Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies
Jung, Sook (Washington State University. Department of Horticulture and Landscape Architecture)
Cestaro, Alessandro (Fondazione Edmund Mach. Istituto agrario di San Michele all'Adige)
Troggio, Michela (Fondazione Edmund Mach. Istituto agrario di San Michele all'Adige)
Main, Dorrie (Washington State University. Department of Horticulture and Landscape Architecture)
Zheng, Ping (Washington State University. Department of Horticulture and Landscape Architecture)
Cho, Ilhyung (Saginaw Valley State University. Department of Computer Science and Information Systems)
Folta, Kevin M. (University of Florida. Horticultural Sciences Department)
Sosinski, Bryon (North Carolina State University. Department of Horticultural Science)
Abbott, Albert G. (Clemson University. Department of Genetics and Biochemistry)
Celton, Jean-Marc (Institut National de la Recherche Agronomique (França))
Arús i Gorina, Pere (Centre de Recerca en Agrigenòmica)
Shulaev, Vladimir (University of North Texas. Department of Biological Sciences)
Verde, Ignazio (Centro di Ricerca per la Frutticoltura)
Morgante, Michele (Istituto di Genomica Applicata (Udine, Itàlia))
Rokhsar, Daniel (United States. Department of Energy. Joint Genome Institute)
Velasco, Riccardo (Fondazione Edmund Mach. Istituto agrario di San Michele all'Adige)
Sargent, Daniel James (Fondazione Edmund Mach. Istituto agrario di San Michele all'Adige)

Date:	2012
Abstract:	Background: Rosaceae include numerous economically important and morphologically diverse species. Comparative mapping between the member species in Rosaceae have indicated some level of synteny. Recently the whole genome of three crop species, peach, apple and strawberry, which belong to different genera of the Rosaceae family, have been sequenced, allowing in-depth comparison of these genomes. - Results: Our analysis using the whole genome sequences of peach, apple and strawberry identified 1399 orthologous regions between the three genomes, with a mean length of around 100 kb. Each peach chromosome showed major orthology mostly to one strawberry chromosome, but to more than two apple chromosomes, suggesting that the apple genome went through more chromosomal fissions in addition to the whole genome duplication after the divergence of the three genera. However, the distribution of contiguous ancestral regions, identified using the multiple genome rearrangements and ancestors (MGRA) algorithm, suggested that the Fragaria genome went through a greater number of small scale rearrangements compared to the other genomes since they diverged from a common ancestor. Using the contiguous ancestral regions, we reconstructed a hypothetical ancestral genome for the Rosaceae 7 composed of nine chromosomes and propose the evolutionary steps from the ancestral genome to the extant Fragaria, Prunus and Malus genomes. - Conclusion: Our analysis shows that different modes of evolution may have played major roles in different subfamilies of Rosaceae. The hypothetical ancestral genome of Rosaceae and the evolutionary steps that lead to three different lineages of Rosaceae will facilitate our understanding of plant genome evolution as well as have a practical impact on knowledge transfer among member species of Rosaceae.
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Rosaceae ; Comparative genomics ; Evolution
Published in:	BMC genomics, Vol. 13 (April 2012) , art. 129, ISSN 1471-2164

DOI: 10.1186/1471-2164-13-129
PMID: 22475018

12 p, 2.1 MB

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Research literature > UAB research groups literature > Research Centres and Groups (research output) > Experimental sciences > CRAG (Centre for Research in Agricultural Genomics)
Articles > Research articles
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