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Updated: May 7, 2026

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

Published on: June 17, 2012

Bolbase: a comprehensive genomics database for Brassica oleracea.

Jingyin Yu¹, Meixia Zhao, Xiaowu Wang

¹The Key Laboratory of Oil Crops Biology and Genetic Breeding, the Ministry of Agriculture, Oil Crops Research Institute, the Chinese Academy of Agricultural Sciences, Wuhan 430062, China. huawei@oilcrops.cn.

|October 2, 2013

Summary

This summary is machine-generated.

Bolbase is a new database for Brassica oleracea genome data and comparative genomics. It offers tools to study genome evolution and enhance molecular breeding for Brassica crops.

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Published on: December 22, 2017

Area of Science:

Plant genomics
Comparative genomics
Evolutionary biology

Background:

Brassica oleracea exhibits significant morphological diversity, encompassing important vegetable crops like cabbage, cauliflower, and kale.
Its phylogenetic position and available genome sequences offer a unique opportunity to study species divergence and evolution within Brassica.

Purpose of the Study:

To develop a comprehensive database, Bolbase, for Brassica oleracea genome data.
To provide comparative genomics information with related Brassica species and Arabidopsis thaliana.
To facilitate research on Brassica genome evolution and molecular breeding.

Main Methods:

Development of Bolbase, a database integrating B. oleracea whole genome data (chromosomes, scaffolds, genes, TEs, ncRNAs).
Inclusion of comparative genomics data: syntenic regions, substitution rates (Ks/Ka), gene families, and transposable element analysis.
Implementation of search and data mining tools: keyword search, BLAST server, and GBrowse for visualization and data extraction.

Main Results:

Bolbase provides access to the complete B. oleracea genome assembly and annotation.
Comparative data enables analysis of genomic similarities and differences across Brassica species.
Integrated tools facilitate sequence identification and visualization of syntenic regions.

Conclusions:

Bolbase is the first dedicated platform for B. oleracea genomics and comparative studies.
It is a valuable resource for understanding Brassica genome function, evolution, and advancing molecular breeding.
The database will be regularly updated and is freely accessible.