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Kit for identifying rice suitable planting area, prediction method thereof and construction of prediction model

A predictive model and kit technology, applied in biochemical equipment and methods, microbial measurement/inspection, instruments, etc., to achieve the effect of short time and low cost

Pending Publication Date: 2022-01-14
SOUTH CHINA AGRI UNIV +1
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

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Problems solved by technology

The whole process takes about 120 days

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  • Kit for identifying rice suitable planting area, prediction method thereof and construction of prediction model
  • Kit for identifying rice suitable planting area, prediction method thereof and construction of prediction model
  • Kit for identifying rice suitable planting area, prediction method thereof and construction of prediction model

Examples

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Embodiment 1

[0069] A method for constructing a predictive model for identifying areas suitable for planting rice, comprising the following steps.

[0070] (1) Detect the genotype information of rice samples from various planting regions across the country.

[0071] The detection of SNP sites uses the bwa (version is not limited, http: / / bio-bwa.sourceforge.net / ) comparison software to compare the paired-end sequences, and the comparison strategy can be aln or mem, and the parameter selection is default parameter. Use samtools (version 1.9, http: / / samtools.sourceforge.net / ) to sort the aligned sequences, and use a computer program written in python to obtain the genotype of the SNP site.

[0072] (2) According to the latitude distribution, the main rice planting regions in the country are divided into 5 regions, referring to figure 2 , the division rules are as follows.

[0073] R1 latitude range: about 20-25 degrees north latitude, corresponding to the main rice planting areas: Guangdo...

Embodiment 2

[0095] A method for predicting a prediction model of a suitable rice planting area, which includes using the prediction model constructed by the present invention to predict the suitable planting area of ​​the rice to be tested, specifically as follows.

[0096] (1) Sample sequencing and prediction.

[0097] DNA extraction:

[0098] 1. Take about 100 mg of tissue or about 30 mg of dry weight tissue of the fresh rice group of the plant (root, stem, leaf can be used, there is no limit), add liquid nitrogen and grind thoroughly.

[0099] 2. Quickly transfer the ground powder to a centrifuge tube pre-filled with 700 μL 65°C preheating buffer GPL, add 1 μL RNase, quickly invert and mix well, then place the centrifuge tube in a 65°C water bath for 20 minutes, and turn it upside down during the water bath Centrifuge tubes to mix samples.

[0100] 3. Add 700 μL of chloroform, mix thoroughly, and centrifuge at 12,000 rpm (~13,400×g) for 5 minutes.

[0101] 4. Carefully transfer the ...

Embodiment 3

[0116] A method for constructing a prediction model for identifying rice suitable for planting is roughly the same as in Example 1, the difference being that the SNP sites used to construct the prediction model are different, and this embodiment randomly extracts from the target sites in Example 1 40% of the sites were selected as the final target SNP sites.

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Abstract

The invention discloses a kit for identifying a rice suitable planting area, a prediction method thereof and construction of a prediction model, and relates to the technical field of rice planting environment detection. Rice is a relatively important grain crop. The genotype of SNP sites in indica rice and japonica rice groups is detected and analyzed through a high-throughput sequencing method, and specific target SNP sites are obtained; and an analysis model is constructed by adopting a machine learning and artificial intelligence method and is used for carrying out suitable planting area prediction on a to-be-detected rice variety. The comprehensive prediction accuracy rate exceeds 90%, and compared with a conventional suitable planting area evaluation method, the method has the technical advantages of being low in cost, short in time and the like.

Description

technical field [0001] The invention relates to the technical field of rice planting environment detection, in particular to a kit for identifying suitable rice planting areas, a prediction method and the construction of a prediction model. Background technique [0002] As the main staple food crop, rice occupies an extremely important position in people's daily life. With the continuous improvement of people's living standards, people's pursuit of rice quality is gradually increasing. In addition to the genetic characteristics of the rice variety itself, the factors that affect the quality of rice are also the key factors that affect the quality of rice, such as soil factors and Climate factors, etc. High-quality rice can only achieve a reasonable match between varieties and climatic conditions under suitable ecological conditions. [0003] The existing conventional process for identifying rice planting areas is as follows: select the planting area based on weather factors...

Claims

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Application Information

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IPC IPC(8): C12Q1/6895G16B20/20
CPCC12Q1/6895G16B20/20C12Q2600/156C12Q2600/13
Inventor 张群宇陈杰湖周峰王曼刘耀光王红梅袁健铭
Owner SOUTH CHINA AGRI UNIV