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Genetic Diversity, Pedigree Relationships, and A Haplotype-Based DNA Fingerprinting System of Red Bayberry Cultivars

文献类型： 外文期刊

作者： Wu, Bo 1 ; Zhong, Yun 1 ; Wu, Qianqian 1 ; Chen, Fangyong 3 ; Zhong, Guangyan 1 ; Cui, Yiping 4 ;

作者机构： 1.Guangdong Acad Agr Sci IFTR GDAAS, Minist Agr, Key Lab South Subtrop Fruit Biol & Genet Resource, Guangzhou, Peoples R China

2.Guangdong Acad Agr Sci IFTR GDAAS, Inst Fruit Tree Res, Guangzhou, Peoples R China

3.Citrus Res Inst Zhejiang, Huangyan, Peoples R China

4.Guangdong Acad Agr Sci, Plant Protect Res Inst, Guangzhou, Peoples R China

5.Guangdong Prov Key Lab High Technol Plant Protect, Guangzhou, Peoples R China

关键词： genetic diversity; single nucleotide polymorphisms; red bayberry; DNA fingerprinting; cultivar

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.753； 五年影响因子：6.612 ）

ISSN： 1664-462X

年卷期： 2020 年 11 卷

页码：

收录情况： SCI

摘要： High throughput sequencing was used to reveal the distribution of whole-genome variations in cultivatedMorella rubra(Sieb. et Zucc.). A total of 3,151,123 SNPs, 371,757 small indels, and 15,904 SVs were detected in 52 accessions. Verification by Sanger sequencing demonstrated that the positive rate of the SNPs was approximately 97.3%. Search for more genetic variations was expanded to 141 red bayberry accessions, most of which were cultivars, by sequencing 19 selected genomic segments (SEG1-19). The results showed that each segment harbored, on average, 7.8 alleles (haplotypes), a haplotype diversity of 0.42, and a polymorphic information content (PIC) of 0.40. Seventy-two different genotypes were identified from the 141 accessions, and statistical analysis showed that the accessions with duplicated genotypes were either somatic mutants or simply synonyms. Core set selection results showed that a minimum of 34 genotypes could already have covered all the alleles on the segments. A DNA fingerprinting system was developed for red bayberry, which used the diversity information of only 8 DNA segments yet still achieved a very high efficiency without losing robustness. No large clade was robustly supported by hierarchical clustering, and well-supported small clusters mainly included close relatives. These results should lead to an improved understanding of the genetic diversity of red bayberry and be valuable for future molecular breeding and variety protection.

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