FlowerBase - Ornamental Plant Genomics Database

Welcome to FlowerBase, your dedicated platform for exploring the rich world of ornamental plant genomics and multi-omics. Our mission is to provide researchers, breeders, and enthusiasts with a centralized, user-friendly resource integrating extensive biological data and powerful analytical tools.

Discover what FlowerBase offers:

Extensive Multi-Omics Data: This database contains 62 high-quality genome assemblies from 58 ornamental species, 44 curated transcriptome datasets, 2,581,336 annotated genes, and 8,754 identified metabolites.
Advanced Analytical Tools: Utilize our suite of bioinformatics tools, including Gene Search, BLAST, Transcription Factor databases, GO/KEGG Enrichment, Gene Cluster Prediction, and Expression Analysis to interrogate data and test hypotheses.
Deep Biological Insights: Explore the "Flower Biology" section to understand the genetics and biochemistry of flower color, scent, and structure through detailed modules on metabolic pathways and regulatory mechanisms.
Breeding Support: Leverage resources in our "Breeding" section, featuring information on key functional genes and essential tools like Primer3 to aid in molecular breeding.
Cultural Exploration: Journey through our "Flower Culture" section to discover the historical and cultural significance of flowers, including famous gardens and edible blooms.
Innovative AI: Engage with our "Flower AI" for image-based species identification and characteristic analysis.

FlowerBase is designed to be your go-to platform for ornamental plant research, continuously evolving with new data and features to support the global scientific community.

Latest News

(July 12, 2025) The Nymphaeaceae species page has been significantly enhanced! It now features a detailed evolutionary tree as the default view, incorporating several new genera like Euryale, Nuphar, and Brasenia. The page now provides a more comprehensive phylogenetic context for water lilies.

(July 10, 2025) Data for the giant waterlily, Victoria cruziana, is now fully integrated into our search and download tools. The main species phylogenetic tree has also received a major visual and functional overhaul for a more intuitive user experience.

(July 10, 2025) We've expanded our dataset for Nymphaeaceae! The giant waterlily, Victoria cruziana, has now been fully integrated into our database. Its genomic data is available for download, and it can be searched in our 'Gene Search' and other bioinformatics tools.

(July 8, 2025) The main species phylogenetic tree on the 'Overview' page has received a major visual and functional overhaul. The layout now features improved node alignment and spacing for better readability, along with an enhanced color scheme to clearly distinguish between taxonomic groups, offering a more intuitive user experience.

(June 1, 2025) Major update to "Flower AI"! Our image recognition tool now boasts enhanced accuracy and supports an even wider range of flower species identification.

(May 20, 2025) Advanced "Gene Cluster Prediction" tool launched in the Omics section, empowering researchers to discover functionally related gene groups with improved algorithms.

(April 10, 2025) The "Flower Color" module within Flower Biology is now fully available, offering detailed biochemical pathways for Anthocyanins, Carotenoids, and Betalains, alongside dedicated pages on their genetic regulation and metabolic processes.

(March 05, 2025) Explore the captivating world of "Flower Scents"! Our new module in Flower Biology details Volatile Organic Compound (VOC) biosynthesis, emission rhythms, ecological functions, and associated genetic and metabolic information.

(February 01, 2025) Unveiling the "Flower Structure" module! This latest addition to Flower Biology provides in-depth insights into floral developmental models (like ABCE), organ specification, epigenetic control mechanisms, and relevant structural gene data.

(January 10, 2025) Our "Genomics Tools" suite has been significantly upgraded! This includes a more powerful Gene Search with advanced filtering, a comprehensive Transcription Factor database, direct BLAST integration, and robust GO/KEGG enrichment analysis tools.

(December 15, 2024) "Transcriptomics Analysis" capabilities expanded! FlowerBase now offers new tools for in-depth Expression Analysis across various tissues and developmental stages, plus tools for identifying Co-expression networks.

(November 20, 2024) The "Metabolomics Database" is now live in the Omics section, providing a comprehensive catalog of identified flower metabolites, their structures, and known biochemical pathways.

(October 25, 2024) The "Breeding" section has been enhanced with detailed pages for key "Functional Genes" such as those involved in Anthocyanin synthesis, Grafting compatibility, and general Flower development.

(September 15, 2024) "Primer3" tool for PCR primer design is now seamlessly integrated within the Breeding section, offering robust support for molecular breeding applications.

(August 05, 2024) Discover "Flower Culture"! Our new section features virtual tours of Famous Gardens, an updated calendar of international Flower Exhibitions, and fascinating insights into Flower Foods.

(July 10, 2024) The "Species Database" under Flower Biology is now more comprehensive, with detailed genomic and trait information for Lilium spp, Orchid spp, Paeonia spp, Prunus spp, Rhododendron spp, Rosa spp, Bougainvillea buttiana, Chrysanthemum, Dianthus caryophyllus, Jasminum sambac, Nelumbo nucifera, Nymphaea tetragona, and Osmanthus fragrans.

(June 01, 2024) The "Data Download" portal is now fully operational, offering researchers direct one-click access to curated genomic datasets for a variety of key ornamental species.

(May 01, 2024) Foundational bioinformatics tool "JBrowse" has been integrated, providing interactive and user-friendly genome visualization capabilities for all hosted species.

(March 15, 2024) We're excited to announce the completion of the primary data acquisition phase for the Flower Biology module, covering core information on flower color, scent, and structure.

(February 28, 2024) First wave of curated datasets from public repositories (NCBI, EBI) for 10 priority species successfully integrated into the FlowerBase pre-release database.

(January 20, 2024) Initial data collection for our foundational set of ornamental plant species is now complete, establishing the core dataset for FlowerBase.

(December 10, 2023) Core Database Architecture Finalized! The foundational schema for FlowerBase is complete, designed to support the massive integration of genomic, transcriptomic, and metabolomic data.

(November 5, 2023) Development of Core Bioinformatics Tools Begins. Work has started on essential tools for the platform, including Gene Search and BLAST integration, laying the groundwork for our analytical capabilities.

(October 15, 2023) Initial Data Curation Underway. Our team has begun the critical process of curating and standardizing datasets for our first set of priority species, ensuring data quality and consistency.

(September 1, 2023) FlowerBase Project Officially Launched! We are excited to announce the start of the FlowerBase project, an ambitious initiative to build a world-class resource for ornamental plant genomics and breeding.

Funding Support

The National Natural Science Foundation of China (32172614, 31801898)

Hainan Province Science and Technology Special Fund (ZDYF2023XDNY050)

Hainan Provincial Natural Science Foundation of China (324RC452)

The Project of National Key Laboratory for Tropical Crop Breeding (NO. NKLTCB202337)

Directors

Prof. Fei Chen

Director

Prof. Ming Luo

Director

Main Developer

Chong Wang

Main Developer

Board Members

Prof. Wenquan Wang

Board Member

Prof. Liangsheng Zhang

Board Member

Dr. Zhidong Li

Board Member

Participants

Yunqing Luo

Participant

Hongbin Zhang

Participant

Shenghao Wang

Participant

Zihao Zhang

Participant

Zhiheng Lin

Participant

Xiaolong Zhang

Participant

Xinmei Feng

Participant

Jiahao Zhang

Participant

Ji Zhang

Participant

Yufan Liang

Participant

User Feedback

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How to Cite Us

FlowerBase: An integrated multi-omics database for ornamental flowering plants, Plant Communications (2025)
Wang, C., Li, Z., Zhang, J., Zhang, J., Liang, Y., Zhang, H., Wang, S., Feng, X., Zhang, X., Zhang, Z., Luo, Y., Dai, W., Lin, Z., Wang, W., Bai, G., Luo, M., Chen, F.
https://doi.org/10.1016/j.xplc.2025.101565

Multi-Omics Data Explorer

Gene Search

JBrowse

BLAST

GO enrichment

KEGG enrichment

Gene Cluster prediction

Expression Analysis

Co-expression Analysis

Heatmap

Single Cell

eFP Browser

Flower Varieties

FlowerCV

Flower AI

Osmanthus fragrans Variomics

Prunus mume Variomics

Data

Tool

iCluster

Mice

KNN

Flower Genetics and Breeding

Flowering Time

Flower Scent

Flower Structure

Flower Color

Flowering Time Genes

Flower Scent Genes

Flower Structure Genes

Flower Color Genes

Functional Genes

Primer3

SSR Finder

Genomic Selection

Flowering Gene Model

SCCGs Prediction

GuideRNA

Candidate Gene Explorer

Latest News

Funding Support

Directors

Prof. Fei Chen

Prof. Ming Luo

Main Developer

Chong Wang

Board Members

Prof. Wenquan Wang

Prof. Liangsheng Zhang

Dr. Zhidong Li

Participants

Yunqing Luo

Hongbin Zhang

Shenghao Wang

Zihao Zhang

Zhiheng Lin

Xiaolong Zhang

Xinmei Feng

Jiahao Zhang

Ji Zhang

Yufan Liang

User Feedback

How to Cite Us