Xu Z L, Ali Z, Yi J X, He X L, Zhang D Y, Yu G H, Khan A A, Khan I A, Ma H X
Institute of Agro-Biotechnology, Jiangsu Academy of Agricultural Sciences, Nanjing, China.
Genet Mol Res. 2011 Jun 28;10(2):1262-76. doi: 10.4238/vol10-2gmr1321.
Salicornia spp is one of the most salt-tolerant vascular plants and is native to salt marshes and estuaries. We developed expressed sequence tag derived-simple sequence repeat (EST-SSR) markers for estimating genetic diversity and marker-assisted Salicornia breeding. Six polymorphic EST-SSRs of 40 detected 27 alleles, ranging from three to five alleles per locus. The average number of alleles per locus was 4.33 and 4.17, and the major allele frequency at locus DY529765 was high, being 0.859 and 0.857 in S. bigelovii and S. europea, respectively. Gene diversity, heterozygosity and polymorphism information content were highest at locus DY529950 and similar in these two species. Gene diversity increased with increase in the number of alleles that had a low major allele frequency at a locus. Six polymorphic loci effectively discriminated 46 taxa into three clusters via different analyses. Significant deviation of F(ST) from zero in three suggested populations for six loci indicated population differentiation and limited gene flow among them. A reduced median network established that taxon SB65 is primitive. SMART (simple modular architecture research tool) analysis of peptide sequences of six EST-SSRs showed that loci DY529765, DY529950 and EC906203 contained transmembrane, TLC, AgrB and NTR domains and might be involved in salinity stress tolerance. These EST-SSRs are a valuable resource for marker development and may be useful in marker-assisted Salicornia breeding.
盐角草属植物是最耐盐的维管植物之一，原产于盐沼和河口。我们开发了表达序列标签衍生的简单序列重复（EST-SSR）标记，用于评估遗传多样性和辅助盐角草育种。在检测到的40个EST-SSR中，有6个多态性标记共检测到27个等位基因，每个位点的等位基因数为3至5个。每个位点的平均等位基因数分别为4.33和4.17，位点DY529765的主等位基因频率较高，在大果盐角草和欧洲盐角草中分别为0.859和0.857。基因多样性、杂合度和多态性信息含量在位点DY529950最高，且在这两个物种中相似。基因多样性随着位点上主等位基因频率较低的等位基因数量的增加而增加。通过不同分析，6个多态性位点有效地将46个分类群分为三个聚类。六个位点在三个假定种群中的F(ST)显著偏离零，表明种群分化以及它们之间的基因流有限。简约中位数网络图显示分类群SB65是原始的。对六个EST-SSR的肽序列进行SMART（简单模块架构研究工具）分析表明，位点DY529765、DY529950和EC906203包含跨膜、TLC、AgrB和NTR结构域，可能参与耐盐胁迫。这些EST-SSR是标记开发的宝贵资源，可能有助于盐角草的分子辅助育种。
