Applicability of SCoT markers for detection of variations in Fusarium yellows resistant lines of ginger (Zingiber officinale Rosc.) induced through gamma irradiations

Sharma, Vishal; Thakur, Manisha

doi:10.1016/j.sajb.2021.01.021

Cited by 17 publications

(3 citation statements)

References 24 publications

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“…The PIC corresponds to its ability to detect polymorphisms among the individuals in a population [23]. The maximum PIC value for dominant markers is 0.5 [24][25][26][27][28][29]. Our results from the dominant SCoT markers showed a mean PIC = 0.3.…”

Section: Efficiency Of Scot and Indel Markers For Genetic Diversity A...mentioning

confidence: 56%

InDel and SCoT Markers for Genetic Diversity Analysis in a Citrus Collection from the Western Caucasus

Kulyan

Самарина

Shkhalakhova

et al. 2023

IJMS

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Citrus collections from extreme growing regions can be an important source of tolerant germplasms for the breeding of cold-tolerant varieties. However, the efficient utilization of these germplasms requires their genetic background information. Thus, efficient marker systems are necessary for the characterization and identification of valuable accessions. In this study, the efficiency of 36 SCoT markers and 60 InDel markers were evaluated as part of the broad citrus collection of the Western Caucasus. The interspecific and intraspecific genetic diversity and genetic structures were analyzed for 172 accessions, including 31 species and sets of the locally derived cultivars. Single markers, such as SCoT18 (0.84), SCoT20 (0.93), SCoT23 (0.87), SCoT31 (0.88), SCoT36 (0.87) и LG 1-4 (0.94), LG 4-3 (0.86), LG 7-11 (0.98), and LG 8-10 (0.83), showed a high discriminating power, indicating the good applicability of these markers to assess intraspecific diversity of the genus Citrus. Overall, SCoT markers showed a higher level of polymorphism than InDel markers. According to analysis of population structure, SCoT and InDel markers showed K = 9 and K = 5 genetic clusters, respectively. The lowest levels of genetic admixtures and diversity were observed among the locally derived satsumas and lemons. The highest level of genetic admixtures was observed in the lime group. Phylogenetic relationships indicated a high level of interspecific genetic diversity but a low level of intraspecific diversity in locally derived satsumas and lemons. The results provide new insight into the origin of citrus germplasms and their distribution in colder regions. Furthermore, they are important for implementing conservation measures, controlling genetic erosion, developing breeding strategies, and improving breeding efficiency.

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Section: Efficiency Of Scot and Indel Markers For Genetic Diversity A...mentioning

confidence: 56%

InDel and SCoT Markers for Genetic Diversity Analysis in a Citrus Collection from the Western Caucasus

Kulyan

Самарина

Shkhalakhova

et al. 2023

IJMS

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“…The results of Catharanthus roseus L. seed irradiated with gamma rays induced significant variations through the appearance of polymorphic and unique bands in most treatments of both cultivars (El-Shaer and Ibrahim, 2021). The past results also established the marker's ability to reveal variations induced by gamma rays in ginger (Sharma and Thakur, 2021), Atropa belladonna (El-Shaer and Ibrahim, 2021), grape (Yue et al, 2019), and tomato (El-Fiki et al, 2021).…”

Section: Resultsmentioning

confidence: 81%

Physical and Chemical Mutagenesis in Catharanthus Roseus Plant Using Scot Markers

AL-HAIDARI¹,

AL-TAMIMI²

2023

SABRAOJBG

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The current study comprising molecular identification of the mutagenic effects of gamma rays and sodium azide on Catharanthus roseus using scot markers took place at the Department of Biology, University of Kufa, Iraq. The seeds of two cultivars, i.e., ‘victory carmine’ and a local variety (pink variety) of Catharanthus roseus L (carmine var.) received irradiation with two doses of gamma rays (50 Gray and 75 Gray). Afterward, these got soaked in sodium azide with four concentrations (0.2%, 0.4%, 0.6%, and 0.8%) to induce the genetic variation in the cultivar. The non-treated seeds served as control treatments for comparison with treated ones. Accomplishing irradiation was at an average of 18 Gy/h using Cobalt-60. The effects of gamma rays and sodium azide treatments’ evaluation were through 10 start codon targeted (SCoT) DNA markers. The higher number of distinctive fingerprints was three produced by primers SCoT-26, while primer SCoT-60 provided a distinct fingerprint for only one treatment. However, primer SCoT-40 failed to recognize any treatment with a distinctive fingerprint. The highest molecular size (2488 bp) came from primer SCoT-54, whereas the lower molecular size (143 bp) resulted in primer SCoT-12. Primer SCoT-33 provided the highest value for chief and unique bands, reaching 33 and 18, respectively. The highest number of amplified bands was 77 bands in primer SCoT-54. Primer SCoT-60 produced the highest value for monomorphic bands, primer SCoT-12 gave the highest value for polymorphic bands, polymorphism, and discriminatory (15, 68.18, and 20.83, respectively), and primer SCoT-9 produced the highest value for efficiency.

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“…Polymorphism information content (PIC) corresponds to its ability to detect the polymorphism among individuals of a population [ 26 , 27 ]. The PIC maximal value for dominant markers is 0.5 [ 26 , 28 , 29 , 30 , 31 , 32 , 33 , 34 ]; that is what we obtain as output from the online tool [ 35 ]. On the other hand, some studies reported a PIC value for dominant markers higher than 0.5 [ 36 , 37 , 38 , 39 ].…”

Section: Discussionmentioning

confidence: 99%

Transferability of ISSR, SCoT and SSR Markers for Chrysanthemum × Morifolium Ramat and Genetic Relationships Among Commercial Russian Cultivars

Самарина

Malyarovskaya

Reim

et al. 2021

Plants

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Characterization of genetic diversity in germplasm collections requires an efficient set of molecular markers. We assessed the efficiency of 36 new SCoT markers, 10 new ISSR markers, and 5 microsatellites for the characterization of genetic diversity in chrysanthemum core collection of 95 accessions (Russian and foreign cultivars). Seven new SCoT (SCoT12, 20, 21, 23, 29, 31, 34) and six new ISSR markers ((GA)8T, (CT)8G, (CTTCA)3, (GGAGA)3, (TC)8C, (CT)8TG) were efficient for the genetic diversity analysis in Chrysanthemum × morifolium collection. After STRUCTURE analysis, most Russian cultivars showed 20–50% of genetic admixtures of the foreign cultivars. Neighbor joining analysis based on the combination of SSR, ISSR, and SCoT data showed the best accordance with phenotype and origin compared to the separate analysis by each marker type. The position of the accessions within the phylogenetic tree corresponded with the origin and with some important traits, namely, plant height, stem and peduncle thickness, inflorescence type, composite flower and floret types, flower color, and disc color. In addition, several SCoT markers were suitable to separate the groups distinctly by the phenotypical traits such as plant height (SCoT29, SCoT34), thickness of the stem and peduncle (SCoT31, SCoT34), and leaf size and the floret type (SCoT31). These results provide new findings for the selection of markers associated with important traits in Chrysanthemum for trait-oriented breeding and germplasm characterization.

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Applicability of SCoT markers for detection of variations in Fusarium yellows resistant lines of ginger (Zingiber officinale Rosc.) induced through gamma irradiations

Cited by 17 publications

References 24 publications

InDel and SCoT Markers for Genetic Diversity Analysis in a Citrus Collection from the Western Caucasus

InDel and SCoT Markers for Genetic Diversity Analysis in a Citrus Collection from the Western Caucasus

Physical and Chemical Mutagenesis in Catharanthus Roseus Plant Using Scot Markers

Transferability of ISSR, SCoT and SSR Markers for Chrysanthemum × Morifolium Ramat and Genetic Relationships Among Commercial Russian Cultivars

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