SSHscreen and SSHdb,generic software for microarray based gene discovery: application to the stress response in cowpea |
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| Authors: | Nanette Coetzer Inge Gazendam Dean Oelofse Dave K Berger |
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| Institution: | (1) ACGT Computational Biology and Bioinformatics Unit, Department of Biochemistry, University of Pretoria, 0002, South Africa;(2) Germplasm Development Division, Agricultural Research Council-Vegetable and Ornamental Plant Institute, Private Bag X293, Pretoria, 0001, South Africa;(3) Department of Plant Science, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, 0002, South Africa |
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| Abstract: | Background Suppression subtractive hybridization is a popular technique for gene discovery from non-model organisms without an annotated
genome sequence, such as cowpea (Vigna unguiculata (L.) Walp). We aimed to use this method to enrich for genes expressed during drought stress in a drought tolerant cowpea
line. However, current methods were inefficient in screening libraries and management of the sequence data, and thus there
was a need to develop software tools to facilitate the process. |
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