Association analysis, genetic diversity and population structure of barley (Hordeum vulgare L.) under heat stress conditions using SSR and ISSR markers linked to primary and secondary metabolites

Ghomi, Khadijeh; Rabiei, Babak; Sabouri, Hossein; Alamdari, Ebrahim Gholamalipour

doi:10.1007/s11033-021-06652-y

Cited by 9 publications

(7 citation statements)

References 48 publications

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“…According to a different study on 120 barley genotypes that were identified with 26 inter simple sequence repeat (ISSR) markers under heat stress and non-stress settings, in the present study, the ISSR technique revealed a high degree of variability among the various barley cultivars. Results ISSR markers were found to be more informative in genetic diversity studies and to have greater polymorphism percentages than SCoT markers in 85 polymorphic alleles (Kumar and Agrawal ,2019 ;Ghomi et al, 2021).…”

Section: Discussionmentioning

confidence: 93%

The efficiency of SCoT, ISSR, and SRAP markers for detecting genetic polymorphism among Egyptian barley genotypes

O.Abaza¹,

Yousief²,

Moghaieb³

2022

Journal of Pharmaceutical Negative Results

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The results of the present study support the idea that, the tested Egyptian barley cultivars could make a useful case study for genetic diversity research. When those cultivars were examined using three distinct markers (codon targeted (SCoT), sequence-related amplified polymorphism (SRAP) and inter-simple sequence repeats (ISSR)). According to SRAP, ISSR, and SCoT analyses, respectively 85, 76, and 66 polymorphism percentages among the seven tested barley cultivars were detected. The genotype specific markers for each genotype used were determined. The data revealed that Giza127 had the highest number of unique markers, showing six specific SCoT markers, three specific SRAP markers, and one specific ISSR marker. The genetic relationships between the seven Egyptian barley cultivars are explained by the phylogenetic tree built using information gathered from various molecular markers. These gene-based molecular markers demonstrated the reliability of SCoT, ISSR, and SRAP molecular markers for identifying DNA polymorphism levels and genetic relationships in barley.

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Section: Discussionmentioning

confidence: 93%

The efficiency of SCoT, ISSR, and SRAP markers for detecting genetic polymorphism among Egyptian barley genotypes

O.Abaza¹,

Yousief²,

Moghaieb³

2022

Journal of Pharmaceutical Negative Results

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“…An UPGMA clustering map showed that the genetic distance between Akeqi and Ohsalur populations was the shortest, although the spatial distance between the two sites was the greatest. Previous studies showed that the genetic distance between populations was proportional to the spatial distance between them [34,36,39]; however, inconsistencies also existed in this relationship [35,40]. The Akeqi and Ohsalur populations are spatially remote but genetically close; thus, the two populations are genetically similar, possibly owing to genetically similar ancestors.…”

Section: Discussionmentioning

confidence: 98%

“…The genetic diversity of plant populations is determined by many factors, such as habitat type, reproductive mode, genetic mutation, genetic drift, and gene flow [33]. The percentage of polymorphic loci (P), Nei's gene diversity index (H), and Shannon's information index (I) are usually used for describing the genetic diversity level of a population or a species [26,[34][35][36].…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity and Population Differentiation of a Chinese Endangered Plant Ammopiptanthus nanus (M. Pop.) Cheng f.

et al. 2023

Genes

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Ammopiptanthus nanus (M. Pop.) Cheng f. is a very important resource plant that integrates soil and water conservation, afforestation of barren mountains, and ornamental, medicinal, and scientific research functions and is also a critically endangered plant in China, remaining in only six small fragmented populations in the wild. These populations have been suffering from severe anthropomorphic disturbances, causing further losses in genetic diversity. However, its genetic diversity level and genetic differentiation degree among the fragmented populations are still unclear. Inthis study, DNA was extracted from fresh leaves from the remnant populations of A. nanus, and the inter-simple-sequence repeat (ISSR) molecular marker system was used to assess its level of genetic diversity and differentiation. The result was that its genetic diversity is low at both species and population levels, with only 51.70% and 26.84% polymorphic loci, respectively. The Akeqi population had the highest genetic diversity, whereas the Ohsalur and Xiaoerbulak populations had the lowest. There was significant genetic differentiation among the populations, and the value of the genetic differentiation coefficient (Gst) was as high as 0.73, while the gene flow value was as low as 0.19 owing to spatial fragmentation and a serious genetic exchange barrier among the populations. It is suggested that a nature reserve and germplasm banks should be established as soon as possible for elimination of the anthropomorphic disturbances, and mutual introductions between the populations and introduced patches of the species, such as with habitat corridors or stepping stones, should be performed simultaneously to improve the genetic diversity of the isolated populations for the conservation of this plant.

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“…This can be attributed to the fact that markers, such as ScoT markers, cannot unravel differences in gene function that can cause variations in metabolic profiles. Thus, the latest studies use molecular markers that unravel polymorphic alleles linked to specific secondary and primary metabolites responsible for important agronomic traits such as heat stress tolerance [ 88 ]. Moreover, a recent review tried to link SNPs with metabolic traits by integration of genetic variants in genome-scale metabolic models [ 89 ].…”

Section: Discussionmentioning

confidence: 99%

Genetic and Metabolite Variability among Commercial Varieties and Advanced Lines of Vicia faba L.

Avramidou

Sarri

Ganopoulos

et al. 2023

Plants

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Vicia faba L. (faba bean) is one of the most promising pulse crops due to its nutritional value and high nitrogen fixation capacity. The aim of the present study was to compare the genetic diversity and the seed metabolite profiles of five genetic materials of faba bean. Specifically, three newly developed advanced lines (KK18, KK14 and KK10) and two commercial cultivars (POLIKARPI and TANAGRA), were evaluated for this purpose. Genetic diversity among populations was assessed by SCoT molecular markers. Through UPGMA dendrogram, genetic distances between populations were estimated. Untargeted metabolomics analysis of the seeds was performed employing GC/EI/MS. The cultivar POLYKARPI exhibited the highest polymorphism. All varieties showed a higher within-cultivars and advanced lines variability than between. POLYKARPI and KK14 had the lowest genetic distances, while KK18 and TANAGRA presented the highest ones. The advanced line KK18 displayed the best nutritional profile, the highest concentration of desirable metabolites (lactic acid and trehalose), the lowest concentration of anti-nutritional factors (oxalic acid) and the lowest concentration of saturated fatty acids (palmitic and stearic acid). According to the results of the present study, KK18 line is a very promising material for further exploration and utilization in breeding programs.

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Association analysis, genetic diversity and population structure of barley (Hordeum vulgare L.) under heat stress conditions using SSR and ISSR markers linked to primary and secondary metabolites

Cited by 9 publications

References 48 publications

The efficiency of SCoT, ISSR, and SRAP markers for detecting genetic polymorphism among Egyptian barley genotypes

The efficiency of SCoT, ISSR, and SRAP markers for detecting genetic polymorphism among Egyptian barley genotypes

Genetic Diversity and Population Differentiation of a Chinese Endangered Plant Ammopiptanthus nanus (M. Pop.) Cheng f.

Genetic and Metabolite Variability among Commercial Varieties and Advanced Lines of Vicia faba L.

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