The effects of glass surfaces and probe GC content on signal intensities of a 60-mer diagnostic microarray.
Identifieur interne : 003625 ( Ncbi/Curation ); précédent : 003624; suivant : 003626The effects of glass surfaces and probe GC content on signal intensities of a 60-mer diagnostic microarray.
Auteurs : Xiaoyang Mo ; Qinghua Wu [République populaire de Chine] ; Junjian Hu ; Wenli Ma [République populaire de Chine] ; Min Wei [République populaire de Chine] ; Wuzhou Yuan ; Yuequn Wang ; Yongqin Li ; Yun Deng ; Xiushan WuSource :
- Annals of microbiology [ 1590-4261 ] ; 2008.
Abstract
The effects of glass surfaces and probe GC content on signal intensities of a 60-mer diagnostic microarray were studied. Twelve virus-specific oligonucleotide probes for severe acute respiratory syndrome coronavirus (SARS-CoV) were divided into a high GC content group (≥ 50%) and a low GC content group (< 50%), and spotted onto four different chemically-modified glass surfaces: a poly-amine coating activated by 1,4-phenylene diisothiocyanate (Poly-Amine surface), an acrylic acid-co-acrylamide copolymer coating activated by 1-(3-dimethylamino propyl)-3-ethylcarbodiimide hydrochloride and N-hydroxysuccinimide (AACA-Copolymer surface), a commercial Corning CMT-GAPS amino surface, and a Telechem SuperAmine amino surface. RNA samples from cultured SARS-CoV strain were labelled using direct cDNA labelling with restriction display in a single colour format. The background-subtracted signal intensities were analysed using two-way analysis of variance. The effects of glass surfaces on background-subtracted signal intensities were significant (p=0.003). Multiple comparisons showed that differences existed mainly between the AACA-Copolymer surface and the other glass surfaces, and that the AACA-Copolymer surface had the highest background-subtracted signal intensity. The probe GC content had no significant effect on signal intensities in the narrow range of GC content represented (p=0.07). The results suggested that the AACA-Copolymer surface may be a novel choice of microorganism survey based on long oligonucleotide microarray.
DOI: 10.1007/BF03175336
PubMed: 32226355
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Xiaoyang Mo<affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation>Le document en format XML
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Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation></author><author><name sortKey="Wu, Qinghua" sort="Wu, Qinghua" uniqKey="Wu Q" first="Qinghua" last="Wu">Qinghua Wu</name><affiliation wicri:level="1"><nlm:affiliation>2Key Lab of Biochip, Southern Medical University, 510515 Guangzhou, Guangdong, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>2Key Lab of Biochip, Southern Medical University, 510515 Guangzhou, Guangdong</wicri:regionArea><wicri:noRegion>Guangdong</wicri:noRegion></affiliation></author><author><name sortKey="Hu, Junjian" sort="Hu, Junjian" uniqKey="Hu J" first="Junjian" last="Hu">Junjian Hu</name><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry 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first="Yongqin" last="Li">Yongqin Li</name><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation></author><author><name sortKey="Deng, Yun" sort="Deng, Yun" uniqKey="Deng Y" first="Yun" last="Deng">Yun Deng</name><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation></author><author><name sortKey="Wu, Xiushan" sort="Wu, Xiushan" uniqKey="Wu X" first="Xiushan" last="Wu">Xiushan Wu</name><affiliation><nlm:affiliation>1The Center for Heart Development, Key Lab of MOE for Development Biology and Protein Chemistry, College of Life Sciences, Hunan Normal University, 410081 Changsha, Human.</nlm:affiliation><wicri:noCountry code="subField">Human</wicri:noCountry></affiliation></author></analytic><series><title level="j">Annals of microbiology</title><idno type="ISSN">1590-4261</idno><imprint><date when="2008" type="published">2008</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The effects of glass surfaces and probe GC content on signal intensities of a 60-mer diagnostic microarray were studied. Twelve virus-specific oligonucleotide probes for severe acute respiratory syndrome coronavirus (SARS-CoV) were divided into a high GC content group (≥ 50%) and a low GC content group (< 50%), and spotted onto four different chemically-modified glass surfaces: a poly-amine coating activated by 1,4-phenylene diisothiocyanate (Poly-Amine surface), an acrylic acid-co-acrylamide copolymer coating activated by 1-(3-dimethylamino propyl)-3-ethylcarbodiimide hydrochloride and N-hydroxysuccinimide (AACA-Copolymer surface), a commercial Corning CMT-GAPS amino surface, and a Telechem SuperAmine amino surface. RNA samples from cultured SARS-CoV strain were labelled using direct cDNA labelling with restriction display in a single colour format. The background-subtracted signal intensities were analysed using two-way analysis of variance. The effects of glass surfaces on background-subtracted signal intensities were significant (p=0.003). Multiple comparisons showed that differences existed mainly between the AACA-Copolymer surface and the other glass surfaces, and that the AACA-Copolymer surface had the highest background-subtracted signal intensity. The probe GC content had no significant effect on signal intensities in the narrow range of GC content represented (p=0.07). The results suggested that the AACA-Copolymer surface may be a novel choice of microorganism survey based on long oligonucleotide microarray.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
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