Application of different molecular markers in biotechnology

Kocaman, Berna; Toy, Sevim; Marakli, Sevgi

doi:10.38058/ijsl.770081

Cited by 4 publications

(2 citation statements)

References 71 publications

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“…Microsatellites are polymerase chain reaction (PCR) based genetic markers based on the detection of differences in the number of repeats in the intra-gene and/or inter-gene regions under investigation. To determine the microsatellite polymorphism, it is amplified by PCR using primers complementary to the flanking regions of the repetitive region or locus studied, and the obtained fragments are analyzed electrophoretically (Bandelj et al, 2004;Varshney et al, 2005;Vieira et al, 2016;Kocaman et al, 2020).…”

Section: Microsatellite (Simple Sequence Repeat Ssr) Markersmentioning

confidence: 99%

Microsatellite Markers: The Efficient Method for the Determination of Pollen Contamination in Conifer Seed Orchards

Bilgen,

Kaya

2023

IJIAAR

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Seed orchards are specialized forest plantations of genetically superior candidate parents selected to produce genetically superior seeds and/or seedlings. Pollen contamination is one of the most important factors affecting the yield, adaptation, and genetic quality of seeds produced from seed orchards in forest tree breeding programs. Potential pollen from forests surrounding the seed orchard is a major concern in tree breeding because it contributes to the loss in genetic gains expected from seed orchard crops.Microsatellite markers are among the most effective markers that are frequently used for creating genetic maps of many species, determining genetic diversity, identifying genetic diseases, population genetic studies, linkage analysis, fingerprint analysis, genotyping, and parental identification. In this study, a bibliometric analysis was performed to quantitatively and qualitatively evaluate the articles published in the last 25 years on seed orchards and pollen contamination. Searching the Web of Science (WOS) with the criteria of "forest trees" and "seed orchards" revealed that 820 articles were published in the last 25 years. It is seen that 77 of these articles are related to pollen contamination. Canada, China, Japan, Sweden, and the USA have been the top contributors to research on pollen contamination in seed orchards of forest trees in the last 25 years, respectively. According to the data obtained, it has been shown that the genetic contamination level of forest tree species in seed orchards is generally between 5% and 90%. It has been determined that microsatellite markers are more widely used in recent years to determine the degree of pollen migration and genetic contamination. It was concluded that studies on pollen contamination were carried out in only two Turkish red pine orchards in Türkiye, which has a total of 189 seed orchards, the majority of which belong to conifers, and that similar studies should be planned in other seed orchards.

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Section: Microsatellite (Simple Sequence Repeat Ssr) Markersmentioning

confidence: 99%

Microsatellite Markers: The Efficient Method for the Determination of Pollen Contamination in Conifer Seed Orchards

Bilgen,

Kaya

2023

IJIAAR

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“…Simple Sequence Repeats (SSRs) as codominant DNA markers are widely distributed throughout eukaryotic genomes (Vieira et al, 2016;Bagshaw, 2017). They are widely preferred in plant genetic diversity, genetic characterization, or molecular phylogeny studies because of having advantageous characteristics like being highly informative, multi-allelic nature, high polymorphism level, reproducibility, and transferable between closely related species due to conserved flanking regions (Vieira et al, 2016;Kocaman et al, 2020). The aims of this study were to assess the genetic structure and diversity of seven O. cumana populations via eight SSR markers and to compare our results with SSR analysis of O. cumana populations from different countries.…”

Section: Introductionmentioning

confidence: 99%

Assessment of the Genetic Structure and Diversity of Orobanche cumana populations from Turkey Using Simple Sequence Repeat Markers

Arı¹,

Demirbaş²,

Bilgen³

2022

IJIAAR

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Orobanche cumana Wallr. known as sunflower broomrape is a holoparasitic plant that causes huge yield losses in sunflower (Helianthus annuus L.) fields. Genetic characterization, genetic diversity, and race determination studies in O. cumana are very significant for preventing threats in sunflower fields. In this study, the broomrape populations sampled from Edirne, Kırklareli, Tekirdağ, and Adana provinces were used for genetic characterization. The sensitive Özdemirbey sunflower variety was used for growing O. cumana individuals. Eight simple sequence repeat (SSR) loci (Ocum52, Ocum70, Ocum81, Ocum87, Ocum108, Ocum141, Ocum160, and Ocum196) were used for the evaluation of genetic characterization and diversity of broomrape populations. All studied SSR loci were found to be polymorphic and yielded a total of 22 alleles in 143 samples analyzed. Na = 2.089 (mean number of alleles per locus), Ne = 1.390 (mean effective alleles), I = 0.392 (mean Shannon's information index), Ho = 0.156 (mean observed heterozygosity), He = 0.239 (mean expected heterozygosity), and PIC = 0.228 (mean polymorphic information content) were calculated to assess genetic diversity of O. cumana populations.. As a result of molecular variance analysis, it was concluded that found that the genetic diversity of the populations was 38% among the population. The remaining 23% and 39% were due to among individuals and within individuals, respectively. The UPGMA method and STRUCTURE analysis divided the studied populations into 2 groups. Cluster I included LK2013, HT2016, T2018, and LE2013 populations, while group 2 included AE2003, AD2018, and MT2013 populations. The results we obtained have enabled us to reach important genetic diversity information about O. cumana, and the information obtained will provide important contributions for planned studies in the future.

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An empirical analysis of mtSSRs: could microsatellite distribution patterns explain the evolution of mitogenomes in plants?

Freitas

Busanello

Viana

et al. 2021

Funct Integr Genomics

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Application of different molecular markers in biotechnology

Cited by 4 publications

References 71 publications

Microsatellite Markers: The Efficient Method for the Determination of Pollen Contamination in Conifer Seed Orchards

Microsatellite Markers: The Efficient Method for the Determination of Pollen Contamination in Conifer Seed Orchards

Assessment of the Genetic Structure and Diversity of Orobanche cumana populations from Turkey Using Simple Sequence Repeat Markers

An empirical analysis of mtSSRs: could microsatellite distribution patterns explain the evolution of mitogenomes in plants?

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