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A database of annotated tentative orthologs from crop abiotic stress transcripts
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 g...
Autores principales: | , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
Biomedical Informatics Publishing Group
2006
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891691/ https://www.ncbi.nlm.nih.gov/pubmed/17597893 |
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author | Balaji, Jayashree Crouch, Jonathan H Petite, Prasad VNS Hoisington, David A |
author_facet | Balaji, Jayashree Crouch, Jonathan H Petite, Prasad VNS Hoisington, David A |
author_sort | Balaji, Jayashree |
collection | PubMed |
description | 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. |
format | Text |
id | pubmed-1891691 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2006 |
publisher | Biomedical Informatics Publishing Group |
record_format | MEDLINE/PubMed |
spelling | pubmed-18916912007-06-27 A database of annotated tentative orthologs from crop abiotic stress transcripts Balaji, Jayashree Crouch, Jonathan H Petite, Prasad VNS Hoisington, David A Bioinformation Web Database 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. Biomedical Informatics Publishing Group 2006-10-07 /pmc/articles/PMC1891691/ /pubmed/17597893 Text en © 2005 Biomedical Informatics Publishing Group 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. |
spellingShingle | Web Database Balaji, Jayashree Crouch, Jonathan H Petite, Prasad VNS Hoisington, David A A database of annotated tentative orthologs from crop abiotic stress transcripts |
title | A database of annotated tentative orthologs from crop abiotic stress transcripts |
title_full | A database of annotated tentative orthologs from crop abiotic stress transcripts |
title_fullStr | A database of annotated tentative orthologs from crop abiotic stress transcripts |
title_full_unstemmed | A database of annotated tentative orthologs from crop abiotic stress transcripts |
title_short | A database of annotated tentative orthologs from crop abiotic stress transcripts |
title_sort | database of annotated tentative orthologs from crop abiotic stress transcripts |
topic | Web Database |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891691/ https://www.ncbi.nlm.nih.gov/pubmed/17597893 |
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