Strain marker for assisting COVID-19 diagnosis and application thereof

A COVID-19, marker technology, applied in the determination/inspection of microorganisms, resistance to vector-borne diseases, biochemical equipment and methods, etc., can solve problems such as no bacterial species marker reporting

Active Publication Date: 2020-07-07
广州微远医疗器械有限公司 +4
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, there are currently no reports of bacterial markers associated with the diagnosis of COVID-19

Method used

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  • Strain marker for assisting COVID-19 diagnosis and application thereof
  • Strain marker for assisting COVID-19 diagnosis and application thereof
  • Strain marker for assisting COVID-19 diagnosis and application thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0030] 1. Sample entry criteria:

[0031] 1. COVID-19 pneumonia group: A sample of suspected 2019-nCoV COVID-19 infection was judged by clinical symptoms and epidemiological history.

[0032] Clinical symptoms: (1) fever and / or respiratory symptoms, (2) chest imaging: early small patchy shadows and interstitial changes, the development of ground glass shadows and invasion shadows in both lungs, severe lung consolidation, pleural effusion (3) The total number of white blood cells is normal or decreased in the early stage of the disease, and the lymphocyte count is normal or decreased.

[0033] 2. Pneumonia group infected by other pathogenic microorganisms: through clinical symptoms, microbial culture, RT-PCR or (and) NGS nucleic acid detection, it is diagnosed as non-SARS-CoV-2 infection, other virus, bacterial or fungal infection.

[0034] 2. Sample collection

[0035] According to the above entry criteria, a total of 14 sputum samples from COVID-19 pneumonia and 39 other pathogenic ...

Embodiment 2

[0085] The bacterial species markers obtained in Example 1 were verified.

[0086] 1. Sample collection

[0087] According to the sample entry criteria of Example 1, 30 samples of confirmed COVID-19 pneumonia and 30 samples of non-COVID-19 pneumonia group were collected as a verification set to verify the results of Example 1.

[0088] 2. Sequencing.

[0089] With reference to the high-throughput sequencing method of Example 1, 60 samples were detected and the relative abundance of each strain of the experimental group and the control group was analyzed.

[0090] 3. Verification of host markers.

[0091] With reference to the difference analysis method in Example 1, 31 different strains in the verification set are obtained. 18 strains whose different strains in the training set of Example 1 and the verification set of this embodiment are intersected with the same up and down direction , As the final candidate strain marker.

[0092] Table 2. Screening results of bacterial species markers...

Embodiment 4

[0099] Feasibility screening of strain markers.

[0100] 1. Sample collection.

[0101] According to the sample entry criteria in Example 1, a total of 1,000 samples including COVID-19 pneumonia and non-COVID-19 pneumonia were collected. 1,000 samples were tested for the macrotranscriptome and the detection stability of 18 candidate markers was analyzed .

[0102] 2. Analysis of detection rate.

[0103] The detection rate of 18 candidate strains in the statistical sample is shown in the following table.

[0104] Table 3. Detection rate of candidate strain markers

[0105]

[0106]

[0107] The combined detection rate of the above 18 strains is greater than 0.95 (ie 95%), and the detection rate of individual strains is less than 0.5, which is caused by the difference of the constant flora of different individuals.

[0108] Among them, Haemophilus_parainfluenzae (Haemophilus parainfluenzae (Haemophilus parainfluenzae, species 1), Propionibacterium_ humerusii (Propionibacterium, species 2),...

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Abstract

The invention relates to a strain marker for assisting COVID-19 diagnosis and application thereof and belongs to the technical field of pathogenic microorganism infection detection. The strain markercomprises at least one of haemophilus parainfluenzae, propionibacterium, veillonella atypica, aggregatibacter segnis, alloprevotellatannerae, campylobacter showae, fusobacteria, fusobacterium nucleatum, fusobacterium periodonticum, gemella sanguinis, haemophilus parahaemolyticus, haemophilus sputorum, porphyromonas gingivalis, prevotella intermedia, prevotella multifurmis, prevotella nanceiensis,prevotella nigrescens and prevotella timonensis. A prediction model ROC obtained by the strain marker has an AUC value being 0.910, and the strain marker can be used for assisting diagnosis of SARS-CoV-2 infection, so that the diagnosing performance on COVID-19 pneumonia can be improved, and the defect that viral nucleic acid detection is false negative can be overcome to a certain extent.

Description

Technical field [0001] The present invention relates to the technical field of pathogenic microbial infection detection, in particular to a strain marker for assisting the diagnosis of COVID-19 and its application. Background technique [0002] The new type of coronavirus that broke out in 2019, named 2019-nCoV or SARS-CoV-2, can be spread through droplets and contact, and is a pathogen that easily spreads diseases. The disease infected with SARS-CoV-2 is called COVID-19 pneumonia. The symptoms are fever, dry cough, fatigue, etc., which are similar to other known viral pneumonias such as influenza virus, adenovirus, respiratory syncytial virus, and Mycoplasma pneumoniae infection. It is difficult for clinicians to distinguish, and accurate identification of SARS-CoV-2 infection plays an important role in clinical diagnosis and treatment and public health safety. [0003] Studies have shown that human microecology is related to diseases, and the dynamic changes of human microecolog...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/70C12Q1/689C12Q1/04
CPCC12Q1/689C12Q1/701C12Q2600/158Y02A50/30
Inventor 许腾杨文娇谢淑媚何福生张丽珍曾伟奇吴婉婷陈海如李永军王小锐苏杭
Owner 广州微远医疗器械有限公司
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