Independent target region amplification polymorphism and single-nucleotide polymorphism marker utility in genetic evaluation of sugarcane genotypes
Independent target region amplification polymorphism and single-nucleotide polymorphism marker utility in genetic evaluation of sugarcane genotypes
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DOI：
10.1111/pbr.12092
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发表时间：
2013-12-01
期刊：
影响因子：
2
通讯作者：
Henry, Robert
中科院分区：
文献类型：
--
作者：
Devarumath, Rachayya M.;Kalwade, Sachin B.;Henry, Robert
利用独立靶区扩增多态性（TRAP）和单核苷酸多态性（SNP）标记对47个甘蔗基因型进行了遗传评价。23对TRAP标记共产生925个等位基因，其中74%的等位基因为多态性。多态性通常较高（>50%），范围为54 - 98%。多态性信息含量（PIC）为0.20，在SAI+Arbi 2的0.17 ~ GL 2+ Arbi 1的0.31之间变化，平均值为0.24。然而，皮尔森相关PIC和权力的歧视（PD）被认为是不太显着。本研究首次将单核苷酸多态性应用于甘蔗属不同种和栽培甘蔗品种间的遗传多样性分析。从454个序列中检测SNPs。在47种基因型中共检测了245个SNP标记，发现167个SNP具有多态性。PIC值范围为0.04 ~ 0.38，平均值为0.21，PD值范围为0.58 ~ 0.04，平均值为0.31。通过遗传相似性分析和算术平均聚类树分析，将获得的结果与其他标记系统进行了比较。聚类分析结果表明，蔗茅属（Erianthus）>硬穗木属（Sclerostachya）>纳仁木属（Narenga）>密穗木（Spontaneum）>粗壮密穗木（S.robustum）>巴氏密穗木（S.barberi）>药用密穗木（S.officinarum）/品种间亲缘关系较近。这些结果批准TRAP和SNP标记系统评估遗传多样性的研究，和更多样化的蔗茅属。可以通过用甘蔗属物种育种显著地促进甘蔗品种改良。或杂交品种。
The independent target region amplification polymorphism (TRAP) and single-nucleotide polymorphism (SNP) markers were used for genetic evaluation of different selected 47 sugarcane genotypes. A total of 23 pairs of TRAP markers generated 925 alleles, of which 74% alleles were polymorphic. Polymorphism was generally high (>50%), ranging from 54 to 98%. The polymorphism information content (PIC) values 0.20 varied among the primer combination ranging from 0.17 in SAI+Arbi 2 to 0.31 in GL 2+ Arbi 1 with an average of 0.24. However, the Pearson correlation between PIC and power of discrimination (PD) was found to be less significant. Single-nucleotide polymorphisms were used first time for the assessment of genetic diversity among different species of Saccharum and cultivated sugarcane varieties. The SNPs were detected from 454 sequencing. A total of 245 SNP markers were assayed across the 47 genotypes, and 167 SNPs were found to be polymorphic. The PIC values ranged from 0.04 to 0.38 with an average of 0.21, and their respective PD varied from 0.58 to 0.04 with an average value of 0.31. The obtained results relatively significant were compared with the other marker systems through genetic similarity and the clusters formed in different unweighted pair group method with arithmetic mean clustering dendrogram. The clustering analysis established genetic relationship in the order of Erianthus>Sclerostachya>Narenga>Saccharum spontaneum>S.robustum>S.barberi>S.officinarum/cultivars. These results ratify TRAP and SNP marker systems for assessing genetic diversity studies, and more diversified Erianthus spp. can contribute substantially towards sugarcane varietal improvement through breeding with Saccharum spp. or hybrid cultivars.