title: Large-Scale Gene Relocations following an Ancient Genome Triplication Associated with the Diversification of Core Eudicots.
abstract: Different modes of gene duplication including whole-genome duplication (WGD), and tandem, proximal and dispersed duplications are widespread in angiosperm genomes. Small-scale, stochastic gene relocations and transposed gene duplications are widely accepted to be the primary mechanisms for the creation of dispersed duplicates. However, here we show that most surviving ancient dispersed duplicates in core eudicots originated from large-scale gene relocations within a narrow window of time following a genome triplication (γ) event that occurred in the stem lineage of core eudicots. We name these surviving ancient dispersed duplicates as relocated γ duplicates. In Arabidopsis thaliana, relocated γ, WGD and single-gene duplicates have distinct features with regard to gene functions, essentiality, and protein interactions. Relative to γ duplicates, relocated γ duplicates have higher non-synonymous substitution rates, but comparable levels of expression and regulation divergence. Thus, relocated γ duplicates should be distinguished from WGD and single-gene duplicates for evolutionary investigations. Our results suggest large-scale gene relocations following the γ event were associated with the diversification of core eudicots.
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia, United States of America.
authors.forename: Yupeng
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Department of Horticulture, Washington State University, Pullman, Washington, United States of America.
authors.forename: Stephen P
authors.initials: SP
authors.lastname: Ficklin
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia, United States of America.
authors.forename: Xiyin
authors.initials: X
authors.lastname: Wang
authors.affiliation: Department of Genetics and Biochemistry, Clemson University, Clemson, South Carolina, United States of America.
authors.forename: F Alex
authors.initials: FA
authors.lastname: Feltus
authors.affiliation: Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia, United States of America.
authors.forename: Andrew H
authors.initials: AH
authors.lastname: Paterson
mesh_terms: D017360:Arabidopsis / Q000235:genetics*; D005075:Biological Evolution; D019295:Computational Biology; D019143:Evolution, Molecular; D020440:Gene Duplication; D020869:Gene Expression Profiling; D020131:Genes, Duplicate; D017343:Genes, Plant; D014644:Genetic Variation; D018745:Genome, Plant; D019684:Magnoliopsida / Q000235:genetics*; D046913:Medicago truncatula / Q000235:genetics; D009154:Mutation; D010641:Phenotype; D010802:Phylogeny; D025941:Protein Interaction Mapping