ArticlePloS one2013
QTL map meets population genomics: an application to rice.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 10 citations in OpenAlex.
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- Genomic divergence during feralization reveals both conserved and distinct mechanisms of parallel weediness evolution.Communications biology · 2021Article
- Collection, preservation and distribution ofBreeding science · 2021Article
- Exploring the Loci Responsible for Awn Development in Rice through Comparative Analysis of All AA Genome Species.Plants (Basel, Switzerland) · 2021Article
- Transcriptional regulation of genes bearing intronic heterochromatin in the rice genome.PLoS genetics · 2020Article
- Signatures of selection for bonamiosis resistance in European flat oyster (Evolutionary applications · 2019Article
- Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Prioritization of candidate genes in QTL regions based on associations between traits and biological processes.BMC plant biology · 2014Article
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Authors and funding
15 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genes involved in the transition from wild to cultivated crop species should be of great agronomic importance. Population genomic approaches utilizing genome resequencing data have been recently applied for this purpose, although it only reports a large list of candidate genes with no biological information. Here, by resequencing more than 30 genomes altogether of wild rice Oryza rufipogon and cultivated rice O. sativa, we identified a number of regions with clear footprints of selection during the domestication process. We then focused on identifying candidate domestication genes in these regions by utilizing the wealth of QTL information in rice. We were able to identify a number of interesting candidates such as transcription factors that should control key domestication traits such as shattering, awn length, and seed dormancy. Other candidates include those that might have been related to the improvement of grain quality and those that might have been involved in the local adaptation to dry conditions and colder environments. Our study shows that population genomic approaches and QTL mapping information can be used together to identify genes that might be of agronomic importance.
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