Analysis of SSR and SNP markers

Mishra, Ankita; Singh, P. K.; Bhandawat, Abhishek; Sharma, Vinay; Sharma, Vikas; Singh, Pradeep; Roy, Joy; Sharma, Himanshu

doi:10.1016/b978-0-323-89775-4.00017-1

Cited by 5 publications

(3 citation statements)

References 81 publications

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“…This approach is very flexible when selecting a restriction enzyme to attain the desired reduction factor. As a result, RAD-Seq may sequence a small number of loci or many sites at lower or higher coverage [ 173 ]. Previous studies have clarified that RAD-Seq’s principle has been utilized in GBS [ 174 ] and double digest RADseq [ 175 ].…”

Section: Identification and Characterization Of Malaria Vectorsmentioning

confidence: 99%

Revolutionizing Malaria Vector Control: The Importance of Accurate Species Identification through Enhanced Molecular Capacity

Hadebe,

Malgwi,

Okpeku

2023

Microorganisms

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Many factors, such as the resistance to pesticides and a lack of knowledge of the morphology and molecular structure of malaria vectors, have made it more challenging to eradicate malaria in numerous malaria-endemic areas of the globe. The primary goal of this review is to discuss malaria vector control methods and the significance of identifying species in vector control initiatives. This was accomplished by reviewing methods of molecular identification of malaria vectors and genetic marker classification in relation to their use for species identification. Due to its specificity and consistency, molecular identification is preferred over morphological identification of malaria vectors. Enhanced molecular capacity for species identification will improve mosquito characterization, leading to accurate control strategies/treatment targeting specific mosquito species, and thus will contribute to malaria eradication. It is crucial for disease epidemiology and surveillance to accurately identify the Plasmodium spp. that are causing malaria in patients. The capacity for disease surveillance will be significantly increased by the development of more accurate, precise, automated, and high-throughput diagnostic techniques. In conclusion, although morphological identification is quick and achievable at a reduced cost, molecular identification is preferred for specificity and sensitivity. To achieve the targeted malaria elimination goal, proper identification of vectors using accurate techniques for effective control measures should be prioritized.

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Section: Identification and Characterization Of Malaria Vectorsmentioning

confidence: 99%

Revolutionizing Malaria Vector Control: The Importance of Accurate Species Identification through Enhanced Molecular Capacity

Hadebe,

Malgwi,

Okpeku

2023

Microorganisms

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“…Both SSRs and SNPs are ubiquitous in the genome of most crops and, therefore, potentially useful to determine the genetic structure of a population and study the evolutionary history and phylogenetic relationships of species. Nevertheless, SSRs tend to have a higher genetic variation level than SNPs [21][22][23]. SSRs are based on variations in the number of repeats in short DNA sequences, which can be highly polymorphic and may have a larger number of alleles per locus.…”

Section: Introductionmentioning

confidence: 99%

“…This variability makes SSR markers suitable for studying diverse populations, detecting fine-scale genetic differences, and characterizing genetic diversity. SSRs are generally codominant, meaning both alleles at a marker locus can be detected separately [23,24]. This allows for the precise genotyping and identification of heterozygotes.…”

Section: Introductionmentioning

confidence: 99%

Genetic Diversity Analysis of Soybean Collection Using Simple Sequence Repeat Markers

Zatybekov,

Yermagambetova,

Genievskaya

et al. 2023

Plants

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Soybean [Glycine max (L.) Merr.] is a nutrient-rich crop that offers a sustainable source of dietary protein and edible oil. Determining the level of genetic diversity and relationships between various genetic resources involved in breeding programs is very important in crop improvement strategies. This study evaluated 100 soybean accessions with diverse origins for 10 important agronomic traits, including plant height (PH), an important plant adaptation-related trait impacting yield, in conditions in southeastern Kazakhstan for 2 years. The comparison of different groups of PH (tall, middle, and short) using a t-test suggested that the group of plants with the tallest PH provided a higher yield (p < 0.001) in relatively dry field conditions. The genetic diversity of the accessions was estimated using 25 simple sequence repeat (SSR) markers previously known to be associated with plant height. The results showed a significant variation among different groups of origin for all measured agronomic traits, as well as high genetic diversity, with the PIC (polymorphism information content) varying from 0.140 to 0.732, with an average of 0.524. Nei’s diversity index ranged between 0.152 and 0.747, with an average of 0.526. The principal coordinate analysis (PCoA) of the studied soybean collection showed that Kazakhstan accessions were genetically distant from European, East Asian, and North American cultivars. Twelve out of twenty-five SSR markers demonstrated significant associations with ten studied agronomic traits, including PH (p < 0.05). Six SSRs with pleiotropic effects for studied traits were selected, and their haplotypes with phenotypic effects were generated for each soybean accession. The obtained results can be used in soybean improvement programs, including molecular-assisted breeding projects.

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