CN-121592785-B - SNP molecular marker combination for identifying or distinguishing germplasm resources of garrupa and application thereof

Abstract

The invention belongs to the technical field of molecular biology, and particularly relates to an SNP molecular marker combination for identifying or distinguishing germplasm resources of garrupa and application thereof. The invention extracts genome DNA of the macula, the tiger spot and the tiger hybridization spot, 177 sharing SNPs loci are obtained after detection, and specific position information is shown in table 1 of the specification. The SNP molecular marker combination screened by the invention can be developed into a primer, a probe or a gene chip, three groupers such as a macula, a tiger spot and a gold tiger hybrid spot can be rapidly and accurately distinguished through simple phylogenetic tree analysis, and an unknown detection sample can be rapidly and accurately identified as to which of the three groupers the unknown detection sample belongs through genetic tree analysis with the known macula, tiger spot and gold tiger hybrid spot.

Inventors

• CAO LIU
• GUO XINJING
• MA JUN
• CHEN PAN
• YANG NING
• HUANG HAI

Assignees

• 海南热带海洋学院崖州湾创新研究院

Dates

Publication Date

20260508

Application Date

20260129

Claims (7)

1. 1. Use of a reagent, chip or kit targeting a SNP molecular marker combination in one or more of the following; (1) Identifying the germplasm resource of the groupers; (2) Differentiating the germplasm resources of the groupers; (3) Auxiliary breeding of groupers; the locus information of the SNP molecular marker combination is as follows, and the groupers are selected from the group consisting of macula, tiger spots and tiger hybridization spots;
2. 2. The use according to claim 1, wherein the reagent, kit or chip comprises primers and/or probes.
3. 3. The use according to claim 1, wherein the chip is a liquid phase chip.
4. 4. The use according to claim 1, wherein the tiger hybridization spot is female and the desmodium spot is male.
5. 5. A method for identifying the germplasm resource of the groupers is characterized by comprising the following steps of extracting genomic DNA of the groupers to be identified, extracting site information corresponding to the SNP molecular marker combination of claim 1, carrying out genetic evolutionary tree analysis on the site information and the known macula, tiger spot and tiger hybrid spot, and determining which of the macula, tiger spot and tiger hybrid spot the groupers to be identified belong to.
6. 6. The method for distinguishing the three species of the garrupa is characterized by comprising the following steps of: extracting genomic DNA of the groupers, extracting site information corresponding to the SNP molecular marker combination of claim 1, constructing a phylogenetic tree by adopting a maximum likelihood method, observing an aggregation result, and distinguishing three groupers, wherein the three groupers are macula, tiger spots and tiger hybridization spots.
7. 7. The method of claim 5 or 6, wherein the genomic DNA is skein tissue genomic DNA.

Description

SNP molecular marker combination for identifying or distinguishing germplasm resources of garrupa and application thereof Technical Field The invention belongs to the technical field of molecular biology, and particularly relates to an SNP molecular marker combination for identifying or distinguishing germplasm resources of garrupa and application thereof. Background The groupers belong to rare sea water economic fishes and have very high economic value. The macula and the tiger spot have important roles in breeding and breeding of the groupers. The surface of the desmodium spots is light brown, and dark brown spots are covered on the surface. The tiger spots are light yellow brown on the body surface and are covered with black spots. The body color of the hybrid spot of the tiger is brown, the hybrid spot is similar to the money spot in body shape, and brown spots are distributed on the body surface. Although the three groupers have a certain difference in phenotype characteristics, the body color of the groupers can be changed along with the change of the external environment. In addition, the morphology and the body color of the groupers in the larval stage and the adult stage are obviously different. Both of these factors may lead to inaccurate results when species identification is performed solely by morphological features. The single nucleotide polymorphism sites (Single Nucleotide Polymorphism, SNP) have the advantages of wide distribution in genome, large quantity, stable inheritance, convenience for high-throughput automatic detection and the like, and are used as main molecular markers. Although SNP markers are widely applied to a plurality of animals and plants, the application in the aspects of identification and differentiation of the germplasm resources of garrupa is still in a starting stage. Therefore, the SNP markers which can identify or distinguish the macula, the tiger spot and the tiger hybridization spot are screened, and have important significance and wide application prospect for the utilization and protection of the garter germplasm resources. Disclosure of Invention The invention aims to provide an SNP molecular marker combination for identifying or distinguishing the germplasm resources of groupers and application thereof, which can rapidly distinguish macula and tiger spots and filial generation (tiger filial generation) thereof, realize rapid and accurate identification of three groupers and solve the problem of inaccurate results in the identification of groupers. The invention provides an SNP molecular marker combination for identifying or distinguishing germplasm resources of groupers, wherein the site information of the SNP molecular marker combination is shown in a table 1 in the specification, and the groupers comprise maculates, tiger spots and tiger hybridization spots. The invention provides a reagent for targeting the SNP molecular marker combination according to the technical scheme, wherein the reagent comprises a primer and/or a probe. The invention provides a chip for identifying or distinguishing the germplasm resources of groupers, which comprises the reagent according to the technical scheme, wherein the groupers comprise maculates, tiger spots and tiger hybridization spots. Preferably, the chip is a liquid phase chip. The invention provides a kit for identifying or distinguishing germplasm resources of groupers, which comprises the chip according to the technical scheme, wherein the groupers comprise maculates, tiger spots and tiger hybridization spots. The invention provides the application of the reagent according to the technical scheme, the chip according to the technical scheme or the kit according to the technical scheme in one or more of the following; (1) Identifying the germplasm resource of the groupers; (2) Differentiating the germplasm resources of the groupers; (3) Auxiliary breeding of groupers; the groupers comprise macula, tiger spots and tiger hybridization spots. Preferably, the tiger hybridization spots take tiger spots as female parent and desmodium spots as male parent. The invention provides a method for identifying the germplasm resources of garrupa, which comprises the following steps of extracting genomic DNA of garrupa to be identified, extracting site information of SNP molecular marker combination corresponding to the technical scheme, carrying out genetic evolution tree analysis on the obtained genetic information and known garrupa, tiger spot and tiger hybrid spot, and determining which garrupa belongs to the garrupa, tiger spot and tiger hybrid spot to be identified. The invention provides a method for distinguishing three grouper germplasm resources, which comprises the following steps: Extracting genomic DNA of the groupers, extracting site information corresponding to the SNP molecular marker combination in the technical scheme, constructing a phylogenetic tree by adopting a maximum likelihood method, observing an aggregation