Method and device for screening primer design template and application

Abstract

The invention discloses a method and device for screening a primer design template and an application. The method comprises a microbial genome database arrangement step, a host genome database arrangement step, a primer design template database generation step, a primer design template consensus rate evaluation step, a primer design template specificity evaluation step and a primer design templateoutput step. The method is simple and convenient to operate, and primer design templates can be screened in batches; the device for screening the primer design template is high in automation degree,high in operation speed, low in cost and capable of efficiently and accurately outputting the primer design templates of one or more species in batches. The method and the device provided by the invention have the advantage of high precision, the screened primer design template has the characteristics of high consensus rate and high specificity, the target detection primer or probe with strong applicability and good specificity can be designed, and a solid foundation is laid for the technical scheme of detection based on the primer or probe.

Description

technical field [0001] The present application relates to the field of primer design methods, in particular to a method, device and application for screening primer design templates. Background technique [0002] In the field of microbial detection, at present, it mainly relies on the traditional culture method for detection, and the traditional culture method takes a long time and has a high rate of missed detection. In addition to culture methods, molecular biology methods have gradually been widely used. With the application of molecular biology technology, microbial detection technology has progressed from biological inspection to molecular biology identification. Different species of pathogenic microorganisms have different genes or base sequences, so it can be detected by detecting the specific gene sequence of pathogenic microorganisms. presence or absence is detected. Commonly used methods mainly include nucleic acid hybridization and polymerase chain reaction (PCR...

AI Technical Summary

Problems solved by technology

[0006] In the specific primer amplification method, the primer design has been realized by mature software, including Primerpremier5.0, oligo6.0, NCBI Primer-BLAST, etc.; but in In the field of microbial primer design, there is no mature method for the selection of primer design templates. At present, it is mainly to find conserved genes through manual literature research for specific microorganisms.

This process, on the one hand, requires manual retrieval of literature and has a low degree of automation; on the other hand, both the retrieval process and the process of finding conserved genes are subject to a high degree of subjectivity, and are prone to missed detection or misjudgment.

Especially at the genome level, it is necessary to artificially obtain targets of tens of bases, hundreds of bases or at most hundreds of bases from tens of thousands, hundreds of thousands or even longer genome sequences and multiple genome sequences reported in different literatures Primer design template, which is extremely cumbersome and error-prone, and requires a high level of experience for the designer

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