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Identification method for seed plant species and application

An identification method and angiosperm phylum technology, applied in the field of biological detection, can solve the problems of not considering the genetic distance between species, too large, etc., and achieve the effects of high accuracy, high application value and high accuracy

Inactive Publication Date: 2017-11-28
SHANDONG UNIV
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

Previous similar studies did not consider the value of the genetic distance between species when identifying species, or when determining the genetic distance between species, only obtained the average value by pairwise comparison of species within the same genus, and the value was obviously too large

Method used

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  • Identification method for seed plant species and application
  • Identification method for seed plant species and application

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0049] A method for identifying a seed plant species, comprising the steps of:

[0050] Determining molecular cut-off values: according to e.g. figure 1 The group relationship shown in the "Angiosperm APG II Classification System (Revised Edition)" and all representative classes of gymnosperms except the monotype (Ginkgophyla), selected 7866 species, including 99 angiosperms families, 179 genera, and 99 families, so that it basically covers the diversity of angiosperms, and the genera of the selected species meet the species coverage of more than 75%; download the ITS2 gene sequence of the group from GenBank, or download the group The ITS sequence of the selected species is intercepted according to the GenBank annotation to obtain the ITS2 gene sequence; the ITS2 gene sequence matrix of the selected species is imported into the MEGA software to build an evolutionary tree in units of genus. Multiple sequences of the same species must be input adjacently. According to the princi...

Embodiment 2

[0059] Determining the molecular threshold is consistent with the steps described in Example 1, so it will not be repeated in this example.

[0060] Determining the species category: a method for identification of a suspected medicinal plant yew, the specific implementation steps include:

[0061] Step 1. Sequencing of the species to be tested: extract the DNA of the species to be tested, perform PCR amplification, use ITS universal primers ITS4 and ITS5B as PCR amplification primers, and perform DNA sequencing on the PCR products. The sequence results of the species to be tested are shown as SEQ ID No: Shown in 4: the sequence of ITS4 is shown in SEQ ID No: 5; the sequence of ITS4 is shown in SEQ ID No: 6;

[0062] Step 2. Sequence alignment: Obtain the GenBank sequence numbers AF259300, AF259292, and AF259291 of the target species Taxus chinensis from GenBank, wherein the sequence of the GenBank sequence number AF259300 is shown in SEQ ID No: 2, The sequences of GenBank seq...

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Abstract

The invention relates to an identification method for seed plant species and application. The identification method comprises the following steps that the seed plant species are selected, ITS2 gene sequences of the seed plant species are obtained, an evolutionary tree is built based on the ITS2 gene sequences, the multiple pairs of sibling species are selected in the evolutionary tree, the genetic distance between each pair of sibling species is calculated, difference significance testing is conducted on the multiple groups of genetic distances of the species belonging to the same phylum, the genetic distances with non-significant differences are selected, the average value of the genetic distances with the non-significant differences is calculated, and thus the molecule critical value is obtained; and the genetic distance between the to-be-tested species and the target species is calculated, and the genetic distance and the molecule critical value of the phylum of the to-be-tested species are compared, so that the species category is determined. According to the identification method for the seed plant species, only ramification degree comparison needs to be conducted between to-be-tested samples or the suspected specifies and the ITS2 gene sequences of the target species, simpleness, convenience and easy operation are better achieved, accuracy is high, objectivity is high, the situation that the large number of other species in the same genus are sampled as a reference is not needed, and the high application value is achieved.

Description

technical field [0001] The invention relates to the technical field of biological detection, in particular to an identification method and application of a seed plant species. Background technique [0002] At present, the main method of species identification is morphological classification. However, because of its poor accuracy, strong subjectivity and low efficiency, it can no longer meet the requirements of today's species classification and identification. With the improvement of sequencing level and the reduction of sequencing cost, the role of DNA sequence in species identification is becoming more and more prominent. In 2003, Canadian zoologist Paul Hebert first proposed the concept of DNA barcoding (DNA barcoding). It uses a standard, sufficiently variable, easy-to-amplify and relatively short DNA fragment to achieve rapid, accurate and automated species identification by establishing a biological DNA barcode database. DNA barcoding technology is currently the most...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/68G06F19/22G06F19/20G06F19/28
CPCC12Q1/6895C12Q2600/156G16B25/00G16B30/00G16B50/00
Inventor 张伟赵宏
Owner SHANDONG UNIV
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