Typing for brown trout LDH-C1* alleles together with microsatellites by automated sequencing
Tóm tắt
The eye-specific lactate dehydrogenase (LDH-C1) locus is a genetic marker of evolutionary and ecological interests for brown trout. We developed a new protocol to genotype the point mutation responsible for this polymorphism by automated sequencing. To that end, we designed and employed two primer pairs in a single polymerase chain reaction, each pair including one allele-specific primer. This new method is cheaper and more rapid than the previously published method that required a post-PCR restriction endonuclease digestion. Another attraction of the method is the possibility, presently tested, to co-amplify the LDH-C1 diagnostic region together with microsatellite loci.
Tài liệu tham khảo
Allendorf FW, Mitchell N, Ryman N, Stahl G (1977) Isozyme loci in brown trout (Salmo trutta L.): detection and interpretation from population data. Hereditas 86:179–190
Brownstein MJ, Carpten JD, Smith JR (1996) Modulation of non-templated nucleotide addition by Taq DNA polymerase: primer modifications that facilitate genotyping. Biotechniques 20(6):1004–1010
Cagigas ME, Vazquez E, Blanco G, Sanchez JA (2002) Phylogeographical lineages in brown trout (Salmo trutta): investigating microgeographical differentiation between native populations from Northern Spain. Freshwater Biol 47(10):1879–1892
Duguid RA, Ferguson A, Prodohl P (2006) Reproductive isolation and genetic differentiation of ferox trout from sympatric brown trout in Loch Awe and Loch Laggan, Scotland. J Fish Biol 69:89–114
Estoup A, Presa P, Krieg F, Vaiman D, Guyomard R (1993) (CT)(N) and (GT)(N) Microsatellites—a new class of genetic-markers for Salmo-Trutta L. (Brown Trout). Heredity 71:488–496
Ferguson A, Fleming CC (1983) Evolutionary and taxonomic significance of protein variation in the brown trout (Salmo trutta L.) and other salmonid species. In: Oxford GS, Rollinson D (eds) Protein polymorphism: adaptative and taxonomic significance. Academic Press, London, 85–99
Garcia-Marin JL, Utter FM, Pla C (1999) Postglacial colonization of brown trout in Europe based on distribution of allozyme variants. Heredity 82:46–56
Hamilton KE, Ferguson A, Taggart JB, Tomasson T, Walker A, Fahy E (1989) Post-glacial colonization of brown trout, Salmo trutta L.: Ldh-5 as a phylogeographic marker locus. J Fish Biol 35:651–664
Krieg F, Guyomard R (1985) Population genetics of French brown trout (Salmo trutta L.): large geographial differentiation of wild populations and high similarity of domesticated stocks. Genet Sel Evol 17(2):225–242
McMeel OM, Hoey EM, Ferguson A (2001) Partial nucleotide sequences, and routine typing by polymerase chain reaction-restriction fragment length polymorphism, of the brown trout (Salmo trutta) lactate dehydrogenase, LDH-C1*90 and*100 alleles. Mol Ecol 10(1):29–34
Newton CR, Graham A, Heptinstall LE, Powell SJ, Summers C, Kalsheker N, Smith JC, Markham AF (1989) Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS). Nucleic Acids Res 17(7):2503–2516
Presa P, Krieg F, Estoup A, Guyomard R (1994) Diversité et gestion génétique de la truite commune: apport de l’étude du polymorphisme des locus protéiques et microsatellites. Genet Sel Evol 26(Suppl 1)(1):183s–202s
Rozen S, Skaletsky HJ (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana Press, Totowa, NJ, 365–386
Sommer SS, Cassady JD, Sobell JL, Bottema CDK (1989) A novel method for detecting point mutations or polymorphisms and its application to population screening for carriers of phenylketonuria. Mayo Clin Proc 64:1361–1372
Susnik S, Snoj A, Pohar J, Dovc P (1997) The microsatellite marker (BFRO 002) characteristic for different geographically remote brown trout, Salmo trutta L., populations. Anim Genet 28(5):372–372
Ye S, Dhillon S, Ke XY, Collins AR, Day INM (2001) An efficient procedure for genotyping single nucleotide polymorphisms. Nucleic Acids Res 29(17):e88