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פותח על ידי קלירמאש פתרונות בע"מ -
Spotted cotton oligonucleotide microarrays for gene expression analysis
Year:
2007
Source of publication :
BMC Genomics
Authors :
חובב, רן
;
.
Volume :
8
Co-Authors:
Udall, J.A., Department of Plant and Animal Sciences, Brigham Young University, Provo, UT 84062, United States
Flagel, L.E., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Cheung, F., The Institute for Genomic Research, A Division of the J. Craig Venter Institute, 9712 Medical Center Drive, Rockville, MD 20850, United States
Woodward, A.W., Section of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, United States
Hovav, R., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Rapp, R.A., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Swanson, J.M., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Lee, J.J., Section of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, United States
Gingle, A.R., Center for Applied Genetic Technologies, University of Georgia, Athens, GA 30602, United States
Nettleton, D., Department of Statistics, Iowa State University, Ames, IA 50011, United States
Town, C.D., The Institute for Genomic Research, A Division of the J. Craig Venter Institute, 9712 Medical Center Drive, Rockville, MD 20850, United States
Chen, Z.J., Section of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, United States
Wendel, J.F., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Facilitators :
From page:
To page:
(
Total pages:
1
)
Abstract:
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 oligo nucleotide 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.info. © 2007 Udall et al; licensee BioMed Central Ltd.
Note:
Related Files :
arabidopsis
expressed sequence tag
Gene
Genetics
Gossypium
Microarray analysis
oligonucleotide probe
plant genetics
עוד תגיות
תוכן קשור
More details
DOI :
10.1186/1471-2164-8-81
Article number:
81
Affiliations:
Database:
סקופוס
Publication Type:
מאמר
;
.
Language:
אנגלית
Editors' remarks:
ID:
31695
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 01:04
You may also be interested in
Scientific Publication
Spotted cotton oligonucleotide microarrays for gene expression analysis
8
Udall, J.A., Department of Plant and Animal Sciences, Brigham Young University, Provo, UT 84062, United States
Flagel, L.E., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Cheung, F., The Institute for Genomic Research, A Division of the J. Craig Venter Institute, 9712 Medical Center Drive, Rockville, MD 20850, United States
Woodward, A.W., Section of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, United States
Hovav, R., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Rapp, R.A., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Swanson, J.M., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Lee, J.J., Section of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, United States
Gingle, A.R., Center for Applied Genetic Technologies, University of Georgia, Athens, GA 30602, United States
Nettleton, D., Department of Statistics, Iowa State University, Ames, IA 50011, United States
Town, C.D., The Institute for Genomic Research, A Division of the J. Craig Venter Institute, 9712 Medical Center Drive, Rockville, MD 20850, United States
Chen, Z.J., Section of Molecular Cell and Developmental Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, United States
Wendel, J.F., Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA 50011, United States
Spotted cotton oligonucleotide microarrays for gene expression analysis
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 oligo nucleotide 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.info. © 2007 Udall et al; licensee BioMed Central Ltd.
Scientific Publication
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