Rutaceae multi-species codon using mode analysis method and system

Abstract

The invention relates to a rutaceae multi-species codon using mode analysis method which comprises the steps of acquiring codon subsequence of each species through gene data of multiple rutaceae species; extracting a first characteristic value of the codon sequence, and verifying an evolution relation of the multiple species according to the relation of the first characteristic value; extracting asecond characteristic value of the codon sequence, and drawing a characteristic relation graph according to the second characteristic value for verifying the evolution conservatism degree of the species; extracting a high-frequency codon / condon pair in the condon sequence, and verifying the evolution conservatism correlation degree of the multiple species according to the relation of the high-frequency condon / condon pair; clustering the codon RSCU value of the codon sequence and the codon RSCU value of plan species, and verifying the affiliated class and order of the species according to a clustering result; and acquiring an Euclidean distance between the GC3 contents of the codon sequence, thereby verifying the relationship of the multiple species.

Description

technical field [0001] The invention belongs to the field of biological gene data analysis systems, and in particular relates to a codon usage pattern analysis method and system for Rutaceae species. Background technique [0002] As gene sequencing technology becomes more and more mature, more and more industries analyze genetic data for diagnosis, identification, prediction and other work. Codons are composed of three adjacent bases on the mRNA, which determine the type and sequence of amino acids for protein synthesis. Therefore, since Paul M. Sharp and Wen-Hsiung Li began to analyze single-cell code usage patterns, more and more animals, plants, and microorganisms' codon usage preferences have been revealed, which provides important information for the study of important traits and molecular evolution of species. provide basic theoretical data. However, most of the existing analysis models focus on the analysis of a single species, and the analysis of the evolutionary g...

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Problems solved by technology

[0008] To solve the problem of a single analysis method for codon data analysis in the prior art, the present invention proposes a multi-species codon usage pattern analysis method of Rutaceae, including: obtaining the genetic data of multiple species of Rutaceae, obtaining each The codon sequence of the species; extract the first characteristic value of the codon sequence, and verify the evolutionary relationship of the multiple species with the relationship of the first characteristic value; the first characteristic value includes the GC content of the codon sequence; extract The second eigenvalue of the codon sequence, using the second eigenvalue to draw a characteristic relationship diagram to verify the degree of evolutionary conservation of the multiple species; the second eigenvalue includes the GC12 average and GC3 average of the codon sequence Value, GC3s average value and ENC average value; extract the high-frequency codon / codon pair in the codon sequence, and verify the evolutionary conservation correlation of the multiple species with the relationship between the high-frequency codon / codon pair; The codon RSCU value of the codon sequence is clustered with the codon RSCU value of the plant species, and the classification of the multiple species is verified by the clustering result; the Euclidean distance between the GC3 content of the codon sequence is obtained to verify Genetic relationship of the multiple species

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