Method for establishing mycobacterium abscessus RUO database and subtype super map

A mycobacterium and database technology, applied in the analysis of materials, material analysis by electromagnetic means, measurement devices, etc., can solve problems such as difficult to popularize, expensive, and the microbiology laboratory is not very practical, and achieve the effect of improving efficiency

Active Publication Date: 2017-03-08
SHANGHAI PULMONARY HOSPITAL
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  • Abstract
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Problems solved by technology

[0009] These molecular typing methods based on genetic analysis are relatively expensive and take a long time ...

Method used

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Embodiment Construction

[0037] In order to make the technical means, technical features, invention objectives and technical effects realized by the present invention easy to understand, the present invention will be further elaborated below.

[0038] The method for setting up the Mycobacterium abscessus RUO database and constructing the super map of the subtype is characterized in that: comprising the following steps:

[0039] Step 1: Strain Collection and DNA Extraction

[0040] 1.1 Strain collection

[0041] Collect 300 strains of Mycobacterium abscessus, which were isolated and collected from sputum samples and alveolar lavage fluid.

[0042] The clinical strains collected were all screened as non-tuberculous mycobacteria by MGIT960 medium and p-nitrotoluic acid (PNB) test, and all samples were further confirmed as Mycobacterium abscessus complex by rpoB gene sequencing analysis.

[0043] Test samples obtained from patients were inoculated on slant Roche medium (L-J medium) after simplified trea...

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Abstract

The invention discloses a method for establishing a mycobacterium abscessus RUO database and a subtype super map. The method is characterized by including the following steps of mycobacterium abscessus strain collecting and DNA extracting; 2, gene library preparing and illumine HiSeq sequencing; 3, genome establishing and phylogenetic tree establishing; 4, sample preparing and strain detecting; 5, accuracy confirming. According to the method, mycobacterium abscessus subspecies are analyzed and determined; ionization-flight-time mass-spectrometric-detection subspecies information is desorbed in the mode that a matrix assists in laser, the RUO database and the established super map are established, the sensitivity and the specificity are detected through strain blind testing, the operation procedure and the diagnostic standard for subspecies-level laboratory identification are formulated, a work chain of the microbial standard in-vitro-diagnosis procedure is added, and the efficiency of all microbiological labs on mycobacterium abscessus subtype identification is improved.

Description

technical field [0001] The invention relates to a method, in particular to a method for establishing a Mycobacterium abscessus RUO database and constructing a subtype supermap. Background technique [0002] Mycobacterium abscessus infection has shown an obvious upward trend in recent years. In the past ten years, although the prevention and control of tuberculosis worldwide has brought its transmission and epidemic under control, the incidence of non-tuberculous mycobacteria (NTM) infection has increased rapidly, especially in immunocompromised patients. , and invasive operations such as endoscopy, surgery, and transplantation have increased, and the infection rate of NTM in patients has increased, making it a clinical disease that cannot be ignored. NTM is divided into fast growing type (rapidly growing mycobacteria, RGM) and slow growing type, among which RGM is considered to be more important human pathogenic bacteria. About 65-80% of RGM infections are caused by M. abs...

Claims

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Application Information

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IPC IPC(8): G01N27/62
CPCG01N27/626
Inventor 褚海青
Owner SHANGHAI PULMONARY HOSPITAL
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