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A method for identification of Yersinia pestis based on chromosome-specific probes

A Yersinia pestis and probe technology, applied in the biological field, can solve the problems of small number of strains, limited specificity of primers, inability to identify atypical strains effectively, etc.

Active Publication Date: 2021-11-23
ACADEMY OF MILITARY MEDICAL SCI
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

The targets used to identify earlier all used the sequences on the unique plasmids, which cannot be effectively identified when encountering atypical strains (such as strains with lost plasmids)
There are also primers on some chromosomes used to distinguish these two bacteria, but the number of strains used is too small, and the specificity of the primers is limited

Method used

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  • A method for identification of Yersinia pestis based on chromosome-specific probes
  • A method for identification of Yersinia pestis based on chromosome-specific probes
  • A method for identification of Yersinia pestis based on chromosome-specific probes

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Embodiment 1

[0146] Example 1. Establishment of an identification method for Yersinia pestis based on chromosome-specific probes

[0147] The Yersinia pestis DNA sequence described in the present invention is the chromosome sequence of the standard strain Yersinia pestis CO92 (GenBank: NC_003143, 13-DEC-2020), and the position of the nucleic acid sequence is also based on the chromosome sequence of Yersinia pestis CO92 (GenBank: NC_003143, 13-DEC-2020). -2020) is calculated as standard.

[0148] 1. Download the genomes of Yersinia pestis (539 strains in total, Table 1) and Yersinia pestis non-Yersinia pestis in the genus Yersinia (572 strains in total including 20 species, Table 1) genomes from the NCBI genome database (for convenience description, hereinafter referred to as: Yersinia pestis and non-Yersinia pestis).

[0149] 2. Write a python script to intercept the Yersinia pestisCO92 chromosome sequence (GenBank: NC_003143, 13-DEC-2020) fragment (step size 1bp; length 100bp), and inter...

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Abstract

The invention discloses a method for identifying Yersinia pestis based on a chromosome-specific probe. The present invention provides a probe set for identifying or assisting in identifying Yersinia pestis, which consists of 97 probes shown in SEQ ID No.1 to SEQ ID No.97. The probe of the present invention detects the sequencing results (including the second generation or the third generation) of unknown samples. Since up to 97 specific probes are used, as long as any probe is detected, it can be judged as positive. The more, the higher the reliability, and these probes are evenly distributed on the entire chromosome, thus ensuring that even genome sequences with poor sequencing quality and low coverage can be queried with these electronic probes, quickly, easily and efficiently Identify whether the sample is carrying Yersinia pestis.

Description

technical field [0001] The invention relates to the field of biotechnology, in particular to a method for identifying Yersinia pestis based on a chromosome-specific probe. Background technique [0002] Plague is a zoonotic infectious disease caused by Yersinia pestis. Yersinia pestis belongs to the pathogenic bacteria of Class A infectious diseases. People are infected through contact with infected animals, eating contaminated food or being bitten by rat fleas, causing bubonic plague and deadly pneumonic plague and septicemic plague. Our country has a vast geography, and there are currently 12 known natural plague foci. Every year, there will be plague outbreaks, causing social panic and affecting our normal production and life. In the face of frequent and widespread plague outbreaks, it is very important to choose a rapid and accurate identification method for Yersinia pestis. [0003] The traditional identification method is the culture identification method. After the p...

Claims

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): C12Q1/689C12Q1/04C12N15/11C12R1/01
CPCC12Q1/689
Inventor 王恒樑吕宇飞刘先凯王东澍朱力潘超冯尔玲
Owner ACADEMY OF MILITARY MEDICAL SCI