Author:
Xiao Qiaoqiao,Pan Qi,Li Jun,Zhang Jinqiang,Yang Jiaotong
Abstract
Abstract
Background
Dendrobium huoshanense, a traditional medicinal and food plant, has a rich history of use. Recently, its genome was decoded, offering valuable insights into gene function. However, there is no comprehensive gene functional analysis platform for D. huoshanense.
Result
To address this, we created a platform for gene function analysis and comparison in D. huoshanense (DhuFAP). Using 69 RNA-seq samples, we constructed a gene co-expression network and annotated D. huoshanense genes by aligning sequences with public protein databases. Our platform contained tools like Blast, gene set enrichment analysis, heatmap analysis, sequence extraction, and JBrowse. Analysis revealed co-expression of transcription factors (C2H2, GRAS, NAC) with genes encoding key enzymes in alkaloid biosynthesis. We also showcased the reliability and applicability of our platform using Chalcone synthases (CHS).
Conclusion
DhuFAP (www.gzybioinformatics.cn/DhuFAP) and its suite of tools represent an accessible and invaluable resource for researchers, enabling the exploration of functional information pertaining to D. huoshanense genes. This platform stands poised to facilitate significant biological discoveries in this domain.
Funder
National Natural Science Foundation of China
Research Project of Guizhou Dendrobium Industry Development Center
the University Science and Technology Innovation Team of the Guizhou Provincial Department of Education
the Guizhou Provincial Science and Technology Projects
the National and Provincial Scientific and Technological Innovation Talent Team of the Guizhou University of Traditional Chinese Medicine
Publisher
Springer Science and Business Media LLC
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