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Method for identifying microorganism species and sequence in metagenome sequence based on software

A microbial species and metagenome technology, applied in the field of identifying microbial species and sequences in metagenomic data, can solve the problems that the result file format cannot intuitively represent the output results, and the identification results of the metagenome species annotation software are not accurate enough.

Pending Publication Date: 2022-08-09
NORTHEAST FORESTRY UNIVERSITY
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  • Description
  • Claims
  • Application Information

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Problems solved by technology

[0003] In order to solve the problem that the identification results of the metagenomic species annotation software are not accurate enough, and the output result file format cannot intuitively represent the output results, the present invention further proposes a software-based method for identifying microbial species and sequences in metagenomic sequences

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  • Method for identifying microorganism species and sequence in metagenome sequence based on software
  • Method for identifying microorganism species and sequence in metagenome sequence based on software
  • Method for identifying microorganism species and sequence in metagenome sequence based on software

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specific Embodiment approach 1

[0043] Embodiment 1: Combining Figure 1-Figure 10 Describe this embodiment, a software-based method for identifying microbial species and sequences in metagenomic sequences described in this embodiment, comprising the following steps:

[0044]S1. Obtain the sequencing results of the host and the host reference genome, use the bwa software to create a bwa index file for the obtained host reference genome, and compare the bwa index file with the sequencing results of the host to generate a sam format file.

[0045] Taking the tick as an example, the DNA or cDNA of the tick is extracted by paired-end sequencing and sent to a biological company for gene sequencing to obtain the sequencing result of the tick metagenomic (including the sequence of the tick and the sequence of the microorganism carried by the tick), and the sequencing result is: Two files in fastq format simultaneously download the host reference genome of ticks from NCBI. The host reference genome consists of the g...

Embodiment

[0057] P1 and P2 are the names of the tick (host) sequencing samples.

[0058]

[0059]

[0060] In the embodiment of the present invention, the software version of the first identification of the metagenomic sequence in which the microbial species is composed has been verified on the metagenomic of ticks (about 10 metagenomic samples of ticks). In this embodiment, The software can also be used on other species after modification.

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Abstract

The invention relates to a method for identifying microbial species and sequences in metagenome sequences based on software, in particular to a method for identifying microbial species and sequences in metagenome data of ticks by using software, and aims to solve the problems that the identification result of metagenome species annotation software is not accurate enough; according to the method, feature information extraction or processing is carried out on the sequencing result by utilizing multiple pieces of software, and the sequencing result file is subjected to format conversion for multiple times during processing; the finally obtained microorganism type file visually represents the types of the microorganisms in the sequencing result and the classification system to which the microorganisms belong; therefore, the sequence file of the microorganisms can visually represent the output result, the file size is smaller, and the data credibility is higher. Belongs to the field of gene engineering.

Description

technical field [0001] The invention relates to a method for identifying the species and sequence of microorganisms in the metagenome data, in particular to a method for identifying the species and sequence of microorganisms in the metagenome data of ticks using software, and belongs to the field of genetic engineering. Background technique [0002] Gene sequencing technology, that is, the technology to determine the sequence of genes, is of great significance to the biological and medical industries. The first-generation gene sequencing technology usually refers to the Sanger sequencing technology. With the continuous development of biotechnology, the second-generation gene sequencing technology (referred to as the second-generation sequencing technology) with high throughput, high precision and low cost has gradually matured. However, at present, the identification results of many metagenomic species annotation software are not accurate enough, which are inconsistent with ...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B30/10
CPCG16B30/10
Inventor 侯志军李红佳杨思远田丽红周晓宇王继飞刘全
Owner NORTHEAST FORESTRY UNIVERSITY