Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, kunming, 650000, China.
University of Chinese Academy of Sciences, Beijing, 100049, China.
Sci Data. 2024 Jul 13;11(1):776. doi: 10.1038/s41597-024-03549-w.
Fructus hippophae (Hippophae rhamnoides spp. mongolica×Hippophae rhamnoides sinensis), a hybrid variety of sea buckthorn that Hippophae rhamnoides spp. mongolica serves as the female parent and Hippophae rhamnoides sinensis serves as the male parent, is a traditional plant with great potentials of economic and medical values. Herein, we gained a chromosome-level genome of Fructus hippophae about 918.59 Mb, with the scaffolds N50 reaching 83.65 Mb. Then, we anchored 440 contigs with 97.17% of the total genome sequences onto 12 pseudochromosomes. Next, de-novo, homology and transcriptome assembly strategies were adopted for gene structure prediction. This predicted 36475 protein-coding genes, of which 36226 genes could be functionally annotated. Simultaneously, various strategies were used for quality assessment, both the complete BUSCO value (98.80%) and the mapping rate indicated the high assembly quality. Repetitive elements, which occupied 63.68% of the genome, and 1483600 bp of non-coding RNA were annotated. Here, we provide genomic information on female plants of a popular variety, which can provide data for pan-genomic construction of sea buckthorn and for the resolution of the mechanism of sex differentiation.
沙棘（蒙古沙棘×中国沙棘）是沙棘的一个杂交品种，其母本为蒙古沙棘，父本为中国沙棘，是一种具有巨大经济和药用价值的传统植物。在此，我们获得了约 918.59 Mb 的沙棘染色体水平基因组，支架 N50 达到 83.65 Mb。然后，我们将 440 个 contigs 锚定到 12 个假染色体上，占总基因组序列的 97.17%。接下来，我们采用从头预测、同源预测和转录组组装策略进行基因结构预测。共预测到 36475 个蛋白质编码基因，其中 36226 个基因可进行功能注释。同时，我们采用了多种策略进行质量评估，完整的 BUSCO 值（98.80%）和映射率都表明了组装质量很高。注释了重复元件，它们占据了基因组的 63.68%，以及 1483600 bp 的非编码 RNA。这里，我们提供了一种受欢迎品种的雌性植物的基因组信息，这可为沙棘泛基因组构建和性别分化机制的解析提供数据。
