The effects of glass surfaces and probe GC content on signal intensities of a 60-mer diagnostic microarray
Identifieur interne : 000241 ( PascalFrancis/Checkpoint ); précédent : 000240; suivant : 000242The effects of glass surfaces and probe GC content on signal intensities of a 60-mer diagnostic microarray
Auteurs : Xiaoyang Mo [République populaire de Chine] ; Qinghua Wu [République populaire de Chine] ; Junjian Hu [République populaire de Chine] ; Wenli Ma [République populaire de Chine] ; Min Wei [République populaire de Chine] ; Wuzhou Yuan [République populaire de Chine] ; Yuequn Wang [République populaire de Chine] ; Yongqin Li [République populaire de Chine] ; Yun Deng [République populaire de Chine] ; Xiushan Wu [République populaire de Chine]Source :
- Annals of microbiology [ 1590-4261 ] ; 2008.
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- topic : Verre.
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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.
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<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>
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<fC01 i1="01" l="ENG"><s0>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.</s0>
</fC01>
<fC02 i1="01" i2="X"><s0>002A05</s0>
</fC02>
<fC03 i1="01" i2="X" l="FRE"><s0>Verre</s0>
<s5>01</s5>
</fC03>
<fC03 i1="01" i2="X" l="ENG"><s0>Glass</s0>
<s5>01</s5>
</fC03>
<fC03 i1="01" i2="X" l="SPA"><s0>Vidrio</s0>
<s5>01</s5>
</fC03>
<fC03 i1="02" i2="X" l="FRE"><s0>Sonde</s0>
<s5>02</s5>
</fC03>
<fC03 i1="02" i2="X" l="ENG"><s0>Probe</s0>
<s5>02</s5>
</fC03>
<fC03 i1="02" i2="X" l="SPA"><s0>Sonda</s0>
<s5>02</s5>
</fC03>
<fC03 i1="03" i2="X" l="FRE"><s0>Diagnostic</s0>
<s5>10</s5>
</fC03>
<fC03 i1="03" i2="X" l="ENG"><s0>Diagnosis</s0>
<s5>10</s5>
</fC03>
<fC03 i1="03" i2="X" l="SPA"><s0>Diagnóstico</s0>
<s5>10</s5>
</fC03>
<fC03 i1="04" i2="X" l="FRE"><s0>Microréseau</s0>
<s5>11</s5>
</fC03>
<fC03 i1="04" i2="X" l="ENG"><s0>Microarray</s0>
<s5>11</s5>
</fC03>
<fC03 i1="04" i2="X" l="SPA"><s0>Microarreglo</s0>
<s5>11</s5>
</fC03>
<fC03 i1="05" i2="X" l="FRE"><s0>Oligonucléotide</s0>
<s5>12</s5>
</fC03>
<fC03 i1="05" i2="X" l="ENG"><s0>Oligonucleotide</s0>
<s5>12</s5>
</fC03>
<fC03 i1="05" i2="X" l="SPA"><s0>Oligonucleótido</s0>
<s5>12</s5>
</fC03>
<fN21><s1>238</s1>
</fN21>
<fN44 i1="01"><s1>OTO</s1>
</fN44>
<fN82><s1>OTO</s1>
</fN82>
</pA>
</standard>
</inist>
<affiliations><list><country><li>République populaire de Chine</li>
</country>
</list>
<tree><country name="République populaire de Chine"><noRegion><name sortKey="Mo, Xiaoyang" sort="Mo, Xiaoyang" uniqKey="Mo X" first="Xiaoyang" last="Mo">Xiaoyang Mo</name>
</noRegion>
<name sortKey="Deng, Yun" sort="Deng, Yun" uniqKey="Deng Y" first="Yun" last="Deng">Yun Deng</name>
<name sortKey="Hu, Junjian" sort="Hu, Junjian" uniqKey="Hu J" first="Junjian" last="Hu">Junjian Hu</name>
<name sortKey="Li, Yongqin" sort="Li, Yongqin" uniqKey="Li Y" first="Yongqin" last="Li">Yongqin Li</name>
<name sortKey="Ma, Wenli" sort="Ma, Wenli" uniqKey="Ma W" first="Wenli" last="Ma">Wenli Ma</name>
<name sortKey="Wang, Yuequn" sort="Wang, Yuequn" uniqKey="Wang Y" first="Yuequn" last="Wang">Yuequn Wang</name>
<name sortKey="Wei, Min" sort="Wei, Min" uniqKey="Wei M" first="Min" last="Wei">Min Wei</name>
<name sortKey="Wu, Qinghua" sort="Wu, Qinghua" uniqKey="Wu Q" first="Qinghua" last="Wu">Qinghua Wu</name>
<name sortKey="Wu, Xiushan" sort="Wu, Xiushan" uniqKey="Wu X" first="Xiushan" last="Wu">Xiushan Wu</name>
<name sortKey="Yuan, Wuzhou" sort="Yuan, Wuzhou" uniqKey="Yuan W" first="Wuzhou" last="Yuan">Wuzhou Yuan</name>
</country>
</tree>
</affiliations>
</record>
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