Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing
Mycobacterium tuberculosis antimicrobial resistance has been continually reported and is a major public health issue worldwide. Rapid prediction of drug resistance is important for selecting appropriate antibiotic treatments, which significantly increases cure rates. Gene sequencing technology has p...
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| Format: | Article |
| Language: | English |
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Wiley
2022-01-01
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| Series: | Canadian Journal of Infectious Diseases and Medical Microbiology |
| Online Access: | http://dx.doi.org/10.1155/2022/7588033 |
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| author | Kaishun Zhao Chunlin Tu Wei Chen Haiying Liang Wenjing Zhang Yilei Wang Ye Jin Jianrong Hu Yameng Sun Jun Xu Yanfang Yu |
| author_facet | Kaishun Zhao Chunlin Tu Wei Chen Haiying Liang Wenjing Zhang Yilei Wang Ye Jin Jianrong Hu Yameng Sun Jun Xu Yanfang Yu |
| author_sort | Kaishun Zhao |
| collection | DOAJ |
| description | Mycobacterium tuberculosis antimicrobial resistance has been continually reported and is a major public health issue worldwide. Rapid prediction of drug resistance is important for selecting appropriate antibiotic treatments, which significantly increases cure rates. Gene sequencing technology has proven to be a powerful strategy for identifying relevant drug resistance information. This study established a sequencing method and bioinformatics pipeline for resistance gene analysis using an Oxford Nanopore Technologies sequencer. The pipeline was validated by Sanger sequencing and exhibited 100% concordance with the identified variants. Turnaround time for the nanopore sequencing workflow was approximately 12 h, facilitating drug resistance prediction several weeks earlier than that of traditional phenotype drug susceptibility testing. This study produced a customized gene panel assay for rapid bacterial identification via nanopore sequencing, which improves the timeliness of tuberculosis diagnoses and provides a reliable method that may have clinical application. |
| format | Article |
| id | doaj-art-8f8106aed6454a2c99a100dce4069485 |
| institution | Kabale University |
| issn | 1918-1493 |
| language | English |
| publishDate | 2022-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | Canadian Journal of Infectious Diseases and Medical Microbiology |
| spelling | doaj-art-8f8106aed6454a2c99a100dce40694852025-02-03T01:06:40ZengWileyCanadian Journal of Infectious Diseases and Medical Microbiology1918-14932022-01-01202210.1155/2022/7588033Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology SequencingKaishun Zhao0Chunlin Tu1Wei Chen2Haiying Liang3Wenjing Zhang4Yilei Wang5Ye Jin6Jianrong Hu7Yameng Sun8Jun Xu9Yanfang Yu10Department of Pulmonary and Critical Care MedicineDepartment of Pulmonary and Critical Care MedicineDepartment of LungDepartment of LungDepartment of Pulmonary and Critical Care MedicineDepartment of Pulmonary and Critical Care MedicineDepartment of LungDepartment of LungShanghai Bio-Chain Biological Technology Co.Shanghai Bio-Chain Biological Technology Co.Department of Pulmonary and Critical Care MedicineMycobacterium tuberculosis antimicrobial resistance has been continually reported and is a major public health issue worldwide. Rapid prediction of drug resistance is important for selecting appropriate antibiotic treatments, which significantly increases cure rates. Gene sequencing technology has proven to be a powerful strategy for identifying relevant drug resistance information. This study established a sequencing method and bioinformatics pipeline for resistance gene analysis using an Oxford Nanopore Technologies sequencer. The pipeline was validated by Sanger sequencing and exhibited 100% concordance with the identified variants. Turnaround time for the nanopore sequencing workflow was approximately 12 h, facilitating drug resistance prediction several weeks earlier than that of traditional phenotype drug susceptibility testing. This study produced a customized gene panel assay for rapid bacterial identification via nanopore sequencing, which improves the timeliness of tuberculosis diagnoses and provides a reliable method that may have clinical application.http://dx.doi.org/10.1155/2022/7588033 |
| spellingShingle | Kaishun Zhao Chunlin Tu Wei Chen Haiying Liang Wenjing Zhang Yilei Wang Ye Jin Jianrong Hu Yameng Sun Jun Xu Yanfang Yu Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing Canadian Journal of Infectious Diseases and Medical Microbiology |
| title | Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing |
| title_full | Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing |
| title_fullStr | Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing |
| title_full_unstemmed | Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing |
| title_short | Rapid Identification of Drug-Resistant Tuberculosis Genes Using Direct PCR Amplification and Oxford Nanopore Technology Sequencing |
| title_sort | rapid identification of drug resistant tuberculosis genes using direct pcr amplification and oxford nanopore technology sequencing |
| url | http://dx.doi.org/10.1155/2022/7588033 |
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