School of Agriculture, Yunnan University, Kunming 650091, China.
Department of Horticulture, Michigan State University, East Lansing, MI 48823;
Proc Natl Acad Sci U S A. 2021 Nov 9;118(45). doi: 10.1073/pnas.2105431118.
Strawberry ( 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 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 ( Jia J. Lei). Finally, we constructed a pan-genome for and examined the evolutionary dynamics of gene families. Notably, we identified multiple independent single base mutations of the 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.
近年来，草莓（ spp.）已成为各种基础和应用研究的模式系统。在过去的 10 年中，总共对五个不同物种的基因组进行了测序。在这里，我们报告了五个草莓物种的染色体规模参考基因组，包括三个新测序物种的基因组，以及 128 个额外样本的基因组重测序数据，以估计关键物种的遗传多样性、结构和种群历史。我们的分析获得了最接近的和支持度最强的大多数二倍体草莓物种的系统发育和分化时间。这些分析还揭示了一个新的二倍体物种（ Jia J. Lei）。最后，我们构建了一个 的泛基因组，并研究了基因家族的进化动态。值得注意的是，我们鉴定了与不同草莓物种中白色着色果实相关的 基因的多个独立的单碱基突变。这些参考基因组和数据集，以及我们的系统发育估计，应该为未来的草莓研究提供一个强大的比较基因组平台和资源。
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