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Evolutionary history and pan-genome dynamics of strawberry (Fragaria spp.).

Authors
  • Qiao, Qin1
  • Edger, Patrick P2
  • Xue, Li3
  • Qiong, La4
  • Lu, Jie1
  • Zhang, Yichen1
  • Cao, Qiang1
  • Yocca, Alan E5, 6
  • Platts, Adrian E5
  • Knapp, Steven J7
  • Van Montagu, Marc8, 9
  • Van de Peer, Yves8, 9, 10, 11
  • Lei, Jiajun12
  • Zhang, Ticao13
Type
Published Article
Journal
Proceedings of the National Academy of Sciences
Publisher
Proceedings of the National Academy of Sciences
Publication Date
Nov 09, 2021
Volume
118
Issue
45
Identifiers
DOI: 10.1073/pnas.2105431118
PMID: 34697247
Source
Medline
Keywords
Language
English
License
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.

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