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PMID: 23525075 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution.

Nature genetics ·Vol. 45 ·No. 5 ·2013-05-00 ·Pages 487-94

International Peach Genome Initiative, Verde I, Abbott AG, Scalabrin S, Jung S, Shu S, Marroni F, Zhebentyayeva T, Dettori MT, Grimwood J, Cattonaro F, Zuccolo A, Rossini L, Jenkins J, Vendramin E, Meisel LA, Decroocq V, Sosinski B, Prochnik S, Mitros T, Policriti A, Cipriani G, Dondini L, Ficklin S, Goodstein DM, Xuan P, Del Fabbro C, Aramini V, Copetti D, Gonzalez S, Horner DS, Falchi R, Lucas S, Mica E, Maldonado J, Lazzari B, Bielenberg D, Pirona R, Miculan M, Barakat A, Testolin R, Stella A, Tartarini S, Tonutti P, Arús P, Orellana A, Wells C, Main D, Vizzotto G, Silva H, Salamini F, Schmutz J, Morgante M, Rokhsar DS

Abstract

Rosaceae is the most important fruit-producing clade, and its key commercially relevant genera (Fragaria, Rosa, Rubus and Prunus) show broadly diverse growth habits, fruit types and compact diploid genomes. Peach, a diploid Prunus species, is one of the best genetically characterized deciduous trees. Here we describe the high-quality genome sequence of peach obtained from a completely homozygous genotype. We obtained a complete chromosome-scale assembly using Sanger whole-genome shotgun methods. We predicted 27,852 protein-coding genes, as well as noncoding RNAs. We investigated the path of peach domestication through whole-genome resequencing of 14 Prunus accessions. The analyses suggest major genetic bottlenecks that have substantially shaped peach genome diversity. Furthermore, comparative analyses showed that peach has not undergone recent whole-genome duplication, and even though the ancestral triplicated blocks in peach are fragmentary compared to those in grape, all seven paleosets of paralogs from the putative paleoancestor are detectable.

MeSH Terms
Agriculture Biological Evolution Chromosome Mapping Chromosomes, Plant/genetics Genetic Variation Genome, Plant/genetics Molecular Sequence Data Polymers/metabolism Propanols/metabolism Prunus/classification,genetics
Chemicals
Polymers Propanols polyol 1-phenylpropanol
Authors & Affiliations
54 authors, click to expand affiliations / ORCID
International Peach Genome Initiative
Consiglio per la Ricerca e la Sperimentazione in Agricoltura (CRA)-Centro di Ricerca per la Frutticoltura, Rome, Italy. [email protected]
Verde Ignazio
Abbott Albert G
Scalabrin Simone
Jung Sook
Shu Shengqiang
Marroni Fabio
Zhebentyayeva Tatyana
Dettori Maria Teresa
Grimwood Jane
Cattonaro Federica
Zuccolo Andrea
Rossini Laura
Jenkins Jerry
Vendramin Elisa
Meisel Lee A
Decroocq Veronique
Sosinski Bryon
Prochnik Simon
Mitros Therese
Policriti Alberto
Cipriani Guido
Dondini Luca
Ficklin Stephen
Goodstein David M
Xuan Pengfei
Del Fabbro Cristian
Aramini Valeria
Copetti Dario
Gonzalez Susana
Horner David S
Falchi Rachele
Lucas Susan
Mica Erica
Maldonado Jonathan
Lazzari Barbara
Bielenberg Douglas
Pirona Raul
Miculan Mara
Barakat Abdelali
Testolin Raffaele
Stella Alessandra
Tartarini Stefano
Tonutti Pietro
Arús Pere
Orellana Ariel
Wells Christina
Main Dorrie
Vizzotto Giannina
Silva Herman
Salamini Francesco
Schmutz Jeremy
Morgante Michele
Rokhsar Daniel S
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Article Info
Journal
Nature genetics
Abbr.
Nat Genet
ISSN
1546-1718
DOI
10.1038/ng.2586
Email
[email protected]
Published
2013-05-00
Epub
2013-00-24
Pages
487-94
Language
English
Region
United States
NLM ID
9216904
Subset
IM
Databases
GENBANK
AC253537, AC253538, AC253539, AC253540, AC253541, AC253542, AC253543, AC253544, AC253545, AC253546, AC253547, AC253548, AC253549, AKXU00000000, AKXU01000000
External Links
PubMed source DOI: 10.1038/ng.2586 View journal details
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