Genome selection method for breeding Plectropomus leopardus disease-resistant improved variety

A technology of genome selection and eastern star spot, applied in biochemical equipment and methods, recombinant DNA technology, microbial measurement/inspection, etc., can solve the problems of missing pedigree information, low selection accuracy, lack of family materials, etc., to improve survival rate Effect

Inactive Publication Date: 2022-02-08
YELLOW SEA FISHERIES RES INST CHINESE ACAD OF FISHERIES SCI +1
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  • Abstract
  • Description
  • Claims
  • Application Information

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Problems solved by technology

[0005] The purpose of the present invention is to provide a genome selection method for cultivating disease-resistant improved varieties of Eastern star spot, that is, a genome selection method for cultivating disease-resistant improved varieties of Eastern star spot based on non-pedigree groups, so as to overcome the lack of family materials, lack of pedigree information and Select questions with lower accuracy

Method used

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  • Genome selection method for breeding Plectropomus leopardus disease-resistant improved variety
  • Genome selection method for breeding Plectropomus leopardus disease-resistant improved variety
  • Genome selection method for breeding Plectropomus leopardus disease-resistant improved variety

Examples

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Embodiment 1

[0023] Example 1: Establishment of Eastern star spot disease-resistant reference population

[0024] Juveniles of East star spot were collected from a number of large-scale breeding farms in Hainan and Shandong, and the collected juveniles were transported to places where artificial infection experiments could be carried out, and these juveniles were treated by intraperitoneal injection of Vibrio harveyi bacteria liquid artificial infection. Consider the time of injection of the bacterial solution as the starting point (0 o'clock), observe the survival of the juvenile fish after injection every 8 hours, remove the dead individual in time, record the individual information (such as full length, body weight, and death time, etc.) and cut off the tail fin Fin rays were stored in absolute ethanol. The experiment was carried out for 5 days. After the end, the caudal fin rays of surviving individuals were collected and stored in absolute ethanol, and the data of individual origin, ...

Embodiment 2

[0028] Example 2: Whole-genome resequencing and screening of high-quality SNPs in the eastern star spot disease-resistant reference population

[0029] 1. Reference population whole genome resequencing and mutation detection

[0030] Genomic DNA from the reference population of Eastern star spot disease resistance was extracted and purified using the standard procedure provided by the DNA extraction kit (TIANGEN, Beijing). In addition to the genomic DNA of the reference population, the genomic DNA of 298 Eastern star spots with a disease-resistant phenotype was also extracted to verify the effect of the method of the present invention. Purified genomic DNA was used to build an Illumina paired-end library, and then the Illumina HiSeq 2000 sequencing platform was used for sequencing. After filtering out low-quality sequencing reads (reads), the software BWA was used to compare these reads to the Eastern Star Spot reference genome. Use the software GATK to detect the variation i...

Embodiment 3

[0039] Example 3: Accuracy of two gene-wide selection methods in predicting disease-resistant GEBV in eastern star spot

[0040] In order to explore the method and the appropriate number of SNP markers for estimating the GEBV resistance of Eastern star spot against Harvey vibrio disease, the present invention compared the G- Trends of BLUP and Bayes Cπ in predicting the accuracy of GEBV resistance to harvei vibrio disease in eastern star spot as the number of SNPs decreases. The area under the receiver operating characteristic curve (AUC) was used as the evaluation index for the prediction accuracy, and the calculation was carried out 25 times, and the final accuracy was expressed as the mean of 25 times. The following R packages need to be installed before calculation: data.table, ASReml, BGLR, Rcpp, pROC and parallel.

[0041] 1. Extract different numbers of SNP collections (SNP subsets) from the eastern star spot disease-resistant reference population

[0042] Different num...

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Abstract

The invention provides a genome selection method for breeding Plectropomus leopardus disease-resistant improved variety. The method comprises the following steps of: constructing a Plectropomus leopardus disease-resistant reference group by using Plectropomus leopardus young fishes from different geographical sources, and taking individuals which have disease-resistant phenotypes but are not included in the reference group as a verification group, wherein the Plectropomus leopardus young fishes used for constructing the disease-resistant reference group is obtained after disease resistance screening; and predicting a disease-resistant character genome estimation breeding value of the verification group by using the selected SNP sites and the constructed Plectropomus leopardus disease-resistant reference group, and selecting alternative parents by using the disease-resistant character genome estimation breeding value to obtain individuals with strong disease resistance for disease-resistant improved variety cultivation. According to the invention, the method for breeding the Plectropomus leopardus disease-resistant improved variety based on the whole-genome selection technology can be used for screening parents with high disease resistance, the selected parents can be directly used for breeding Plectropomus leopardus, and an efficient technical means is provided for improving the survival rate of Plectropomus leopardus breeding group.

Description

technical field [0001] The invention belongs to the technical field of aquatic genetics and breeding, and in particular relates to a genome selection method for cultivating disease-resistant fine varieties of eastern star spot. Background technique [0002] Eastern star spot, scientific name Plectropomus leopardus, belongs to the order Perciformes, Anthidae, Grouper subfamily, and the genus Plectropomus. Dongxingban has delicate meat, delicious taste, and beautiful red body. It has high economic value and ornamental value. It is a rare and precious cultured fish in seawater. Due to the high demand in the market, the number of wild populations has dropped significantly due to overfishing, which has caused the eastern star spot to become a scarce fish in the market. In recent years, with the breakthrough and development of Dongxingban artificial breeding technology, the scope and scale of breeding have gradually expanded. However, due to the prevalence of high-density breedi...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/6888C12N15/11
CPCC12Q1/6888C12Q2600/124C12Q2600/156Y02A40/81
Inventor 陈松林卢昇刘洋周茜王磊朱春华张天时陈亚东徐文腾
Owner YELLOW SEA FISHERIES RES INST CHINESE ACAD OF FISHERIES SCI
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