Spotted cotton oligonucleotide microarrays for gene expression analysis
| العنوان: | Spotted cotton oligonucleotide microarrays for gene expression analysis |
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| المؤلفون: | Jonathan F. Wendel, Z. Jeffrey Chen, Christopher D. Town, Lex E. Flagel, Andrew Woodward, Ran Hovav, Foo Cheung, Jinsuk J. Lee, Alan R. Gingle, Jordan M. Swanson, Joshua A. Udall, Dan Nettleton, Ryan A. Rapp |
| المصدر: | BMC Genomics, Vol 8, Iss 1, p 81 (2007) BMC Genomics |
| بيانات النشر: | Springer Science and Business Media LLC, 2007. |
| سنة النشر: | 2007 |
| مصطلحات موضوعية: | 0106 biological sciences, lcsh:QH426-470, Microarray, lcsh:Biotechnology, Genes, Plant, Gossypium, 01 natural sciences, Transcriptome, 03 medical and health sciences, lcsh:TP248.13-248.65, Genetics, Oligonucleotide Array Sequence Analysis, 030304 developmental biology, Expressed Sequence Tags, 2. Zero hunger, 0303 health sciences, Expressed sequence tag, biology, cDNA library, Oligonucleotide, Gene Expression Profiling, Methodology Article, Nucleic Acid Hybridization, biology.organism_classification, Gene expression profiling, lcsh:Genetics, DNA microarray, 010606 plant biology & botany, Biotechnology |
| الوصف: | Background Microarrays offer a powerful tool for diverse applications plant biology and crop improvement. Recently, two comprehensive assemblies of cotton ESTs were constructed based on three Gossypium species. Using these assemblies as templates, we describe the design and creation and of a publicly available oligonucleotide array for cotton, useful for all four of the cultivated species. Results Synthetic oligonucleotide probes were generated from exemplar sequences of a global assembly of 211,397 cotton ESTs derived from >50 different cDNA libraries representing many different tissue types and tissue treatments. A total of 22,787 oligonucleotide probes are included on the arrays, optimized to target the diversity of the transcriptome and previously studied cotton genes, transcription factors, and genes with homology to Arabidopsis. A small portion of the oligonucleotides target unidentified protein coding sequences, thereby providing an element of gene discovery. Because many oligonucleotides were based on ESTs from fiber-specific cDNA libraries, the microarray has direct application for analysis of the fiber transcriptome. To illustrate the utility of the microarray, we hybridized labeled bud and leaf cDNAs from G. hirsutum and demonstrate technical consistency of results. Conclusion The cotton oligonucleotide microarray provides a reproducible platform for transcription profiling in cotton, and is made publicly available through http://cottonevolution.infoTest. |
| تدمد: | 1471-2164 |
| الوصول الحر: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cf98a3a412ffe503c5a944ad03dfe23cTest https://doi.org/10.1186/1471-2164-8-81Test |
| حقوق: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....cf98a3a412ffe503c5a944ad03dfe23c |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 14712164 |
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