Characterization of microsatellite and minisatellite loci in Atlantic salmon (Salmo salar L.) and cross-species amplification in other salmonids
Characterization of microsatellite and minisatellite loci in Atlantic salmon (Salmo salar L.) and cross-species amplification in other salmonids
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DOI：
10.1046/j.1365-294x.2000.105312.x
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发表时间：
2000-12-01
影响因子：
4.9
通讯作者：
Hoyheim, B
中科院分区：
文献类型：
--
作者：
Cairney, M;Taggart, JB;Hoyheim, B
用~（32）P标记的（TAA）6、（GACA）4、（加塔）4和（AAGG）4寡核苷酸筛选大西洋鲑基因组DNA文库。对164个克隆进行了测序，其中144个具有可识别的重复基序。87%的重复序列是三核苷酸或四核苷酸重复序列，对应于用于筛选的序列。5%的重复序列为二核苷酸微卫星，8%为小卫星。设计引物组以扩增42个序列;扩增22个位点。三个引物组扩增2个位点，这是由于大西洋鲑鱼基因组的四倍体起源。这些位点分别命名为Ssa 401 UOS、Ssa 402/1 UOS、Ssa 402/2 UOS、Ssa 403 UOS-Ssa 408 UOS、Ssa 410 UOS-Ssa 412 UOS、Ssa 413/1 UOS、Ssa 413/2 UOS、Ssa 416 UOS-Ssa 419 UOS、Ssa 420/1 UOS、Ssa 420/2 UOS和Ssa 421 UOS-Ssa 422 UOS。在21鲑鱼的样本中，每个位点的等位基因数范围从1（为Ssa 413/1UOSandSsa 420/2UOS）到25;观察到的多态性位点的杂合性范围从0.19到1.00;预期杂合性范围从0.18到0.97。只有Ssa 420/1UOS表现出明显的Hardy-Weinberg平衡偏离，这是由于无效等位基因的存在。4对位点间存在连锁。在其他7种鲑鱼的DNA上测试了引物，Ssa 411 UOS和Ssa 421 UOS在任何其他物种中都没有产生产物。其余引物均能在鲑中扩增出产物，大部分引物能在虹鳟（Oncorhynchus mykiss）、虹鳟（O. clarki，O. nerka、Salvelinus alpinus和Coregonus lavaretus的序列，只有8对引物扩增出了百里香的序列。所报道的核苷酸序列已经以登录号AJ 402718-AJ 402725、AJ 402727-AJ 402730和AJ 402733-AJ 402739保藏在EMBL数据库中。
Size-selected Atlantic salmon genomic DNA libraries were produced and screened with32P-labelled (TAA)6, (GACA)4, (GATA)4or (AAGG)4oligonucleotides. 164 clones were sequenced, 144 of these had identifiable repeat motifs. 87% of the repeat sequences were trinucleotide or tetranucleotide repeats corresponding to the sequences used for screening. 5% of the repeat sequences were dinucleotide microsatellites, 8% were minisatellites. Primer sets were designed to amplify 42 of the sequences; 22 loci were amplified. Three primer sets amplified 2 loci; this was attributed to the tetraploid origin of the Atlantic salmon genome. The loci were designatedSsa401UOS, Ssa402/1UOS, Ssa402/2UOS, Ssa403UOS-Ssa408UOS, Ssa410UOS-Ssa412UOS, Ssa413/1UOS, Ssa413/2UOS, Ssa416UOS-Ssa419UOS, Ssa420/1UOS, Ssa420/2UOSandSsa421UOS-Ssa422UOS. In a sample of 21 salmon the number of alleles per locus ranged from 1 (forSsa413/1UOSandSsa420/2UOS) to 25; the observed heterozygosity of the polymorphic loci ranged from 0.19 to 1.00; the expected heterozygosity ranged from 0.18 to 0.97. OnlySsa420/1UOSdisplayed significant departure from Hardy-Weinberg equilibrium; this resulted from the presence of null alleles. Linkage was detected between 4 pairs of loci. The primers were tested on DNA from 7 other salmon species.Ssa411UOSandSsa421UOSdid not give a product in any of the other species. All the remaining primers gave a product inSalmo trutta; most gave products inOncorhynchus mykiss, O. clarki, O. nerka, Salvelinus alpinusandCoregonus lavaretus; only 8 primer sets amplified sequences fromThymallus thymallus. The nucleotide sequences reported have been deposited with the EMBL database with the accession numbers AJ402718-AJ402725, AJ402727-AJ402730 and AJ402733-AJ402739.