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Genetic characterization of maize germplasm derived from Suwan population and temperate resources.

ABSTRACT: Background:The Suwan population is a well-known maize germplasm that has greatly contributed to the development of maize breeding in tropical and subtropical regions, especially in southern China. Inbred lines derived from the Suwan population always contain stronger resistance and extensive adaptability in different environments. To evaluate the genetic character of inbred lines derived from the Suwan population, a panel including 226 inbred line derived from the Suwan population and temperate resources was assembled and genotyped by using MaizeSNP50 BeadChip, which contained 56,110 genome-wide single nucleotide polymorphism (SNP) markers. This panel contained 98 temperate inbred line and 128 lines derived from the Suwan population. Results:The results showed that high genetic diversity was found, with PIC and GD to be 0.67 and 0.60, respectively. In addition, two novel subgroups were identified, with representative inbred lines as HCL645 and Ki32, respectively. One acknowledged heterotic group of Iowa Stiff Stalk Synthetic (SS) was also identified in this study. This study can provide some additional scientific evidence for heterotic group division and use in maize. Additionally, lower linkage disequilibrium (LD) levels and weaker genetic relationships were found, with an average LD level of 41.15?kb that varied from 3.5 to 96?kb. A total of 82.8% of paired relative kinships ranged from 0.05 to 0.28. Conclusions:These results would not only facilitate maize breeding practices in tropical and subtropical regions, but also revealed that this panel can be used in dissecting the genetic basis of complex quantitative traits' variations by using genome-wide association studies (GWAS).

SUBMITTER: Wu X

PROVIDER: S-EPMC6329131 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature

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Genetic characterization of maize germplasm derived from Suwan population and temperate resources.

Wu Xun X Wang Angui A Guo Xiangyang X Liu Pengfei P Zhu Yunfang Y Li Xiushi X Chen Zehui Z

Hereditas 20190110

<h4>Background</h4>The Suwan population is a well-known maize germplasm that has greatly contributed to the development of maize breeding in tropical and subtropical regions, especially in southern China. Inbred lines derived from the Suwan population always contain stronger resistance and extensive adaptability in different environments. To evaluate the genetic character of inbred lines derived from the Suwan population, a panel including 226 inbred line derived from the Suwan population and te ...[more]

PMID: 30655731

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Project description:BackgroundAssessment and effective utilization of genetic diversity in breeding programs is crucial for sustainable genetic improvement and rapid adaptation to changing breeding objectives. During the past two decades, the commercialization of the early and extra-early maturing cultivars has contributed to rapid expansion of maize into different agro-ecologies of sub-Saharan Africa (SSA) where maize has become an important component of the agricultural economy and played a vital role in food and nutritional security. The present study aimed at understanding the population structure and genetic variability among 439 early and extra-early maize inbred lines developed from three narrow-based and twenty-seven broad-based populations by the International Iinstitute of Tropical Agriculture Maize Improvement Program (IITA-MIP). These inbreds were genotyped using 9642 DArTseq-based single nucleotide polymorphism (SNP) markers distributed uniformly throughout the maize genome.ResultsAbout 40.8% SNP markers were found highly informative and exhibited polymorphic information content (PIC) greater than 0.25. The minor allele frequency and PIC ranged from 0.015 to 0.500 and 0.029 to 0.375, respectively. The STRUCTURE, neighbour-joining phylogenetic tree and principal coordinate analysis (PCoA) grouped the inbred lines into four major classes generally consistent with the selection history, ancestry and kernel colour of the inbreds but indicated a complex pattern of the genetic structure. The pattern of grouping of the lines based on the STRUCTURE analysis was in concordance with the results of the PCoA and suggested greater number of sub-populations (K = 10). Generally, the classification of the inbred lines into heterotic groups based on SNP markers was reasonably reliable and in agreement with defined heterotic groups of previously identified testers based on combining ability studies.ConclusionsComplete understanding of potential heterotic groups would be difficult to portray by depending solely on molecular markers. Therefore, planned crosses involving representative testers from opposing heterotic groups would be required to refine the existing heterotic groups. It is anticipated that the present set of inbreds could contribute new beneficial alleles for population improvement, development of hybrids and lines with potential to strengthen future breeding programs. Results of this study would help breeders in formulating breeding strategies for genetic enhancement and sustainable maize production in SSA.

Dataset Information

Genetic characterization of maize germplasm derived from Suwan population and temperate resources.

Publications

Genetic characterization of maize germplasm derived from Suwan population and temperate resources.

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