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Beyond Bioinformatics |
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Title |
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A database of annotated tentative orthologs from crop abiotic stress transcripts
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Authors |
Jayashree Balaji1* ,Jonathan H Crouch2, Prasad VNS Petite1,David A Hoisington3
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Affiliation |
1 Bioinformatics Unit, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru 502 324, Andhra Pradesh, India;2International Wheat and Maize Improvement Centre (CIMMYT), Apdo. Postal 6-641, 06600 México, D.F., México; 3Applied Genomics Laboratory,
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b.jayashree@CGIAR.ORG; * Corresponding author
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Article Type |
Web Database
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Date |
received September 28, 2006; accepted October 03, 2006; published online October 07, 2006
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Abstract |
A minimal requirement to initiate a comparative genomics study on plant responses to abiotic stresses is a dataset of orthologous sequences. The availability of a large amount of sequence information, including those derived from stress cDNA libraries allow for the identification of stress related genes and orthologs associated with the stress response. Orthologous sequences serve as tools to explore genes and their relationships across species. For this purpose, ESTs from stress cDNA libraries across 16 crop species including 6 important cereal crops and 10 dicots were systematically collated and subjected to bioinformatics analysis such as clustering, grouping of tentative orthologous sets, identification of protein motifs/patterns in the predicted protein sequence, and annotation with stress conditions, tissue/library source and putative function. All data are available to the scientific community at http://intranet.icrisat.org/gt1/tog/homepage.htm. We believe that the availability of annotated plant abiotic stress ortholog sets will be a valuable resource for researchers studying the biology of environmental stresses in plant systems, molecular evolution and genomics.
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Keywords
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database; orthologs; comparative genomics; abiotic stress transcripts |
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Citation |
Balaji et al., Bioinformation 1(6): 225-227 (2006)
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Edited by |
P. Kangueane
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ISSN |
0973-2063
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Publisher |
Biomedical Informatics Publishing Group
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Copyright |
Publisher
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Copyright Transfer Statement |
The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.
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License |
This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
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