Identification and analysis of the genetic integrity of different types of rice resources through SSR markers

Zhou, Huiying; Li, Shuhui; Jin, Liu; Hu, Jiaxiao; Le, Si; Li, Maomao

doi:10.1038/s41598-023-29514-y

Cited by 5 publications

(1 citation statement)

References 15 publications

(16 reference statements)

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“…The diversity index (H’) was calculated using the formula: H’=∑(P i )(lnP i ) (P i is the frequency of a trait appearing at level i) [ 28 ]. ISSR markers were scored as presence (1) or absence (0) of bands [ 29 ]. To evaluate the genetic diversity, DPS 7.5 was used to calculate genetic distance, and the unweighted pair group method with arithmetic means (UPGMA) was used for cluster analysis.…”

Section: Methodsmentioning

confidence: 99%

Assessment of Genetic Diversity in Bupleurum spp. Basing Agronomic Traits, Medicinal Components and ISSR Markers

Peng¹,

Alam

Liu

et al. 2023

Genes

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Radix bupleuri is one of the bulk medicinal materials in China and it is widely adopted in clinical applications and drug discovery. The investigation of agronomic traits, active component content and genetic diversity in diverse Radix bupleuri germplasms may provide evidence to promote the selection of better strains. In this research, 13 germplasms from various sources were used to investigate the variations between different Radix bupleuri germplasms. Nine biological characteristics were noted in the field, and the levels of the two primary active ingredients were determined using high performance liquid chromatography (HPLC). Moreover, the molecular marker technique of inter-simple sequence repeat (ISSR) and the unweighted pair group method with arithmetic means (UPGMA) were employed to evaluate the molecular genetic diversity. The findings showed that there was a wide range of variation among the many varieties of Radix bupleuri, with coefficients of variation for agronomic traits and active component content ranging from 7.62% to 41.54% and 36.47% to 53.70%, respectively. Moreover, there are different degrees of relationship between the two. Since there was a significant correlation between root weight and saikosaponin content, it was possible to classify a plant based on its weight and anticipate its saikosaponin content. The 13 species were divided into four groups based on their germplasm by genetic markers-based cluster analysis. This indicated the possibility that the component content would not necessarily be related to germplasm and might easily be influenced by environmental factors. The use of ISSR marker technology made it possible to precisely identify the various Radix bupleuri provenances and its counterfeit products. There may be a way to prevent the misunderstandings caused by the appearance and composition of Chinese medicinal substances. In our study, the germplasm of Radix bupleuri that was widely circulated in the market was comprehensively evaluated in terms of agronomic traits, active components and molecular level, and identified by simple means, to provide a theoretical basis for the evaluation and screening of fine germplasms of Radix bupleuri.

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Section: Methodsmentioning

confidence: 99%

Assessment of Genetic Diversity in Bupleurum spp. Basing Agronomic Traits, Medicinal Components and ISSR Markers

Peng¹,

Alam

Liu

et al. 2023

Genes

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Population structure and genetic differentiation analyses reveal high level of diversity and allelic richness in crop wild relatives of AA genome species of rice (Oryza sativa L.) in India

Mahendran,

Yadav,

Tiwari

et al. 2023

J Appl Genetics

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With a view to explore genetic diversity in crop wild relatives of AA-genome species of rice (Oryza sativa L.) in India, we analyzed 96 accessions of 10 Oryza species for 17 quantitative traits with 45 microsatellite markers. The morpho-quantitative traits revealed high extent of phenotypic variation within and between species. Shannon-Weiner's diversity index (H′) also con rmed the presence of high level of genetic variation for both within species, in O. nivara (H′=1.09) and O. ru pogon (H′=1.12), and between species (H′=1.31). Principal component (PC) analysis explained 79.22% variance with ve PCs. Among the traits related to phenology, morphology and yield, days to heading showed strong positive association with days to 50% owering (r = 0.99). However, lled grains per panicle revealed positive association with spikelet fertility (0.71) but negative with awn length (-0.58) and panicle bearing tillers (-0.39). Cluster analysis grouped all the accessions into three major clusters. Microsatellite analysis revealed 676 alleles with mean of 15.02 alleles per locus and 0.83 mean polymorphism information content. UPGMA dendrogram separated wild rice accessions at 0.10 similarity value and delineated 96 accessions into four major clusters. Structure analysis revealed four subpopulations; rst and second subpopulations comprised only of O. nivara accessions, while third subpopulation included both O. nivara and O. ru pogon accessions. Molecular variance among the populations was 11.0%, whereas it was 70.0% among genotypes and 19.0% within genotypes. The high level of molecular and morphological variability detected in the germplasm of crop wild relatives could be utilized for genetic improvement of cultivated rice.

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Effects of electrophoresis buffer, electrophoresis time, and annealing temperature on the quality of SSR molecular detection in rice varieties

Liang,

Pan,

Zhang

et al. 2023

Cogent Food & Agriculture

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Identification and analysis of the genetic integrity of different types of rice resources through SSR markers

Cited by 5 publications

References 15 publications

Assessment of Genetic Diversity in Bupleurum spp. Basing Agronomic Traits, Medicinal Components and ISSR Markers

Assessment of Genetic Diversity in Bupleurum spp. Basing Agronomic Traits, Medicinal Components and ISSR Markers

Population structure and genetic differentiation analyses reveal high level of diversity and allelic richness in crop wild relatives of AA genome species of rice (Oryza sativa L.) in India

Effects of electrophoresis buffer, electrophoresis time, and annealing temperature on the quality of SSR molecular detection in rice varieties

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