@article{fdi:010062330,
  title = {{I}mpact of recurrent gene duplication on adaptation of plant genomes},
  author = {{F}ischer, {I}ris and {D}ainat, {J}. and {R}anwez, {V}. and {G}lemin, {S}. and {D}ufayard, {J}. {F}. and {C}hantret, {N}.},
  editor = {},
  language = {{ENG}},
  abstract = {{B}ackground: {R}ecurrent gene duplication and retention played an important role in angiosperm genome evolution. {I}t has been hypothesized that these processes contribute significantly to plant adaptation but so far this hypothesis has not been tested at the genome scale. {R}esults: {W}e studied available sequenced angiosperm genomes to assess the frequency of positive selection footprints in lineage specific expanded ({LSE}) gene families compared to single-copy genes using a d({N})/d({S})-based test in a phylogenetic framework. {W}e found 5.38% of alignments in {LSE} genes with codons under positive selection. {I}n contrast, we found no evidence for codons under positive selection in the single-copy reference set. {A}n analysis at the branch level shows that purifying selection acted more strongly on single-copy genes than on {LSE} gene clusters. {M}oreover we detect significantly more branches indicating evolution under positive selection and/or relaxed constraint in {LSE} genes than in single-copy genes. {C}onclusions: {I}n this - to our knowledge - first genome-scale study we provide strong empirical support for the hypothesis that {LSE} genes fuel adaptation in angiosperms. {O}ur conservative approach for detecting selection footprints as well as our results can be of interest for further studies on (plant) gene family evolution.},
  keywords = {{L}ineage specific expansion ({LSE}) ; {G}ene duplication ; {G}ene retention ; {U}ltraparalogs ({UP}) ; {S}uperorthologs ({SO}) ; {C}omparative genomics ; {P}ositive selection ; {A}daptation},
  booktitle = {},
  journal = {{B}mc {P}lant {B}iology},
  volume = {14},
  numero = {},
  pages = {art. 151},
  ISSN = {1471-2229},
  year = {2014},
  DOI = {10.1186/1471-2229-14-151},
  URL = {https://www.documentation.ird.fr/hor/fdi:010062330},
}