The apricot (Prunus armeniaca L.) genome elucidates Rosaceae evolution and beta-carotenoid synthesis Article Swipe
Fengchao Jiang
,
Junhuan Zhang
,
Sen Wang
,
Li Yang
,
Yingfeng Luo
,
Shenghan Gao
,
Meiling Zhang
,
Shuangyang Wu
,
Songnian Hu
,
Haoyuan Sun
,
Yuzhu Wang
·
YOU?
·
· 2019
· Open Access
·
· DOI: https://doi.org/10.1038/s41438-019-0215-6
YOU?
·
· 2019
· Open Access
·
· DOI: https://doi.org/10.1038/s41438-019-0215-6
Apricots, scientifically known as Prunus armeniaca L, are drupes that resemble and are closely related to peaches or plums. As one of the top consumed fruits, apricots are widely grown worldwide except in Antarctica. A high-quality reference genome for apricot is still unavailable, which has become a handicap that has dramatically limited the elucidation of the associations of phenotypes with the genetic background, evolutionary diversity, and population diversity in apricot. DNA from P. armeniaca was used to generate a standard, size-selected library with an average DNA fragment size of ~20 kb. The library was run on Sequel SMRT Cells, generating a total of 16.54 Gb of PacBio subreads (N50 = 13.55 kb). The high-quality P. armeniaca reference genome presented here was assembled using long-read single-molecule sequencing at approximately 70× coverage and 171× Illumina reads (40.46 Gb), combined with a genetic map for chromosome scaffolding. The assembled genome size was 221.9 Mb, with a contig NG50 size of 1.02 Mb. Scaffolds covering 92.88% of the assembled genome were anchored on eight chromosomes. Benchmarking Universal Single-Copy Orthologs analysis showed 98.0% complete genes. We predicted 30,436 protein-coding genes, and 38.28% of the genome was predicted to be repetitive. We found 981 contracted gene families, 1324 expanded gene families and 2300 apricot-specific genes. The differentially expressed gene (DEG) analysis indicated that a change in the expression of the 9- cis -epoxycarotenoid dioxygenase ( NCED ) gene but not lycopene beta-cyclase ( Lcy B) gene results in a low β-carotenoid content in the white cultivar “Dabaixing”. This complete and highly contiguous P. armeniaca reference genome will be of help for future studies of resistance to plum pox virus (PPV) and the identification and characterization of important agronomic genes and breeding strategies in apricot.
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Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1038/s41438-019-0215-6
- https://www.nature.com/articles/s41438-019-0215-6.pdf
- OA Status
- gold
- Cited By
- 155
- References
- 84
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2983796407
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W2983796407Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1038/s41438-019-0215-6Digital Object Identifier
- Title
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The apricot (Prunus armeniaca L.) genome elucidates Rosaceae evolution and beta-carotenoid synthesisWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2019Year of publication
- Publication date
-
2019-11-18Full publication date if available
- Authors
-
Fengchao Jiang, Junhuan Zhang, Sen Wang, Li Yang, Yingfeng Luo, Shenghan Gao, Meiling Zhang, Shuangyang Wu, Songnian Hu, Haoyuan Sun, Yuzhu WangList of authors in order
- Landing page
-
https://doi.org/10.1038/s41438-019-0215-6Publisher landing page
- PDF URL
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https://www.nature.com/articles/s41438-019-0215-6.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
- OA URL
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https://www.nature.com/articles/s41438-019-0215-6.pdfDirect OA link when available
- Concepts
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Prunus armeniaca, Biology, Rosaceae, Prunus, Fruit tree, Botany, CultivarTop concepts (fields/topics) attached by OpenAlex
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155Total citation count in OpenAlex
- Citations by year (recent)
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2025: 23, 2024: 23, 2023: 27, 2022: 34, 2021: 29Per-year citation counts (last 5 years)
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84Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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