Mycobacterium tuberculosis multi-line drug resistance gene identification method and device

A technology of Mycobacterium tuberculosis and drug-resistant genes, which is applied in the fields of genomics, biochemical equipment and methods, sequence analysis, etc., can solve the problems of lack of detection and analysis software for Mycobacterium tuberculosis mutations and the inability to detect frameshift mutations, and achieve High amplification efficiency, auxiliary report interpretation, and high detection accuracy

Pending Publication Date: 2021-11-09
深圳华大因源医药科技有限公司 +2
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AI Technical Summary

Problems solved by technology

This method only takes half a day to one day, but currently there are only detection kits for common mutation sites of first-line drugs on the market. In addition, this method cannot detect frameshift mutations or mutations without mutation hotspots
[0005]

Method used

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  • Mycobacterium tuberculosis multi-line drug resistance gene identification method and device
  • Mycobacterium tuberculosis multi-line drug resistance gene identification method and device
  • Mycobacterium tuberculosis multi-line drug resistance gene identification method and device

Examples

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Embodiment 1

[0140] A total of 48 samples of Mycobacterium tuberculosis were obtained from the hospital. The batch of samples was sequenced together using the MGISEQ-2000 platform, and the generated data were pre-processed first, and then the processed data were directly compared to the Mycobacterium tuberculosis genome and the internal standard sequence library, and a certain amount of processed data was randomly selected. Scaled sequences, aligned to a mycobacterial sequence library. For the result of comparison to the mycobacteria sequence library, the proportion of each mycobacteria in the sample is counted, and for the result of comparison to the internal standard sequence library, the number of internal standard sequences in the sample is counted. After comparing the results of the Mycobacterium tuberculosis genome to filter out low-quality alignment sequences, the variation detection was performed. Finally, through the results of the mutation detection, the mutations of each drug-s...

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Abstract

The invention relates to a mycobacterium tuberculosis multi-line drug resistance gene identification method and device. The method comprises the following steps: acquiring a whole genome sequence obtained by metagenome sequencing of a sample or a sequence of a mycobacterium tuberculosis drug-resistant target region obtained on the basis of targeted amplification sequencing, and carrying out data quality control; comparing the sequence subjected to the data quality control to a mycobacterium tuberculosis genome, sequencing and screening out a comparison result meeting the quality requirement; carrying out local assembly and variation detection on the sequences of the gene regions where the variation sites of which the comparison positions are located in the mycobacterium tuberculosis drug resistance gene database are located; annotating a variation detection result to the mycobacterium tuberculosis drug resistance gene database according to the positions and mutation types of variation sites on the genome; and outputting a detection result of each drug resistance related mutation sites in the mycobacterium tuberculosis drug resistance gene database based on an annotation result. According to the invention, multiple drugs and corresponding drug resistance sites can be covered in one detection, and the detection precision is high.

Description

technical field [0001] The invention relates to the technical field of mycobacterium tuberculosis detection, in particular to a method and a device for identifying multiline drug resistance genes of mycobacterium tuberculosis. Background technique [0002] At present, the methods for drug susceptibility detection of Mycobacterium tuberculosis on the market are mainly divided into drug susceptibility detection based on strain culture and fluorescence quantitative PCR method based on molecular biology. [0003] For drug susceptibility testing based on bacterial strain culture, Mycobacterium tuberculosis is spread on a culture plate, and after Mycobacterium tuberculosis covers the entire plate, different doses of drugs are placed on the plate. After continuing to cultivate for a period of time, observe the size of plaques around the drug, so as to judge the tolerance of the bacteria. This technology needs to be carried out in a stricter biosafety laboratory, and it will take 2...

Claims

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Application Information

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IPC IPC(8): C12Q1/689C12N15/11G16B30/10G16B20/20
CPCC12Q1/689G16B30/10G16B20/20C12Q2600/106C12Q2600/156C12Q2600/16
Inventor 毛宛司谢植豪袁剑颖李英镇
Owner 深圳华大因源医药科技有限公司
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