Molecular characterization of two endothelin pathways in east african cichlid fishes

Journal of Molecular Evolution

Volumn 73, Issue 5-6, 2011, Pages 355-368

  Diepeveen, Eveline T ^a   Salzburger, Walter ^a  

^a UNIVERSITY OF BASEL   (Switzerland)

Author keywords

Endothelin receptor; Key innovation; Molecular evolution; Neural crest; Pharyngeal jaw; Pigmentation

Indexed keywords

ENDOTHELIN 1; ENDOTHELIN 3; ENDOTHELIN RECEPTOR;

AFRICA; ANIMAL; ARTICLE; CICHLID; GENE EXPRESSION; GENETIC SELECTION; GENETICS; LAKE; MOLECULAR EVOLUTION;

AFRICA; ANIMALS; CICHLIDS; ENDOTHELIN-1; ENDOTHELIN-3; EVOLUTION, MOLECULAR; GENE EXPRESSION; LAKES; RECEPTORS, ENDOTHELIN; SELECTION, GENETIC;

EID: 84864373621     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-012-9483-6     Document Type: Article

References (100)

1. Abascal F, Zardoya R, Posada D (2005) ProtTest: Selection of best-fit models of protein evolution. Bioinformatics 21:2104-2105
2. Albertson RC, Kocher TD (2006) Genetic and developmental basis of cichlid trophic diversity. Heredity 97:211-221
3. Albertson RC, Streelman JT, Kocher TD, Yelick PC (2005) Integration and evolution of the cichlid mandible: The molecular basis of alternate feeding strategies. Proc Natl Acad Sci USA 102:16287-16292
4. Baldo L, Santos EM, Salzburger S (2011) Comparative transcriptomics of eastern African cichlid fishes shows signs of positive selection and a large contribution of untranslated regions to genetic diversity. Genome Biol Evol 3:443-455
5. Barlow GW (2000) The cichlid fishes: Nature's grand experiment in evolution. Perseus publishing, Cambridge
6. Baynash AG, Hosoda K, Giaid A, Richardson JA, Emoto N, Hammer RE, Yanagisawa M (1994) Interaction of endothelin-3 with endothelin-B receptor is essential for development of epidermal melanocytes and enteric neurons. Cell 79:1277-1285
7. Bonano M, Tríbulo C, De Calisto J, Marchant L, Sánchez SS, Mayor R, Aybar MJ (2008) A new role for the endothelin-1/ endothelin-A receptor signaling during early neural crest specification. Dev Biol 323:114-129
8. Braasch I, Volff J-N, Schartl M (2009) The endothelin system: Evolution of vertebrate-specific ligand-receptor interactions by three rounds of genome duplication. Mol Biol Evol 26:783-799
9. Bruford MW, Hanotte O, Brookfield JFY, Burke T (1998) Multilocus and single-locus DNA fingerprinting. In: Hoelzel AR (ed) Molecular genetic analysis of populations: A practical approach. Oxford University Press, Oxford, pp 287-336
10. Chung I-H, Yamaza T, Zhao H, Chuong P-H, SHi S, Chai Y (2009) Stem cell property of postmigratory cranial neural crest cells and their utility in alveolar bone regeneration and tooth development. Stem Cells 27:866-877
11. Clabaut C, Salzburger W, Meyer A (2005) Comparative phylogenetic analyses of the adaptive radiation of Lake Tanganyika cichlid fish: Nuclear sequences are less homoplasious but also less informative than mitochondrial DNA. J Mol Evol 61:666-681
12. Clouthier DE, Hosoda K, Richardson JA, Williams SC, Yanagisawa H, Kuwaki T, Kumada M, Hammer RE, Yanagisawa M (1998) Cranial and cardiac neural crest defects in endothelin-A receptordeficient mice. Development 125:813-824
13. Coulter GW (1991) Lake Tanganyika and its life. British Museum (Natural History) and Oxford University Press, Oxford
14. Day JJ, Cotton JA, Barraclough TG (2008) Tempo and mode of diversification of Lake Tanganyika cichlid fishes. PLOS One 3:e1730. doi:10.1371/journal.pone.0001730
15. Doron-Faigenboim A, Stern A, Bacharach E, Pupko T (2005) Selecton: A server for detecting evolutionary forces at a single amino-acid site. Bioinformatics 21:2101-2103
16. Drummond A, Strimmer K (2001) PAL: An object-oriented programming library for molecular evolution and phylogenetics. Bioinformatics 17:662-663
17. Duftner N, Sefc KM, Koblmuller S, Salzburger W, Taborsky M, Sturmbauer C (2007) Parallel evolution of facial stripe patterns in the Neolamprologus brichardi/pulcher species complex endemic to Lake Tanganyika. Mol Phylogenet Evol 45:706-715
18. Egger B, Klaefiger Y, Theis A, Salzburger W (2011) A sensory bias has triggered the evolution of egg-spots in cichlid fishes. PLoS One 6:e25601
19. Elmer KR, Kusche H, Lehtonen TK, Meyer A (2010) Local variation and parallel evolution: Morphological and genetic diversity across a species complex of neotropical crater lake cichlid fishes. Philos Trans R Soc Lond B 365:1763-1782
20. Feulner PGD, Plath M, Engelmann J, Kirschbaum F, Tiedemann R (2009) Electrifying love: Electric fish use species-specific discharge for mate recognition. Biol Lett 5:225-228
21. Fraser GJ, Bloomquist RF, Streelman JT (2008) A periodic pattern generator for dental diversity. BMC Biol 6:32. doi:10.1186/ 1741-7007-6-32
22. Fraser GJ, Hulsey CD, Bloomquist RF, Uyesugi K, Manley NR, Streelman TJ (2009) An ancient gene network is co-opted for teeth on old and new jaws. PLoS Biol 7:e31. doi:10.1371/ journal.pbio.1000031
23. Fryer G, Iles TD (1972) The cichlid fishes of the Great Lakes of Africa: Their biology and Evolution. Oliver & Boyd, Edinburgh
24. Gans C, Northcutt RG (1983) Neural crest and the origin of vertebrates: A new head. Science 220:268-273
25. Gavrilets S, Losos JB (2009) Adaptive radiation: Contrasting theory with data. Science 323:732-737
26. Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum-likelihood. Syst Biol 52:696-704
27. Hall BK (1999) The neural crest in development and evolution. Springer-Verlag, New York
28. Hatfield T, Schluter D (1999) Ecological speciation in sticklebacks: Environment-dependent hybrid fitness. Evolution 53:866-873
29. Hert E (1989) The function of egg-spots in an African mouthbrooding cichlid fish. Anim Behav 37:726-732
30. Hoekstra HE, Hirschmann RJ, Bundey RA, Insel PA, Crossland JP (2006) A single amino acid mutation contributes to adaptive beach mouse color pattern. Science 313:101-104
31. Hosoda K, Hammer RE, Richardson JA, Baynash AG, Cheung JC, Giaid A, Yanagisawa M (1994) Targeted and natural (piebaldlethal) mutations of endothelin-B receptor gene produce megacolon associated with spotted coat color in mice. Cell 79:1267-1276
32. Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogeny. Bioinformatics 17:754-755
33. Hughes AL (1997) Rapid evolution of immunoglobulin superfamily C2 domains expressed in immune system cells. Mol Biol Evol 14:1-5
34. Hughes AL (1999) Adaptive evolution of genes and genomes. Oxford University Press, Oxford
35. Hunter JP (1998) Key innovations and the ecology of macroevolution. Trends Ecol Evol 13:31-36
36. Keenleyside MHA (1991) Cichlid fishes: Behaviour, ecology and evolution. Chapman & Hall, London
37. Kimmel CB, Ullmann B, Walker M, Miller CT, Crump JG (2003) Endothelin 1-mediated regulation of pharyngeal bone development in zebrafish. Development 130:1339-1351
38. Kocher TD (2004) Adaptive evolution and explosive speciation: The cichlid fish model. Nat Genet 5:288-298
39. Kocher TD, Conroy JA, McKaye KR, Stauffer JR (1993) Similar morphologies of cichlid fish in lakes Tanganyika and Malawi are due to convergence. Mol Phylogenet Evol 2:158-165
40. Kornfield I, Smith PF (2000) African cichlid fishes: Model systems for evolutionary biology. Annu Rev Ecol Syst 31:163-196
41. Kosakovsky Pond SL, Frost SDW, Muse SV (2005) HyPhy: Hypothesis testing using phylogenies. Bioinformatics 21:676-679
42. Kurihara Y, Kurihara H, Suzuki H, Kodama T, Maemura K, Nagai R, Oda H, Kuwaki T, Cao W-H, Kamada N, Jishage K, Ouchi Y, Azuma S, Toyoda Y, Ishikawa T, Kumada M, Yazaki Y (1994) Elevated blood-pressure and craniofacial abnormalities in mice deficient in endothelin-1. Nature 368:703-710
43. Librado P, Rozas J (2009) DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451-1452
44. Liem KF (1973) Evolutionary strategies and morphological innovations: Cichlid pharyngeal jaws. Syst Biol 22:425-441
45. Masaki T (2004) Historical review: Endothelin. Trends Pharmacol Sci 25:219-224
46. Masaki T, Ninomiya H, Sakamoto A, Okamoto Y (1999) Structural basis of the function of endothelin receptor. Mol Cell Biochem 190:153-156
47. McGill GG, Horstmann M, Widlund HR, Du J, Motyckova G, Nishimura E, Lin Y-L, Ramaswamy S, Avery W, Ding H-F, Jordan S, Jackson I, Korsmeyer S, Golub T, Fisher D (2002) Bcl2 regulation by the melanocyte master regulator Mitf modulates lineage survival and melanoma cell viability. Cell 109:707-718
48. Meyer A (1993) Phylogenetic relationships and evolutionary processes in East African cichlid fishes. Trends Ecol Evol 8:279-284
49. Meyer A, van de Peer Y (2005) From 2R to 3R: Evidence for a fishspecific genome duplication (FSGD). Bioessays 27:937-945
50. Miller CT, Schilling TF, Lee KH, Parker J, Kimmel CB (2000) Sucker encodes a zebrafish endothelin-1 required for ventral pharyngeal arch development. Development 127:3815-3828
51. Mrowka W (1987) Egg stealing in a mouthbrooding cichlid fish. Anim Behav 35:923-925
52. Muschick M, Barluenga M, Salzburger W, Meyer A (2011) Adaptive phenotypic plasticity in the Midas cichlid fish pharyngeal jaw and its relevance in adaptive radiation. BMC Evol Biol 11:116. doi:10.1186/1471-2148-11-116
53. Nagel L, Schluter D (1998) Body size, natural selection, and speciation in sticklebacks. Evolution 52:209-218
54. Nair S, Li W, Cornell R, Schilling TF (2007) Requirements for endothelin type-A receptors and endothelin-1 signaling in the facial ectoderm for the patterning of skeletogenic neural crest cells in zebrafish. Development 134:335-345
55. Nielsen R, Yang ZH (1998) Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene. Genetics 148:929-936
56. Nishida M (1991) Lake Tanganyika as an evolutionary reservoir of old lineages of East-African cichlid fishes: Inferences from allozyme data. Cell Mol Life Sci 47:974-979
57. Notredame C, Higgins DG, Heringa J (2000) T-Coffee: A novel method for fast and accurate multiple sequence alignment. J Mol Biol 302:205-217
58. Nylander JAA, Wilgenbusch JC, Warren DL, Swofford DL (2008) AWTY (are we there yet?): A system for graphical exploration of MCMC convergence in Bayesian phylogenetics. Bioinformatics 24:581-583
59. Ohno S (1970) Evolution by gene duplication. Springer Verlag, New York
60. Orry AJW, Wallace BA (2000) Modeling and docking the endothelin G-protein-coupled receptor. Biophys J 79:3083-3094
61. Ozeki H, Kurihara Y, Tonami K, Watatani S, Kurihara H (2004) Endothelin-1 regulates the dorsoventral branchial arch patterning in mice. Mech Dev 121:387-395
62. Parichy DM, Mellgren EM, Rawls JF, Lopes SS, Kelsh RN, Johnson SL (2000) Mutational analysis of the endothelin receptor b1 (rose) during neural crest and pigment pattern development in the zebrafish Danio rerio. Dev Biol 227:294-306
63. Pla P, Larue L (2003) Involvement of endothelin receptors in normal and pathological development of neural crest cells. Int J Dev Biol 47:315-325
64. Poirot O, O'Toole E, Notredame C (2003) Tcoffee@igs: A web server for computing, evaluating and combining multiple sequence alignments. Nucleic Acids Res 31:3503-3506
65. Posada D (2008) jModelTest: Phylogenetic model averaging. Mol Biol Evol 25:1253-1256
66. Puebla O, Bermingham E, Guichard F, Whiteman E (2007) Colour pattern as a single trait driving speciation in Hypoplectrus coral reef fishes? Proc R Soc Lond B 274:1265-1271
67. Rawls JF, Mellgren EM, Johnson SL (2001) How the zebrafish gets its stripes. Dev Biol 240:301-314
68. Roberts RB, Ser JR, Kocher TD (2009) Sexual conflict resolved by invasion of a novel sex determiner in Lake Malawi cichlid fishes. Science 326:998-1001
69. Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574
70. Sakamoto A, Yanagisawa M, Sakurai T, Nakao K, Toyo-oka T, Yano M, Masaki T (1993) The ligand-receptor interactions of the endothelin systems are mediated by distinct "message" and "address" domains. J Cardiovasc Pharmacol 22:S113-S116
71. Salzburger W (2009) The interaction of sexually and naturally selected traits in the adaptive radiations of cichlid fishes. Mol Ecol 18:169-185
72. Salzburger W, Meyer A, Baric S, Veheyen E, Sturmbauer C (2002) Phylogeny of the Lake Tanganyika cichlid species flock and its relationship to the Central-and East-African haplochromine cichlid fish faunas. Syst Biol 51:113-135
73. Salzburger W, Mack T, Verheyen E, Meyer A (2005) Out of Tanganyika: Genesis, explosive speciation, key-innovations and phylogeography of the haplochromine cichlid fishes. BMC Evol Biol 5:17. doi:10.1186/1471-2148-5-17
74. Salzburger W, Braasch I, Meyer A (2007) Adaptive sequence evolution in a color gene involved in the formation of the characteristic egg-dummies of male haplochromine cichlid fishes. BMC Biol 5:51. doi:10.1186/1741-7007-5-51
75. Schluter D (2000) The ecology of adaptive radiation. Oxford University Press, Oxford
76. Seehausen O (2006) African cichlid fish: A model system in adaptive radiation research. Proc R Soc Lond B 273:1987-1998
77. Seehausen O, Alphen v JJM, Witte F (1997) Cichlid fish diversity threatened by eutrophication that curbs sexual selection. Science 277:1808-1811
78. Shimeld SM, Holland PWH (2000) Vertebrate innovations. Proc Natl Acad Sci USA 97:4449-4452
79. Simpson GG (1953) The major features of evolution. Columbia University Press, New York
80. Slack JMW (2001) Essential developmental biology. Blackwell Publishing, Oxford
81. Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web-servers. Syst Biol 57:758-771
82. Stern A, Doron-Faigenboim A, Erez E, Martz E, Bacharach E, Pupko T (2007) Selecton 2007: Advanced models for detecting positive and purifying selection using a Bayesian inference approach. Nucleic Acids Res 35:W506-W511
83. Stow LR, Jacobs ME, Wingo CS, Cain BD (2011) Endothelin-1 gene regulation. FASEB J 25:16-28
84. Swofford DL (2002) PAUP. Phylogenetic analysis using parsimony (and other methods). VERSION 4. Sinauer Associates, Sunderland
85. Takahashi T (2003) Systematics of Tanganyikan cichlid fishes (Teleostei: Perciformes). Ichthyol Res 50:367-382
86. Terai Y, Morikawa N, Kawakami K, Okada N (2002a) Accelerated evolution of the surface amino acids in the WD-repeat domain encoded by the hagoromo gene in an explosively speciated lineage of East African cichlid fishes. Mol Biol Evol 19:574-578
87. Terai Y, Morikawa N, Okada N (2002b) The evolution of the prodomain of bone morphogenetic protein 4 (Bmp4) in an explosively speciated lineage of East African cichlid fishes. Mol Biol Evol 19:1628-1632
88. Terai Y, Morikawa N, Kawakami K, Okada N (2003) The complexity of alternative splicing of hagoromo mRNAs is increased in an explosively speciated lineage in East African cichlids. Proc Natl Acad Sci USA 100:12798-12803
89. Theis A, Salzburger W, Egger B (2012) The function of anal fin eggspots in the cichlid fish Astatotilapia burtoni. PloS ONE 7(1): E29878. doi:10.1371/journal.pone.0029878
90. Turner GF, Burrows MT (1995) A model of sympatric speciation by sexual selection. Proc Biol Sci Lond B 260:287-292
91. Wickler W (1962) Egg-dummies as natural releasers in mouthbreeding cichlids. Nature 194:1092-1093
92. Yanagisawa M, Kurihara H, Kimura S, Tomobe Y, Kobayashi M, Mitsui Y, Yazaki Y, Goto K, Masaki T (1988) A novel potent vasoconstrictor peptide produced by vascular endothelial cells. Nature 332:411-415
93. Yanagisawa H, Clouthier DE, Richardson JA, Charite J, Olson EN (2003) Targeted deletion of a branchial arch-specific enhancer reveals a role of dHAND in craniofacial development. Development 130:1069-1078
94. Yang ZH (1997) PAML, A program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 13: 555-556
95. Yang ZH (1998) Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution. Mol Biol Evol 15:568-573
96. Yang ZH (2007) PAML 4: Phylogenetic analysis by maximum likelihood. Mol Biol Evol 24:1586-1591
97. Yang ZH, Nielsen R (1998) Synonymous and nonsynonymous rate variation in nuclear genes of mammals. J Mol Evol 46:409-418
98. Yang ZH, Nielsen R, Goldman N, Pedersen A-MK (2000) Codonsubstitution models for heterogeneous selection pressure at amino acid sites. Genetics 155:431-449
99. Yang ZH, Wong WSW, Nielsen R (2005) Bayes empirical Bayes inference of amino acid sites under positive selection. Mol Biol Evol 22:1107-1118
100. Zhang JZ (2003) Evolution by gene duplication: An update. Trends Ecol Evol 18:292-298