ArticleBMC plant biology2016
Comparison of statistical models for nested association mapping in rapeseed (Brassica napus L.) through computer simulations.
Article in BMC plant biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- Breeding Canola (Plants (Basel, Switzerland) · 2021Review
- The influence of QTL allelic diversity on QTL detection in multi-parent populations: a simulation study in sugar beet.BMC genomic data · 2021Article
- Linkage Analysis and Association Mapping QTL Detection Models for Hybrids Between Multiparental Populations from Two Heterotic Groups: Application to Biomass Production in Maize (G3 (Bethesda, Md.) · 2017Article
- How do the type of QTL effect and the form of the residual term influence QTL detection in multi-parent populations? A case study in the maize EU-NAM population.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
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4 authors.
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Abstract
backgroundRapeseed (Brassica napus L.) is an important oilseed crop throughout the world, serving as source for edible oil and renewable energy. Development of nested association mapping (NAM) population and methods is of importance for quantitative trait locus (QTL) mapping in rapeseed. The objectives of the research were to compare the power of QTL detection 1- β(∗) (β(∗) is the empirical type II error rate) (i) of two mating designs, double haploid (DH-NAM) and backcross (BC-NAM), (ii) of different statistical models, and (iii) for different genetic situations.
resultsThe computer simulations were based on the empirical data of a single nucleotide polymorphism (SNP) set of 790 SNPs from 30 sequenced conserved genes of 51 accessions of world-wide diverse B. napus germplasm. The results showed that a joint composite interval mapping (JCIM) model had significantly higher power of QTL detection than a single marker model. The DH-NAM mating design showed a slightly higher power of QTL detection than the BC-NAM mating design. The JCIM model considering QTL effects nested within subpopulations showed higher power of QTL detection than the JCIM model considering QTL effects across subpopulations, when examing a scenario in which there were interaction effects by a few QTLs interacting with a few background markers as well as a scenario in which there were interaction effects by many QTLs (≥ 25) each with more than 10 background markers and the proportion of total variance explained by the interactions was higher than 75 %.
conclusionsThe results of our study support the optimal design as well as analysis of NAM populations, especially in rapeseed.
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