CN-121983127-A - Detection method, detection device, terminal equipment and program product for pathogenic microorganisms

CN121983127ACN 121983127 ACN121983127 ACN 121983127ACN-121983127-A

Abstract

The application provides a detection method, a device, terminal equipment and a program product of pathogenic microorganisms, wherein the method comprises the steps of determining a plurality of sequencing sequences corresponding to samples to be detected, comparing the sequencing sequences with a reference database for each sequencing sequence, determining a matching sequence matched with the sequencing sequences, determining actual measurement data corresponding to measurement indexes according to the matching sequence for each pathogenic microorganism to be detected, wherein the measurement indexes comprise matching number, matching length, similarity and relative abundance, determining comprehensive degree scores corresponding to the pathogenic microorganisms to be detected respectively according to the actual measurement data, and determining target pathogenic microorganisms corresponding to the samples to be detected according to the comprehensive degree scores. The multidimensional fusion strategy of the method avoids the unilateral performance of a single index, and can evaluate the existence state of pathogenic microorganisms in a sample to be tested more comprehensively and more uniformly, so that the accuracy of detecting the pathogenic microorganisms can be improved.

Inventors

MAI GUOQIN
ZHANG WANYUE
DING QIANG
ZHANG YAN
LIU YANXIN
LI YUANYUAN
LI ZIQI

Assignees

湖南文理学院

Dates

Publication Date: 20260505
Application Date: 20251230

Claims (10)

1. A method for detecting a pathogenic microorganism, the method comprising: Determining a plurality of sequencing sequences corresponding to the sample to be tested; For each sequencing sequence, performing BLASTN alignment on the sequencing sequence and a reference database, and determining a matching sequence matched with the sequencing sequence; determining actual measurement data corresponding to measurement indexes according to the matching sequences aiming at each pathogenic microorganism to be detected, wherein the measurement indexes comprise matching number, matching length, similarity and relative abundance; determining comprehensive scores corresponding to the pathogenic microorganisms to be detected respectively according to the actual measurement data; and determining target pathogenic microorganisms corresponding to the sample to be tested according to the comprehensive scores.
2. The method of claim 1, wherein determining a composite score corresponding to each of the pathogenic microorganisms to be tested based on each of the actual measurement data comprises: Determining an individual comprehensive evidence value of the pathogenic microorganism to be detected according to the product of actual measurement data corresponding to the measurement index of the pathogenic microorganism to be detected; acquiring the total comprehensive evidence value of all pathogenic microorganisms to be detected in the sample to be detected; and determining the comprehensive degree score of the pathogenic microorganism to be detected according to the individual comprehensive evidence value and the total comprehensive evidence value.
3. The method of claim 1, wherein determining a plurality of sequencing sequences corresponding to the sample to be tested comprises: acquiring an original sequence corresponding to a sample to be detected; deleting the interference sequences in the original sequences to obtain a plurality of sequencing sequences.
4. The method of claim 3, wherein the interfering sequences comprise sequences having a length less than a preset length threshold, sequences having a base average sequencing quality score less than a preset quality threshold, and host sequences.
5. The method according to any one of claims 1 to 4, wherein the process of determining the matching length comprises: determining a single weighted length for each matching sequence according to the original similarity of the matching sequence and the sequencing sequence and the matching base length; and determining the sum of the single weighted lengths corresponding to the matching sequences as the matching length.
6. The method of claim 5, wherein determining the similarity comprises: And determining the similarity according to the ratio of the matching length to the matching number.
7. The method of claim 5, wherein determining the relative abundance comprises: and determining the relative abundance according to the ratio of the matching number of the pathogenic microorganisms to be detected to the total matching number of the pathogenic microorganisms to be detected.
8. A device for detecting pathogenic microorganisms, the device comprising: the sequencing sequence determining module is used for determining a plurality of sequencing sequences corresponding to the sample to be tested; A matching sequence determining module, configured to perform BLASTN alignment on the sequencing sequence and a reference database for each sequencing sequence, and determine a matching sequence that matches the sequencing sequence; The actual measurement data determining module is used for determining actual measurement data corresponding to measurement indexes according to the matching sequences aiming at each pathogenic microorganism to be detected, wherein the measurement indexes comprise matching number, matching length, similarity and relative abundance; the comprehensive degree score determining module is used for determining comprehensive degree scores corresponding to the pathogenic microorganisms to be detected respectively according to the actual measurement data; And the detection result determining module is used for determining target pathogenic microorganisms corresponding to the sample to be detected according to the comprehensive degree scores.
9. A terminal device comprising a memory, a processor and a computer program stored in the memory and executable on the processor, characterized in that the processor implements the steps of the method according to any of claims 1 to 7 when the computer program is executed.
10. A computer program product comprising a computer program, characterized in that the computer program, when being executed by a processor, implements the steps of the method of any of claims 1 to 7.

Description

Detection method, detection device, terminal equipment and program product for pathogenic microorganisms Technical Field The present application relates to the field of biological detection technologies, and in particular, to a method, an apparatus, a terminal device, and a program product for detecting pathogenic microorganisms. Background Pathogenic microorganisms are important causative factors causing a series of health problems such as infectious diseases, allergic reactions, diarrhea, even some tumors, etc. in humans, and can cause death when severe. Therefore, the method can timely and accurately detect pathogenic microorganisms, and has important significance for clinical diagnosis, treatment guidance and infection control. In the conventional technical scheme, detection of pathogenic microorganisms mainly depends on methods such as microorganism culture, biochemical identification, serological tests, molecular diagnosis based on Polymerase Chain Reaction (PCR) and the like. With the development of high-throughput sequencing technology, especially the application of third generation nanopore sequencing technology, a pathogen detection method based on metagenomics gradually becomes a research hotspot. In this embodiment, the sequence is subjected to similarity matching with a reference database, usually by means of bioinformatics alignment tools (such as BLAST), so as to infer the possible presence of pathogenic microorganisms in the sample to be tested. However, the conventional bioinformatics method based on sequence alignment has obvious algorithm limitations, which results in insufficient accuracy of detection results. Therefore, how to accurately detect pathogenic microorganisms is a technical problem that needs to be solved by those skilled in the art. Disclosure of Invention The application aims to provide a detection method, a detection device, terminal equipment, a computer readable storage medium and a computer program product for pathogenic microorganisms, aiming to improve the accuracy of detecting pathogenic microorganisms. In a first aspect, the present application provides a method for detecting a pathogenic microorganism. The method comprises the following steps: Determining a plurality of sequencing sequences corresponding to the sample to be tested; For each sequencing sequence, performing BLASTN alignment on the sequencing sequence and a reference database, and determining a matching sequence matched with the sequencing sequence; determining actual measurement data corresponding to measurement indexes according to the matching sequences aiming at each pathogenic microorganism to be detected, wherein the measurement indexes comprise matching number, matching length, similarity and relative abundance; determining comprehensive scores corresponding to the pathogenic microorganisms to be detected respectively according to the actual measurement data; and determining target pathogenic microorganisms corresponding to the sample to be tested according to the comprehensive scores. In one embodiment, the determining, according to each of the actual measurement data, a comprehensive score corresponding to each of the pathogenic microorganisms to be tested includes: Determining an individual comprehensive evidence value of the pathogenic microorganism to be detected according to the product of actual measurement data corresponding to the measurement index of the pathogenic microorganism to be detected; acquiring the total comprehensive evidence value of all pathogenic microorganisms to be detected in the sample to be detected; and determining the comprehensive degree score of the pathogenic microorganism to be detected according to the individual comprehensive evidence value and the total comprehensive evidence value. In one embodiment, the determining a plurality of sequencing sequences corresponding to the sample to be tested includes: acquiring an original sequence corresponding to a sample to be detected; deleting the interference sequences in the original sequences to obtain a plurality of sequencing sequences. In one embodiment, the interfering sequences include sequences having a length less than a preset length threshold, sequences having a base average sequencing quality score less than a preset quality threshold, and host sequences. In one embodiment, the process of determining the matching length includes: determining a single weighted length for each matching sequence according to the original similarity of the matching sequence and the sequencing sequence and the matching base length; and determining the sum of the single weighted lengths corresponding to the matching sequences as the matching length. In one embodiment, the process of determining the similarity includes: And determining the similarity according to the ratio of the matching length to the matching number. In one embodiment, the process of determining the relative abundance comprises: and determining the relative ab