 Coordination of circadian timing in mammals. Nature 418, 935-941.
27. Richter, A. & Kolmes, S. A. 2005 Maximum temperature limits for Chinook, coho, and chum salmon, and steelhead trout in the Pacific Northwest. Rev. Fish. Sci. 13, 23-49.
28. Rosato, E. &Kyriacou, C. P. 2001 Flies, clocks and evolution. Phil. Trans. R. Soc. B 356, 1769-1778.
29. Rosenberg M. S. 2001 PASSAGE. Pattern analysis, spatial statistics, and geographic exegesis. V. 1.0. Tempe, AZ: Department of Biology, Arizona State University.
30. Saleem, Q., Anand, A., Jain, S. & Brahmachari, S. K. 2001 The polyglutamine motif is highly conserved at the Clock locus in various organisms and is not polymorphic in humans. Hum. Genet. 109, 136-142.
31. Sawyer, L. A., Hennessy, J. M., Peixoto, A. A., Rosato, E., Parkinson, H., Costa, R. & Kyriacou, C. P. 1997 Natural variation in a Drosophila clock gene and temperature compensation. Science 278, 2117-2120.
32. Sawyer, L. A., Sandrelli, F., Pasetto, C., Peixoto, A. A., Rosato, E., Costa, R. & Kyriacou, C. P. 2006 The Period gene Thr-Gly polymorphism in Australian and African Drosophila melanogaster populations: implications for selection. Genetics 174, 465-480.
33. Seeb, L. W. et al. 2007 Development of a standardized DNA database for Chinook salmon. Fisheries 32, 540-552.
34. Tauber, E. et al. 2007 Natural selection favors a newly derived timeless allele in Drosophila melanogaster. Science 316, 1895-1897.
35. Thompson, J. D., Higgins, D. G. & Gibson, T. J. 1994 CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673-4680.
36. Vaz Nunes, M. & Saunders, D. 1999 Photoperiodic time measurement in insects: a review of clock models. J. Biol. Rhythms 14, 84-104.
37. Vitaterna, M. H., Ko, C. H., Chang, A., Buhr, E. D., Fruechte, E. M., Schook, A., Antoch, M. P., Turek, F. W. & Takahashi, J. S. 2006 The mouse Clock mutation reduces circadian pacemaker amplitude and enhances efficacy of resetting stimuli and phase-response curve amplitude. Proc. Natl Acad. Sci. USA 103, 9327-9332.
38. Waples, R. S., Teel, D. J., Meyers, J. M. & Marshall, A. R. 2004 Life-history divergence in Chinook salmon: historic contingency and parallel evolution. Evolution 58, 386-403.
39. Weeks, A. R., McKechnie, S. W. & Hoffmann, A. A. 2006 In search of clinal variation in the period and clock timing genes in Australian Drosophila melanogaster populations. J. Evol. Biol. 19, 551-557.
40. Whitmore, D., Foulkes, N. S., Strahle, U. & Sassone-Corsi, P. 1998 Zebrafish Clock rhythmic expression reveals independent peripheral circadian oscillators. Nat. Neurosci. 1, 701-707.
41. Yano, M. et al. 2000 Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Arabidopsis flowering time gene CONSTANS. Plant Cell 12, 2473-2484.