Genetic diversity analysis of greater yam (Dioscorea alata L.) genotypes through RAPD and ISSR markers

Rao, G. Koteswara; Kapadia, Chintan; Patel, N. B.; Desai, K. R.; Murthy, PN Narasimha

doi:10.1016/j.bcab.2020.101495

Cited by 15 publications

(12 citation statements)

References 20 publications

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“…Therefore, these three markers provide more detail and diverse information about genetic diversity among and within the Iranian Ae. triuncialis accessions [ 50 ]. Mismatching results among the dendrograms being generated by different markers in different plants were indicated, such as in snake melon [ 51 ], sponge gourd [ 52 ], and bamboos [ 53 ].…”

Section: Discussionmentioning

confidence: 99%

Assessment of genetic diversity among Iranian Aegilops triuncialis accessions using ISSR, SCoT, and CBDP markers

Khodaee

Azizinezhad

Etminan

et al. 2021

Journal of Genetic Engineering and Biotechnology

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Background Crop wild relatives (CWRs) are commonly used as a suitable genetic reservoir for plant breeding. They can be used for enhancing the tolerance of plant varieties to biotic and abiotic stresses. Studying the genetic diversity of related wheat species in Iran could be useful to improve different traits of bread wheat, since the country is one of the major centers of genetic diversity and distribution of Aegilops species. Therefore, the aim of the present study was to determine the relationship among 48 Aegilops triuncialis accessions using three DNA marker systems, including start codon targeted (SCoT), CAAT box-derived polymorphism (CBDP), and inter-simple sequence repeat (ISSR) markers. Results A total of 359 amplified DNA fragments were generated using 13 CBDP, 14 SCoT, and 16 ISSR primers that produced 96, 147, and 152 bands, respectively. The discriminating power of the three markers was assessed using polymorphism information content (PIC), marker index (MI), and resolving power (Rp). The mean values of PIC for ISSR, SCoT, and CBDP markers were 0.3, 0.26, and 0.34, respectively, indicating the efficiency of the three markers in detecting polymorphism among the studied accessions. ISSR markers had the highest values of MI, Rp, and polymorphism percentage as compared to SCoT and CBDP markers. Based on the Shannon index and heterozygosity values, genetic diversity in the Alborz population was more than in other populations. The accessions were classified into six, five, and five groups based on ISSR, SCoT, and CBDP using the UPGMA method. According to the results of cluster and PCoA analyses, the variation patterns corresponded with the geographical distribution of the Ae. triuncialis accessions. Conclusions The three markers provided a comprehensive pattern of the genetic diversity among the Iranian Ae. triuncialis accessions. This information could allow for a future insight into wheat breeding programs.

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Section: Discussionmentioning

confidence: 99%

Assessment of genetic diversity among Iranian Aegilops triuncialis accessions using ISSR, SCoT, and CBDP markers

Khodaee

Azizinezhad

Etminan

et al. 2021

Journal of Genetic Engineering and Biotechnology

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“…The RAPD method has been extensively utilised in research on wild plants (Brakea et al, 2014;Rao et al, 2020;Sirijan et al, 2020). According to the observations, a high genetic distance was noted between Zaghenia and Zinni genotypes and a low genetic distance between Kaisy and Baia, with high similarity.…”

Section: Discussionmentioning

confidence: 99%

Determination of Genetic Diversity Based on RAPD molecular Marker and ParARF3 Gene Expressions in some Apricot Genotypes in Iraq

AL-Janabi

Alhasnawi

2021

Basrah J. Agric. Sci.

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Employing DNA markers allowed determining genetic diversity and relationships amongst five apricot genotypes. In this study, two relative gene expressions pertaining to ParARF3 gene, which could be distinguished from the genotypes that were exposed to various concentrations of marine alga treatments. As per our results, screening of seven primers with the DNA of 5 apricot genotypes was done, and six primers were generated while the primer OPN–16 gave negative results. The total quantity of fragments generated by 6 primers was 80 at an average of 13.33 fragments ̸primer. The highest unique percentage band depicted in U-17 touched 23%, and the total number of polymorphic bands touched 17 fragments with the average reaching 2.83 fragments ̸primer. The number of monomorphic lied in the range of 5 to 10, with a total of 47 monomorphic. Primer M 32 yielded the highest number of monomorphic bands reaching 10. Between Zaghenia and Zinni, a maximum genetic distance value of 0.8 was reached with less similarity value of 20%. A minimum genetic distance value of 0.44721 was noted between Kaisy and Baia while the high similarity value touched 55.3%. According to the cluster tree analysis, the genotypes were generally split into two key groups: A and B. The Zinni group, which included one apricot genotype, showed genetic similarity of 20% with the other genotypes present in B group. The B group was split into two sub-clusters B1 and B2 and the genetic similarity reached 44%. The ParARF3 relative gene expression pertaining to Zinni genotypes was second as well as convergent with that of gene expression for Zaghenia genotype results. Baia and Kaisy genotypes lied in between the lowest and highest ParARF3 value gene expression exposed to Marine Alga. These outcomes showed that RAPD markers offer an effectual alternative for the plant species genetic characterisation.

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“…Due to the lack of the genomic DNA sequence information for yam, researchers used AFLP (Xu et al, 2014), RAPD (Zannou et al, 2009), ISSR (Rao et al, 2020) and SRAP (Wu et al, 2014) to estimate the genetic relationships of interspeci c and intraspeci c yams. However, more convenient, transportable, widespread, co-dominant and polymorphic markers, such as SSR, need to be developed to identify candidate genes and germplasm with high genetic diversity (Narina et al, 2012).…”

Section: Discussionmentioning

confidence: 99%

Characterizing Diversity Based on Phenotypes and Molecular Marker Analyses of Purple Yam (Dioscorea Alata) Germplasm in Southern China

Chen

Sun

Zhu

et al. 2021

Preprint

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Purple yam (Dioscorea alata L.), which is widely distributed in southern China, is characterized by great purple to red flesh or skin, as well as nutritional and medical values. However, their intraspecific genetic diversity remains unknown, which inhibits the germplasm innovation and variety protection of purple yams. In this study, genetic diversity of 26 landraces from southern China were carried out by using 17 morphological traits and 9 simple sequence repeat (SSR) markers, respectively. Results of phenotypic traits showed that all the accessions were divided into four groups at the euclidean distance of 1.43, and there is high correlation between the taxa and the regional distribution of yam accessions. The group IV includes the most accessions mainly from Jiangxi province, followed by group III, which contained accessions mostly from Fujian province. In addition, the leaf shape, leaf vein color and tuber flesh color, displayed higher Shannon's diversity index (I) and variation coefficient, which could identify the purple yam resources effectively. Based on the SSR markers analysis, the euclidean distance among all germplasms ranged from 0.17 to 0.79, and the 26 landraces were also clearly separated into four clusters at the euclidean distance of 0.49. Clustering results based on SSR markers and phenotypic traits were consistent roughly. Furthermore, population structure revealed the existence of three sub-populations in all accessions. These results demonstrate the genetic diversity and distinctness among the purple yam from southern China and provide a theoretical basis for the identification and utilization of purple yams.

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Genetic diversity analysis of greater yam (Dioscorea alata L.) genotypes through RAPD and ISSR markers

Cited by 15 publications

References 20 publications

Assessment of genetic diversity among Iranian Aegilops triuncialis accessions using ISSR, SCoT, and CBDP markers

Assessment of genetic diversity among Iranian Aegilops triuncialis accessions using ISSR, SCoT, and CBDP markers

Determination of Genetic Diversity Based on RAPD molecular Marker and ParARF3 Gene Expressions in some Apricot Genotypes in Iraq

Characterizing Diversity Based on Phenotypes and Molecular Marker Analyses of Purple Yam (Dioscorea Alata) Germplasm in Southern China

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