ArticleGenetics2006
Challenges of detecting directional selection after a bottleneck: lessons from Sorghum bicolor.
Article in Genetics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
- A sorghum-anchored pan-grass syntenic gene set in grasses.NAR genomics and bioinformatics · 2026Article
- The Road to Sorghum Domestication: Evidence From Nucleotide Diversity and Gene Expression Patterns.Frontiers in plant science · 2021Article
- Comparative evolutionary genetics of deleterious load in sorghum and maize.Nature plants · 2021Article
- Article
- Parallelism and convergence in post-domestication adaptation in cereal grasses.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2019Review
- Article
- Genome-wide study of an elite rice pedigree reveals a complex history of genetic architecture for breeding improvement.Scientific reports · 2017Article
- Article
- Domestication and the storage starch biosynthesis pathway: signatures of selection from a whole sorghum genome sequencing strategy.Plant biotechnology journal · 2016Article
- Genome engineering and plant breeding: impact on trait discovery and development.Plant cell reports · 2016Review
- Population Genomic Analysis Reveals Differential Evolutionary Histories and Patterns of Diversity across Subgenomes and Subpopulations of Brassica napus L.Frontiers in plant science · 2016Article
- Lineage-specific sequence evolution and exon edge conservation partially explain the relationship between evolutionary rate and expression level in A. thaliana.Molecular ecology · 2015Article
- Molecular evolution of the Sorghum Maturity Gene Ma3.PloS one · 2015Article
- Review
- Article
- Whole-genome sequencing reveals untapped genetic potential in Africa's indigenous cereal crop sorghum.Nature communications · 2013Article
- Association analysis of photoperiodic flowering time genes in west and central African sorghum [Sorghum bicolor (L.) Moench].BMC plant biology · 2012Article
- Rates of evolution in stress-related genes are associated with habitat preference in two Cardamine lineages.BMC evolutionary biology · 2012Article
- Heterogeneity in genetic diversity among non-coding loci fails to fit neutral coalescent models of population history.PloS one · 2012Article
- Genetic structure, linkage disequilibrium and signature of selection in Sorghum: lessons from physically anchored DArT markers.PloS one · 2012Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Multilocus surveys of sequence variation can be used to identify targets of directional selection, which are expected to have reduced levels of variation. Following a population bottleneck, the signal of directional selection may be hard to detect because many loci may have low variation by chance and the frequency spectrum of variation may be perturbed in ways that resemble the effects of selection. Cultivated Sorghum bicolor contains a subset of the genetic diversity found in its wild ancestor(s) due to the combined effects of a domestication bottleneck and human selection on traits associated with agriculture. As a framework for distinguishing between the effects of demography and selection, we sequenced 204 loci in a diverse panel of 17 cultivated S. bicolor accessions. Genomewide patterns of diversity depart strongly from equilibrium expectations with regard to the variance of the number of segregating sites, the site frequency spectrum, and haplotype configuration. Furthermore, gene genealogies of most loci with an excess of low frequency variants and/or an excess of segregating sites do not show the characteristic signatures of directional and diversifying selection, respectively. A simple bottleneck model provides an improved but inadequate fit to the data, suggesting the action of other population-level factors, such as population structure and migration. Despite a known history of recent selection, we find little evidence for directional selection, likely due to low statistical power and lack of an appropriate null model.
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