Metagenome 16S hypervariable region V3 based classification method and device thereof

A metagenome and variable region technology, which is applied in the field of classification based on the 16S hypervariable region V3 of the metagenome, can solve the problems of high sequencing cost, insufficient sequencing information for microbial classification, and inability to sequence 16S rDNA, thereby reducing labor and saving The effect of economic cost

Inactive Publication Date: 2012-06-27
SHENZHEN HUADA GENE INST +1
View PDF1 Cites 37 Cited by
  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

A major challenge for these revolutionary technologies is that the read lengths are too short to sequence the 16S rDNA of each individual, and thus its sequencing information is not sufficient to allow us to accurately classify microorganisms
In order to solve the problem of read length, some studies (Bacterial flora-typing with targeted, chip-based Pyrosequencing, BMC Microbiology 2007, 7: 108 doi: 10.1186/1471-2180-7-108, published on November 30, 2007) passed Genome Sequencer 20 system (454 Life Sciences)...

Method used

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
View more

Image

Smart Image Click on the blue labels to locate them in the text.
Viewing Examples
Smart Image
  • Metagenome 16S hypervariable region V3 based classification method and device thereof
  • Metagenome 16S hypervariable region V3 based classification method and device thereof
  • Metagenome 16S hypervariable region V3 based classification method and device thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment Construction

[0033] Various exemplary embodiments of the present invention will now be described in detail with reference to the accompanying drawings. It should be noted that the relative arrangements of components and steps, numerical expressions and numerical values ​​set forth in these embodiments do not limit the scope of the present invention unless specifically stated otherwise.

[0034] At the same time, it should be understood that, for the convenience of description, the sizes of the various parts shown in the drawings are not drawn according to the actual proportional relationship.

[0035] The following description of at least one exemplary embodiment is merely illustrative in nature and in no way taken as limiting the invention, its application or uses.

[0036] Techniques, methods, and devices known to those of ordinary skill in the relevant art may not be discussed in detail, but where appropriate, techniques, methods, and devices should be considered part of the authorized ...

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to view more

PUM

No PUM Login to view more

Abstract

The invention discloses a metagenome 16S hypervariable region V3 based classification method and a device thereof. The method contains the following steps of: extracting DNA in microbial samples; carrying out amplification of metagenome 16S rDNA hypervariable region V3, carrying out Solexa database construction on amplification products, and simultaneously marking each sample by adding a connector with a label sequence in the process of database construction; mixing different samples with label sequences, sequencing by the use of a Solexa sequencing tool after mixing to obtain original sequencing sequences reads distinguished by labels; assembling by the use of reads overlapping relations to obtain hypervariable region V3 full-length sequences unique reads; and carrying out classification analysis on unique reads to accomplish classification of microbial population. By the adoption of the method and the device provided by the invention, classification of microbial population is accurate and sequencing cost is greatly reduced.

Description

technical field [0001] The invention relates to the technical field of bioinformatics analysis, in particular to a classification method and device based on the metagenomic 16S hypervariable region V3. Background technique [0002] In order to study the types of microbial populations in the biological environment, the general traditional methods include: direct cultivation of microorganisms, denaturing gradient gel electrophoresis (DGGE, Denaturing Gradient Gel Electrophoresis), terminal restriction endonuclease fragment length polymorphism (T- RFLP, Terminal Restriction Fragment Length Polymorphism), fluorescence in situ hybridization (FISH, Fluorescence In Situ Hybridization), PCR (polymerase chain reaction, Polymerase Chain Reaction) on possible microbial species; but these methods can only reveal the A very small number of microbial species. If metagenome analysis can be carried out, a relatively comprehensive catalog of microbial species can be obtained by directly con...

Claims

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to view more

Application Information

Patent Timeline
no application Login to view more
IPC IPC(8): C12Q1/68C12M1/34
Inventor 章文蔚郭晶龚梅花张艳艳王俊汪建杨焕明
Owner SHENZHEN HUADA GENE INST
Who we serve
  • R&D Engineer
  • R&D Manager
  • IP Professional
Why Eureka
  • Industry Leading Data Capabilities
  • Powerful AI technology
  • Patent DNA Extraction
Social media
Try Eureka
PatSnap group products

Browse by: Latest US Patents, China's latest patents, Technical Efficacy Thesaurus, Application Domain, Technology Topic.

© 2024 PatSnap. All rights reserved.Legal|Privacy policy|Modern Slavery Act Transparency Statement|Sitemap