Genetic diversity, population structure and AFLP markers associated with maize reaction to southern rust

Giordani, Willian; Scapim, Carlos Alberto; Ruas, Paulo Maurício; Ruas, Claudete de Fátima; Contreras‐Soto, Rodrigo Iván; Coan, Marlon Mathias Dacal; Fonseca, Inês Cristina de Batista; Gonçalves, Leandro Simões Azeredo

doi:10.1590/1678-4499.20180180

Cited by 10 publications

(11 citation statements)

References 32 publications

(37 reference statements)

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The remaining four genotypes were separated in the fifth group which had two closest pairs; (G3 and G14) and (G5 and G15). These findings are in agreement with that classifying maize lines based on AFLP markers data (Hartings et al, 2008;Neha and Nam, 2016;Giordani et al, 2019) Fig. 4 Dendrogram constructed according to Nei and Li's coefficient using Unweighed Pair-group Arithmetic Average (UPGMA) and similarity matrix of the AFLP generated data for the 16 Zea mexicana genotypes Cluster analysis of combining RAPD and AFLP data.…”

Section: Genetic Relationships Cluster Analysis Of Rapd Datasupporting

confidence: 84%

“…While, Neha and Nam, (2016) reported that using eight AFLP primer combinations produced a total of 232 bands studying 78 maize lines. The polymorphism percentage is similar to that of Giordani et al (2019), who obtained 97% polymorphism using 4 primer combinations studying 145 maize accessions, which was higher than that recorded by Neha and Nam (2016) who obtained a percentage of polymorphism of 67 % among maize lines.…”

Section: Aflp Polymorphismsupporting

confidence: 82%

“…Combining RAPD and AFLP data (Figure 5) generated a more reliable relatedness representing the genetic relationships between the 16 Zea mexicana genotypes since combining the two molecular techniques provides extensive coverage of the Zea genome. Interestingly, the combined dendrogram showed the same topography as that of AFLP, indicating that the AFLP marker would be the best-suited molecular assay to evaluate genetic relationships with high accuracy among maize inbred lines (Garcia et al, 2004, Neha and Nam 2016and Giordani et al, 2019.…”

Section: Genetic Relationships Cluster Analysis Of Rapd Datamentioning

confidence: 84%

See 2 more Smart Citations

Genetic variations in some Egyptian Zea mexicana genotypes based on RAPD and AFLP markers

Radwan

Abdel-Fattah

Badawi

et al. 2021

Journal of Bioscience and Applied Research

View full text Add to dashboard Cite

Maize-Teosinte hybrids are of significant interest to maize breeders as a resource of genetic diversity during the maize domestication process as a genetic pool for maize improvement. This study examines the genetic diversity and population structure of 16 Zea mexicana populations which are currently active in Zea breeding programs in Egypt using Random Amplified Polymorphic DNA (RAPD) and Amplified Fragment Length Polymorphism (AFLP) markers. RAPD analysis (14 primers) produced 141 bands; out of which, 102 (72.3%) were polymorphic. On the other hand, AFLP (5 primer combinations) yielded 276 peaks including 267 (96.7%) polymorphic ones with an average of 53.4 peaks per primer combination. A total of 11 unique RAPD markers were created by 6 primers and identified 8 genotypes. The five primer combinations generated 56 unique amplicons that successfully distinguished 12 out of the 16 genotypes tested. Furthermore, the number of observed alleles (Na), effective multiplex ratio (EMR), and polymorphic information content (PIC) indices showed higher values for AFLP (2.00, 53.4, and 0.21) than for RAPD (1.67, 7.3, and 0.15). Cluster analysis based on Nei and Li genetic distance and an Unweighted Pair Group Method with Arithmetic Mean (UPGMA) revealed 5 main clusters representing the 16 Zea mexicana confirming the population structure analysis obtained. High variability of the studied teosinte genotypes using RAPD and AFLP markers will provide valuable tools for Zea mexicana breeding programs in Egypt.

show abstract

Section: Genetic Relationships Cluster Analysis Of Rapd Datasupporting

confidence: 84%

Section: Aflp Polymorphismsupporting

confidence: 82%

Section: Genetic Relationships Cluster Analysis Of Rapd Datamentioning

confidence: 84%

See 1 more Smart Citation

Genetic variations in some Egyptian Zea mexicana genotypes based on RAPD and AFLP markers

Radwan

Abdel-Fattah

Badawi

et al. 2021

Journal of Bioscience and Applied Research

View full text Add to dashboard Cite

show abstract

“…Hierarchical structure further divided sub-population 2 and 3 into 9 sub-clusters indicating a high level of diversity. Zhang et al (2016) and Giordani et al (2019) also noted sub-clusters in their studies. Furthermore, there were variations within the sub-clusters, such as the subcluster with J104-2, J113-3 and J114-3.…”

Section: Discussionmentioning

confidence: 73%

Molecular characterization of a farmer-preferred maize landrace population from a multiple-stress-prone subtropical lowland environment

Makore

Gasura

Souta³

et al. 2021

Biodiversitas

View full text Add to dashboard Cite

Abstract. Makore F, Gasura E, Souta C, Mazamura U, Derera J, Zikhali M, Kamutando CN, Magorokosho C, Dari S. 2021. Molecular characterization of a farmer-preferred maize landrace population from a multiple-stress-prone subtropical lowland environment. Biodiversitas 22: 769-777. The study was conducted to assess genetic diversity of 372 maize lines using 116 single nucleotide polymorphism (SNP) markers. Three hundred and forty-seven lines were S1 lines (coded J lines) from a local maize landrace population and twenty-five were the widely used standard lines. The number of alleles per marker ranged from two to four and the average was three alleles. The average polymorphic information content (PIC) value of 0.405 indicates high genetic diversity for maize lines evaluated in this study. Population structure revealed three distinct sub-populations. Sub-population 1 contained two J lines; sub-population 2 contained five J lines and sub-population 3 contained the rest of the J lines and all the standard lines. Analysis of molecular variance (AMOVA) identified 22% variance among and 78% variance within the three subpopulations, indicating high gene exchange and low genetic differentiation. Hierarchical cluster analysis further divided the lines into nine subgroups placing some of the J lines into known heterotic groups', i.e., J30_3, J393_4, J393_3, and J393_1 in CIMMYT heterotic group B. Allelic variation observed can be a source of allele combination for breeding programs interested in widening their genetic base. The private alleles that were present in the J lines suggest availability of stress-tolerant genes that breeders can incorporate in new hybrids.

show abstract

“…Molecular markers are a useful tool for assessing genetic diversity because they are stable, polymorphic, readily available in the genome, and are not sensitive to environmental factors [ 26 ]. Several types of molecular markers have been used to assess genetic diversity and group maize inbred lines into heterotic groups [ 27 , 28 , 29 ]. Among the numerous types of molecular markers used are single nucleotide polymorphism (SNP) markers.…”

Section: Introductionmentioning

confidence: 99%

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

Stanley

Menkir

Agre

et al. 2020

Plants

View full text Add to dashboard Cite

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.

show abstract

Genetic diversity, population structure and AFLP markers associated with maize reaction to southern rust

Cited by 10 publications

References 32 publications

Genetic variations in some Egyptian Zea mexicana genotypes based on RAPD and AFLP markers

Genetic variations in some Egyptian Zea mexicana genotypes based on RAPD and AFLP markers

Molecular characterization of a farmer-preferred maize landrace population from a multiple-stress-prone subtropical lowland environment

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

Contact Info

Product

Resources

About