Development of Microsatellite Markers for <i>Cypripedium tibeticum</i> (Orchidaceae) and their Applicability to Two Related Species

Li, Jing; Luo, Yi‐Bo; Xu, Lingling

doi:10.3732/apps.1700084

Cited by 3 publications

(3 citation statements)

References 12 publications

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“…Based on our experimental data, we found some evidence of genetic diversity in CM, several major indices of genetic diversity (Ho and He were 0.1335 and 0.1534, respectively) indicated that the genetic diversity of 99 CM was lower than that of Korea and Japan, Ho and He were 0.140 and 0.185 in Korea and 0.163 and 0.187 in Japan, respectively [ 26 , 28 ]. Compared with several other species of Cypripedium , the level of genetic diversity was significantly lower, such as, Cypripedium calceolus (Ho = 0.587, He = 0.572) [ 47 ], Cypripedium flavum (Ho = 0.431, He = 0.288) [ 48 ], Cypripedium tibeticum (Ho = 0.664 ± 0.143, He = 0.745 ± 0.119) [ 49 ], Cypripedium kentuckiense (Ho = 0.514, He = 0.522) [ 50 ]. Several factors influence the level of genetic diversity of plants, such as the reproductive characteristics of plants themselves, gene flow, human interference, habitat fragmentation, and chance events.…”

Section: Discussionmentioning

confidence: 99%

Genetic diversity, population genetic structure and gene flow in the rare and endangered wild plant Cypripedium macranthos revealed by genotyping-by-sequencing

Dong

Zhao

et al. 2023

BMC Plant Biol

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Background Genetic diversity, genetic structure, and gene flow in plant populations and their influencing factors are important in conservation biology. Cypripedium macranthos is one of the few wild orchids with high ornamental value in northern China. However, over the past decade, excessive collection, trading, tourism development, habitat fragmentation, deceptive pollination, and seed germination difficulties have all caused a sharp decline in the number of C. macranthos individuals and its population. In order to propose a scientific and effective conservation strategy, the genetic diversity, genetic structure and gene flow of the current CM population are urgent scientific issues to be clarified. Results Here, 99 individuals of C. macranthos from north and northeast China were analyzed to evaluate the genetic diversity, gene flow among populations, and genetic structure by genotyping-by-sequencing. More than 68.44 Gb high-quality clean reads and 41,154 SNPs were obtained. Our data based on bioinformatics methods revealed that C. macranthos has lower genetic diversity, high levels of historical gene flow, and moderate-to-high genetic differentiation between populations. The gene migration model revealed that the direction of gene flow was mainly from northeast populations to north populations in China. The results of genetic structure analysis showed that 11 C. macranthos populations can be considered as two groups, and further divided into four subgroups. Moreover, the Mantel test detected no significant “Isolation by Distance” between populations. Conclusions Our study demonstrates that the present genetic diversity and genetic structure of C. macranthos populations were mainly caused by biological characteristics, human interference, habitat fragmentation, and restricted gene flow. Finally, constructive measures, which can provide a basis for the proposal of conservation strategies, have been suggested.

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Section: Discussionmentioning

confidence: 99%

Genetic diversity, population genetic structure and gene flow in the rare and endangered wild plant Cypripedium macranthos revealed by genotyping-by-sequencing

Dong

Zhao

et al. 2023

BMC Plant Biol

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“…Microsatellites, also known as simple sequence repeats (SSRs), were first reported in C. goeringii by Moe et al [ 7 ], then several studies have examined microsatellite markers in molecular phylogenetic and horticultural studies of the genus Cymbidium [ 3 , 6 , 8 , 9 , 10 , 11 , 12 ] or the family Orchidaceae species [ 13 , 14 , 15 , 16 , 17 , 18 , 19 ]. In particular, Lee et al suggested the potential usefulness of microsatellite combined genotypes as a forensic authentication tool for discriminating among C. goeringii cultivars [ 3 ].…”

Section: Introductionmentioning

confidence: 99%

“…Microsatellites, also known as simple sequence repeats (SSRs), were first reported in C. goeringii by Moe et al [7], then several studies have examined microsatellite markers in molecular phylogenetic and horticultural studies of the genus Cymbidium [3,6,[8][9][10][11][12] or the family Orchidaceae species [13][14][15][16][17][18][19]. In particular, Lee et This study aimed to determine the cultivar-specific combined genotypes (CGs) of SSRs by analyzing multiple samples per cultivar in C. goeringii.…”

Section: Introductionmentioning

confidence: 99%

Microsatellite Dataset for Cultivar Discrimination in Spring Orchid (Cymbidium goeringii)

Nam

Jiang

Kim

et al. 2023

Genes

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Cymbidium goeringii Reichb. fil., locally known as the spring orchid in the Republic of Korea, is one of the most important and popular horticultural species in the family Orchidaceae. C. goeringii cultivars originated from plants with rare phenotypes in wild mountains where pine trees commonly grow. This study aimed to determine the cultivar-specific combined genotypes (CGs) of short sequence repeats (SSRs) by analyzing multiple samples per cultivar of C. goeringii. In this study, we collected more than 4000 samples from 67 cultivars and determined the genotypes of 12 SSRs. Based on the most frequent combined genotypes (CG1s), the average observed allele number and combined matching probability were 11.8 per marker and 3.118 × 10−11, respectively. Frequencies of the CG1 in 50 cultivars (n ≥ 10) ranged from 40.9% to 100.0%, with an average of 70.1%. Assuming that individuals with the CG1 are genuine in the corresponding cultivars, approximately 30% of C. goeringii on the farms and markets may be not genuine. The dendrogram of the phylogenetic tree and principal coordinate analysis largely divided the cultivars into three groups according to their countries of origin; however, the genetic distances were not great among the cultivars. In conclusion, this dataset of C. goeringii cultivar-specific SSR profiles could be used for ecogenetic studies and forensic authentication. This study suggests that genetic authentication should be introduced for the sale of expensive C. goeringii cultivars. We believe that this study will help establish a genetic method for the forensic authentication of C. goeringii cultivars.

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Microsatellite Dataset for Cultivar Discrimination in Spring Orchid (Cymbidium goeringii)

Nam¹,

Jiang²,

Kim³

et al. 2023

Preprint

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Cymbidium goeringii, locally known as the spring orchid in Korea, is one of the most important and popular horticultural species in the family Orchidaceae. C. goeringii cultivars were originated from plants with rare phenotypes in wild mountains where pine trees commonly grow. This study aimed to determine the cultivar-specific combined genotypes (CGs) of short sequence repeats (SSRs) by analyzing multiple samples per cultivar of C. goeringii. In this study, we collected more than 4,000 samples from 67 cultivars and determined the genotypes of 12 SSRs. Based on the most frequent combined genotypes (CG1s), the average observed allele number and combined matching probability were 11.8 per marker and 3.118×10-11, respectively. Frequencies of the CG1 in 50 cultivars (n ≥ 10) ranged from 40.9% to 100.0%, with an average of 70.1%. Assuming that individuals with the CG1 are genuine in the corresponding cultivars, approximately 30% of C. goeringii on the farms and markets may be not genuine. The dendrogram of the phylogenetic tree and principal coordinate analysis largely divided the cultivars into three groups according to their countries of origin; however, the genetic distances were not distant among the cultivars. In conclusion, this dataset of C. goeringii cultivar-specific SSR profiles could be used for ecogenetic studies and forensic authentication. This study suggests that genetic authentication should be introduced for the sale of expensive C. goeringii cultivars. We believe that this study will help establish a genetic method for the forensic authentication of C. goeringii cultivars.

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Development of Microsatellite Markers for Cypripedium tibeticum (Orchidaceae) and their Applicability to Two Related Species

Cited by 3 publications

References 12 publications

Genetic diversity, population genetic structure and gene flow in the rare and endangered wild plant Cypripedium macranthos revealed by genotyping-by-sequencing

Genetic diversity, population genetic structure and gene flow in the rare and endangered wild plant Cypripedium macranthos revealed by genotyping-by-sequencing

Microsatellite Dataset for Cultivar Discrimination in Spring Orchid (Cymbidium goeringii)

Microsatellite Dataset for Cultivar Discrimination in Spring Orchid (Cymbidium goeringii)

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