Genomics of the origin and evolution of Citrus

Guohong Albert Wu (), Javier Terol, Victoria Ibanez, Antonio López-García, Estela Pérez-Román, Carles Borredá, Concha Domingo, Francisco R. Tadeo, Jose Carbonell-Caballero, Roberto Alonso, Franck Curk, Dongliang Du, Patrick Ollitrault, Mikeal L. Roose, Joaquin Dopazo, Frederick G. Gmitter, Daniel S. Rokhsar () and Manuel Talon ()
Additional contact information
Guohong Albert Wu: US Department of Energy Joint Genome Institute
Javier Terol: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Victoria Ibanez: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Antonio López-García: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Estela Pérez-Román: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Carles Borredá: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Concha Domingo: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Francisco R. Tadeo: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada
Jose Carbonell-Caballero: Centro de Investigación Príncipe Felipe (CIPF)
Roberto Alonso: Centro de Investigación Príncipe Felipe (CIPF)
Franck Curk: AGAP Research Unit, Institut National de la Recherche Agronomique (INRA)
Dongliang Du: Citrus Research and Education Center (CREC), Institute of Food and Agricultural Sciences (IFAS), University of Florida
Patrick Ollitrault: AGAP Research Unit, Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Petit-Bourg
Mikeal L. Roose: University of California, Riverside
Joaquin Dopazo: Centro de Investigación Príncipe Felipe (CIPF)
Frederick G. Gmitter: Citrus Research and Education Center (CREC), Institute of Food and Agricultural Sciences (IFAS), University of Florida
Daniel S. Rokhsar: US Department of Energy Joint Genome Institute
Manuel Talon: Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada

Nature, 2018, vol. 554, issue 7692, 311-316

Abstract: Abstract The genus Citrus, comprising some of the most widely cultivated fruit crops worldwide, includes an uncertain number of species. Here we describe ten natural citrus species, using genomic, phylogenetic and biogeographic analyses of 60 accessions representing diverse citrus germ plasms, and propose that citrus diversified during the late Miocene epoch through a rapid southeast Asian radiation that correlates with a marked weakening of the monsoons. A second radiation enabled by migration across the Wallace line gave rise to the Australian limes in the early Pliocene epoch. Further identification and analyses of hybrids and admixed genomes provides insights into the genealogy of major commercial cultivars of citrus. Among mandarins and sweet orange, we find an extensive network of relatedness that illuminates the domestication of these groups. Widespread pummelo admixture among these mandarins and its correlation with fruit size and acidity suggests a plausible role of pummelo introgression in the selection of palatable mandarins. This work provides a new evolutionary framework for the genus Citrus.

Date: 2018
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DOI: 10.1038/nature25447

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