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Dissection of Recombination Attributes for Multiple Maize Populations Using a Common SNP Assay
Haiying Guan1,2,3, Farhan Ali4, Qingchun Pan5
1Maize Research Institute, Shandong Academy of Agricultural Sciences, Jinan, China.
Frontiers in Plant Science
|December 19, 2017
Summary
Maize recombination rates vary across four populations: doubled haploid (DH), recombination inbred line (RIL), intermated B73xMo17 (IBM), and multi-parent advanced generation inter-cross (MAGIC). MAGIC populations showed the highest recombination frequency, crucial for quantitative trait loci mapping and breeding.
Area of Science:
- Plant Genetics
- Maize Breeding
- Genomic Recombination
Background:
- Recombination is essential for quantitative trait loci (QTL) mapping and breeding in maize to improve yield.
- Previous studies lacked comparative analyses of recombination characteristics across diverse, globally utilized maize populations at uniform marker densities.
Purpose of the Study:
- To characterize recombination events, recombinant chromosomal segments, and recombination frequency in four distinct maize populations.
- To compare these recombination metrics across doubled haploid (DH), recombination inbred line (RIL), intermated B73xMo17 (IBM), and multi-parent advanced generation inter-cross (MAGIC) populations.
- To inform optimal marker and line selection for successful maize mapping and breeding strategies.
Main Methods:
- Utilized the Illumina MaizeSNP50 BeadChip for high-density genetic marker data across four populations: DH, RIL, IBM, and MAGIC.
- Analyzed the number of recombination events, length of recombinant chromosomal segments, and recombination frequency per Mb.
- Investigated recombination bin number and size using various subsets of lines and markers within each population.
Main Results:
- The average number of recombination events per line increased from DH (16) to RIL (41), IBM (72), and MAGIC (86).
- Average recombinant chromosomal segment lengths decreased correspondingly: DH (84.8 Mb), RIL (47.3 Mb), IBM (29.2 Mb), and MAGIC (20.4 Mb).
- Recombination frequency varied significantly across genomic regions and population types, with MAGIC populations exhibiting the highest range (0-42.3 cM/Mb).
Conclusions:
- Significant differences in recombination characteristics exist among DH, RIL, IBM, and MAGIC maize populations.
- The MAGIC population demonstrates the highest recombination frequency and shortest segment lengths, offering potential advantages for high-resolution mapping.
- Findings provide crucial insights for selecting appropriate population types and optimizing marker/line numbers for efficient maize genetic improvement.
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