ArticleBMC evolutionary biology2009
Evidence and evolutionary analysis of ancient whole-genome duplication in barley predating the divergence from rice.
Article in BMC evolutionary biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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43 citing papers in PubMed.
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- Genome-Wide Analysis of the Role of NAC Family in Flower Development and Abiotic Stress Responses inGenes · 2020Article
- Genome-Wide Identification and Characterization of Xyloglucan Endotransglycosylase/Hydrolase inGenes · 2019Article
- High density genetic maps of St. Augustinegrass and applications to comparative genomic analysis and QTL mapping for turf quality traits.BMC plant biology · 2018Article
- Assembling the genome of the African wild riceCommunications biology · 2018Article
- Genome-wide identification, characterisation and expression profiles of calcium-dependent protein kinase genes in barley (Hordeum vulgare L.).Journal of applied genetics · 2017Article
- Extensive sequence divergence between the reference genomes of two elite indica rice varieties Zhenshan 97 and Minghui 63.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Genome-Wide Analysis of Polycistronic MicroRNAs in Cultivated and Wild Rice.Genome biology and evolution · 2016Article
- Molecular Selection, Modification and Development of Therapeutic Oligonucleotide Aptamers.International journal of molecular sciences · 2016Review
- The low-recombining pericentromeric region of barley restricts gene diversity and evolution but not gene expression.The Plant journal : for cell and molecular biology · 2014Article
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6 authors.
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Abstract
backgroundWell preserved genomic colinearity among agronomically important grass species such as rice, maize, Sorghum, wheat and barley provides access to whole-genome structure information even in species lacking a reference genome sequence. We investigated footprints of whole-genome duplication (WGD) in barley that shaped the cereal ancestor genome by analyzing shared synteny with rice using a approximately 2000 gene-based barley genetic map and the rice genome reference sequence.
resultsBased on a recent annotation of the rice genome, we reviewed the WGD in rice and identified 24 pairs of duplicated genomic segments involving 70% of the rice genome. Using 968 putative orthologous gene pairs, synteny covered 89% of the barley genetic map and 63% of the rice genome. We found strong evidence for seven shared segmental genome duplications, corresponding to more than 50% of the segmental genome duplications previously determined in rice. Analysis of synonymous substitution rates (Ks) suggested that shared duplications originated before the divergence of these two species. While major genome rearrangements affected the ancestral genome of both species, small paracentric inversions were found to be species specific.
conclusionWe provide a thorough analysis of comparative genome evolution between barley and rice. A barley genetic map of approximately 2000 non-redundant EST sequences provided sufficient density to allow a detailed view of shared synteny with the rice genome. Using an indirect approach that included the localization of WGD-derived duplicated genome segments in the rice genome, we determined the current extent of shared WGD-derived genome duplications that occurred prior to species divergence.
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