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LjaFGD: Lonicera japonica functional genomics database by Qiaoqiao Xiao; Zhongqiu Li; Mengmeng Qu; Wenying Xu; Zhen Su; Jiaotong Yang is a Agricultural and Biological Sciences article available to read on EtoBox.

What is LjaFGD: Lonicera japonica functional genomics database about?

## Abstract Lonicera japonica Thunb., a traditional Chinese herb, has been used for treating human diseases for thousands of years. Recently, the genome of L. japonica has been decoded, providing valuable information for research into gene function. However, no comprehensive database for gene functional analysis and mining is available for L. japonica. We therefore constructed LjaFGD (www.gzybioinformatics.cn/LjaFGD and bioinformatics.cau.edu.cn/LjaFGD), a database for analyzing and comparing gene function in L. japonica. We constructed a gene co‐expression network based on 77 RNA‐seq samples, and then annotated genes of L. japonica by alignment against protein sequences from public databases. We also introduced several tools for gene functional analysis, including Blast, motif analysis, gene set enrichment analysis, heatmap analysis, and JBrowse. Our co‐expression network revealed that MYB and WRKY transcription factor family genes were co‐expressed with genes encoding key enzymes in the biosynthesis of chlorogenic acid and luteolin in L. japonica. We used flavonol synthase 1 (LjFLS1) as an example to show the reliability and applicability of our database. LjaFGD and its various a

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Author

Qiaoqiao Xiao; Zhongqiu Li; Mengmeng Qu; Wenying Xu; Zhen Su; Jiaotong Yang

Publisher

Wiley

Published

2021

Language

EN

Field

Agricultural and Biological Sciences (Life Sciences)