scholarly journals Analysis of Population Structure and Genetic Diversity among Canadian Maize Inbred Lines using SSR Markers

2017 ◽  
Vol 49 (2) ◽  
pp. 072-79
Author(s):  
Tak Ki Hong ◽  
Kyu Jin Sa ◽  
Ju Kyong Lee
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers ◽  
Inbred Lines ◽  
Maize Inbred Lines

scholarly journals Phenotypic and molecular characterization of a set of tropical maize inbred lines from a public breeding program in Brazil

BMC Genomics ◽  
2022 ◽  
Vol 23 (1) ◽  
Author(s):  
Sirlene Viana de Faria ◽  
Leandro Tonello Zuffo ◽  
Wemerson Mendonça Rezende ◽  
Diego Gonçalves Caixeta ◽  
Hélcio Duarte Pereira ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Inbred Lines ◽  
Breeding Program ◽  
Tropical Maize ◽  
Maize Breeding ◽  
Breeding Programs ◽  
The Public ◽  
Maize Inbred Lines

Abstract Background The characterization of genetic diversity and population differentiation for maize inbred lines from breeding programs is of great value in assisting breeders in maintaining and potentially increasing the rate of genetic gain. In our study, we characterized a set of 187 tropical maize inbred lines from the public breeding program of the Universidade Federal de Viçosa (UFV) in Brazil based on 18 agronomic traits and 3,083 single nucleotide polymorphisms (SNP) markers to evaluate whether this set of inbred lines represents a panel of tropical maize inbred lines for association mapping analysis and investigate the population structure and patterns of relationships among the inbred lines from UFV for better exploitation in our maize breeding program. Results Our results showed that there was large phenotypic and genotypic variation in the set of tropical maize inbred lines from the UFV maize breeding program. We also found high genetic diversity (GD = 0.34) and low pairwise kinship coefficients among the maize inbred lines (only approximately 4.00 % of the pairwise relative kinship was above 0.50) in the set of inbred lines. The LD decay distance over all ten chromosomes in the entire set of maize lines with r2 = 0.1 was 276,237 kb. Concerning the population structure, our results from the model-based STRUCTURE and principal component analysis methods distinguished the inbred lines into three subpopulations, with high consistency maintained between both results. Additionally, the clustering analysis based on phenotypic and molecular data grouped the inbred lines into 14 and 22 genetic divergence clusters, respectively. Conclusions Our results indicate that the set of tropical maize inbred lines from UFV maize breeding programs can comprise a panel of tropical maize inbred lines suitable for a genome-wide association study to dissect the variation of complex quantitative traits in maize, mainly in tropical environments. In addition, our results will be very useful for assisting us in the assignment of heterotic groups and the selection of the best parental combinations for new breeding crosses, mapping populations, mapping synthetic populations, guiding crosses that target highly heterotic and yielding hybrids, and predicting untested hybrids in the public breeding program UFV.

scholarly journals Comparative analysis of genetic diversity among the maize inbred lines (Zea mays L.) obtained by RAPD and SSR markers

2008 ◽  
Vol 51 (1) ◽  
pp. 183-192 ◽  
Author(s):  
Silvia Graciele Hülse de Souza ◽  
Valéria Carpentieri-Pípolo ◽  
Claudete de Fátima Ruas ◽  
Valdemar de Paula Carvalho ◽  
Paulo Maurício Ruas ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Zea Mays L ◽  
Inbred Lines ◽  
Pedigree Data ◽  
Dice Coefficient ◽  
Quantitative Characters ◽  
Maize Inbred Lines ◽  
Ssr Primers ◽  
Selection Of

The RAPD and SSR markers were used to compare the genetic diversity among the 16 maize inbred lines. Twenty-two primers were used in the RAPD reactions, resulting in the amplification of 265 fragments, while 16 pairs of SSR primers resulted in 75 fragments. The similarity based on Dice coefficient for the RAPD ranged from 53 to 84% and for the SSR from 11 to 82%. The dendrogram obtained by the RAPD showed five groups, while dendrogram obtained by the SSR showed three groups and one isolated line. The association constructed from the markers and the principal coordinate’s analysis separated lines into two groups according to endosperm color, either orange or yellow. The RAPD were effective to validate pedigree data, while the SSR were effective to recognize the differences between the quantitative characters. Because they assess the distinct regions of the genome, the selection of one or other marker would depend on the characteristics of the material used and the objectives of the project.

Genetic Diversity among CIMMYT Maize Inbred Lines Investigated with SSR Markers

Crop Science ◽  
2004 ◽  
Vol 44 (6) ◽  
pp. 2230-2237 ◽  
Author(s):  
X. C. Xia ◽  
J. C. Reif ◽  
D. A. Hoisington ◽  
A. E. Melchinger ◽  
M. Frisch ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Inbred Lines ◽  
Maize Inbred Lines

Analysis of genetic diversity and relationships among waxy maize inbred lines in Korea using SSR markers

2010 ◽  
Vol 32 (4) ◽  
pp. 375-384 ◽  
Author(s):  
Kyu Jin Sa ◽  
Jong Yeol Park ◽  
Ki Jin Park ◽  
Ju Kyong Lee
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Inbred Lines ◽  
Waxy Maize ◽  
Maize Inbred Lines

scholarly journals Genetic diversity among tropical maize inbred lines as revealed by SSR markers

2020 ◽  
pp. 2010-2019
Author(s):  
Maizura Abu Sin ◽  
Ghizan Saleh ◽  
Nur Ashikin Psyquay Abdullah ◽  
Pedram Kashiani
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Gene Diversity ◽  
Polymorphic Information Content ◽  
Similarity Index ◽  
Inbred Lines ◽  
Hybrid Breeding ◽  
Heterotic Groups ◽  
Breeding Programs ◽  
Maize Inbred Lines

Genetic diversity and phenotypic superiority are important attributes of parental inbred lines for use in hybrid breeding programs. In this study, genetic diversity among 30 maize (Zea mays L.) inbred lines comprising of 28 introductions from the International Maize and Wheat Improvement Center (CIMMYT), one from Indonesia and a locally developed, were evaluated using 100 simple sequence repeat (SSR) markers, as early screening for potential parents of hybrid varieties. All markers were polymorphic, with a total of 550 unique alleles detected on the 100 loci from the 30 inbred lines. Allelic richness ranged from 2 to 13 per locus, with an average of 5.50 alleles (na). Number of effective alleles (ne) was 3.75 per locus, indicating their high effectiveness in revealing diversity among inbred lines. Average polymorphic information content (PIC) was 0.624, with values ranging from 0.178 to 0.874, indicating high informativeness of the markers. High gene diversity was observed on Chromosomes 8 and 4, with high number of effective alleles, indicating their potential usefulness for QTL analysis. The UPGMA dendrogram constructed identified four heterotic groups within a similarity index of 0.350, indicating that these markers were able to group the inbred lines. The three-dimensional PCoA plot also supports the dendrogram grouping, indicating that these two methods complement each other. Inbred lines in different heterotic groups have originated from different backgrounds and population sources. Information on genetic diversity among the maize inbred lines are useful in developing strategies exploiting heterosis in breeding programs

scholarly journals Genetic Diversity and Population Structure of Maize Inbred Lines with Varying Levels of Resistance to Striga Hermonthica Using Agronomic Trait-Based and SNP Markers

Plants ◽  
2020 ◽  
Vol 9 (9) ◽  
pp. 1223
Author(s):  
Adekemi Stanley ◽  
Abebe Menkir ◽  
Agre Paterne ◽  
Beatrice Ifie ◽  
Pangirayi Tongoona ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Molecular Diversity ◽  
Hierarchical Cluster ◽  
Molecular Data ◽  
Inbred Lines ◽  
Striga Hermonthica ◽  
Cluster Analyses ◽  
Maize Inbred Lines ◽  
Hierarchical Cluster Analyses

Striga hermonthica is a serious biotic stress limiting maize production in sub-Saharan Africa. The limited information on the patterns of genetic diversity among maize inbred lines derived from source germplasm with mixed genetic backgrounds limits the development of inbred lines, hybrids, and synthetics with durable resistance to S. hermonthica. This study was conducted to assess the level of genetic diversity in a panel of 150 diverse maize inbred lines using agronomic and molecular data and also to infer the population structure among the inbred lines. Ten Striga-resistance-related traits were used for the phenotypic characterization, and 16,735 high-quality single-nucleotide polymorphisms (SNPs), identified by genotyping-by-sequencing (GBS), were used for molecular diversity. The phenotypic and molecular hierarchical cluster analyses grouped the inbred lines into five clusters, respectively. However, the grouping patterns between the phenotypic and molecular hierarchical cluster analyses were inconsistent due to non-overlapping information between the phenotypic and molecular data. The correlation between the phenotypic and molecular diversity matrices was very low (0.001), which is in agreement with the inconsistencies observed between the clusters formed by the phenotypic and molecular diversity analyses. The joint phenotypic and genotypic diversity matrices grouped the inbred lines into three groups based on their reaction patterns to S. hermonthica, and this was able to exploit a broad estimate of the actual diversity among the inbred lines. The joint analysis shows an invaluable insight for measuring genetic diversity in the evaluated materials. The result indicates that wide genetic variability exists among the inbred lines and that the joint diversity analysis can be utilized to reliably assign the inbred lines into heterotic groups and also to enhance the level of resistance to Striga in new maize varieties.

scholarly journals Changes of genetic diversity of maize inbred lines over four decades of hybrid breeding in the Bc institute revealed by SSR markers

Genetika ◽  
2015 ◽  
Vol 47 (1) ◽  
pp. 233-243
Author(s):  
Ivica Buhinicek ◽  
Mirko Jukic ◽  
Hrvoje Sarcevic ◽  
Jerko Gunjaca ◽  
Zdravko Kozic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Inbred Lines ◽  
Hybrid Breeding ◽  
Maize Breeding ◽  
Hybrid Production ◽  
The Past ◽  
Maize Inbred Lines ◽  
Heterotic Pattern ◽  
Private Alleles

In this paper, changes of genetic diversity of the most important maize inbred lines used for hybrid production within the Bc Institute in the 1970s, 1980s, 1990s and 2000s were examined using the SSR markers. The average number of alleles per SSR locus was 3.14, 3.43, 3.07 and 3.25 for lines from 1970s, 1980s, 1990s and 2000s, whereas the number of private alleles for the same four decades was 8, 4, 0 and 6, respectively. Mean genetic distance among inbreds within decades steadily decreased over time from 0.64 in 1970s to 0.57 in 2000s, but the observed differences were not statistically significant. The clustering of the studied inbred lines indicates the exploitation of a known BSSS x LSC heterotic pattern within the Bc Institute maize breeding program. The overall results show that recycled inbred lines within these pools do not decline in genetic variation over the past 40 years.

scholarly journals Genetic diversity of maize inbred lines as inferred from SSR markers

Genetika ◽  
2015 ◽  
Vol 47 (2) ◽  
pp. 489-498
Author(s):  
Ana Nikolic ◽  
Dragana Ignjatovic-Micic ◽  
Dragan Kovacevic ◽  
Zoran Camdzija ◽  
Milomir Filipovic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Principal Component ◽  
Inbred Lines ◽  
Yield Potential ◽  
Pedigree Data ◽  
Maize Breeding ◽  
Breeding Programs ◽  
Maize Inbred Lines ◽  
The World

Creating new maize hybrids with greater yield potential is a permanent goal of breeding programs all over the world. Long-time existing and new problems related to different biotic and abiotic stresses and the growing needs of the world market require constant work on finding new ways for advancing maize production. Molecular marker technology is one of the fastest developing fields and its implementation has already given results in solving different problems related to maize breeding improvement. The aim of the study presented herein was characterization and genetic similarity assessment of twenty-nine maize inbred lines from Maize Research Institute collection using Simple Sequence Repeats (SSR) markers. The analysis was done using 20 pairs of SSR primers with clearly visible and reproducible results. A total of 119 alleles were detected with a mean of 5.8 per locus. PIC (Polymorphism Information Content) values were in the range from 0.45 to 0.92 (average 0.74). Genetic similarities calculated using Jaccard?s coefficient ranged from 0.27 to 0.99. Cluster and Principal Component Analysis (PCA) analysis were done using matrices of similarity in the NTSYSpc software, version 2.1. Results of both classifications were moderately in agreement with the pedigree data of analysed genotypes. The information about genetic diversity of maize inbred lines revealed by SSR markers could be useful in planning strategies for future maize breeding programs.

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