|
1. 1. Allen, M.S., Ferguson, M.M. and Danzmann, R.G., 2014. Molecular markers for variation in spawning date in a hatchery population of rainbow trout (Oncorhynchus mykiss). Marine Biotechnology. 16(3): 289-298. https:// doi.org/10.1007/s10126-013-9547-7 2. 2. Ando, H. and Urano, A., 2005. Molecular regulation of gonadotropin secretion by gonadotropin releasing hormone in salmonid fishes. Zoological Science. 22(4): 379-389. https://doi.org/10.2108/zsj.22.379 3. 3. Arcade, A., Labourdette, A., Falque, M., Mangin, B. and Chardon, F., 2004. Bio Mercator: integrating genetic maps and QTL towards discovery of candidate genes. Bioinformatics. 20: 2324-2326. https://doi.org/10. 1093/bioinformatics/bth230 4. 4. Barbosa-Cánovas, G.V., Medina-Meza, I., Candoğan, K. and Bermúdez-Aguirre, D., 2014. Advanced retorting, microwave assisted thermal sterilization (MATS), and pressure assisted thermal sterilization (PATS) to process meat products. Meat science. 98(3): 420-434. https://doi. org/10.1016/j.meatsci.2014.06.027 5. 5. Boldman, K.G., Kriese, L.A., Van Vleck, L.D., Van Tassell, C.P. and Kachman, S.D., 1995. A manual for use of MTDFREML. A set of programs to obtain estimates of variances and covariances. US Department of Agriculture. Agricultural Research Service. 114 p. 6. 6. Bromage, N., Randall, C., Davies, B., Thrush, M., Duston, J., Carillo, M. and Zanuy, S., 1993. Photoperiodism and the control of reproduction and development in farmed fish. Aquaculture: fundamental and applied research. 43: 81-102. https://doi.org/10. 1029/CE043p0081 7. 7. Canovas, S., Ivanova, E., Romar, R., García-Martínez, S., Soriano-Ubeda, C., García-Vázquez, F.A., Saadeh, H., Andrews, S., Kelsey, G. and Coy, P., 2017. DNA methylation and gene expression changes derived from assisted reproductive technologies can be decreased by reproductive fluids. Elife. 6: e23670. https://doi.org/10. 7554/eLife.23670 8. 8. Carrillo, M., Bromage, N., Zanuy, S., Serrano, R. and Prat, F., 1989. The effect of modifications in photoperiod on spawning time, ovarian development and egg quality in the sea bass (Dicentrarchus labrax L.). Aquaculture. 81(3-4): 351-365. https://doi.org/10.1016/0044-8486(89) 90159-2 9. 9. Chardon, F., Virlon, B., Moreau, L., Falque, M., Joets, J., Decousset, L., Murigneux, A. and Charcosset, A., 2004. Genetic architecture of flowering time in maize as inferred from quantitative trait loci meta-analysis and synteny conservation with the rice genome. Genetics. 168: 2169-2185: https://doi.org/10.1534/genetics.104.032 375 10. 10. Danan, S., Veyrieras, J.B. and Lefebvre, V., 2011. Construction of a potato consensus map and QTL meta analysis offer new insights into the genetic architecture of late blight resistance and plant maturity traits. BMC Plant Biology. 11: 16. https://doi.org/10.1186/1471-22 29-11-16 11. 11. Drew, R.E., Schwabl, H., Wheeler, P.A. and Thorgaard, G.H., 2007. Detection of QTL influencing cortisol levels in rainbow trout (Oncorhynchus mykiss). Aquaculture. 272(1): S183-S194. https://doi.org/10.1016/ j.aquaculture.2007.08.025 12. 12. Easton, A.A., Moghadam, H.K., Danzmann, R.G. and Ferguson, M.M., 2011. The genetic architecture of embryonic developmental rate and genetic covariation with age at maturation in rainbow trout Oncorhynchus mykiss. Journal of Fish Biology. 78(2): 602-623. https://doi.org/10.1111/j.1095-8649.2010.02881.x 13. 13. Gall, G.A. and Neira, R., 2004. Genetic analysis of female reproduction traits of farmed coho salmon (Oncorhyncus kisutch). Aquaculture. 234(1-4): 143-154. https://doi.org/10.1016/j.aquaculture.2004.01.029 14. 14. Gharbi, K., Gautier, A., Danzmann, R.G., Gharbi, S., Sakamoto, T., Høyheim, B., Taggart, J.B., Cairney, M., Powell, R., Krieg, F. and Okamoto, N., 2006. A linkage map for brown trout (Salmo trutta): chromosome homeologies and comparative genome organization with other salmonid fish. Genetics. 172(4): 2405-2419. https://doi.org/10.1534/genetics.105.048330 15. 15. Gjerde, B., 1986. Growth and reproduction in fish and shellfish. Aquaculture. 57(1-4): 37-55. https://doi.org/10. 1016/0044-8486(86)90179-1 16. 16. Gjerde, P.F., Block, J. and Block, J.H., 1986. Egocentrism and ego resiliency: Personality characteristics associated with perspective-taking from early childhood to adolescence. Journal of Personality and Social Psychology. 51(2): 423. 17. 17. Goffinet, B., and Gerber, S., 2000. Quantitative trait loci: a meta-analysis. Genetics. 155: 463-473. https://doi.org/ 10.1093/genetics/155.1.463 18. 18. Guo, J., Li, C., Teng, T., Shen, F., Chen, Y., Wang, Y., Pan, C. and Ling, Q., 2018. Construction of the first high-density genetic linkage map of pikeperch (Sander lucioperca) using specific length amplified fragment (SLAF) sequencing and QTL analysis of growth-related traits. Aquaculture. 497: 299-305. https://doi.org/10. 1016/j.aquaculture.2018.07.047 19. 19. Haidle, L., Janssen, J.E., Gharbi, K., Moghadam, H.K., Ferguson, M.M. and Danzmann, R.G., 2008. Determination of quantitative trait loci (QTL) for early maturation in rainbow trout (Oncorhynchus mykiss). Mar Biotechnol. 10(5): 579-592. https://doi.org/10.1007/s1012 6-008-9098-5 20. 20. Hale, M.C., Thrower, F.P., Berntson, E.A., Miller, M.R. and Nichols, K.M., 2013. Evaluating adaptive divergence between migratory and nonmigratory ecotypes of a salmonid fish, Oncorhynchus mykiss. G3: Genes, Genomes. Genetics. 3(8): 1273-1285. https://doi.org/10. 1534/g3.113.006817 21. 21. Holmefjord, I., Gulbrandsen, J., Lein, I., Refstie, T., Léger, P., Huse, I., Harboe, T., Sorgeloos, P., Olsen, Y., Bolla, S. and Reitan, K.I., 1993. An intensive approach to Atlantic halibut fry production. Journal of the World Aquaculture Society. 24(2): 275-284. https://doi.org/10. 1111/j.1749-7345.1993.tb00016.x 22. 22. Hao, Z., Li, X., Liu, X., Xie, C., Li, M., Zhang, D. and Zhang, S., 2010. Meta-analysis of constitutive and adaptive QTL for drought tolerance in maize. Euphytica. 174: 165-177. https://doi.org/10.1007/s10681-009-0091-5 23. 23. Hohenlohe, P.A., Day, M.D., Amish, S.J., Miller, M.R., Kamps‐Hughes, N., Boyer, M.C., Muhlfeld, C.C., Allendorf, F.W., Johnson, E.A. and Luikart, G., 2013. Genomic patterns of introgression in rainbow and westslope cutthroat trout illuminated by overlapping paired‐end RAD sequencing. Molecular ecology. 22(11): 3002-3013. https://doi.org/10.1111/mec.12239 24. 24. Hohenlohe, P.A., Amish, S.J., Catchen, J.M., Allendorf, F.W. and Luikart, G., 2011. Next‐generation RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow and westslope cutthroat trout. Molecular ecology resources. 11: 117-122. https://doi.org/10.1111/j.1755-0998.2010.02967.x 25. 25. Jensen, M., 2001. Value Maximization, Stakeholders Theory and the Corporate Objective Function. Journal of Applied Corporate Finance. 14: 8-21. https://doi.org/10. 1111/j.1745-6622.2001.tb00434.x 26. 26. Leder, E.H., Danzmann, R.G. and Ferguson, M.M., 2006. The candidate gene, clock, localizes to astrong spawning time quantitative trait locus region in rainbow trout. J Hered. 97: 74-80. https://doi.org/10.1093/jhered/ esj004. 27. 27. Liu, Y., Wang, H., Wen, H., Shi, Y., Zhang, M., Qi, X., Zhang, K., Gong, Q., Li, J., He, F., Hu, Y. and Li, Y., 2020. First high-density linkage map and QTL fine mapping for growth-related traits of spotted sea bass (Lateolabrax maculatus). Marine Biotechnology. 22: 526-538. https://doi. org/10.1007/s10126-020-09973-4 28. 28. Kearsey, M. and Pooni, H.S., 1996. The genetical analysis of quantitative traits. London: Chapman and Hall. 29. 29. Migaud, H., Davie, A. and Taylor, J.F., 2010. Current knowledge on the photoneuroendocrine regulation of reproduction in temperate fish species. Journal of Fish Biology. 76: 27-68. https://doi.org/10.1111/j.1095-8649. 2009.02500.x 30. 30. Moghadam, H., Poissant, J., Fotherby, H., Haidle, L., Ferguson, M. and Danzmann, R., 2007. Quantitative trait loci for body weight, condition factor and age at sexual maturation in Arctic charr (Salvelinus alpinus): comparative analysis with rainbow trout (Oncorhynchus mykiss) and Atlantic salmon (Salmo salar). Molecular Genetics and Genomics. 277: 647-661. https://doi.org/10. 1007/s00438-007-0215-3 31. 31. Narum, S.R., Buerkle, C.A., Davey, J.W., Miller, M.R. and Hohenlohe, P.A., 2013. Genotyping-by-sequencing in ecological and conservation genomics. Molecular ecology. 22(11):.2841. https://doi.org/10.1111/mec.12350 32. 32. Neira, R., Díaz, N.F., Gall, G.A., Gallardo, J.A., Lhorente, J.P. and Alert, A., 2006. Genetic improvement in coho salmon (Oncorhynchus kisutch). II: Selection response for early spawning date. Aquaculture. 257(1-4): 1-8. https://doi.org/10.1016/j. aquaculture.2006. 03.001 33. 33. Nichols, K.M., Young, W.P., Danzmann, R.G., Robison, B.D., Rexroad, C., Noakes, M., Phillips, R.B., Bentzen, P., Spies, I., Knudsen, K. and Allendorf, F.W., 2003. A consolidated linkage map for rainbow trout (Oncorhynchus mykiss). Animal genetics. 34(2): 102-115. https://doi.org/10.1046/j.1365-2052.2003.0095 7.x 34. 34. Nichols, K.M., Edo, A.F., Wheeler, P.A. and Thorgaard, G.H., 2008. The genetic basis of smoltification-related traits in Oncorhynchus mykiss. Genetics. 179(3): 1559-1575. https://doi.org/10.1534/ genetics.107.084251 35. 35. Norberg, B., Brown, C.L., Halldorsson, O., Stensland, K. and Björnsson, B.T., 2004. Photoperiod regulates the timing of sexual maturation, spawning, sex steroid and thyroid hormone profiles in the Atlantic cod (Gadus morhua). Aquaculture. 229(1-4): 451-467. https://doi.org/ 10.1016/S0044-8486(03)00393-4 36. 36. Ostberg, C.O., Hauser, L., Pritchard, V.L., Garza, J.C. and Naish, K.A., 2013. Chromosome rearrangements, recombination suppression, and limited segregation distortion in hybrids between Yellowstone cutthroat trout (Oncorhynchus clarkii bouvieri) and rainbow trout (O. mykiss). BMC genomics. 14(1): 570. https://doi.org/10. 1186/1471-2164-14-570 37. 37. Palti, Y., Gao, G., Miller, M.R., Vallejo, R.L., Wheeler, P.A., Quillet, E., Yao, J., Thorgaard, G.H., Salem, M. and Rexroad 3rd, C.E., 2014. A resource of single-nucleotide polymorphisms for rainbow trout generated by restriction-site associated DNA sequencing of doubled haploids. Molecular Ecology Resources. 14(3): 588-596. https://doi.org/10.1111/1755-0998.12204 38. 38. Peng, W., Xu, J., Zhang, Y., Feng, J., Dong, C., Jiang, L., Feng, J., Chen, B., Gong, Y., Chen, L. and Xu, P., 2016. An ultra-high density linkage map and QTL mapping for sex and growth-related traits of common carp (Cyprinus carpio). Scientific reports. 6(1): 26693. https:// doi.org/10.1038/srep26693 39. 39. Qiu, W., Liu, S., Chen, J., Hu, L., Wu, M. and Yang, M., 2016. The primary culture of carp (Cyprinus carpio) macrophages and the verification of its phagocytosis activity. In Vitro Cell Dev Biol Anim. 52: 10-19. doi: 10. 1007/s11626-015-9942-7 40. 40. Robison, B.D., Wheeler, P.A., Sundin, K., Sikka, P. and Thorgaard, G.H., 2001. Composite interval mapping reveals a major locus influencing embryonic development rate in rainbow trout (Oncorhynchus mykiss). Journal of Heredity. 92(1): 16-22. https://doi.org/ 10.1093/jhered/92. 1.16 41. 41. Sadler, S.E., McLeod, D., Mckay, L.R., Moccia, R.D., 1992. Selection for early spawning and repeatability of spawn date in rainbow trout. Aquaculture. 100: 103. 42. 42. Salem, M., Al-Tobasei, R., Ali, A., Lourenco, D., Gao, G., Palti, Y., Kenney, B., Leeds, T.D., 2018. Genome wide association analysis with a 50K transcribed gene SNPChip identifies QTL affecting muscle yield in rainbow trout. Frontiers in Genetics. 9(387): 387. https://doi.org/10.3389/fgene.2018.00387. 43. 43. Shultz, F.T., 1986. Developing a commercial breeding program. Aquaculture. 57: 65-76. https://doi.org/10.1016/ 0044-8486(86)90181-X 44. 44. Siitonen, L. and Gall, G.A.E., 1989. Response to selection for early spawn date in rainbow trout, Salmo gairdneri. Aquaculture. 78(2): 153-161. https://doi.org/10. 1016/0044-8486(89)90029-X 45. 45. Sonesson, A.K., 2007. Within-family marker-assisted selection for aquaculture species. Genetics Selection Evolution. 39: 301-317. https://doi.org/10.1186/1297-96 86-39-3-301 46. 46. Sundin, K., Brown, K.H., Drew, R.E., Nichols, K.M., Wheeler, P.A. and Thorgaard, G.H., 2005. Genetic analysis of a development rate QTL in backcrosses of clonal rainbow trout, Oncorhynchus mykiss. Aquaculture. 247(1-4): 75-83. https://doi.org/10.1016/j.aquaculture. 2005.02.054 47. 47. Thorgaard, G.H., Bailey, G.S., Williams, D., Buhler, D.R., Kaattari, S.L., Ristow, S.S., Hansen, J.D., Winton, J.R., Bartholomew, J.L., Nagler, J.J. and Walsh, P.J., 2002. Status and opportunities for genomics research with rainbow trout. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology. 133(4): 609-646. doi: 10.1016/s1096-4959(02) 00167-7 48. 48. Trijatmiko, K.R., Prasetiyono, J., Thomson, M.J., Cruz, C.M.V., Moeljopawiro, S. and Pereira, A., 2014. Meta-analysis of quantitative trait loci for grain yield and component traits under reproductive-stage drought stress in an upland rice population. Molecular Breeding. 34: 283-295. Doi: 10.1007/s11032-013-0012-0 49. 49. Vandeputte, M., Kocour, M., Mauger, S., Dupont-Nivet, M., De Guerry, D., Rodina, M., Gela, D., Vallod, D., Chevassus, B. and Linhart, O., 2004. Heritability estimates for growth-related traits using microsatellite parentage assignment in juvenile common carp (Cyprinus carpio L.). Aquaculture. 235(1-4): 223-236. https://doi. org/10.1016/j.aquaculture.2003.12. 019. 50. 50. Verardo, L.L., Lopes, M.S., Wijga, S., Madsen, O., Silva, F.F., Groenen, M.A.M., Knol, E.F., Lopes, P.S. and Guimarães, S.E.F., 2016. After genome-wide association studies: Gene networks elucidating candidate genes divergences for number of teats across two pig populations. Journal of Animal Science. 94(4): 1446-1458. doi: 10.2527/jas.2015-9917 51. 51. Veyrieras, J.B., Goffinet, B. and Charcosset, A., 2007. MetaQTL: a package of new computational methods for the meta-analysis of QTL mapping experiments. BMC Bioinformatics. 8: 49. https://doi.org/10.1186/1471-2105. 8-49 52. 52. Wang, N., Ingersoll, C.G., Dorman, R.A., Brumbaugh, W.G., Mebane, C.A., Kunz, J.L. and Hardesty, D.K., 2014. Chronic sensitivity of white sturgeon (Acipenser transmontanus) and rainbow trout (Oncorhynchus mykiss) to cadmium, copper, lead, or zinc in laboratory water‐only exposures. Environmental Toxicology and Chemistry. 33(10): 2246-2258. https://doi.org/10.1002/etc. 2641 53. 53. Whittaker, J.C., Thompson, R. and Visscher, P.M., 1996. On the mapping of QTL by regression of phenotype on marker-type. Heredity. 77(1): 23-32. https://doi.org/10. 1038/hdy.1996.104 54. 54. Zeng, Z.B., 1994. Precision mapping of quantitative trait loci. Genetics. 136(4): 1457-1468. https://doi.org/10. 1093/genetics/ 136.4.1457
|