Genetic diversity of Scots pine (Pinus sylvestris L.) populations in Serbia revealed by SSR markers

This paper presents the results of analysis of the genetic variability of seven Scots pine (Pinus sylvestris L.) populations in Serbia using SSR markers. Genomic DNA was isolated from seed tissue of all seven populations. The concentration of DNA samples was within the range of 1-4 mg/ml. Different PCR protocols were used depending on the type of SSR markers. The total number of fragments obtained by SSR analysis with 4 selected primers was 17 (only bands of strong and medium intensity were considered), of which 6 fragments were polymorphic (35.29%). In order to analyze the genetic similarity of the analyzed populations, graphs of correspondence analysis and UPGMA clusters were produced. By comparative analysis of the obtained dendrograms, the dependence of population genetic differentiation and spatial distance was observed, i.e. their isolation by natural barriers. The results indicate that in further research of interpopulation variability it is necessary, when graphically interpreting genetic distances, to use both methods of statistical analysis (UPGMA analysis and correspondence analysis).

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Application of various statistical methods to analyze genetic diversity of Austrian (Pinus nigra Arn.) and Scots pine (Pinus sylvestris L.) based on protein markers

Genetika ◽

10.2298/gensr1103477l ◽

2011 ◽

Vol 43 (3) ◽

pp. 477-486 ◽

Cited By ~ 1

Author(s):

Aleksandar Lucic ◽

Vasilije Isajev ◽

Ljubinko Rakonjac ◽

Milan Mataruga ◽

Vojka Babic ◽

...

Keyword(s):

Genetic Diversity ◽

Pinus Sylvestris ◽

Statistical Methods ◽

Scots Pine ◽

Correspondence Analysis ◽

Pinus Nigra ◽

Genetic Distances ◽

Protein Markers ◽

Observation Units ◽

Precise Understanding

This paper presents the results of studies on protein polymorphism in seeds of Scots pine (Pinus sylvestris L.) and Austrian pine (Pinus nigra Arn.) as the most important economic species of the genus Pinus in Serbia. Polymorphism of protein markers was determined in selected genotypes originating from seven populations (Scots pine) and six populations (Austrian pine). Analysis of protein markers was performed using two statistical methods, NTSYS and correspondence analysis. Both methods give the same arrangement of the analyzed populations, whereby, because of a different view of genetic distances, they can and should be combined, enabling easier and more precise understanding of mutual relationships of the observation units.

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High genetic similarity between Polish and North European Scots pine (Pinus sylvestris L.) populations at nuclear gene loci

Tree Genetics & Genomes ◽

10.1007/s11295-014-0739-8 ◽

2014 ◽

Vol 10 (4) ◽

pp. 1015-1025 ◽

Cited By ~ 6

Author(s):

Witold Wachowiak ◽

Błażej Wόjkiewicz ◽

Stephen Cavers ◽

Andrzej Lewandowski

Keyword(s):

Pinus Sylvestris ◽

Scots Pine ◽

Genetic Similarity ◽

Nuclear Gene ◽

High Genetic Similarity

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SSR markers as tools to reveal mutation events in Scots pine (Pinus sylvestris L.) from Chernobyl

European Journal of Forest Research ◽

10.1007/s10342-004-0026-6 ◽

2004 ◽

Vol 123 (3) ◽

pp. 245-248 ◽

Cited By ~ 6

Author(s):

Barbara Vornam ◽

Olexandra Kuchma ◽

Nikolay Kuchma ◽

Andrey Arkhipov ◽

Reiner Finkeldey

Keyword(s):

Pinus Sylvestris ◽

Ssr Markers ◽

Scots Pine

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Molecular Characterization and Genetic Relationships of Some Stress Tolerant Grape Rootstock Genotypes as Revealed by ISSR and SSR Markers

Plant Tissue Culture and Biotechnology ◽

10.3329/ptcb.v28i1.37200 ◽

2018 ◽

Vol 28 (1) ◽

pp. 77-90 ◽

Cited By ~ 1

Author(s):

Kalpana Motha ◽

Sanjay Kumar Singh ◽

Anand Kumar Singh ◽

Rakesh Singh ◽

Manish Srivastav ◽

...

Keyword(s):

Ssr Markers ◽

Genetic Similarity ◽

Interspecific Hybrids ◽

Genetic Relationships ◽

Similarity Coefficient ◽

Vitis Species ◽

Issr Analysis ◽

Ssr Analysis ◽

Band Size ◽

Ssr Primers

Grapevine rootstocks are a complex group of plants; most of them are interspecific hybrids evolved using parent genotypes having inherent tolerance to biotic and abiotic stresses. Fifteen species and interspecific hybrids of grape rootstocks along with three Vitis vinifera cultivars from IARI germplasm unit were analyzed with ten ISSR and seven SSR primers combinations. These ISSR produced 69 scorable bands with band size ranged from 200 to 1500 bp, PIC from 0.66 to 0.86 and primer heterozygosity ranged from 0.71 to 0.88. While, SSR primers detected a total of 24 alleles across 15 genotypes with PIC from 0.43 to 0.78 and primer heterozygosity from 0.49 to 0.81.The genetic similarity among the 15 grape genotypes using ISSR and SSR ranged from 0.27 to 1.00 in ISSR and 0.05 to 1.00 in SSR analysis. The genetic similarity matrices using ISSR analysis ranged from 27.0 to 85.0% and SSR 5.0 to 83.0%, respectively. The Vitis species Dogridge and Salt Creek had the highest similarity coefficient of 85% with ISSR analysis, while the interspecific hybrids 1103 Paulsen and 110 Richtier had the maximum similarity coefficient of 83% as identified by SSR analysis. The two marker systems formed two main clusters which were almost similar to that of PCA values. The principal coordinate analysis further helped in depicting the variability among species and hybrids of grape genotypes in three dimensional modes. In case of ISSRs, the first three coordinates accounted 51.92% for the existing variability, while with SSRs the variability accounted is 59.69%. The results revealed that ISSR and SSR markers could be exploited for genetic diversity analysis among the highly heterozygous grape rootstock species and interspecific hybrids.Plant Tissue Cult. & Biotech. 28(1): 77-90, 2018 (June)

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A simple ssr analysis for genetic diversity estimation of maize landraces

Genetika ◽

10.2298/gensr1501053i ◽

2015 ◽

Vol 47 (1) ◽

pp. 53-62 ◽

Cited By ~ 2

Author(s):

Dragana Ignjatovic-Micic ◽

Danijela Ristic ◽

Vojka Babic ◽

Violeta Andjelkovic ◽

Jelena Vancetovic

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Genetic Relatedness ◽

Principal Component ◽

Genetic Distances ◽

Ecological Groups ◽

Ssr Analysis ◽

Maize Diversity ◽

Ethidium Bromide Staining ◽

Maize Research Institute

A collection of 2217 landraces from western Balkan (former Yugoslavia) is maintained at Maize Research Institute Zemun Polje gene bank. Nine flint and nine dent accessions from six agro-ecological groups (races), chosen on the basis of diverse pedigrees, were analyzed for genetic relatedness using phenotypic and simple sequence repeat (SSR) markers. One of the aims was to establish a reliable set of SSR markers for a rapid diversity analysis using polyacrilamide gels and ethidium bromide staining. In the principal component analysis (PCA) the first three principal components accounted for 80.86% of total variation and separated most of the flint from dent landraces. Ten SSR primers revealed a total of 56 and 63 alleles in flint and dent landraces, respectively, with low stuttering and good allele resolution on the gels. High average PIC value (0.822) also supports informativeness and utility of the markers used in this study. Higher genetic variation was observed among flint genotypes, as genetic distances between flint landraces covered a larger range of values (0.11- 0.38) than between dent (0.22 - 0.33) genotypes. Both phenotypic and SSR analyses distinguished flint and dent landraces, but neither of them could abstract agro-ecological groups. The SSR method used gave clear, easy to read band patterns that could be used for reliable allele frequency determination. Genetic diversity revealed for both markers indicated that the landraces were highly adapted to specific environmental conditions and purposes and could be valuable sources of genetic variability. [Projekat Ministarstva nauke Republike Srbije, br. TR31028: Exploitation of maize diversity to improve grain quality and drought tolerance] . This article has been corrected. Link to the correction <a href="http://dx.doi.org/10.2298/GENSR1602801E">10.2298/GENSR1602801E</a>

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Genetic diversity analysis of advanced rice lines for salt tolerance using SSR markers

Asian Journal of Medical and Biological Research ◽

10.3329/ajmbr.v7i2.55001 ◽

2021 ◽

Vol 7 (2) ◽

pp. 214-221

Author(s):

Tanoy Singha ◽

Md Asif Mahamud ◽

Shahin Imran ◽

Newton Chandra Paul ◽

Md Najmol Hoque ◽

...

Keyword(s):

Genetic Diversity ◽

Salt Tolerance ◽

Ssr Markers ◽

Genetic Similarity ◽

Potential Role ◽

Diversity Analysis ◽

Marker Assisted Breeding ◽

Genetic Diversity Analysis ◽

Ssr Analysis ◽

Rice Genotypes

Twenty-two rice lines were used to evaluate salt tolerance at the Laboratory of Biotechnology Division of Bangladesh Institute of Nuclear Agriculture (BINA), Mymensingh. Four SSR markers viz. AP3206f, RM1287, RM7075, and RM10793 were used to screen the germplasm for salt tolerance. SSR analysis revealed that the number of alleles per locus ranged from 3 to 5 with an average of 4.25 alleles per locus. Polymorphism Information Content (PIC) values ranged from 0.4762 (RM7075) to 0.7524 (AP3206f) with an average of 0.61 per locus. The highest genetic diversity (0.7810) was observed in loci AP3206f, and the lowest genetic diversity (0.5620) was observed in loci RM7075 with a mean diversity of 0.6663. The genotypes with genetic similarity clustered together in the dendrogram based on UPGMA method and we observed seven major clusters where cluster I contained most of the genotypes. Cluster I, II, III, IV, V, VI, and VII contained 6, 1, 2, 4, 4, 4 and 1 genotypes, respectively. These results revealed that marker AP3206f would be best in screening 22 rice genotypes followed by RM1287, RM7075, and RM10793 according to PIC values. These findings can have the potential role for further improvement of salinity tolerance rice genotypes through marker-assisted breeding. Asian J. Med. Biol. Res. 2021, 7 (2), 214-221

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