Advanced search
1 file | 665.35 KB Add to list

Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes

(2012) PLOS ONE. 7(1).
Author
Organization
Project
Abstract
Plants have followed a reticulate type of evolution and taxa have frequently merged via allopolyploidization. A polyploid structure of sequenced genomes has often been proposed, but the chromosomes belonging to putative component genomes are difficult to identify. The 19 grapevine chromosomes are evolutionary stable structures: their homologous triplets have strongly conserved gene order, interrupted by rare translocations. The aim of this study is to examine how the grapevine nucleotide-binding site (NBS)-encoding resistance (NBS-R) genes have evolved in the genomic context and to understand mechanisms for the genome evolution. We show that, in grapevine, i) helitrons have significantly contributed to transposition of NBS-R genes, and ii) NBS-R gene cluster similarity indicates the existence of two groups of chromosomes (named as Va and Vc) that may have evolved independently. Chromosome triplets consist of two Va and one Vc chromosomes, as expected from the tetraploid and diploid conditions of the two component genomes. The hexaploid state could have been derived from either allopolyploidy or the separation of the Va and Vc component genomes in the same nucleus before fusion, as known for Rosaceae species. Time estimation indicates that grapevine component genomes may have fused about 60 mya, having had at least 40-60 mya to evolve independently. Chromosome number variation in the Vitaceae and related families, and the gap between the time of eudicot radiation and the age of Vitaceae fossils, are accounted for by our hypothesis.
Keywords
DUPLICATION, EVOLUTION, ANGIOSPERMS, ANCIENT, PH1 LOCUS, PLANT GENOMES, ARABIDOPSIS-THALIANA, NUCLEOTIDE-BINDING SITE, MULTIPLE SEQUENCE ALIGNMENT, PROTEIN

Downloads

  • Malacarne et al. 2012 PLoS One 7 e29762.pdf
    • full text
    • |
    • open access
    • |
    • PDF
    • |
    • 665.35 KB

Citation

Please use this url to cite or link to this publication:

MLA
Malacarne, Giulia, et al. “Deconstruction of the (Paleo)Polyploid Grapevine Genome Based on the Analysis of Transposition Events Involving NBS Resistance Genes.” PLOS ONE, vol. 7, no. 1, 2012, doi:10.1371/journal.pone.0029762.
APA
Malacarne, G., Perazzolli, M., Cestaro, A., Sterck, L., Fontana, P., Van de Peer, Y., … Salamini, F. (2012). Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes. PLOS ONE, 7(1). https://doi.org/10.1371/journal.pone.0029762
Chicago author-date
Malacarne, Giulia, Michele Perazzolli, Alessandro Cestaro, Lieven Sterck, Paolo Fontana, Yves Van de Peer, Roberto Viola, Riccardo Velasco, and Francesco Salamini. 2012. “Deconstruction of the (Paleo)Polyploid Grapevine Genome Based on the Analysis of Transposition Events Involving NBS Resistance Genes.” PLOS ONE 7 (1). https://doi.org/10.1371/journal.pone.0029762.
Chicago author-date (all authors)
Malacarne, Giulia, Michele Perazzolli, Alessandro Cestaro, Lieven Sterck, Paolo Fontana, Yves Van de Peer, Roberto Viola, Riccardo Velasco, and Francesco Salamini. 2012. “Deconstruction of the (Paleo)Polyploid Grapevine Genome Based on the Analysis of Transposition Events Involving NBS Resistance Genes.” PLOS ONE 7 (1). doi:10.1371/journal.pone.0029762.
Vancouver
1.
Malacarne G, Perazzolli M, Cestaro A, Sterck L, Fontana P, Van de Peer Y, et al. Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes. PLOS ONE. 2012;7(1).
IEEE
[1]
G. Malacarne et al., “Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes,” PLOS ONE, vol. 7, no. 1, 2012.
@article{2087628,
  abstract     = {{Plants have followed a reticulate type of evolution and taxa have frequently merged via allopolyploidization. A polyploid structure of sequenced genomes has often been proposed, but the chromosomes belonging to putative component genomes are difficult to identify. The 19 grapevine chromosomes are evolutionary stable structures: their homologous triplets have strongly conserved gene order, interrupted by rare translocations. The aim of this study is to examine how the grapevine nucleotide-binding site (NBS)-encoding resistance (NBS-R) genes have evolved in the genomic context and to understand mechanisms for the genome evolution. We show that, in grapevine, i) helitrons have significantly contributed to transposition of NBS-R genes, and ii) NBS-R gene cluster similarity indicates the existence of two groups of chromosomes (named as Va and Vc) that may have evolved independently. Chromosome triplets consist of two Va and one Vc chromosomes, as expected from the tetraploid and diploid conditions of the two component genomes. The hexaploid state could have been derived from either allopolyploidy or the separation of the Va and Vc component genomes in the same nucleus before fusion, as known for Rosaceae species. Time estimation indicates that grapevine component genomes may have fused about 60 mya, having had at least 40-60 mya to evolve independently. Chromosome number variation in the Vitaceae and related families, and the gap between the time of eudicot radiation and the age of Vitaceae fossils, are accounted for by our hypothesis.}},
  articleno    = {{e29762}},
  author       = {{Malacarne, Giulia and Perazzolli, Michele and Cestaro, Alessandro and Sterck, Lieven and Fontana, Paolo and Van de Peer, Yves and Viola, Roberto and Velasco, Riccardo and Salamini, Francesco}},
  issn         = {{1932-6203}},
  journal      = {{PLOS ONE}},
  keywords     = {{DUPLICATION,EVOLUTION,ANGIOSPERMS,ANCIENT,PH1 LOCUS,PLANT GENOMES,ARABIDOPSIS-THALIANA,NUCLEOTIDE-BINDING SITE,MULTIPLE SEQUENCE ALIGNMENT,PROTEIN}},
  language     = {{eng}},
  number       = {{1}},
  pages        = {{10}},
  title        = {{Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes}},
  url          = {{http://dx.doi.org/10.1371/journal.pone.0029762}},
  volume       = {{7}},
  year         = {{2012}},
}

Altmetric
View in Altmetric
Web of Science
Times cited: