image: Overview of the PS_T2T reference genome. A–C The pictures used in this study show the tree, fruits, and flowers of the ‘Fengtangli’ plum. D Overview of genome assembly. Collinearity between ‘Sanyueli’ and two haplotypes of PS_T2T. Gray lines represent collinearity blocks with length 15 000 bp, while orange lines represent potential inversions. Centromeres and telomeres are indicated by black boxes and black dots, respectively. E Hi-C interaction matrix based on the PS_T2T diploid assembly.
Credit: Horticulture Research
Unraveling the genetic underpinnings of stone fruits, a pivotal study explores the genomic landscape of apricot, peach, plum, and mei. It uncovers the signatures of selection pressures driving their domestication and adaptation, revealing a rich tapestry of genetic diversity and evolutionary convergence that shapes the traits we value in these crops.
The Prunus genus, encompassing apricots, peaches, plums, and mei, is vital due to its economic and nutritional value. However, the genetic foundations of these species' shared and unique traits remain largely unexplored. This knowledge gap hinders advancements in breeding programs aimed at improving fruit quality and stress tolerance. Addressing these issues is crucial for sustainable cultivation and enhancing crop resilience to environmental challenges. Based on these challenges, it is essential to conduct in-depth research to uncover the genetic diversity and evolutionary history of Prunus species.
A team of researchers from several institutions in China, including Guizhou University and the Chinese Academy of Agricultural Sciences, published a study (DOI: 10.1093/hr/uhae109) on April 16, 2024, in the journal Horticulture Research. The study focuses on the comparative population genomics of the apricot-peach-plum-mei (APPM) complex, utilizing advanced genomic technologies to reveal insights into the evolutionary history and domestication of these species.
The research team successfully generated a high-quality, haplotype-resolved telomere-to-telomere (T2T) reference genome for a plum cultivar. This comprehensive genome assembly facilitated comparative genomic analyses across the APPM complex. One key discovery was a significant chromosomal translocation in the apricot genome, affecting important traits like acidity and sugar content. Additionally, population genetic analyses revealed substantial gene flow between plum and apricot, with introgression regions linked to post-embryonic development and pollen germination. The study identified both shared and unique genes among the four species, providing insights into the evolutionary pressures shaping these crops. By highlighting convergent and divergent selection signals, the research offers a deeper understanding of the genetic mechanisms underlying key agronomic traits, which is essential for advancing Prunus breeding programs and improving fruit quality and resilience.
Dr. Yongfeng Zhou, one of the lead authors, stated, "Our findings provide valuable insights into the genetic diversity and evolutionary mechanisms of the Prunus species. This knowledge will significantly contribute to the genetic improvement and sustainable cultivation of these economically important fruit crops."
The insights gained from this study have important implications for the breeding and genetic improvement of Prunus species. By understanding the genomic regions and genes involved in key traits, breeders can develop new varieties with improved qualities such as better taste, increased stress tolerance, and higher yields. This research also lays the groundwork for future studies on the genetic basis of adaptation and domestication in fruit crops.
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References
DOI
Original Source URL
https://doi.org/10.1093/hr/uhae109
Funding information
This work was financially supported by the Guizhou Provincial Science and Technology Projects of China ([2022]Zhongdian018, YQK[2023]008), the National Guidance Foundation for Local Science and Technology Development of China (Grant No. 2023-009), and the Science Fund Program for Distinguished Young Scholars of the National Natural Science Foundation of China (Overseas) to Yongfeng Zhou.
About Horticulture Research
Horticulture Research is an open access journal of Nanjing Agricultural University and ranked number one in the Horticulture category of the Journal Citation Reports ™ from Clarivate, 2022. The journal is committed to publishing original research articles, reviews, perspectives, comments, correspondence articles and letters to the editor related to all major horticultural plants and disciplines, including biotechnology, breeding, cellular and molecular biology, evolution, genetics, inter-species interactions, physiology, and the origination and domestication of crops.
Journal
Horticulture Research
Subject of Research
Not applicable
Article Title
Comparative population genomics reveals convergent and divergent selection in the apricot–peach–plum–mei complex
Article Publication Date
16-Apr-2024
COI Statement
The authors declare that they have no competing interests.