Integrating Reverse Transcription Recombinase Polymerase Amplification with CRISPR Technology for the One-Tube Assay of RNA Article Swipe
YOU?
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· 2021
· Open Access
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· DOI: https://doi.org/10.1021/acs.analchem.1c03456
CRISPR-Cas systems integrated with nucleic acid amplification techniques improve both analytical specificity and sensitivity. We describe here issues and solutions for the successful integration of reverse transcription (RT), recombinase polymerase amplification (RPA), and CRISPR-Cas12a nuclease reactions into a single tube under an isothermal condition (40 °C). Specific detection of a few copies of a viral DNA sequence was achieved in less than 20 min. However, the sensitivity was orders of magnitude lower for the detection of viral RNA due to the slow initiation of RPA when the complementary DNA (cDNA) template remained hybridized to RNA. During the delay of RPA, the crRNA-Cas12a ribonucleoprotein (RNP) gradually lost its activity in the RPA solution, and nonspecific amplification reactions consumed the RPA reagents. We overcame these problems by taking advantage of the endoribonuclease function of RNase H to remove RNA from the RNA-cDNA hybrids and free the cDNA as template for the RPA reaction. As a consequence, we significantly enhanced the overall reaction rate of an integrated assay using RT-RPA and CRISPR-Cas12a for the detection of RNA. We showed successful detection of 200 or more copies of the S gene sequence of SARS-CoV-2 RNA within 5-30 min. We applied our one-tube assay to 46 upper respiratory swab samples for COVID-19 diagnosis, and the results from both fluorescence intensity measurements and end-point visualization were consistent with those of RT-qPCR analysis. The strategy and technique improve the sensitivity and speed of RT-RPA and CRISPR-Cas12a assays, potentially useful for both semi-quantitative and point-of-care analyses of RNA molecules.
Related Topics
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1021/acs.analchem.1c03456
- https://pubs.acs.org/doi/pdf/10.1021/acs.analchem.1c03456
- OA Status
- bronze
- Cited By
- 110
- References
- 27
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W3197021219
Raw OpenAlex JSON
- OpenAlex ID
-
https://openalex.org/W3197021219Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.1021/acs.analchem.1c03456Digital Object Identifier
- Title
-
Integrating Reverse Transcription Recombinase Polymerase Amplification with CRISPR Technology for the One-Tube Assay of RNAWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2021Year of publication
- Publication date
-
2021-09-10Full publication date if available
- Authors
-
Wei Feng, Hanyong Peng, Jingyang Xu, Yanming Liu, Kanti Pabbaraju, Graham Tipples, Michael Joyce, Holly A. Saffran, D. Lorne Tyrrell, Shawn Babiuk, Hongquan Zhang, X. Chris LeList of authors in order
- Landing page
-
https://doi.org/10.1021/acs.analchem.1c03456Publisher landing page
- PDF URL
-
https://pubs.acs.org/doi/pdf/10.1021/acs.analchem.1c03456Direct link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
bronzeOpen access status per OpenAlex
- OA URL
-
https://pubs.acs.org/doi/pdf/10.1021/acs.analchem.1c03456Direct OA link when available
- Concepts
-
Recombinase Polymerase Amplification, Trans-activating crRNA, RNA, Molecular biology, Chemistry, Reverse transcriptase, Complementary DNA, CRISPR, Amplicon, Nucleic acid, DNA, RNase P, Cas9, Loop-mediated isothermal amplification, Biology, Gene, Polymerase chain reaction, BiochemistryTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
110Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 27, 2024: 25, 2023: 28, 2022: 29, 2021: 1Per-year citation counts (last 5 years)
- References (count)
-
27Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.from | 137, 211 |
| abstract_inverted_index.gene | 186 |
| abstract_inverted_index.here | 16 |
| abstract_inverted_index.into | 36 |
| abstract_inverted_index.less | 60 |
| abstract_inverted_index.lost | 105 |
| abstract_inverted_index.min. | 63, 193 |
| abstract_inverted_index.more | 181 |
| abstract_inverted_index.rate | 160 |
| abstract_inverted_index.slow | 81 |
| abstract_inverted_index.swab | 203 |
| abstract_inverted_index.than | 61 |
| abstract_inverted_index.tube | 39 |
| abstract_inverted_index.were | 219 |
| abstract_inverted_index.when | 85 |
| abstract_inverted_index.with | 3, 221 |
| abstract_inverted_index.(RNP) | 103 |
| abstract_inverted_index.(RT), | 27 |
| abstract_inverted_index.RNase | 132 |
| abstract_inverted_index.assay | 164, 198 |
| abstract_inverted_index.delay | 97 |
| abstract_inverted_index.lower | 71 |
| abstract_inverted_index.speed | 234 |
| abstract_inverted_index.these | 122 |
| abstract_inverted_index.those | 222 |
| abstract_inverted_index.under | 40 |
| abstract_inverted_index.upper | 201 |
| abstract_inverted_index.using | 165 |
| abstract_inverted_index.viral | 54, 76 |
| abstract_inverted_index.°C). | 45 |
| abstract_inverted_index.(RPA), | 31 |
| abstract_inverted_index.(cDNA) | 89 |
| abstract_inverted_index.During | 95 |
| abstract_inverted_index.RT-RPA | 166, 236 |
| abstract_inverted_index.copies | 51, 182 |
| abstract_inverted_index.issues | 17 |
| abstract_inverted_index.orders | 68 |
| abstract_inverted_index.remove | 135 |
| abstract_inverted_index.showed | 175 |
| abstract_inverted_index.single | 38 |
| abstract_inverted_index.taking | 125 |
| abstract_inverted_index.useful | 241 |
| abstract_inverted_index.within | 191 |
| abstract_inverted_index.RT-qPCR | 224 |
| abstract_inverted_index.applied | 195 |
| abstract_inverted_index.assays, | 239 |
| abstract_inverted_index.hybrids | 140 |
| abstract_inverted_index.improve | 8, 230 |
| abstract_inverted_index.nucleic | 4 |
| abstract_inverted_index.overall | 158 |
| abstract_inverted_index.results | 210 |
| abstract_inverted_index.reverse | 25 |
| abstract_inverted_index.samples | 204 |
| abstract_inverted_index.systems | 1 |
| abstract_inverted_index.COVID-19 | 206 |
| abstract_inverted_index.However, | 64 |
| abstract_inverted_index.RNA-cDNA | 139 |
| abstract_inverted_index.Specific | 46 |
| abstract_inverted_index.achieved | 58 |
| abstract_inverted_index.activity | 107 |
| abstract_inverted_index.analyses | 247 |
| abstract_inverted_index.consumed | 116 |
| abstract_inverted_index.describe | 15 |
| abstract_inverted_index.enhanced | 156 |
| abstract_inverted_index.function | 130 |
| abstract_inverted_index.nuclease | 34 |
| abstract_inverted_index.one-tube | 197 |
| abstract_inverted_index.overcame | 121 |
| abstract_inverted_index.problems | 123 |
| abstract_inverted_index.reaction | 159 |
| abstract_inverted_index.remained | 91 |
| abstract_inverted_index.sequence | 56, 187 |
| abstract_inverted_index.strategy | 227 |
| abstract_inverted_index.template | 90, 146 |
| abstract_inverted_index.advantage | 126 |
| abstract_inverted_index.analysis. | 225 |
| abstract_inverted_index.condition | 43 |
| abstract_inverted_index.detection | 47, 74, 171, 177 |
| abstract_inverted_index.end-point | 217 |
| abstract_inverted_index.gradually | 104 |
| abstract_inverted_index.intensity | 214 |
| abstract_inverted_index.magnitude | 70 |
| abstract_inverted_index.reaction. | 150 |
| abstract_inverted_index.reactions | 35, 115 |
| abstract_inverted_index.reagents. | 119 |
| abstract_inverted_index.solution, | 111 |
| abstract_inverted_index.solutions | 19 |
| abstract_inverted_index.technique | 229 |
| abstract_inverted_index.CRISPR-Cas | 0 |
| abstract_inverted_index.SARS-CoV-2 | 189 |
| abstract_inverted_index.analytical | 10 |
| abstract_inverted_index.consistent | 220 |
| abstract_inverted_index.diagnosis, | 207 |
| abstract_inverted_index.hybridized | 92 |
| abstract_inverted_index.initiation | 82 |
| abstract_inverted_index.integrated | 2, 163 |
| abstract_inverted_index.isothermal | 42 |
| abstract_inverted_index.molecules. | 250 |
| abstract_inverted_index.polymerase | 29 |
| abstract_inverted_index.successful | 22, 176 |
| abstract_inverted_index.techniques | 7 |
| abstract_inverted_index.integration | 23 |
| abstract_inverted_index.nonspecific | 113 |
| abstract_inverted_index.potentially | 240 |
| abstract_inverted_index.recombinase | 28 |
| abstract_inverted_index.respiratory | 202 |
| abstract_inverted_index.sensitivity | 66, 232 |
| abstract_inverted_index.specificity | 11 |
| abstract_inverted_index.consequence, | 153 |
| abstract_inverted_index.crRNA-Cas12a | 101 |
| abstract_inverted_index.fluorescence | 213 |
| abstract_inverted_index.measurements | 215 |
| abstract_inverted_index.sensitivity. | 13 |
| abstract_inverted_index.CRISPR-Cas12a | 33, 168, 238 |
| abstract_inverted_index.amplification | 6, 30, 114 |
| abstract_inverted_index.complementary | 87 |
| abstract_inverted_index.point-of-care | 246 |
| abstract_inverted_index.significantly | 155 |
| abstract_inverted_index.transcription | 26 |
| abstract_inverted_index.visualization | 218 |
| abstract_inverted_index.endoribonuclease | 129 |
| abstract_inverted_index.ribonucleoprotein | 102 |
| abstract_inverted_index.semi-quantitative | 244 |
| cited_by_percentile_year.max | 100 |
| cited_by_percentile_year.min | 89 |
| corresponding_author_ids | https://openalex.org/A5100707241, https://openalex.org/A5039488721 |
| countries_distinct_count | 2 |
| institutions_distinct_count | 12 |
| corresponding_institution_ids | https://openalex.org/I154425047 |
| citation_normalized_percentile.value | 0.98122227 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | True |