Genetic diversity analysis of a breeding population of Eucalyptus cloeziana F. Muell. (Myrtaceae) and extraction of a core germplasm collection using microsatellite markers

Lv, Jiabin; ChangRong, Li; Zhou, Changpin; Chen, Jianbo; Li, Fagen; Weng, Qijie; Mei, Li; Wang, Yaqin; Chen, Shengkan; Chen, Jiancheng; Shen, Gan

doi:10.1016/j.indcrop.2020.112157

Cited by 39 publications

(44 citation statements)

References 44 publications

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“…Hence, the European collections, especially the coastal and the alpine area ( Griffiths et al, 2019 ), could be recommended as alternative collections for core germplasm collections selection. The core collections should maintain the vast majority of germplasm diversity ( Lv et al, 2020 ), and the optimal fraction of core collection for white clover needs to be further studied.…”

Section: Discussionmentioning

confidence: 99%

“…The white clover accessions in the present study were divided into different groups or subgroups based on PCoA, UPGMA and STRUCTURE analyses. It could be attributed to the different statistical principles ( Gower, 1966 ; Lv et al, 2020 ; Pritchard et al, 2000 ). PCoA can provide a more valid classification based on the dissimilarity matrix of the original data, which is not strict with the Hardy-Weinberg equilibrium assumption.…”

Section: Discussionmentioning

confidence: 99%

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Genetic diversity and population structure analysis in a large collection of white clover (Trifolium repens L.) germplasm worldwide

Zhou

et al. 2021

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White clover is an important temperate legume forage with high nutrition. In the present study, 448 worldwide accessions were evaluated for the genetic variation and polymorphisms using 22 simple sequence repeat (SSR) markers. All the markers were highly informative, a total of 341 scored bands were amplified, out of which 337 (98.83%) were polymorphic. The PIC values ranged from 0.89 to 0.97 with an average of 0.95. For the AMOVA analysis, 98% of the variance was due to differences within the population and the remaining 2% was due to differences among populations. The white clover accessions were divided into different groups or subgroups based on PCoA, UPGMA, and STRUCTURE analyses. The existence of genetic differentiation between the originally natural and introduced areas according to the PCoA analysis of the global white clover accessions. There was a weak correlation between genetic relationships and geographic distribution according to UPGMA and STRUCTURE analyses. The results of the present study will provide the foundation for future breeding programs, genetic improvement, core germplasm collection establishment for white clover.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Genetic diversity and population structure analysis in a large collection of white clover (Trifolium repens L.) germplasm worldwide

Zhou

et al. 2021

PeerJ

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“…Muell., family Myrtaceae Juss.) (247/707) ( Lv et al, 2020 ). However, in applying one additional filter, the N a and H O are reduced to 82.1 and 84.2%, respectively, of those for the full population, and the core collection is reduced to eight genetic individuals.…”

Section: Discussionmentioning

confidence: 99%

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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“…Microsatellites are ideal for identifying individuals and studying genetic diversity because of their ubiquity, reproducibility, high level of polymorphism, codominant inheritance, and high level of transferability (Nasim et al 2020;Lv et al 2020;Guan et al 2019;Carletti et al 2019). Therefore, SSRs have been used to study genetic diversity, generate genetic linkage maps, and "fingerprinting" many economically important trees (e.g., Ginkgo biloba, Platanus orientalis, Cunninghamia lanceolata (Lamb.)…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity and population structure of Robinia pseudoacacia from six improved variety bases in China as revealed by simple sequence repeat markers

et al. 2021

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Robinia pseudoacacia is an important afforestation tree introduced to China in 1878. In the present study, we examined the genetic diversity among 687 strains representing four improved varieties and two secondary provenances, comprising 641 clones and 46 seedlings. Ninety-one simple sequence repeats (SSRs) were selected through segregation analysis and polymorphism characterization, and all sampled individuals were genotyped using well-characterized SSR markers. After excluding loci with non-neutral equilibrium, missing locus data and null alleles, we used 36 primer pairs to assess the genetic diversity of these germplasm resources, revealing vast genetic differentiation among the samples, with an average of 8.352 alleles per locus and a mean Shannon′s index of 1.302. At the population level, the partitioning of variability was assessed using analysis of molecular variance, which revealed 93% and 7% variation within and among collection sites, respectively. Four clusters were detected using structure analysis, indicating a degree of genetic differentiation among the six populations. Insights into the genetic diversity and structure of R. pseudoacacia provide a theoretical basis for the conservation, breeding and sustainable development in China.

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Genetic diversity analysis of a breeding population of Eucalyptus cloeziana F. Muell. (Myrtaceae) and extraction of a core germplasm collection using microsatellite markers

Cited by 39 publications

References 44 publications

Genetic diversity and population structure analysis in a large collection of white clover (Trifolium repens L.) germplasm worldwide

Genetic diversity and population structure analysis in a large collection of white clover (Trifolium repens L.) germplasm worldwide

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

Genetic diversity and population structure of Robinia pseudoacacia from six improved variety bases in China as revealed by simple sequence repeat markers

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