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Brassica oleracea Genomics Project

Brassica oleracea is one of the most important vegetables in the world. As a member of Brassica family, Brassica oleracea is the closest crop relatives to Brassica nupas and Brassica juncea. So, it's very meaningful to get genome of Brassica oleracea for Brassica family. In this project, whole-genome shotgun (WGS) sequencing strategy, based on paired short reads generated by second-generation Illumina GA sequencing technology, was used to assemble the draft genome of Brassica oleracea. So far, 630Mb genome sequence was obtained, with scaffold N50 size 1.457Mb and contig N50 size 26.828Kb.
Until now, the nine psuedochromosomes of genome assembly, gene prediction and function annotation are already completed. The study of biological function is under going. Via the genomic and genetic information of Brassica oleracea, to study the genus Brassica becoming very conveniently. Hence, Brassica oleracea genetics project not only improve development of genetics and molecular biology but also can accelerate process of molecular breeding.  

Introduction to Bolbase

The Brassica oleracea Genome Database (Bolbase) was designed to provide users a useful and unique genome data source in the field of studying  Brassica oleracea. In this database, it contained two important sections. First, it supplied genomic data and genomic components data, for genomic data, it mainly contains genome structure, scaffold sequences, and psuedochromosome sequences; for genomic components data, it mainly includes putative protein-coding genes (gene location, gene structure, protein feature, gene functional annotation, orthologs and syntenic regions), repeats elments (type, classification, location and sequences) and predicted non-coding RNAs (type, classification, location, description and sequences), and so on. Second, it provides thorough analysis on syntenic regions and triplicated blocks for Brassica oleracea, Brassica rapa and Arabidopsis thaliana. All of the data can be downloaded on line very conveniently. This database also provided browse, search, download, manual,  sitemap, and manual of web server. All of data information will update constantly. It's a useful database for scientific research in the genetics and molecular breeding fields.

Sitemap:

sitemap

News in Bolbase
  • (2012-03-26) The informations of Brassica comparative genomics were intergrated into Bolbase.
  • (2011-06-25) Brassica oleracea genome database  was on line.
  • (2011-04-13) Brassica oleracea genome gene function annotation was complete.
  • (2010-11-25) Brassica oleracea genome gene prediction was complete.
  • (2010-10-25) Brassica oleracea genomic map was complete.
  • (2010-06-29) Brassica oleracea draft genome assembly completely.
  • (2009-02-17) Brassica oleracea genome project was launched.

Resources Links

NCBI

EMBL-EBI

DDBJ

KEGG

JGI

Phytozome

InterproScan

TAIR

BRAD

CPAN

MySQL

......

Journals Links

NATURE

NATURE GENETICS

SCIENCE

Nucleic Acids Research

Bioinformatics

BMC Plant Biology

BMC Genomics

BMC bioinformatics

......

@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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