Key Laboratory of Tropical Translational Medicine of the Ministry of Education, Hainan Key Laboratory for Research and Development of Tropical Herbs, Hainan Medical University, Haikou, 571199, China.
Department of Pharmacy, 928th Hospital of PLA Joint Logistics Support Force, Haikou, 571159, China.
BMC Genom Data. 2021 Jun 5;22(1):19. doi: 10.1186/s12863-021-00973-4.
Alpinia oxyphylla Miq. is an important edible and medicinal herb, and its dried fruits are widely used in traditional herbal medicine. Flavonoids are one of the main chemical compounds in A. oxyphylla; however, the genetic and molecular mechanisms of flavonoid biosynthesis are not well understood. We performed transcriptome analysis in the fruit, root, and leaf tissues of A. oxyphylla to delineate tissue-specific gene expression and metabolic pathways in this medicinal plant.
In all, 8.85, 10.10, 8.68, 6.89, and 8.51 Gb clean data were obtained for early-, middle-, and late-stage fruits, leaves, and roots, respectively. Furthermore, 50,401 unigenes were grouped into functional categories based on four databases, namely Nr (47,745 unigenes), Uniprot (49,685 unigenes), KOG (20,153 unigenes), and KEGG (27,285 unigenes). A total of 3110 differentially expressed genes (DEGs) and five distinct clusters with similar expression patterns were obtained, in which 27 unigenes encoded 13 key enzymes associated with flavonoid biosynthesis. In particular, 9 DEGs were significantly up-regulated in fruits, whereas expression of 11 DEGs were highly up-regulated in roots, compared with those in leaves.
The DEGs and metabolic pathway related to flavonoids biosynthesis were identified in root, leaf, and different stages of fruits from A. oxyphylla. These results provide insights into the molecular mechanism of flavonoid biosynthesis in A. oxyphylla and application of genetically engineered varieties of A. oxyphylla.
益智是一种重要的食用和药用草本植物，其干燥果实广泛用于传统草药。类黄酮是益智中主要的化学化合物之一；然而，类黄酮生物合成的遗传和分子机制还不是很清楚。我们对益智的果实、根和叶组织进行了转录组分析，以描绘该药用植物中组织特异性基因表达和代谢途径。
总共获得了早期、中期和晚期果实、叶和根的 8.85、10.10、8.68、6.89 和 8.51 Gb 清洁数据。此外，根据四个数据库（Nr（47745 个 unigenes）、Uniprot（49685 个 unigenes）、KOG（20153 个 unigenes）和 KEGG（27285 个 unigenes）），将 50401 个 unigenes分为功能类别。总共获得了 3110 个差异表达基因（DEGs）和五个具有相似表达模式的不同簇，其中 27 个 unigenes编码与类黄酮生物合成相关的 13 个关键酶。特别是，与叶相比，果实中 9 个 DEGs 显著上调，而根中 11 个 DEGs 的表达高度上调。
从益智的根、叶和不同发育阶段的果实中鉴定出与类黄酮生物合成相关的 DEGs 和代谢途径。这些结果为益智中类黄酮生物合成的分子机制以及益智遗传工程品种的应用提供了见解。
