Virus infection detection and identification method based on metagenomics

A metagenomics and detection method technology, applied in the field of virus detection and identification, can solve the problems of inability to meet the prevention and control of infectious diseases, time-consuming, and restricting the wide application of technologies.

Active Publication Date: 2015-12-02
INST OF PATHOGEN BIOLOGY CHINESE ACADEMY OF MEDICAL SCI
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  • Abstract
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Problems solved by technology

The number of laboratories with these levels of biosafety protection is very limited, which severely limits the widespread application of this technology
Third, the entire exp

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  • Virus infection detection and identification method based on metagenomics
  • Virus infection detection and identification method based on metagenomics
  • Virus infection detection and identification method based on metagenomics

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Embodiment 1

[0051] We take the virus detection of a respiratory sample of a human infected with H10N8 avian influenza collected in December 2013 as an example to illustrate the specific implementation of the present invention in sequence.

[0052] 1. Sample preparation

[0053] 1. Perform different pre-processing according to the type of sample. Take 500 μl of cryopreserved or clinically collected respiratory samples (including throat swab, nasal swab or alveolar aspiration fluid, etc.), inactivate at 65 degrees for 30 minutes. In the case of digestive tract samples (anal swab or feces), similar inactivation methods can also be used. If fresh pathological tissue or frozen tissue is collected, use liquid nitrogen to keep the temperature low, grind it in a mortar, and add Hanks solution to the fully ground tissue. In the case of a blood sample, separate the plasma. Regardless of the type of sample, general or specific virus inactivation methods must be used for inactivation. If there ar...

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Abstract

The invention provides a virus infection detection and identification technology based on metagenomics. The virus infection detection and identification technology based on the metagenomics comprises the four portions of sample preparation, high-throughput sequencing, bioinformatic analysis and result re-checking. In the sample preparation portion, viral nucleic acid is effectively extracted or enriched from detection samples according to the requirements of the virus infection detection and identification technology based on the metagenomics and characteristics of different types of detection samples, and a nucleic acid library which can be used for a next-generation sequencing instrument is established. In the high-throughput sequencing portion, the nucleic acid library established in the sample preparation step is sequenced so to obtain sufficient high-quality nucleic acid sequence information. In the bioinformatic analysis portion, a large number of high-quality nucleic acid sequences obtained in the high-throughput sequencing step is analyzed to further obtain viral component information prompted by the nucleic acid of the samples. In the result re-checking portion, a bioinformatic analysis result and other information, such as technical contrast, are integrated to perform comprehensive study and judgment, finally alternative infection virus is determined, and other technologies, such as PCR, are utilized to perform re-checking.

Description

Technical field: [0001] The invention relates to virus detection and identification, in particular to a virus detection and identification technology based on metagenomics and high-throughput sequencing. Background technique: [0002] With the continuous development of the human economy and society, the scope of human activities has become wider and wider, and the contact with wild animals has become closer and more frequent. The viruses carried by wild animals are transmitted directly or through vectors such as mosquitoes and ticks. Humans are increasingly at risk, constituting about 70% of emerging infectious diseases in humans. These emerging infectious diseases include the SARS outbreak in China in 2003, the outbreak caused by the New Bunia virus in China in 2007-2010, the Ebola outbreak in West Africa in 2014, and the MERS outbreak in South Korea from the Middle East in 2015. It poses a great challenge to the detection and identification technology of virus infection. ...

Claims

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Application Information

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IPC IPC(8): C12Q1/70C12Q1/68
CPCC12Q1/6869C12Q1/70
Inventor 金奇任仙文杨剑胡永峰杨帆
Owner INST OF PATHOGEN BIOLOGY CHINESE ACADEMY OF MEDICAL SCI
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