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Method for efficiently obtaining chloroplast DNA sequencing data and application thereof

A DNA sequencing and chloroplast technology, which is applied in special data processing applications, recombinant DNA technology, DNA/RNA fragments, etc., can solve limitations, hinder in-depth research and development of plant genetics and evolution, and cannot meet the needs of large-scale chloroplast genome sequencing and other issues to achieve the effect of low requirements, wide coverage and wide applicability

Active Publication Date: 2019-07-23
SHENZHEN BGI AGRI & CYCLE ECONOMIC TECH
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Problems solved by technology

However, the existing methods for obtaining chloroplast DNA sequencing data can no longer meet the needs of large-scale chloroplast genome sequencing, which greatly limits and hinders the in-depth research and development of plant genetics and evolution

Method used

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  • Method for efficiently obtaining chloroplast DNA sequencing data and application thereof
  • Method for efficiently obtaining chloroplast DNA sequencing data and application thereof
  • Method for efficiently obtaining chloroplast DNA sequencing data and application thereof

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Embodiment

[0045] The method for obtaining chloroplast DNA sequencing data in this example includes using the disclosed chloroplast nucleic acid sequences in the public database to construct a non-redundant chloroplast sequence collection. The public database mainly refers to NCBI, which has a relatively comprehensive collection of nucleic acid data. All plant chloroplast gene data are constructed for non-redundant chloroplast sequence collection. Then, design probes based on the constructed non-redundant chloroplast sequence collection; use the designed probes to hybridize and capture the entire genome of the sample to be tested to obtain enriched chloroplast DNA fragments; sequence the enriched chloroplast DNA fragments , to obtain chloroplast DNA sequencing data. details as follows:

[0046] 1. Construction of non-redundant chloroplast sequence collection

[0047] (1) Using public databases to obtain all disclosed chloroplast nucleic acid sequences and obtain a collection of chlorop...

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Abstract

The present application discloses a method for efficiently obtaining chloroplast DNA sequencing data and an application thereof. The method comprises steps of constructing a non-redundant chloroplastsequence set by using a chloroplast nucleic acid sequence set; designing probes according to the non-redundant chloroplast sequence set, capturing chloroplast DNA fragments of whole genome of samplesto be detected, and then performing sequencing to obtain the chloroplast DNA sequencing data. The method can directly capture the chloroplast DNA fragments from the whole genome of the samples to be detected, is simple and convenient to operate, and has relatively low requirements for sample quality. The method has wide applicability, can capture the plant chloroplast DNA of different evolutionarybranches, has no preference for capture regions, can ensure wide coverage of the data produced by the sequencing, is especially suitable for obtaining the large-scale relatively large evolutionary branch chloroplast DNA sequencing data and lays foundation for in-depth study of large-scale plant evolution and hereditary.

Description

technical field [0001] The present application relates to the field of chloroplast sequencing detection, in particular to a method for efficiently obtaining chloroplast DNA sequencing data and its application. Background technique [0002] As the organelle containing genetic information in plants, chloroplast has become an ideal carrier of genetic information in plant genome research. It has the characteristics of simple structure, small genome and highly conserved gene region, which is very suitable for sequencing and assembly by next-generation sequencing technology (NGS). The second-generation sequencing technology can fully interpret the genetic information carried by chloroplasts, which is of great significance for solving plant classification, plant genetic evolution, and carrying out genetic and phytogeographic research. [0003] Currently, there are two main methods for obtaining chloroplast DNA sequencing data. The first method is the chloroplast enrichment method...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/6806C40B50/06C12N15/11
CPCC12Q1/6806C40B50/06G16B30/00
Inventor 宋跃宋波符渊刘欢程时锋刘心
Owner SHENZHEN BGI AGRI & CYCLE ECONOMIC TECH
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