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.

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.

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 Characterization of maize inbred lines based on molecular markers, heterosis and pedigree data

Genetika ◽  
2007 ◽  
Vol 39 (3) ◽  
pp. 355-363 ◽  
Author(s):  
Jelena Srdic ◽  
Snezana Mladenovic-Drinic ◽  
Zorica Pajic ◽  
Milomir Filipovic
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Molecular Markers ◽  
Rapd Markers ◽  
Inbred Lines ◽  
Protein Markers ◽  
Pedigree Data ◽  
Maize Breeding ◽  
Heterotic Groups ◽  
Maize Inbred Lines

Information about the genetic diversity of inbred lines is essential in planning maize breeding programmes. Utilization of diverse parents in the process of hybridization has the greatest influence on producing high yielding hybrids. The aim of this research was to determine genetic diversity of ten maize inbred lines of different origin on the basis of protein and RAPD markers and to compare these results with pedigree and grain yield heterosis data. Results of genetic distances, based on protein and RAPD markers were similar and in concurrence with the date on the origin of inbreds. Usefulness of protein and RAPD markers for assigning inbreds to heterotic groups was examined by the cluster analysis. Cluster analysis based on protein markers, RAPD and heterosis showed clear grouping of lines into two main heterotic groups. Only few deviations were noticed, and those among inbreds not belonging to those heterotic groups. According to the observed results it could be concluded that grouping of inbred lines based on molecular markers, generally agrees with their pedigrees and that clusters are representatives of heterotic groups. Very high and highly significant estimate of rank correlation coefficient between RAPD and heterosis (0,876**) also confirmed that.

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.

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 Karakterisasi Kemiripan Genetik Koleksi Inbrida Jagung Berdasarkan Marka Mikrosatelit

2016 ◽  
Vol 2 (2) ◽  
pp. 45 ◽  
Author(s):  
Marcia Bunga Pabendon ◽  
M. Dahlan ◽  
Sutrisno Sutrisno ◽  
M. L.C. George
Keyword(s):  
Ssr Markers ◽  
Genetic Relationships ◽  
Morphological Characters ◽  
Inbred Lines ◽  
Genetic Distances ◽  
Breeding Programs ◽  
Maize Inbred Lines ◽  
Clear Differentiation ◽  
Source Populations ◽  
Crop Germplasm

<p class="p1">Information on genetic relationships among available crop germplasm such as maize inbred lines, has important implications to breeding programs. A set of 26 maize inbreds togeher with six standard lines from CIMMYT (CML51, CML292, CML202, CML206, CML236, dan CML396), was characterized using 26 SSR markers, which were coverage of the maize genomes. The objective of this study was to analyze genetic diversities among the Indonesian maize inbred collections. Polymorphism Information Content (PIC) value and the observed genetic distance indicated the existence of large variabilities among the inbreds. Cluster analysis based on 27% of the Jaccard’s similarity coefficient placed the inbreds into three groups. Genetic distances among all the possible pairs without the standard maize lines varied from 0.32 (KSX360F2-5-1-3-1v vs KSX2601F2-5-1-1-v) to 0.88 (PT963298-1-B-B-Bv vs Mr13). Cluster and Principal Coordinate Analysis of the genetic distances, revealed a clear differentiation of the inbred lines into groups according to their source populations. This clustering were consistent with those of the known pedigree records of the inbreds based on their morphological characters. These results support the use of morphological traits in the production of maize hybrids. The SSR markers proved to be effective to characterize, identify, and demonstrate genetic similarities among the maize inbred lines.</p>

NAM population – a novel genetic resource for soybean improvement: development and characterization for yield and attributing traits

2019 ◽  
Vol 17 (6) ◽  
pp. 545-553 ◽  
Author(s):  
Shivakumar Maranna ◽  
Giriraj Kumawat ◽  
Vennampally Nataraj ◽  
C. Gireesh ◽  
Sanjay Gupta ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Grain Yield ◽  
Association Mapping ◽  
Genetic Resource ◽  
Recombinant Inbred Lines ◽  
Principal Component ◽  
Central India ◽  
Inbred Lines ◽  
Yellow Mosaic Virus ◽  
Yield Potential

AbstractNested association mapping (NAM) captures the best features of both linkage and association mapping and enables the high power and high resolution of quantitative trait locus mapping through joint linkage-association analysis. In the current study, NAM population was developed by hybridizing JS 335, a popular variety of central India with 20 diverse soybean genotypes. The parents used in the study have various traits of economic importance such as drought and water-logging tolerance, bacterial pustule and yellow mosaic virus resistance, wider adaptability, resistance to mechanical damage and higher yield potential. High variability in the F2 populations of 20 crosses for grain yield and days to maturity indicated scope for development of high-yielding varieties. Genetic variability studies, correlation, regression, principal component analysis (PCA) and genetic diversity analyses were carried out in 900 NAM-recombinant inbred lines (RILs) derived from 11 crosses. Correlation and regression analysis indicated a significant positive effect of biomass, pods/plant, harvest index, branches/plant, nodes/plant and plant height on grain yield. Genetic diversity analysis grouped 900 NAM-RILs into 10 clusters. PCA revealed first two principal components to explain 63.78% of total variation mostly contributed by grain yield, biomass and number of pods. The inbred lines developed in this study will serve as an elite soybean genetic resource in understanding the genetic architecture underlying different traits of economic significance.

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