Fu Yinyin, Li Shuangyun, Ma Bingyao, Liu Cuilan, Qi Yukun, Pang Caihong
Key Laboratory of National Forestry and Grassland Administration on Tree Genetics and Breeding in the Yellow River Delta, Shandong Academy of Forestry, Jinan 250014, China.
Int J Mol Sci. 2024 Nov 28;25(23):12776. doi: 10.3390/ijms252312776.
is an important native tree species in northern China, with high ornamental, medicinal, and ecological value. In order to elucidate the genetic resources of ancient , 16 simple sequence repeat (SSR) markers were used to evaluate its genetic diversity and population structure and build a core collection of 416 germplasms from the Shandong, Shanxi, and Hebei provinces. A total of 160 alleles were detected, the mean major allele frequency (MAF)was 0.39, and the mean effective number of alleles (Ne) was 4.08. Shannon's information index (I), the observed heterozygosity (Ho), the expected heterozygosity (He), and the polymorphism information content (PIC) were 1.58, 0.64, 0.74, and 0.70, respectively, indicating relatively high genetic diversity in ancient germplasms. Low genetic differentiation coefficient (Fst = 0.04) and frequent gene flow (Nm = 9.74) were found in the tested populations, and an analysis of molecular variance (AMOVA) indicated that the genetic variation mainly came from within individuals (84%). A genetic structure and cluster analysis indicated that 416 ancient germplasms could be divided into five subgroups, and there were obvious genetic exchanges among different subgroups. A core collection consisting of 104 (25% of the original collection) germplasms was constructed using the R language package Genetic Subsetter version 0.8 based on the stepwise regression method. The retention rates of the number of alleles (Na), Ne, I, He, and PIC were 87.50%, 106.24%, 103.02%, 102.50%, and 102.74%, respectively. The -test analysis suggested that there were no significant differences between the core collection and the original collection. The principal coordinate analysis (PCoA) showed that the core collection was uniformly distributed within the initial collection and was able to fully represent the genetic diversity of the original collection. These results provide a scientific basis for the conservation and utilization of ancient germplasms.
是中国北方重要的乡土树种，具有较高的观赏、药用和生态价值。为了阐明古[树种名称]的遗传资源，利用16个简单序列重复（SSR）标记评估其遗传多样性和群体结构，并构建了来自山东、山西和河北省的416份种质的核心种质库。共检测到160个等位基因，平均主等位基因频率（MAF）为0.39，平均有效等位基因数（Ne）为4.08。香农信息指数（I）、观测杂合度（Ho）、期望杂合度（He）和多态信息含量（PIC）分别为1.58、0.64、0.74和0.70，表明古[树种名称]种质具有较高的遗传多样性。在所测试的[树种名称]群体中发现低遗传分化系数（Fst = 0.04）和频繁的基因流（Nm = 9.74），分子方差分析（AMOVA）表明遗传变异主要来自个体内部（84%）。遗传结构和聚类分析表明，416份古[树种名称]种质可分为五个亚组，不同亚组之间存在明显的基因交流。基于逐步回归方法，使用R语言包Genetic Subsetter版本0.8构建了由104份（占原始种质库的25%）种质组成的核心种质库。等位基因数（Na）、Ne、I、He和PIC的保留率分别为87.50%、106.24%、103.02%、102.50%和102.74%。t检验分析表明核心种质库与原始种质库之间没有显著差异。主坐标分析（PCoA）表明核心种质库均匀分布在初始种质库中，能够充分代表原始种质库的遗传多样性。这些结果为古[树种名称]种质的保护和利用提供了科学依据。
