User menu

Accès à distance ? S'identifier sur le proxy UCLouvain

To see in different seas: spatial variation in the rhodopsin gene of the sand goby (Pomatoschistus minutus)

Primary tabs

Larmuseau, Maarten H. D. [UCL] Raeymaekers, Joost A. M. [UCL] Ruddick, Kevin G. [UCL] Van Houdt, Jeroen K. J. Volckaert, Filip A. M. [UCL]

Aquatic organisms living in a range of photic environments require specific mechanisms to tune their visual pigments. Maximum absorbance (lambda(max)) of retinal rods in populations of the marine demersal sand goby, (Pomatoschistus minutus; Gobiidae, Teleostei) correlates with the local optic environment. It has been shown that this is not regulated through a physiological response by exchanging the rhodopsin chromophore. To test for evolutionary adaptation, the sequence of the rhodopsin (RH1) gene was analysed in 165 Pomatoschistus minutus individuals from seven populations across its distribution range. Analysis showed a high level of intraspecific polymorphism at the RH1 gene, including nonsynonymous mutations on amino acids, known as spectral tuning sites. Population differentiation at these sites was in agreement with the observed differentiation in lambda(max) values. Analyses of d(N)/d(S) substitution rate ratios and likelihood ratio tests under site-specific models detected a significant signal of positive Darwinian selection on the RH1 gene. A strong discrepancy in differentiation was noticed between RH1 gene variation and the presumably neutral microsatellites and mitochondrial data. Samples did not cluster according to geographical or historical proximity with regards to RH1, but according to the general photic conditions of the habitat environment of the sand goby. This study highlights the usefulness of sensory genes, like rhodopsin, for studying the characteristics of local adaptation in marine nonmodel organisms.

Document type Article de périodique (Journal article) – Article de recherche
Publication date 2009
Language Anglais
Journal information "Molecular Ecology" - Vol. 18, no. 20, p. 4227-4239 (2009)
Peer reviewed yes
Publisher Wiley-blackwell Publishing, Inc (Malden)
issn 0962-1083
e-issn 1365-294X
Publication status Publié
Affiliation UCL
Keywords adaptive evolution ; candidate gene ; Gobiidae ; marine fish ; photoreceptor ; remote sensing ; vision
Links
  1. Aarnio, Ophelia, 37, 19 (1993)
  2. Aksnes Dag L., Evidence for visual constraints in large marine fish stocks, 10.4319/lo.2007.52.1.0198
  3. Anisimova, Genetics, 164, 1229 (2003)
  4. Antao, BMC Bioinformatics, 9, 323 (2008)
  5. Archer, Proceedings of the Royal Society of London. Series B: Biological Sciences, 248, 19 (1992)
  6. Archer, Archo Oceanography Limnology, 22, 119 (2001)
  7. Asenjo, Neuron, 12, 1131 (1994)
  8. Audzijonyte, Journal of Experimental Marine Biology and Ecology, 325, 228 (2005)
  9. Bamshad, Nature Reviews Genetics, 4, 99 (2003)
  10. Beaumont, Proceedings of the Royal Society of London. Series B: Biological Sciences, 263, 1619 (1996)
  11. Belkhir, genetix 4.05, Logiciel Sous WindowsTM pour la Génétique Des Populations (2004)
  12. Bouchereau, Oceanologica Acta, 21, 503 (1998)
  13. Bowmaker, Progress in Retinal and Eye Research, 15, 1 (1995)
  14. Candolin, Oikos, 117, 459 (2008)
  15. Canino, Canadian Journal of Fisheries and Aquatic Sciences, 62, 2519 (2005)
  16. Chen, Molecular Phylogenetics and Evolution, 26, 262 (2003)
  17. Clarke, Australian Journal of Ecology, 18, 117 (1993)
  18. Clement, Molecular Ecology, 9, 1657 (2000)
  19. Conover, Journal of Fish Biology, 69, 21 (2006)
  20. Cowen, Science, 287, 857 (2000)
  21. Dann, Journal of Molecular Evolution, 58, 400 (2004)
  22. Debes, Molecular Ecology, 17, 3873 (2008)
  23. Ehrenberg, Hydrobiologia, 603, 129 (2008)
  24. Engström-Öst, Behavioral Ecology, 18, 393 (2007)
  25. Excoffier, Evolutionary Bioinformatics Online, 1, 47 (2005)
  26. Fasick, Biochemistry, 37, 433 (1998)
  27. Gower, Psychometrika, 40, 33 (1975)
  28. Guelinckx, Oecologia, 157, 41 (2008)
  29. Hamerlynck, Journal of Fish Biology, 37, 723 (1990)
  30. Hargrave, FASEB Journal, 6, 2323 (1992)
  31. Healey, Journal of Zoology, 163, 177 (1971)
  32. Hemmer-Hansen, Heredity, 99, 592 (2007)
  33. Hunt, Vision Research, 36, 1217 (1996)
  34. Hunt, Journal of Experimental Biology, 204, 3333 (2001)
  35. Hunt David M., Carvalho Lívia S., Cowing Jill A., Parry Juliet W. L., Wilkie Susan E., Davies Wayne L., Bowmaker James K., Spectral Tuning of Shortwave-sensitive Visual Pigments in Vertebrates† : Photochemistry and Photobiology, 2007, 83, 10.1562/2006-06-27-ir-952
  36. Jackson Donald A., PROTEST: A PROcrustean Randomization TEST of community environment concordance, 10.1080/11956860.1995.11682297
  37. Järvenpää, Proceedings of the Royal Society of London. Series B: Biological Sciences, 271, 2361 (2004)
  38. Jerlov, Marine Optics (1976)
  39. Jokela, Journal of Experimental Biology, 206, 2611 (2003)
  40. JUKES THOMAS H., CANTOR CHARLES R., Evolution of Protein Molecules, Mammalian Protein Metabolism (1969) ISBN:9781483232119 p.21-132, 10.1016/b978-1-4832-3211-9.50009-7
  41. Knutsen, Molecular Ecology, 12, 385 (2003)
  42. Larmuseau, Molecular Ecology Notes, 7, 147 (2007)
  43. Larmuseau, Journal of Applied Ichthyology, 24, 342 (2008)
  44. Larmuseau, Journal of Biogeography, 36, 1138 (2009)
  45. Legendre, Journal of Statistical Computation and Simulation, 67, 37 (2000)
  46. Lindström, Journal of Experimental Marine Biology and Ecology, 246, 85 (2000)
  47. Luttikhuizen, Molecular Phylogenetics and Evolution, 46, 1015 (2008)
  48. Mantel, Cancer Research, 27, 209 (1967)
  49. Miller, Fishes of the North-Eastern Atlantic and Mediterranea, 1019 (1986)
  50. Nei, Molecular Biology and Evolution, 3, 418 (1986)
  51. Nielsen, Genetics, 148, 929 (1998)
  52. Oksanen, vegan: Community ecology package, version 1.8-5 (2007)
  53. Pampoulie, Biological Journal of the Linnean Society, 94, 315 (2008)
  54. Park, Nature, 454, 183 (2008)
  55. Poizat, Estuarine Coastal and Shelf Science, 59, 615 (2004)
  56. Rozas, Bioinformatics, 19, 2496 (2003)
  57. Rozen S Skaletsky HJ 1998 Primer 3 http://frodo.wi.mit.edu/primer3/
  58. Ruzzante, Molecular Ecology, 7, 1663 (1998)
  59. Sherman, Evolution, 62, 1373 (2008)
  60. Stefanni, Journal of the Marine Biological Association of the United Kingdom, 83, 1143 (2003)
  61. Stephens, American Journal of Human Genetics, 73, 1162 (2003)
  62. Stephens, American Journal of Human Genetics, 68, 978 (2001)
  63. Tamura, Molecular Biology and Evolution, 24, 1596 (2007)
  64. Thetmeyer, Journal of Experimental Marine Biology and Ecology, 218, 187 (1997)
  65. Yang, Molecular Biology and Evolution, 24, 1586 (2007)
  66. Yang, Genetics, 155, 431 (2000)
  67. Yokoyama, Progress in Retinal and Eye Research, 19, 385 (2000)
  68. Yokoyama, Molecular Biology and Evolution, 21, 2071 (2004)
  69. Yokoyama, Investigative Ophthalmology & Visual Science, 36, 939 (1995)
  70. Yokoyama Shozo, Tada Takashi, Yamato Takahisa, Modulation of the Absorption Maximum of Rhodopsin by Amino Acids in the C-terminus† : Photochemistry and Photobiology, 2007, 83, 10.1562/2006-06-19-ra-939
  71. Zane, Heredity, 99, 565 (2007)
  72. Yang, Molecular Biology and Ecology, 22, 1107 (2005)
Bibliographic reference Larmuseau, Maarten H. D. ; Raeymaekers, Joost A. M. ; Ruddick, Kevin G. ; Van Houdt, Jeroen K. J. ; Volckaert, Filip A. M.. To see in different seas: spatial variation in the rhodopsin gene of the sand goby (Pomatoschistus minutus). In: Molecular Ecology, Vol. 18, no. 20, p. 4227-4239 (2009)
Permanent URL http://hdl.handle.net/2078.1/35245