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Covariance between nonrelatives in maize.
1Department of Agronomy and Plant Genetics, University of Minnesota, 411 Borlaug Hall, 1991 Buford Circle, Saint Paul, MN, 55108, USA. bernardo@umn.edu.
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|June 8, 2022
Summary
Covariance between non-related maize lines was investigated. Some traits showed significant covariance, suggesting a unified framework for genetic resemblance is needed.
Area of Science:
- Quantitative genetics
- Plant breeding
- Genomics
Background:
- Covariance between relatives is a fundamental concept in quantitative genetics.
- The covariance between non-relatives in crops, specifically maize (Zea mays L.), has not been extensively studied.
- Understanding genetic resemblance in non-related individuals is crucial for breeding programs.
Purpose of the Study:
- To determine if a covariance exists between non-related maize lines.
- To assess the presence and nature of covariance for specific phenotypic traits in unrelated maize.
- To propose a unified framework for expressing genetic resemblance.
Main Methods:
- Utilized 272 maize lines genotyped with 28,626 single nucleotide polymorphism (SNP) markers.
- Identified pairs of unrelated lines based on membership probabilities in five subpopulations.
- Assessed covariance between non-relatives using regression of phenotypic similarity on SNP similarity.
Main Results:
- Seven out of 77 regressions were significant at a 5% false discovery rate for traits including flowering time, plant and ear height, oil, starch, and protein content.
- A negative covariance was observed for protein between specific unrelated lines (B73 and Mo17).
- This negative covariance was attributed to differing linkage phases between markers and causal variants in subpopulations.
Conclusions:
- Covariance between non-related individuals in maize is not universal but occurs for specific traits and certain groups.
- A negative covariance can arise due to distinct subpopulation genetic architectures.
- Proposed a generalized covariance framework combining related and non-related individual resemblance for a unified approach.

