Differentiation of Sugar Beet Varieties Using SSR Markers: A Tool to Create Promising Hybrids

Nalbandyan, A. A.; Hussein, A. S.; Fedulova, T. P.; Черепухина, И.В.; Kryukova, T. I.; Rudenko, T. S.; Mikheeva, N. R.; Moiseenko, Alena

doi:10.3103/s1068367420050146

Cited by 3 publications

(5 citation statements)

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“…Black pepper has immense economic importance world-wide, yet no study till date provides physical localization of black pepper SSRs on 26 chromosomes. Present finding in the form of genomic resources can be used in rapid genetic dissection of complex traits including identification of QTLs for various desired traits, resistance to biotic and abiotic stress, genetic enhancement, and varietal development (Guzmán et al, 2020 ; Nalbandyan et al, 2020 ; Younis et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

“…This work clearly demonstrates that ddRAD data are still advantageous in terms of not only rapidity and computational ease but also per unit cost of polymorphic SSR marker discovery which is economical than the whole-genome sequencing. Present finding in the form of genomic resources can be used in rapid genetic dissection of complex traits including identification of QTLs for various desired traits, resistance to biotic and abiotic stress, genetic enhancement, and varietal development (Guzmán et al, 2020 ; Nalbandyan et al, 2020 ; Younis et al, 2020 ).…”

Section: Discussionmentioning

confidence: 99%

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Rapid Genome-Wide Location-Specific Polymorphic SSR Marker Discovery in Black Pepper by GBS Approach

et al. 2022

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Black pepper (Piper nigrum), the “King of Spices,” is an economically important spice in India and is known for its medicinal and cultural values. SSRs, the tandem repeats of small DNA sequences, are often polymorphic in nature with diverse applications. For population structure, QTL/gene discovery, MAS, and diversity analysis, it is imperative to have their location specificity. The existing PinigSSRdb catalogs ~70K putative SSR markers but these are anonymous (unknown chromosomal location), based on 916 scaffolds rather than 26 chromosomes. Under this study, we generated ddRAD sequence data of 29 black pepper genotypes from all over India, being low-cost and most efficient technique for the identification of polymorphic markers. The major limitation of ddRAD with compromised/non-uniform coverage has been successfully overcome by taking advantage of chromosome-wise data availability. The latest black pepper genome assembly was used to extract genome-wide SSRs. A total of 276,230 genomic SSRs were mined distributed over 26 chromosomes, with relative density of 362.88 SSRs/Mb and average distance of 2.76 Kb between two SSRs. This assembly was also used to find the polymorphic SSRs in the generated GBS data of 29 black pepper genotypes utilizing rapid and cost-effective method giving 3,176 polymorphic SSRs, out of which 2015 were found to be hypervariable. The developed web-genomic resource, BlackP2MSATdb (http://webtom.cabgrid.res.in/blackp2msatdb/), is the largest and first reported web resource for genomic and polymorphic SSRs of black pepper, which is useful to develop varietal signature, coreset, physical map, QTL/gene identification, and MAS in endeavor of black pepper production.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Rapid Genome-Wide Location-Specific Polymorphic SSR Marker Discovery in Black Pepper by GBS Approach

et al. 2022

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“…Молекулярное типирование образцов сахарной свеклы со специфическими праймерами на локусы устойчивости к фузариозу способствовало отбору ценных источников устойчивости к данному заболеванию [55]. Для создания перспективных гибридов осуществлена дифференциация и кластеризация сортообразцов по микросателлитным маркерам, позволившая подобрать наиболее ценные родительские формы для гибридизации [56]. Изучение однонуклеотидных замен (SNPs) в гене устойчивости к галловым нематодам способствовало выделению устойчивых генотипов к данному вредителю [57].…”

Section: анализ устойчивости к абиотическим факторамunclassified

Perspective strategy of using molecular markers in breeding of Beta vulgaris L. (review)

Fedulova¹,

Husseyn²,

Nalbandyan³

2023

Agrarian Bulletin of The

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Abstract. Aim of the investigations is to study, summarize and analyze domestic and foreign literature concerning interaction of molecular genetics and classical sugar beet breeding for improvement of resistance to biotic and abiotic stresses. The problems are: 1) to analyze a current state of molecular-genetic investigations in domestic and foreign literature; 2) to study problems of marker-oriented breeding; 3) to estimate development prospects of sugar beet molecular research in Russian Federation. Methods. Analytical methods to inspect and handle information from international databases (PubMed, NCBI, and Academy Google) have been used to study modern strategy of molecular-genetic marking. Results. Use of DNA-technologies is an important part of modern breeding of agricultural crops. There have been discussed the research data permitting to get a more comprehensive idea of current state of sugar beet molecular genetics and breeding that is necessary to work out programs of their further development. There have been presented the results of foreign authors’ experiments and our own investigations on determining DNA-markers to study genetical polymorphism of sugar beet breeding material, select parent pairs for hybridization, identify genes of resistance to bolting, select breeding material with genes of resistance to biotic (Fusarium spp., nematodes, rhizomania) and abiotic stressors (salinization, drought, heavy metals). Now, wide-scale studies on using molecular-genetic markers in sugar beet breeding process have been carried out by Federal State Budgetary Scientific Institution “The A.L. Mazlumov All-Russian Research Institute of Sugar Beet and Sugar”. Use of molecular markers is one of the basic methods in plant breeding because of their general allocation throughout a genome and practical universality of application. In the article, advisability to use actual methods of sugar beet genome analysis employing DNA-markers in breeding process is considered. Scientific novelty involves estimation of the current state of Beta vulgaris L. molecular-genetic investigations in Russian Federation and abroad and their use in the crop breeding process.

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“…With the help of molecular markers, it was possible to reduce the complexity of determining suitable parental lines for crossing (McGrath, 2010;Abbasi et al, 2014;Shilov et al, 2020). The use of molecular marker technology makes it possible to shorten the breeding process and make a reliable assessment of the authenticity of the source lines, their genetic distance, and homogeneity (Bogacheva et al, 2019;Nalbandyan et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

“…Since these microsatellite markers were evenly distributed in the plant genome and characterized by a specific location on the chromosomes, high variability, accuracy in reproducing results, and a co-dominant type of inheritance, making it possible to detect the homozygous and heterozygous state of the loci (Nachimuthu et al, 2015). This method has previously shown successful use both for studying the genetic diversity of sugar beet and related species and marking the loci associated with economically valuable traits (Li et al, 2010;Taški-Ajduković et al, 2017;Nalbandyan et al, 2020). The latest research aims to assess the genetic diversity and alignment of sugar beet (Beta vulgaris L.) lines used as components of hybrids by simple sequence repeat (SSR) analysis.…”

Section: Introductionmentioning

confidence: 99%

Assessment of the Genetic Diversity in Sugar Beet (Beta Vulgaris L.) Using SSR Markers

AMANGELDIYEVA,

DANIYAROVA,

TABYNBAYEVA

et al. 2023

SABRAOJBG

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The genetic diversity and homogeneity of sugar beet (Beta vulgaris L.) source lines underwent analysis to select the promising parental pairs for hybridization. The 420 individual plants from 21 sugar beet lines served as research materials. A result of the study of polymorphism with nine SSR markers obtained 22 alleles, with an average of 2.4 alleles per marker. The Bvv155 marker emerged as the most useful for detecting the genetic diversity of sugar beet lines and predicting heterosis. Identifying the FDSB1002, FDSB1007, and FDSB957 markers as polymorphic determined the intra-linear heterogeneity of the source material. The analysis of molecular variance showed that in the studied sugar beet samples, the highest variation was prominent among the populations (48%), while heterogeneity within the population was 21%. The genetic distances between pollinator lines and lines with cytoplasmic male sterility ranged by 1.4–3.5 (Euclidean distances) and 0.12–1.0 (Nei’s distances). Distinguishing seven parent pairs of sugar beet attained endorsement for crosses having Nei’s genetic distance of D = 0.81 will create highly productive hybrids. The presented results may play a vital role in developing heterotic hybrids in sugar beet through a practical breeding program.

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Differentiation of Sugar Beet Varieties Using SSR Markers: A Tool to Create Promising Hybrids

Cited by 3 publications

References 14 publications

Rapid Genome-Wide Location-Specific Polymorphic SSR Marker Discovery in Black Pepper by GBS Approach

Rapid Genome-Wide Location-Specific Polymorphic SSR Marker Discovery in Black Pepper by GBS Approach

Perspective strategy of using molecular markers in breeding of Beta vulgaris L. (review)

Assessment of the Genetic Diversity in Sugar Beet (Beta Vulgaris L.) Using SSR Markers

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