A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay
Purification of nucleic acids from a low quantity of bacterial cells in minute volume is important in many clinical and biological applications. We developed a novel microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from bacterial cells in the range of 5000 d...
| Main Authors: | , , , , |
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| Format: | Journal Article |
| Language: | English |
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2013
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| Online Access: | https://hdl.handle.net/10356/102378 http://hdl.handle.net/10220/16831 |
| _version_ | 1824456960146145280 |
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| author | Zhang, Rui Gong Haiqing, Thomas Zeng, Xu Dong Lou, Chao-Ping Sze, Chun Chau |
| author2 | School of Mechanical and Aerospace Engineering |
| author_facet | School of Mechanical and Aerospace Engineering Zhang, Rui Gong Haiqing, Thomas Zeng, Xu Dong Lou, Chao-Ping Sze, Chun Chau |
| author_sort | Zhang, Rui |
| collection | NTU |
| description | Purification of nucleic acids from a low quantity of bacterial cells in minute volume is important in many clinical and biological applications. We developed a novel microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from bacterial cells in the range of 5000 down to a single cell in the sample volume of 1 μl or 125 nl, which can be directly put through on-chip quantitative PCR assay. The aqueous phase bacterial lysate was isolated in an array of microwells, after which an immiscible organic (phenol-chloroform) phase was introduced in a headspace channel connecting the microwell array. Continuous flow of the organic phase increases the interfacial contact with the aqueous phase to achieve purification of target nucleic acid through phase partitioning. Significantly enhanced nucleic acid recovery yield, up to 10 fold higher, was achieved using the chip-based liquid phase nucleic acid purification technique compared to that obtained by the conventional column-based solid phase nucleic acid extraction method. One step vacuum-driven microfluidics allowed an on-chip quantitative PCR assay to be carried out in the same microwells within which bacterial nucleic acids were isolated, avoiding sample loss during liquid transfer. Using this nucleic acid purification device set in a two-dimensional (2D) array format of 900 microwells, it was demonstrated for the first time that high-throughput extraction of RNA couple with direct on-chip PCR analysis from single bacterial cells could be achieved. Our microfluidic platform offered a simple and effective solution for nucleic acid preparation, which can be integrated for automated bacterial pathogen detection and high throughput transcriptional profiling. |
| first_indexed | 2025-02-19T04:02:24Z |
| format | Journal Article |
| id | ntu-10356/102378 |
| institution | Nanyang Technological University |
| language | English |
| last_indexed | 2025-02-19T04:02:24Z |
| publishDate | 2013 |
| record_format | dspace |
| spelling | ntu-10356/1023782020-03-07T12:24:53Z A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay Zhang, Rui Gong Haiqing, Thomas Zeng, Xu Dong Lou, Chao-Ping Sze, Chun Chau School of Mechanical and Aerospace Engineering School of Biological Sciences Nanyang Environment and Water Research Institute DRNTU::Engineering::Mechanical engineering DRNTU::Science::Biological sciences Purification of nucleic acids from a low quantity of bacterial cells in minute volume is important in many clinical and biological applications. We developed a novel microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from bacterial cells in the range of 5000 down to a single cell in the sample volume of 1 μl or 125 nl, which can be directly put through on-chip quantitative PCR assay. The aqueous phase bacterial lysate was isolated in an array of microwells, after which an immiscible organic (phenol-chloroform) phase was introduced in a headspace channel connecting the microwell array. Continuous flow of the organic phase increases the interfacial contact with the aqueous phase to achieve purification of target nucleic acid through phase partitioning. Significantly enhanced nucleic acid recovery yield, up to 10 fold higher, was achieved using the chip-based liquid phase nucleic acid purification technique compared to that obtained by the conventional column-based solid phase nucleic acid extraction method. One step vacuum-driven microfluidics allowed an on-chip quantitative PCR assay to be carried out in the same microwells within which bacterial nucleic acids were isolated, avoiding sample loss during liquid transfer. Using this nucleic acid purification device set in a two-dimensional (2D) array format of 900 microwells, it was demonstrated for the first time that high-throughput extraction of RNA couple with direct on-chip PCR analysis from single bacterial cells could be achieved. Our microfluidic platform offered a simple and effective solution for nucleic acid preparation, which can be integrated for automated bacterial pathogen detection and high throughput transcriptional profiling. 2013-10-24T08:27:48Z 2019-12-06T20:54:07Z 2013-10-24T08:27:48Z 2019-12-06T20:54:07Z 2012 2012 Journal Article Zhang, R., Gong, H. T., Zeng, X., Lou, C., & Sze, C. (2012). A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay. Analytical chemistry, 85(3), 1484-1491. https://hdl.handle.net/10356/102378 http://hdl.handle.net/10220/16831 10.1021/ac3026509 en Analytical chemistry |
| spellingShingle | DRNTU::Engineering::Mechanical engineering DRNTU::Science::Biological sciences Zhang, Rui Gong Haiqing, Thomas Zeng, Xu Dong Lou, Chao-Ping Sze, Chun Chau A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay |
| title | A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay |
| title_full | A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay |
| title_fullStr | A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay |
| title_full_unstemmed | A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay |
| title_short | A microfluidic liquid phase nucleic acid purification chip to selectively isolate DNA or RNA from low copy/single bacterial cells in minute sample volume followed by direct on-chip quantitative PCR assay |
| title_sort | microfluidic liquid phase nucleic acid purification chip to selectively isolate dna or rna from low copy single bacterial cells in minute sample volume followed by direct on chip quantitative pcr assay |
| topic | DRNTU::Engineering::Mechanical engineering DRNTU::Science::Biological sciences |
| url | https://hdl.handle.net/10356/102378 http://hdl.handle.net/10220/16831 |
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