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Determination of Chromosome Number and Genetic Diversity using SSR and RAPD Markers in Ziziphus jujuba Mill.
Iranian Journal of Science and Technology, Transactions A: Science ( IF 1.7 ) Pub Date : 2020-09-23 , DOI: 10.1007/s40995-020-00982-5
Saeid Daghighi , Zohreh Alizadeh , Homa Habibi

The jujube is very important in Iran’s horticultural sector, and its value-added is very high for per cubic meter of water consumed. The chromosome number and genetic diversity of 25 jujube trees from different regions of South Khorasan Province were assessed using 24 simple sequence repeat (SSR) and 16 random amplified polymorphic DNA (RAPD) markers. The polymorphism percentage was 100% and 67.59% with SSR and RAPD, respectively. The Shannon’s information index (I), Nei’s gene diversity (H), and effective allele (Ae) were higher for SSR (1.44, 0.72 and 4.21, respectively) than for RAPD (0.46, 0.30 and 1.49, respectively). A high level of genetic differentiation and low level of gene flow were detected by SSR (Fst = 0.29, Nm = 0.61) and RAPD (Gst = 0.47, Nm = 0.85). SSR identified 26 genotype-specific alleles, while RAPD identified 3 unique bands. In SSR markers, the mean observed heterozygosity (0.67) was higher than mean expected heterozygosity (0.51), and the mean inbreeding coefficient was negative (− 0.33), which indicated heterozygosity excess in the investigated samples. The cluster analysis classified the samples into 3, 5, and 3 groups based on SSR, RAPD, and SSR + RAPD, respectively. Although some of the examined samples were suckers from the same genotypes, they were distinguished by both markers, revealing a somatic mutation occurrence among them. In general, SSR had a better ability than RAPD to accommodate the suckers belonging to the same genotypes in the same groups. The chromosome number in all samples was diploid.



中文翻译:

使用枣(Sipziphus jujuba Mill)的SSR和RAPD标记测定染色体数和遗传多样性。

枣在伊朗的园艺部门中非常重要,每增加一立方米的水,它的附加值就很高。使用24个简单序列重复(SSR)和16个随机扩增多态性DNA(RAPD)标记评估了南霍拉桑省不同地区的25棵枣树的染色体数和遗传多样性。SSR和RAPD的多态性百分比分别为100%和67.59%。SSR的Shannon信息指数(I),Nei的基因多样性(H)和有效等位基因(Ae)分别高于RAPD(分别为0.46、0.30和1.49)(分别为1.44、0.72和4.21)。通过SSR(Fst = 0.29,Nm = 0.61)和RAPD(Gst = 0.47,Nm = 0.85)检测到高水平的遗传分化和低水平的基因流动。SSR鉴定了26个基因型特异性等位基因,而RAPD鉴定了3个独特的条带。在SSR标记中,观察到的平均杂合度(0.67)高于平均预期杂合度(0.51),平均近交系数为负(-0.33),这表明所研究样品中的杂合度过高。聚类分析分别根据SSR,RAPD和SSR + RAPD将样本分为3、5和3组。尽管一些检测样品是相同基因型的吸盘,但它们通过两种标记物区别开来,表明它们之间发生了体细胞突变。通常,SSR具有比RAPD更好的能力,能够容纳属于相同基因型,属于同一组的吸盘。所有样品的染色体数均为二倍体。平均近交系数为负(-0.33),表明所研究样品的杂合度过高。聚类分析分别根据SSR,RAPD和SSR + RAPD将样本分为3、5和3组。尽管一些检测样品是相同基因型的吸盘,但它们通过两种标记物区别开来,表明它们之间发生了体细胞突变。通常,SSR具有比RAPD更好的能力,能够容纳属于相同基因型,属于同一组的吸盘。所有样品的染色体数均为二倍体。平均近交系数为负(-0.33),表明所研究样品的杂合度过高。聚类分析分别根据SSR,RAPD和SSR + RAPD将样本分为3、5和3组。尽管一些检测样品是相同基因型的吸盘,但它们通过两种标记物区别开来,表明它们之间发生了体细胞突变。通常,SSR具有比RAPD更好的能力,能够容纳属于相同基因型,属于同一组的吸盘。所有样品的染色体数均为二倍体。它们被这两种标记物区分开,揭示出它们之间发生了体细胞突变。通常,SSR具有比RAPD更好的能力,能够容纳属于相同基因型,属于同一组的吸盘。所有样品的染色体数均为二倍体。它们被这两种标记物区分开,揭示出它们之间发生了体细胞突变。通常,SSR具有比RAPD更好的能力,能够容纳属于相同基因型,属于同一组的吸盘。所有样品的染色体数均为二倍体。

更新日期:2020-09-23
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