Diagnostic Host Gene Expression Analysis by Quantitative Reverse Transcription Loop-Mediated Isothermal Amplification to Discriminate between Bacterial and Viral Infections
© American Association for Clinical Chemistry 2022. All rights reserved. For permissions, please email: journals.permissionsoup.com..
BACKGROUND: Early and accurate diagnosis of acute infections can help minimize the overprescription of antibiotics and improve patient outcomes. Discrimination between bacterial and viral etiologies in acute infection based on changes in host gene expression has been described. Unfortunately, established technologies used for gene expression profiling are typically expensive and slow, confounding integration into clinical workflows. Here we report the development of an ultra-rapid test system for host gene expression profiling from blood based on quantitative reverse transcription followed by loop-mediated isothermal amplification (qRT-LAMP).
METHODS: We developed 10 messenger ribonucleic acid-specific assays based on qRT-LAMP targeting 7 informative biomarkers to discriminate viral from bacterial infections and 3 housekeeping reference genes. We optimized qRT-LAMP formulations to achieve a turnaround time of 12 min without sacrificing specificity or precision. The accuracy of the test system was verified utilizing blood samples from 57 patients and comparing qRT-LAMP results to profiles obtained using an orthogonal reference technology.
RESULTS: We observed a Pearson coefficient of 0.90 between bacterial/viral metascores generated by qRT-LAMP and the reference technology.
CONCLUSIONS: qRT-LAMP assays can provide sufficiently accurate gene expression profiling data to enable discrimination between bacterial and viral etiologies using an established set of biomarkers and a classification algorithm.
| Medienart: |
E-Artikel |
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| Erscheinungsjahr: |
2022 |
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| Erschienen: |
2022 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:68 |
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| Enthalten in: |
Clinical chemistry - 68(2022), 4 vom: 31. März, Seite 550-560 |
| Sprache: |
Englisch |
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| Beteiligte Personen: |
Remmel, Melissa C [VerfasserIn] |
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| Links: |
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| Themen: |
Gene expression |
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| Anmerkungen: |
Date Completed 06.04.2022 Date Revised 12.07.2022 published: Print Citation Status MEDLINE |
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| doi: |
10.1093/clinchem/hvab275 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| PPN (Katalog-ID): |
NLM336672322 |
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| 245 | 1 | 0 | |a Diagnostic Host Gene Expression Analysis by Quantitative Reverse Transcription Loop-Mediated Isothermal Amplification to Discriminate between Bacterial and Viral Infections |
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| 500 | |a Date Completed 06.04.2022 | ||
| 500 | |a Date Revised 12.07.2022 | ||
| 500 | |a published: Print | ||
| 500 | |a Citation Status MEDLINE | ||
| 520 | |a © American Association for Clinical Chemistry 2022. All rights reserved. For permissions, please email: journals.permissionsoup.com. | ||
| 520 | |a BACKGROUND: Early and accurate diagnosis of acute infections can help minimize the overprescription of antibiotics and improve patient outcomes. Discrimination between bacterial and viral etiologies in acute infection based on changes in host gene expression has been described. Unfortunately, established technologies used for gene expression profiling are typically expensive and slow, confounding integration into clinical workflows. Here we report the development of an ultra-rapid test system for host gene expression profiling from blood based on quantitative reverse transcription followed by loop-mediated isothermal amplification (qRT-LAMP) | ||
| 520 | |a METHODS: We developed 10 messenger ribonucleic acid-specific assays based on qRT-LAMP targeting 7 informative biomarkers to discriminate viral from bacterial infections and 3 housekeeping reference genes. We optimized qRT-LAMP formulations to achieve a turnaround time of 12 min without sacrificing specificity or precision. The accuracy of the test system was verified utilizing blood samples from 57 patients and comparing qRT-LAMP results to profiles obtained using an orthogonal reference technology | ||
| 520 | |a RESULTS: We observed a Pearson coefficient of 0.90 between bacterial/viral metascores generated by qRT-LAMP and the reference technology | ||
| 520 | |a CONCLUSIONS: qRT-LAMP assays can provide sufficiently accurate gene expression profiling data to enable discrimination between bacterial and viral etiologies using an established set of biomarkers and a classification algorithm | ||
| 650 | 4 | |a Journal Article | |
| 650 | 4 | |a Research Support, U.S. Gov't, Non-P.H.S. | |
| 650 | 4 | |a Research Support, Non-U.S. Gov't | |
| 650 | 4 | |a LAMP | |
| 650 | 4 | |a gene expression | |
| 650 | 4 | |a host response | |
| 650 | 4 | |a molecular diagnostics | |
| 650 | 4 | |a point-of-care | |
| 650 | 4 | |a qRT-LAMP | |
| 650 | 7 | |a RNA, Viral |2 NLM | |
| 700 | 1 | |a Coyle, Sabrina M |e verfasserin |4 aut | |
| 700 | 1 | |a Eshoo, Mark W |e verfasserin |4 aut | |
| 700 | 1 | |a Sweeney, Timothy E |e verfasserin |4 aut | |
| 700 | 1 | |a Rawling, David C |e verfasserin |4 aut | |
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| 856 | 4 | 0 | |u http://dx.doi.org/10.1093/clinchem/hvab275 |3 Volltext |
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