Characterization of the Genetic Diversity Present in a Diverse Sesame Landrace Collection Based on Phenotypic Traits and EST-SSR Markers Coupled With an HRM Analysis

Stavridou, Evangelia; Lagiotis, Georgios; Kalaitzidou, Parthena; Grigoriadis, Ioannis Ν.; Bosmali, Irene; Tsaliki, Eleni; Tsiotsiou, Stiliani; Kalivas, Apostolos; Ganopoulos, Ioannis; Madesis, Panagiotis

doi:10.3390/plants10040656

Cited by 13 publications

(9 citation statements)

References 54 publications

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“…Understanding the nature and degree of genetic variety in crops requires non-overlapping and complementary morphological and molecular data that are highlighted by the absence of relationship between the diversity matrices (grey lines). Several researches investigated the discrepancies between phenotypic and genotypic characteristics, such as maize ( Hartings et al., 2008 ), wheat ( Soriano et al., 2016 ), sweet sorghum ( Da Silva et al., 2017 ), kalanchoe ( Al-Khayri et al., 2022 ), sesame ( Stavridou et al., 2021 ). An entanglement rate of 0.65 was obtained among 77 passion fruit genotypes showing dissimilarities between the molecular and agronomic data ( Preisigke et al., 2020 ).…”

Section: Discussionmentioning

confidence: 99%

Characterization of Cyclamen genotypes using morphological descriptors and DNA molecular markers in a multivariate analysis

Cornea-Cipcigan

Pamfil²,

Sisea³

et al. 2023

Front. Plant Sci.

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Morphological and molecular characterization of germplasm is essential for the improvement of cultivated plants efforts. This study investigated the genetic diversity of 32 Cyclamen genotypes comprising 16 C. persicum varieties and 16 Cyclamen species using multivariate analysis for 36 morphological traits (19 quantitative and 17 qualitative) and molecular characterization (SRAP and SCoT markers). The color CIELab parameters were collected via PCE-CSM7 that separately measured the leaves dark and silvery patterns and the flower’s slip (region of the petal top), eye (the region of the petal base) and sepal. Genetic diversity was also evaluated using Shannon Wiener (H′) and Simpson’s (λ) Indices, and Pilou evenness (J) using the library vegan from R software. According to the principal component analysis, the variables that contributed the most were leaf pattern color, leaf abaxial surface color, pedicel coiling, leaf and stem number. The color indicators of Cyclamen leaves showed decreased L* values in darker colored genotypes, whereas increased a* values were noticed in flower eye and lower in slip. Molecular characterization was based on 26 SRAP and 12 SCoT markers that produced clearly repeatable DNA bands and exhibited significant levels of polymorphism. Based on the morphological traits and molecular markers data, the UPGMA method for hierarchical clustering technique was used to generate the dendrograms, and their entanglement was obtained using the Tanglegram algorithm from the dendextend package with the R software. Entanglement analysis (0.30) between dendrograms obtained from the morphological and genetic analysis using SRAP markers showed a high association. Comparison between color measurements of flowers (entanglement=0.45) and leaves (entanglement=0.47) with SCoT analysis revealed differences at species level, discriminating between similar genotypes. Combined phenotypic and molecular analysis improved the comprehensive estimation of real diversity in the investigated Cyclamen genotypes. The findings of the present study are useful for quantifying diversity and genetic variability in Cyclamen breeding and genetic investigations.

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Section: Discussionmentioning

confidence: 99%

Characterization of Cyclamen genotypes using morphological descriptors and DNA molecular markers in a multivariate analysis

Cornea-Cipcigan

Pamfil²,

Sisea³

et al. 2023

Front. Plant Sci.

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“… Tripathy et al (2019) reported more than 270 genotypes developed for different agronomic traits showing the best performance in some sesame-growing countries. Grain yield, disease resistance, drought tolerance, oil quality, coat color of seed and flower, plant height, capsule number, seed per capsule, capsule length, shattering resistance, oil content, and leaf morphology are the most important traits for sesame improvement ( Pham et al, 2011 ; Sheng et al, 2021 ; Stavridou et al, 2021 ).…”

Section: Sesame Germplasms and Diversitymentioning

confidence: 99%

“…Growth habit, plant height, leaf arrangement, leaf shape, and primary and secondary branches are the most important agronomic traits influencing sesame plant architecture ( Stavridou et al, 2021 ). Liang et al (2021) identified QTLs associated with relative root length, root length, relative shoot length, and shoot length, which contribute significantly to improving sesame architecture.…”

Section: Genes and Qtls Related To Sesame Plant Architecturementioning

confidence: 99%

“…Sesame ( Sesamum indicum L., 2 n = 26), an ancient oilseed crop that belongs to the Pedaliaceae family, is widely cultivated in Africa and Asia ( Zhang et al, 2013b ; Stavridou et al, 2021 ; Wang et al, 2021 ). Although the origin and domestication are controversial, Ethiopia ( Dagmawi et al, 2015 ; Boru, 2021 ; Teklu et al, 2021 ), India ( Bedigian and Harlan, 1986 ; Bedigian and Korosec-Koruza, 2003 ), Sudan ( Bedigian and Korosec-Koruza, 2003 ), and China ( Nayar and Mehra, 1970 ) are believed to be the sources of sesame origin and domestication.…”

Section: Introductionmentioning

confidence: 99%

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Discovering favorable genes, QTLs, and genotypes as a genetic resource for sesame (Sesamum indicum L.) improvement

Kefale

Wang²

2022

Front. Genet.

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Sesame (Sesamum indicum L.) is an ancient diploid oilseed crop with high oil content, quality protein, and antioxidant characteristics that is produced in many countries worldwide. The genes, QTLs, and genetic resources of sesame are utilized by sesame researchers and growers. Researchers have identified the many useful traits of this crop, which are available on different platforms. The genes, genotypes, QTLs, and other genetic diversity data of sesame have been collected and stored in more than nine genomic resources, and five sesame crop marker databases are available online. However, data on phenotypic and genotypic variability, which would contribute to sesame improvements, are limited and not yet accessible. The present study comprehensively reviewed more than 110 original published research papers and scientifically incorporated the results. The candidate genes, genotypes, and QTLs of significantly important traits of sesame were identified. Genetic resources related to grain yield and yield component traits, oil content and quality, drought tolerance, salt tolerance, waterlogging resistance, disease resistance, mineral nutrient, capsule shattering resistance, and other agronomic important traits of sesame were studied. Numerous candidate genotypes, genes, QTLs, and alleles associated with those traits were summarized and discovered. The chromosome regions and linkage groups, maps associated with the best traits, and candidate genes were also included. The variability presented in this paper combined with sesame genetic information will help inform further sesame improvement.

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“…As a typical bunch forage grass, previous study indicated that the variation coefficient of tiller number is the most significant among all agronomic traits, and there is a significant correlation between tiller number and aboveground biomass ( Fan Y. K. et al, 2020 ). Expressed sequence tags are fundamental for the dissection of complex traits, and for estimating molecular diversity and population structure ( Stavridou et al, 2021 ). As expressed sequence tag (EST)-SSR markers are derived from transcribed regions, they have high rates of successful amplification and associated gene annotations ( Sun et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

Lan

Gao

et al. 2022

Front. Plant Sci.

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Psathyrostachys juncea is a perennial forage grass which plays an important role in soil and water conservation and ecological maintenance in cold and dry areas of temperate regions. In P. juncea, a variety of biotic and abiotic stress related genes have been used in crop improvement, indicating its agronomic, economic, forage, and breeding value. To date, there have been few studies on the genetic structure of P. juncea. Here, the genetic diversity and population structure of P. juncea were analyzed by EST-SSR molecular markers to evaluate the genetic differentiation related to tillering traits in P. juncea germplasm resources. The results showed that 400 simple sequence repeat (SSR) loci were detected in 2,020 differentially expressed tillering related genes. A total of 344 scored bands were amplified using 103 primer pairs, out of which 308 (89.53%) were polymorphic. The Nei’s gene diversity of 480 individuals was between 0.092 and 0.449, and the genetic similarity coefficient was between 0.5008 and 0.9111, with an average of 0.6618. Analysis of molecular variance analysis showed that 93% of the variance was due to differences within the population, and the remaining 7% was due to differences among populations. Psathyrostachys juncea materials were clustered into five groups based on population genetic structure, principal coordinate analysis and unweighted pair-group method with arithmetic means (UPGMA) analysis. The results were similar between clustering methods, but a few individual plants were distributed differently by the three models. The clustering results, gene diversity and genetic similarity coefficients showed that the overall genetic relationship of P. juncea individuals was relatively close. A Mantel test, UPGMA and structural analysis also showed a significant correlation between genetic relationship and geographical distribution. These results provide references for future breeding programs, genetic improvement and core germplasm collection of P. juncea.

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Characterization of the Genetic Diversity Present in a Diverse Sesame Landrace Collection Based on Phenotypic Traits and EST-SSR Markers Coupled With an HRM Analysis

Cited by 13 publications

References 54 publications

Characterization of Cyclamen genotypes using morphological descriptors and DNA molecular markers in a multivariate analysis

Characterization of Cyclamen genotypes using morphological descriptors and DNA molecular markers in a multivariate analysis

Discovering favorable genes, QTLs, and genotypes as a genetic resource for sesame (Sesamum indicum L.) improvement

EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

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