Diversity analysis and establishment of core collection among Akebia trifoliata (Thunb.) Koidz. in Qinba mountain area of China using ISSR and SRAP markers

Zhang, Zheng; Yang, Qing; Niu, Yanan; Zhang, Yanxiang; Dong, Shuanglin; Zhang, Wenwen; Wang, Zhezhi

doi:10.1007/s10722-020-01051-x

Cited by 14 publications

(17 citation statements)

References 24 publications

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“…The management and preservation of germplasm resources are expensive and time-consuming, a core collection can effectively resolve these issues (Frankel and Brown, 1984). Although core collections have been reported for A. trifoliata (56/242), the germplasm was only from the Qinba mountain area of China, and the results had certain limitations (Zhang et al, 2021). The core germplasm represented 17.1% of all accessions, which is higher than the range of 5-10% recommended by Brown as well as the values reported in other plants (Brown, 1989), e.g., sesame (S. indicum) (28/277) (Park et al, 2014), maize (Z. mays) (951/13521) (Yu et al, 2005), and soyabean (G. max) (Oliveira et al, 2010).…”

Section: Discussionmentioning

confidence: 99%

“…In a previous study, 49 pairs of SSR markers were used to analyze 88 A. trifoliata germplasms, which were collected from eight provinces including 16 regions in China ( Niu et al, 2019 ); PIC and H O values were 0.43 and 0.2210, respectively, similar to those in our study (PIC = 0.41; H O = 0.2382), thereby verifying that the species is moderately polymorphic (0.25 < PIC < 0.5). Additionally, 10 pairs each of ISSR and SRAP markers have been used to evaluate polymorphisms in 242 individuals from 11 natural populations ( Zhang et al, 2021 ), resulting in genetic diversity of N a = 1.99, I ∗ = 0.47, ISSR; N a = 1.99, and I ∗ = 0.50, SRAP. These values were inferior to the corresponding values in the present study, probably because the germplasms came from only one province of China.…”

Section: Discussionmentioning

confidence: 99%

“…As for genetic structure, Niu et al (2019) divided germplasms from eight provinces into four groups, which was similar to the results of the present study. Zhang et al (2021) divided germplasms from 11 populations into three groups. These studies indicated that the genetic diversity of A. trifoliata was weak.…”

Section: Discussionmentioning

confidence: 99%

“…However, to the best of our knowledge, there have been few reports on A. trifoliata genetic diversity based on DNA markers. In previous study, the number of germplasm was few and only came from a part of China, so the results may not be representative ( Niu et al, 2019 ; Zhang et al, 2021 ).…”

Section: Introductionmentioning

confidence: 94%

“…Core collections have been established for many crops, even some important crops have established a variety of core collection, such as rice (Abadie et al, 2005;Yan et al, 2007), wheat (Balfourier et al, 2007;Kobayashi et al, 2016) and maize (Yu et al, 2005;Yan et al, 2009). However, thus far, only one core collection has been developed for A. trifoliata, and the germplasms were just collected from one province of China, therefore, the core collection had limitations (Zhang et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

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Genetic Diversity of a Natural Population of Akebia trifoliata (Thunb.) Koidz and Extraction of a Core Collection Using Simple Sequence Repeat Markers

et al. 2021

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Understand genetic diversity and genetic structure of germplasm is premise of germplasm conservation and utilization. And core collection can reduce the cost and difficulty of germplasm conservation. Akebia trifoliata (Thunb.) Koidz is an important medicinal, fruit and oil crop, particularly in China. In this study, 28 simple sequence repeat (SSR) markers were used to assess the genetic diversity and genetic structure of 955 A. trifoliata germplasms, determine their molecular identity and extract a core collection. The genetic diversity of the 955 germplasms was moderately polymorphic. The average number of alleles (Na), observed heterozygosity (HO), expected heterozygosity (HE), Shannon’s information index (I∗), and polymorphic information content (PIC) were 3.71, 0.24, 0.46, 0.81, and 0.41, respectively. Four subpopulations were identified, indicating a weak genetic structure. A 955 germplasms could be completely distinguished by the characters of s28, s25, s74, s89, s68, s30, s13, s100, s72, s77, and s3. And each germplasm’s molecular identity was made up of eleven characters. The core collection was composed of 164 germplasms (17.2% of 955 total germplasms in the population) and diversity parameters differed significantly from those of a random core collection. These results have implications for germplasm conservation. At the same time, based on the results, the 955 germplasm could be better used and managed.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 94%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Genetic Diversity of a Natural Population of Akebia trifoliata (Thunb.) Koidz and Extraction of a Core Collection Using Simple Sequence Repeat Markers

et al. 2021

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Genome-wide SSR marker analysis to understand the genetic diversity and population sub-structure in Akebia trifoliata

Chen

Yang

et al. 2023

Genet Resour Crop Evol

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Genetic diversity is usually regarded as an important role for understanding the origin, evolution and environmental adaptation of species. A total of 174 living collections of Akebia trifoliata and 72 highpolymorphism-potential (HPP) simple sequence repeat (SSR) markers were employed to systematically explore the diversity and structure of this species. The average number of alleles (Na), Shannon's information index (I), number of effective alleles (Ne), observed heterozygosity (Ho), expected heterozygosity (He) and polymorphism information content (PIC) values were 9.01, 1.64, 4.98, 0.56, 0.72 and 0.69, respectively, and the linkage disequilibrium (LD) locus pairs percentage was on 1.17%. The PIC value of AK78 was the highest (0.92), while that of AK53 was the lowest (0.21). Sixty of 72 loci exhibited high polymorphism, while only one exhibited low polymorphism. In addition, the average PIC of chromosomes varied from 0.56 to 0.79. The genetic diversity of the SCB population was the highest, while that of NQH was the lowest. Further analysis of SCB suggested that JSJ-MJ, in the main part of the Heng Duan Mountain zone, had the highest genetic diversity and could be the origin centre of A. trifoliata. The main migration route of A. trifoliata could have been latitudinally from western to eastern China along the Yangtze River. Structure, cluster and principal coordinate analyses yielded similar results, revealing that the 6 populations could be divided into 2 groups or clusters. The geographic origin of several unknown accessions, such as Alc-166, Alc-171, Alc-172 and Alc-174, was revealed by cluster analysis. Overall, the results suggested that the living collections of A. trifoliata had high genetic diversity, good representativeness, and low duplication, which will bene t A. trifoliata germplasm collection, preservation, and breeding applications.

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Comparison of selection methods to establish a core collection of the Siberian apricot using trait and SSR data

Sun,

Zhang,

Chen

et al. 2024

Tree Genetics & Genomes

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Diversity analysis and establishment of core collection among Akebia trifoliata (Thunb.) Koidz. in Qinba mountain area of China using ISSR and SRAP markers

Cited by 14 publications

References 24 publications

Genetic Diversity of a Natural Population of Akebia trifoliata (Thunb.) Koidz and Extraction of a Core Collection Using Simple Sequence Repeat Markers

Genetic Diversity of a Natural Population of Akebia trifoliata (Thunb.) Koidz and Extraction of a Core Collection Using Simple Sequence Repeat Markers

Genome-wide SSR marker analysis to understand the genetic diversity and population sub-structure in Akebia trifoliata

Comparison of selection methods to establish a core collection of the Siberian apricot using trait and SSR data

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