ArticlePlant physiology2009
Dynamic rearrangements determine genome organization and useful traits in soybean.
Article in Plant physiology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Evolutionary fates of gene-body methylation and its divergent association with gene expression in pigeonpea.The plant genome · 2022Article
- How did the soybean genome evolve?The Plant cell · 2021Article
- Altered chromatin architecture and gene expression during polyploidization and domestication of soybean.The Plant cell · 2021Article
- Of the Nine Cytidine Deaminase-Like Genes in Arabidopsis, Eight Are Pseudogenes and Only One Is Required to Maintain Pyrimidine Homeostasis in Vivo.Plant physiology · 2016Article
- Genome-wide identification and evolutionary analysis of leucine-rich repeat receptor-like protein kinase genes in soybean.BMC plant biology · 2016Article
- Identification of Genomic Insertion and Flanking Sequence of G2-EPSPS and GAT Transgenes in Soybean Using Whole Genome Sequencing Method.Frontiers in plant science · 2016Article
- The phylogeny and evolutionary history of the Lesion Simulating Disease (LSD) gene family in Viridiplantae.Molecular genetics and genomics : MGG · 2015Article
- A Comparative Epigenomic Analysis of Polyploidy-Derived Genes in Soybean and Common Bean.Plant physiology · 2015Article
- Genome duplication and gene loss affect the evolution of heat shock transcription factor genes in legumes.PloS one · 2014Article
- The ureide-degrading reactions of purine ring catabolism employ three amidohydrolases and one aminohydrolase in Arabidopsis, soybean, and rice.Plant physiology · 2013Article
- Gene divergence of homeologous regions associated with a major seed protein content QTL in soybean.Frontiers in plant science · 2013Article
- Comparative sequence analysis of nitrogen fixation-related genes in six legumes.Frontiers in plant science · 2013Article
- A comparison of the molecular organization of genomic regions associated with resistance to common bacterial blight in two Phaseolus vulgaris genotypes.Frontiers in plant science · 2013Article
- Divergence of flowering genes in soybean.Journal of biosciences · 2012Review
- Genome-wide mapping of NBS-LRR genes and their association with disease resistance in soybean.BMC plant biology · 2012Article
- Molecular sequence variations of the lipoxygenase-2 gene in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- RNA-Seq analysis of a soybean near-isogenic line carrying bacterial leaf pustule-resistant and -susceptible alleles.DNA research : an international journal for rapid publication of reports on genes and genomes · 2011Article
- Differential expression of cysteine desulfurases in soybean.BMC plant biology · 2011Article
- Changes in twelve homoeologous genomic regions in soybean following three rounds of polyploidy.The Plant cell · 2011Article
- QTL identification of flowering time at three different latitudes reveals homeologous genomic regions that control flowering in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2011Article
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5 authors.
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Abstract
Soybean (Glycine max) is a paleopolyploid whose genome has gone through at least two rounds of polyploidy and subsequent diploidization events. Several studies have investigated the changes in genome structure produced by the relatively recent polyploidy event, but little is known about the ancient polyploidy due to the high frequency of gene loss after duplication. Our previous study, regarding a region responsible for bacterial leaf pustule, reported two homeologous Rxp regions produced by the recent whole-genome duplication event. In this study, we identified the full set of four homeologous Rxp regions (ranging from 1.96 to 4.60 Mb) derived from both the recent and ancient polyploidy events, and this supports the quadruplicated structure of the soybean genome. Among the predicted genes on chromosome 17 (linkage group D2), 71% of them were conserved in a recently duplicated region, while 21% and 24% of duplicated genes were retained in two homeologous regions formed by the ancient polyploidy. Furthermore, comparative analysis showed a 2:1 relationship between soybean and Medicago truncatula, since M. truncatula did not undergo the recent polyploidy event that soybean did. Unlike soybean, M. truncatula homeologous regions were highly fractionated and their synteny did not exist, revealing different rates of diploidization process between the two species. Our data show that extensive synteny remained in the four homeologous regions in soybean, even though the soybean genome experienced dynamic genome rearrangements following paleopolyploidy events. Moreover, multiple Rxp quantitative trait loci on different soybean chromosomes actually comprise homeologous regions produced by two rounds of polyploidy events.
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