Systems and methods for identifying and expressing gene clusters

Abstract

The invention discloses a system and a method for identifying and expressing gene clusters. The system comprises a collection module used for collecting gene clusters, an extraction module used for extracting RNA, an RNA library module used for sequencing, a large database module used for data comparison, a transcription module used for transcribing sequences, a fine analysis module used for screening and analyzing differential expression genes, and an identification module used for identifying the gene clusters. The method comprises the following steps of: extracting RNA (Ribonucleic Acid), transcribing the RNA, comparing the RNA with a big database after transcribing, and screening and analyzing differentially expressed genes, so that the accuracy of identification and expression is ensured.

Description

Technical Field

[0001] The present invention relates to the technical field of identifying and expressing gene clusters, and in particular to a system and method for identifying and expressing gene clusters. Background Art

[0002] A gene cluster refers to multiple adjacent genes in the genome of an organism. They usually have similar functions or participate in a certain metabolic process together. Gene cluster identification refers to the use of various bioinformatics, molecular biology and cell biology methods to identify and confirm the existence and function of gene clusters. Gene cluster expression refers to the use of various methods to express proteins related to gene clusters. Gene cluster identification and expression are important research areas for understanding gene functions, metabolic processes, and the development and evolution of organisms.

[0003] Existing systems and methods for identifying and expressing gene clusters identify and express gene clusters by setting target proteins and then comparing the protein homology of gene clusters. However, this method is relatively cumbersome and difficult to operate during use. Summary of the invention

[0004] The purpose of the present invention is to solve at least one of the technical problems existing in the prior art, and to provide a system and method for identifying and expressing gene clusters, by extracting and transcribing RNA, comparing it with a large database after transcription, and then screening and analyzing differentially expressed genes, thereby ensuring the accuracy of identification and expression.

[0005] The present invention also provides the above-mentioned system for identifying and expressing gene clusters, including: a collection module for collecting gene clusters, an extraction module for extracting RNA, an RNA library module for sequencing, a large database module for data comparison, a transcription module for transcribing sequences, an analysis module for screening and analyzing differentially expressed genes, an identification module for identifying gene clusters, an acquisition module for obtaining expressed genes, and a gene expression module for expressing genes.

[0006] The method for identifying and expressing a gene cluster provided by the present invention comprises the following steps:

[0007] S1. Collect gene clusters that need to be identified and expressed through the collection module;

[0008] S2. The RNA of the gene cluster is collected and sequenced by the extraction module, which specifically includes the following steps:

[0009] 1) Extract the total RNA of the gene cluster, digest the DNA, and test the integrity, purity and concentration of the RNA;

[0010] 2) Use the platform to sequence RNA and compare it with the large database module;

[0011] S3, transcribe from RNA, and after the transcription is completed, compare and annotate the transcribed RNA through a large database module;

[0012] S4. Analyze the differentially expressed genes of the transcribed RNA and infer the main biological functions and metabolic pathways of the differentially expressed genes;

[0013] S5. Acquire the expressed genes in the gene cluster through the acquisition module, process the expressed genes through the gene expression module, and then identify the expressed genes through the identification module.

[0014] According to the method for identifying and expressing gene clusters provided by the present invention, the gene clusters in S1 include: plant gene clusters and plant pathogen gene clusters.

[0015] According to the method for identifying and expressing gene clusters provided by the present invention, the detection of RNA integrity, purity and concentration in S2 1) specifically comprises detecting total RNA using 1% agarose gel electrophoresis and Agilent 2100 Bioanalyzer.

[0016] According to the method for identifying and expressing gene clusters provided by the present invention, the use of a platform to sequence RNA in S2 2) specifically comprises using an Illuminative HiSeq 4000 platform for sequencing.

[0017] According to the method for identifying and expressing gene clusters provided by the present invention, the detailed analysis of differentially expressed genes in S4 specifically includes screening the differentially expressed genes according to certain conditions and performing functional enrichment analysis on the differentially expressed genes.

[0018] Compared with the existing technology, the system and method for identifying and expressing gene clusters extracts and transcribes RNA, compares it with a large database after transcription, and then screens and analyzes differentially expressed genes, thereby ensuring the accuracy of identification and expression. BRIEF DESCRIPTION OF THE DRAWINGS

[0019] The present invention is further described below in conjunction with the accompanying drawings and embodiments;

[0020] Figure 1 Flow chart of the system and method for identifying and expressing gene clusters of the present invention. DETAILED DESCRIPTION

[0021] This section will describe in detail the specific embodiments of the present invention. The preferred embodiments of the present invention are shown in the accompanying drawings. The purpose of the accompanying drawings is to supplement the description of the text part of the specification with graphics, so that people can intuitively and vividly understand each technical feature and the overall technical solution of the present invention, but it cannot be understood as a limitation on the scope of protection of the present invention.

[0022] Reference Figure 1 The system for identifying and expressing gene clusters according to an embodiment of the present invention includes: a collection module for collecting gene clusters, an extraction module for extracting RNA, an RNA library module for sequencing, a large database module for data comparison, a transcription module for transcribing sequences, an analysis module for screening and analyzing differentially expressed genes, an identification module for identifying gene clusters, an acquisition module for acquiring expressed genes, and a gene expression module for expressing genes.

[0023] The method for identifying and expressing a gene cluster according to an embodiment of the present invention comprises the following steps:

[0024] S1. Collect gene clusters that need to be identified and expressed through a collection module, including plant gene clusters and plant pathogen gene clusters;

[0025] S2. The RNA of the gene cluster is collected and sequenced by the extraction module, which specifically includes the following steps:

[0026] 1) Extracting total RNA of the gene cluster, digesting DNA, and detecting the integrity, purity and concentration of RNA. Specifically, detecting the integrity, purity and concentration of RNA involves detecting total RNA using 1% agarose gel electrophoresis and Agile 2100 Bioanalyzer;

[0027] 2) Using a platform to sequence the RNA, and comparing with a large database module, using the platform to sequence the RNA specifically using the Illuminative HiSeq 4000 platform for sequencing;

[0028] S3, transcribe from RNA, and after the transcription is completed, compare and annotate the transcribed RNA through a large database module;

[0029] S4. Analyze the differentially expressed genes of the transcribed RNA in detail, infer the main biological functions of the differentially expressed genes and the metabolic pathways they participate in, and analyze the differentially expressed genes in detail by screening the differentially expressed genes according to certain conditions and performing functional enrichment analysis on the differentially expressed genes;

[0030] S5. Acquire the expressed genes in the gene cluster through the acquisition module, process the expressed genes through the gene expression module, and then identify the expressed genes through the identification module.

[0031] The embodiments of the present invention are described in detail above with reference to the accompanying drawings. However, the present invention is not limited to the above embodiments. Various changes can be made within the knowledge scope of ordinary technicians in the technical field without departing from the purpose of the present invention.

Claims

1. A system for identifying and expressing gene clusters, characterized in that include: A collection module for collecting gene clusters, an extraction module for extracting RNA, an RNA library module for sequencing, a large database module for data comparison, a transcription module for transcribing sequences, an analysis module for screening and analyzing differentially expressed genes, an identification module for identifying gene clusters, an acquisition module for obtaining expressed genes, and a gene expression module for expressing genes.

2. A method for identifying and expressing a gene cluster, characterized in that The following steps are involved: S1. Collect gene clusters that need to be identified and expressed through the collection module; S2. The RNA of the gene cluster is collected and sequenced by the extraction module, which specifically includes the following steps: 1) Extract the total RNA of the gene cluster, digest the DNA, and test the integrity, purity and concentration of the RNA; 2) Use the platform to sequence RNA and compare it with the large database module; S3, transcribe from RNA, and after the transcription is completed, compare and annotate the transcribed RNA through a large database module; S4. Analyze the differentially expressed genes of the transcribed RNA and infer the main biological functions and metabolic pathways of the differentially expressed genes; S5. Acquire the expressed genes in the gene cluster through the acquisition module, process the expressed genes through the gene expression module, and then identify the expressed genes through the identification module.

3. The method for identifying and expressing gene clusters according to claim 2, characterized in that The gene clusters in S1 include: plant gene clusters and plant pathogen gene clusters.

4. The method for identifying and expressing gene clusters according to claim 2, characterized in that The integrity, purity and concentration of RNA detected in S2 1) is specifically detected by using 1% agarose gel electrophoresis and Agilent 2100 Bioanalyzer to detect total RNA.

5. The method for identifying and expressing gene clusters according to claim 2, characterized in that In S2 2), the platform used to sequence RNA is specifically an Illuminactive HiSeq 4000 platform used for sequencing.

6. The method for identifying and expressing gene clusters according to claim 2, characterized in that The detailed analysis of the differentially expressed genes in S4 specifically includes screening the differentially expressed genes according to certain conditions and performing functional enrichment analysis on the differentially expressed genes.

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