YAN Xue-fei,GUO Wei,CAO Ying,et al.Genetic Diversity Analysis of the Wild Soybean (Glycine soja) Populations in China by MSAP Method[J].Soybean Science,2020,39(03):384-389.[doi:10.11861/j.issn.1000-9841.2020.03.0384]
基于MSAP技术的中国野生大豆群体遗传多样性分析
- Title:
- Genetic Diversity Analysis of the Wild Soybean (Glycine soja) Populations in China by MSAP Method
- Keywords:
- Wild soybean; Genetic diversity; Latitude; MSAP; Methylation
- 文献标志码:
- A
- 摘要:
- 为探究中国不同纬度的野生大豆天然种群的遗传多样性及其遗传结构，本研究利用MSAP技术分析研究27°～46°N的7个野生大豆种群的DNA甲基化多态性。结果表明：（1）223份材料、8对MSAP引物共扩增到1 617个位点，对所有位点的甲基化模式分析表明，Ⅳ型甲基化模式（位点缺失或者全甲基化）占比最多，为53.55%，Ⅱ型（半甲基化）和Ⅲ型（内侧甲基化）甲基化模式占比较少，分别为11.75%和13.25%。（2）基于非甲基化位点的Shannon指数在巴彦种群最低（I=0.279 6），在安化种群最高（I=0.313 0），遗传多样性呈现随纬度降低而逐渐升高的渐变趋势；而基于甲基化敏感位点的Shannon指数在巴彦种群最低（I=0.585 1），在桐柏种群中最高（I=0.603 0），其表观遗传多样性随纬度渐变呈现不规则波动。（3）基于非甲基化位点和甲基化敏感位点的遗传结构分析显示，在遗传上，同属于一个种群的材料能够聚类到一组，不同种群间出现了明显的遗传分化，而在表观遗传上，除了巴彦、衡山、安化的材料能各自聚类到一组以外，其余4个种群的材料交织在一起。（4）基于甲基化敏感位点的表观遗传距离和基于非甲基化位点的遗传距离相关性分析显示，二者在6个种群相关性显著，说明表观变异在多数情况下依赖于遗传变异，但也会在某些情况表现出一定的独立性。
- Abstract:
- Seven wild soybean populations between latitude 27° and 46°N in China were the targets for analysis of genetic diversity. Methylation-sensitive amplification polymorphisms (MSAP) was applied to evaluate the DNA methylation patterns and genetic structure. The main results were as follows: A total of 1 617 loci were detected with a set of eight primer pairs in 223 materials. Pattern Ⅳ of DNA methylation had the highest percentage and occupied 56.6% of the total loci, while Pattern Ⅱ and Ⅲ had lower percentages (11.75%, 13.25%). Shannon index based on unmethylated loci had the lowest value in the population of Bayan (I=0.279 6), and with the increasing latitude, the genetic diversity rose gradually, which reached the highest value（I=0.313 0）in the population of Anhua. The population Bayan also had the lowest Shannon index value (I=0.585 1) based on methylation-susceptible loci, however, the population of Tongbai had the highest (I=0.603 0), which suggested no trend in epigenetic diversity with increasing latitude. The structure analysis showed that most of the materials were assigned to respective cluster based on unmethylated loci, which meant genetic differentiation existing in the populations. However, samples from population of Longjing, Wuqing, Yanggu and Tongbai tended to be clusted together based on methylation-susceptible loci. In the Mantel tests, correlations of the genetic distances with the epigenetic distances were high and statistically significant in the six populations, which suggested that epigenetic variation was to some degree dependent of variation in the DNA sequence.
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