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

. International Peach Genome Initiative; Ignazio Verde; Albert Abbott; Simone Scalabrin; Sook Jung; Shengqiang Shu; Fabio Marroni; Tatyana Zhebentyayeva; Maria Teresa Dettori; Jane Grimwood; Federica Cattonaro; Andrea Zuccolo; Laura Rossini; Jerry Jenkins; Elisa Vendramin; Lee A Meisel; Veronique Decroocq; Bryon Sosinski; Simon Prochnik; Therese Mitros; Alberto Policriti; Guido Cipriani; Luca Dondini; Stephen Ficklin; David M Goodstein; Pengfei Xuan; Cristian Del Fabbro; Valeria Aramini; Dario Copetti; Susana Gonzalez; David S Horner; Rachele FALCHI; Susan Lucas; Erica Mica; Jonathan Maldonado; Barbara Lazzari; Douglas Bielenberg; Raul Pirona; Mara Miculan; Abdelali Barakat; Raffaele Testolin; Alessandra Stella; Stefano Tartarini; Pietro Tonutti; Pere Arus; Ariel Orellana; Christina Wells; Dorrie Main; Giannina Vizzotto; Herman Silva; Francesco Salamini; Jeremy Schmutz; Michele Morgante; Daniel S Rokhsar

doi:10.1038/ng.2586

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

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

. International Peach Genome Initiative, Ignazio Verde, Albert Abbott, Simone Scalabrin, Sook Jung, Shengqiang Shu, Fabio Marroni, Tatyana Zhebentyayeva, Maria Teresa Dettori, Jane Grimwood, …

Nature genetics, Vol.45(5), pp.487-94

2013

DOI: https://doi.org/10.1038/ng.2586

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https://hdl.handle.net/2376/104908

PMID: 23525075

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Abstract

Life Sciences

Vegetal Biology

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.

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Title: The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution
Creators: . International Peach Genome Initiative
Ignazio Verde - Centra di Ricerca per la Frutticoltura
Albert Abbott - Biologie du fruit et pathologie
Simone Scalabrin - IGA
Sook Jung - Washington State University
Shengqiang Shu - United States Department of Energy
Fabio Marroni - IGA
Tatyana Zhebentyayeva - Clemson University
Maria Teresa Dettori - Agricultural Research Council
Jane Grimwood - United States Department of Energy
Federica Cattonaro - IGA
Andrea Zuccolo - IGA
Laura Rossini - Parco Tecnologico Padano
Jerry Jenkins - United States Department of Energy
Elisa Vendramin - Agricultural Research Council
Lee A Meisel - Universidad de Chile
Veronique Decroocq - Biologie du fruit et pathologie
Bryon Sosinski - North Carolina State University [Raleigh]
Simon Prochnik - United States Department of Energy
Therese Mitros - University of California [Berkeley]
Alberto Policriti - IGA
Guido Cipriani - Agricultural Research Council
Luca Dondini - Alma Mater Studiorum Università di Bologna [Bologna]
Stephen Ficklin - Washington State University
David M Goodstein - United States Department of Energy
Pengfei Xuan - Clemson University
Cristian Del Fabbro - IGA
Valeria Aramini - Agricultural Research Council
Dario Copetti - IGA
Susana Gonzalez - Universidad Andrés Bello [Santiago]
David S Horner - Università degli studi di Milano [Milano]
Rachele FALCHI - Università degli Studi di Udine - University of Udine [Italie]
Susan Lucas - United States Department of Energy
Erica Mica - SSSA
Jonathan Maldonado - Universidad de Chile
Barbara Lazzari - Parco Tecnologico Padano
Douglas Bielenberg - Clemson University
Raul Pirona - Università degli studi di Milano [Milano]
Mara Miculan - IGA
Abdelali Barakat - Clemson University
Raffaele Testolin - IGA
Alessandra Stella - Parco Tecnologico Padano
Stefano Tartarini - Alma Mater Studiorum Università di Bologna [Bologna]
Pietro Tonutti - SSSA
Pere Arus - University of Barcelona
Ariel Orellana - Universidad Andrés Bello [Santiago]
Christina Wells - Consiglio Nazionale delle Ricerche
Dorrie Main - Washington State University
Giannina Vizzotto - Università degli Studi di Udine - University of Udine [Italie]
Herman Silva - Universidad de Chile
Francesco Salamini - Parco Tecnologico Padano
Jeremy Schmutz - United States Department of Energy
Michele Morgante - IGA
Daniel S Rokhsar - United States Department of Energy
Publication Details: Nature genetics, Vol.45(5), pp.487-94
Academic Unit: Horticulture, Department of
Publisher: Nature Publishing Group
Identifiers: 99900546604301842
Language: English
Resource Type: Journal article