Evolutionary history and pan-genome dynamics of strawberry (Fragaria spp.).
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Authors
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Qiao, Qin1
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Edger, Patrick P2
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Xue, Li3
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Qiong, La4
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Lu, Jie1
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Zhang, Yichen1
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Cao, Qiang1
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Yocca, Alan E5, 6
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Platts, Adrian E5
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Knapp, Steven J7
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Van Montagu, Marc8, 9
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Van de Peer, Yves8, 9, 10, 11
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Lei, Jiajun12
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Zhang, Ticao13
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1
School of Agriculture, Yunnan University, Kunming 650091, China.
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(China)
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2
Department of Horticulture, Michigan State University, East Lansing, MI 48823; [email protected] [email protected] [email protected] [email protected] [email protected]
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3
College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China.
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(China)
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4
Research Center for Ecology, College of Science, Tibet University, Lhasa 850000, China.
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(China)
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5
Department of Horticulture, Michigan State University, East Lansing, MI 48823.
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6
Department of Plant Biology, Michigan State University, East Lansing, MI 48823.
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7
Department of Plant Sciences, University of California, Davis, CA 95616.
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8
Department of Plant Biotechnology and Bioinformatics, Ghent University 9052 Ghent, Belgium; [email protected] [email protected] [email protected] [email protected] [email protected]
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(Belgium)
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9
Center for Plant Systems Biology, VIB, Ghent 9052, Belgium.
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(Belgium)
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10
Department of Biochemistry, Genetics, and Microbiology, University of Pretoria, Pretoria 0028, South Africa.
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(South Africa)
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11
College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
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(China)
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12
College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China; [email protected] [email protected] [email protected] [email protected] [email protected]
,
(China)
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13
School of Chinese Material Medica, Yunnan University of Chinese Medicine, Kunming 650500, China [email protected] [email protected] [email protected] [email protected] [email protected]
,
(China)
- Type
- Published Article
- Journal
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Proceedings of the National Academy of Sciences
- Publisher
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Proceedings of the National Academy of Sciences
- Publication Date
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Nov 09, 2021
- Volume
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118
- Issue
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45
- Identifiers
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DOI: 10.1073/pnas.2105431118
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PMID: 34697247
- Source
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Medline
- Keywords
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- Language
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English
- License
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Unknown
Abstract
Strawberry (Fragaria spp.) has emerged as a model system for various fundamental and applied research in recent years. In total, the genomes of five different species have been sequenced over the past 10 y. Here, we report chromosome-scale reference genomes for five strawberry species, including three newly sequenced species' genomes, and genome resequencing data for 128 additional accessions to estimate the genetic diversity, structure, and demographic history of key Fragaria species. Our analyses obtained fully resolved and strongly supported phylogenies and divergence times for most diploid strawberry species. These analyses also uncovered a new diploid species (Fragaria emeiensis Jia J. Lei). Finally, we constructed a pan-genome for Fragaria and examined the evolutionary dynamics of gene families. Notably, we identified multiple independent single base mutations of the MYB10 gene associated with white pigmented fruit shared by different strawberry species. These reference genomes and datasets, combined with our phylogenetic estimates, should serve as a powerful comparative genomic platform and resource for future studies in strawberry. Copyright © 2021 the Author(s). Published by PNAS.
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
This record was last updated on 01/05/2022 and may not reflect the most current and accurate biomedical/scientific data available from NLM.
The corresponding record at NLM can be accessed at
https://www.ncbi.nlm.nih.gov/pubmed/34697247
