Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome

Tina Ilc, Gautier Arista, Raquel Tavares, Nicolas Navrot, Eric Duchêne, Amandine Velt, Frédéric Choulet, Etienne Paux, Marc Fischer, David Nelson, Philippe Hugueney, Danièle Werck-Reichhart, Camille Rustenholz

Research output: Contribution to journalArticle

Abstract

Cytochromes P450 are enzymes that participate in a wide range of functions in plants, from hormonal signaling and biosynthesis of structural polymers, to defense or communication with other organisms. They represent one of the largest gene/protein families in the plant kingdom. The manual annotation of cytochrome P450 genes in the genome of Vitis vinifera PN40024 revealed 579 P450 sequences, including 279 complete genes. Most of the P450 sequences in grapevine genome are organized in physical clusters, resulting from tandem or segmental duplications. Although most of these clusters are small (2 to 35, median = 3), some P450 families, such as CYP76 and CYP82, underwent multiple duplications and form large clusters of homologous sequences. Analysis of gene expression revealed highly specific expression patterns, which are often the same within the genes in large physical clusters. Some of these genes are induced upon biotic stress, which points to their role in plant defense, whereas others are specifically activated during grape berry ripening and might be responsible for the production of berry-specific metabolites, such as aroma compounds. Our work provides an exhaustive and robust annotation including clear identification, structural organization, evolutionary dynamics and expression patterns for the grapevine cytochrome P450 families, paving the way to efficient functional characterization of genes involved in grapevine defense pathways and aroma biosynthesis.

Original languageEnglish (US)
Article numbere0199902
JournalPloS one
Volume13
Issue number6
DOIs
StatePublished - Jun 1 2018

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Vitis
Vitis vinifera
Genes
Cytochrome P-450 Enzyme System
taxonomy
genomics
cytochrome P-450
genes
Fruit
Biosynthesis
Genomic Segmental Duplications
Genome
biosynthesis
Sequence Homology
genome
biotic stress
sequence homology
Polymers
odor compounds
small fruits

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Ilc, T., Arista, G., Tavares, R., Navrot, N., Duchêne, E., Velt, A., ... Rustenholz, C. (2018). Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome. PloS one, 13(6), [e0199902]. https://doi.org/10.1371/journal.pone.0199902

Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome. / Ilc, Tina; Arista, Gautier; Tavares, Raquel; Navrot, Nicolas; Duchêne, Eric; Velt, Amandine; Choulet, Frédéric; Paux, Etienne; Fischer, Marc; Nelson, David; Hugueney, Philippe; Werck-Reichhart, Danièle; Rustenholz, Camille.

In: PloS one, Vol. 13, No. 6, e0199902, 01.06.2018.

Research output: Contribution to journalArticle

Ilc, T, Arista, G, Tavares, R, Navrot, N, Duchêne, E, Velt, A, Choulet, F, Paux, E, Fischer, M, Nelson, D, Hugueney, P, Werck-Reichhart, D & Rustenholz, C 2018, 'Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome', PloS one, vol. 13, no. 6, e0199902. https://doi.org/10.1371/journal.pone.0199902
Ilc T, Arista G, Tavares R, Navrot N, Duchêne E, Velt A et al. Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome. PloS one. 2018 Jun 1;13(6). e0199902. https://doi.org/10.1371/journal.pone.0199902
Ilc, Tina ; Arista, Gautier ; Tavares, Raquel ; Navrot, Nicolas ; Duchêne, Eric ; Velt, Amandine ; Choulet, Frédéric ; Paux, Etienne ; Fischer, Marc ; Nelson, David ; Hugueney, Philippe ; Werck-Reichhart, Danièle ; Rustenholz, Camille. / Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome. In: PloS one. 2018 ; Vol. 13, No. 6.
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