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Highly multiplexed rapid DNA detection with single-nucleotide specificity via convective PCR in a portable device
Nature Biomedical Engineering ( IF 28.1 ) Pub Date : 2021-07-01 , DOI: 10.1038/s41551-021-00755-4
Dmitriy Khodakov 1, 2 , Jiaming Li 1, 3 , Jinny X Zhang 1, 3, 4 , David Yu Zhang 1, 3
Affiliation  

Assays for the molecular detection of nucleic acids are typically constrained by the level of multiplexing (this is the case for the quantitative polymerase chain reaction (qPCR) and for isothermal amplification), turnaround times (as with microarrays and next-generation sequencing), quantification accuracy (isothermal amplification, microarrays and nanopore sequencing) or specificity for single-nucleotide differences (microarrays and nanopore sequencing). Here we show that a portable and battery-powered PCR assay performed in a toroidal convection chamber housing a microarray of fluorescently quenched oligonucleotide probes allows for the rapid and sensitive quantification of multiple DNA targets with single-nucleotide discrimination. The assay offers a limit of detection of 10 DNA copies within 30 min of turnaround time and a dynamic range spanning 4 orders of magnitude of DNA concentration, and we show its performance by detecting 20 genomic loci and 30 single-nucleotide polymorphisms in human genomic DNA samples, and 15 bacterial species in clinical isolates. Portable devices for the fast and highly multiplexed detection of nucleic acids may offer advantages in point-of-care diagnostics.



中文翻译:

在便携式设备中通过对流 PCR 进行具有单核苷酸特异性的高度多重快速 DNA 检测

核酸分子检测的分析通常受到多重水平(定量聚合酶链反应 (qPCR) 和等温扩增的情况)、周转时间(与微阵列和下一代测序一样)、量化的限制准确性(等温扩增、微阵列和纳米孔测序)或单核苷酸差异的特异性(微阵列和纳米孔测序)。在这里,我们展示了在装有荧光淬灭寡核苷酸探针微阵列的环形对流室中进行的便携式电池供电 PCR 测定,可以通过单核苷酸辨别快速灵敏地定量多个 DNA 靶标。该测定在 30 分钟的周转时间内提供 10 个 DNA 拷贝的检测限和跨越 4 个数量级 DNA 浓度的动态范围,我们通过检测人类基因组 DNA 中的 20 个基因组位点和 30 个单核苷酸多态性来展示其性能样品和临床分离株中的 15 种细菌。用于快速和高度多重检测核酸的便携式设备可以在即时诊断中提供优势。

更新日期:2021-07-01
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