Breeding Science
Online ISSN : 1347-3735
Print ISSN : 1344-7610
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bex-db: Bioinformatics workbench for comprehensive analysis of barley-expressed genes
Tsuyoshi TanakaHiroaki SakaiNobuyuki FujiiFuminori KobayashiShingo NakamuraTakeshi ItohTakashi MatsumotoJianzhong Wu
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2013 Volume 63 Issue 4 Pages 430-434

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Abstract

Barley (Hordeum vulgare) is one of the world’s most important cereal crops. Although its large and complex genome has held back barley genomics for quite a while, the whole genome sequence was released in 2012 by the International Barley Genome Sequencing Consortium (IBSC). Moreover, more than 30,000 barley full-length cDNAs (FLcDNAs) are now available in the public domain. Here we present the Barley Gene Expression Database (bex-db: http://barleyflc.dna.affrc.go.jp/bexdb/index.html) as a repository of transcriptome data including the sequences and the expression profiles of barley genes resulting from microarray analysis. In addition to FLcDNA sequences, bex-db also contains partial sequences of more than 309,000 novel expressed sequence tags (ESTs). Users can browse the data via keyword, sequence homology and expression profile search options. A genome browser was also developed to display the chromosomal locations of barley FLcDNAs and wheat (Triticum aestivum) transcripts as well as Aegilops tauschii gene models on the IBSC genome sequence for future comparative analysis of orthologs among Triticeae species. The bex-db should provide a useful resource for further genomics studies and development of genome-based tools to enhance the progress of the genetic improvement of cereal crops.

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© 2013 by JAPANESE SOCIETY OF BREEDING
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