Method for automatically detecting reassortment of segmental RNA (Ribonucleic Acid) virus

Abstract

The invention discloses a method for automatically detecting reassortment of a segmental RNA (Ribonucleic Acid) virus and provides a method for performing virus reassortment detection based on an evolutionary relationship of a phylogenetic tree at each segment of the virus. The method comprises the following steps of (1) establishing the phylogenetic tree at each segment of the virus; (2) performing clustering division on the segmental phylogenetic trees obtained in the step (1) according to an average pairing distance to obtain a divided category redefinition for each segment of each virulentstrain; and (3) realizing reassortment history detection for the virulent strain of the virus according to the definition, and meanwhile performing corresponding reassortment detection according to asegmental similarity for new virulent strain data. Experiments prove that splicing comparison of each segment is not needed, the reassortment detection for the virulent strain of the virus can be implemented through clustering division of an evolutionary tree, and a detection result is reasonable and efficient.

Description

technical field [0001] The invention relates to the field of biotechnology, in particular to a method for automatically detecting segmented RNA virus reassortment. Background technique [0002] Virus reassortment (Reassortment) is a process of genetic recombination, which is unique to segmented RNA viruses, and refers to the co-infection of multiple viruses in the same host cell, resulting in a new gene combination due to the rearrangement of viral gene segments The phenomenon of progeny viruses. Reassortment was detected in almost all families of segmented viruses, most notably influenza A viruses. Reassortment is an important evolutionary force for influenza virus to achieve cross-host transmission or form a large-scale epidemic. For example, viruses can quickly acquire mutations at key sites that cross host barriers through reassortment, while acquiring these host markers simply through mutation accumulation requires a long evolutionary process. Many influenza outbreak...

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Problems solved by technology

In fact, there are large differences in the evolution of different segments of segmented viruses. On the one hand, the selection pressures on different segments are different, and on the other hand, the evolution rates of different segments are also very different. Simply concatenating each segment to construct an evolutionary tree will produce an unreasonable genome evolution relationship, resulting in wrong reassortment detection results

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