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DhuFAP: a platform for gene functional analysis in Dendrobium huoshanense
Qiaoqiao Xiao1, Qi Pan1, Jun Li1
1Resource Institute for Chinese and Ethnic Materia Medica, Guizhou University of Traditional Chinese Medicine, 550025, Guizhou, China.
A new platform, DhuFAP, enables gene function analysis for Dendrobium huoshanense, a medicinal plant. It aids researchers in exploring gene functions and facilitates biological discoveries.
Area of Science:
- Plant genomics
- Bioinformatics
- Medicinal plant research
Background:
- Dendrobium huoshanense is a traditional medicinal and food plant with a decoded genome.
- Existing resources lack a comprehensive gene functional analysis platform for D. huoshanense.
Purpose of the Study:
- To develop an integrated platform for gene function analysis and comparison in D. huoshanense.
- To provide researchers with tools for exploring D. huoshanense gene functions.
Main Methods:
- Construction of a gene co-expression network using 69 RNA-seq samples.
- Annotation of D. huoshanense genes via sequence alignment with public protein databases.
- Development of a platform (DhuFAP) integrating tools like Blast, gene set enrichment analysis, heatmap analysis, sequence extraction, and JBrowse.
Main Results:
- Identification of co-expression between transcription factors (C2H2, GRAS, NAC) and alkaloid biosynthesis genes.
- Demonstration of the platform's reliability and applicability using Chalcone synthases (CHS).
Conclusions:
- DhuFAP provides an accessible resource for D. huoshanense gene functional exploration.
- The platform is expected to facilitate significant biological discoveries in D. huoshanense research.
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