CN113881784B - Method for rapidly identifying yellow river carp carrying red mutant allele - Google Patents

Method for rapidly identifying yellow river carp carrying red mutant allele Download PDF

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CN113881784B
CN113881784B CN202111334340.4A CN202111334340A CN113881784B CN 113881784 B CN113881784 B CN 113881784B CN 202111334340 A CN202111334340 A CN 202111334340A CN 113881784 B CN113881784 B CN 113881784B
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pcr amplification
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primer
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CN113881784A (en
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江炎亮
李尚琪
许建
赵小鹏
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Chinese Academy Of Fishery Science
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Abstract

The invention discloses a method for rapidly identifying yellow river carp carrying red mutant alleles, which comprises the following steps: 1) Extracting sample DNA; 2) And (3) PCR amplification: performing PCR amplification on the DNA extracted in the step 1) by using specific primers, wherein the sequences of the primers are as follows: an upstream primer sequence TTAGATGACTGATCGCTTCCTA, a downstream primer sequence TGTATGTATGCCGTACCTGAT; 3) Performing agarose gel electrophoresis detection on the PCR amplification product obtained in the step 2); 4) Identifying the yellow river carp according to the band condition in the gel electrophoresis pattern: each of 512bp and 468bp in the gel electrophoresis pattern shows a band of yellow river carps carrying red mutant alleles. The invention can rapidly identify whether the parent carp of yellow river carries the body color mutation allele or not by only a small amount of tissues, thereby preventing generation of red mutation offspring.

Description

Method for rapidly identifying yellow river carp carrying red mutant allele
Technical Field
The invention relates to the technical field of agricultural biology. More particularly, the present invention relates to a method for rapidly identifying yellow river carps carrying red mutant alleles.
Background
Yellow river carp is a special economic fish naturally formed in yellow river basin in China for a long time, is similar to Songjiang weever, xingshi lake culter fish and Songhua river salmon, is called four large-name fish in China, is regarded as a food since ancient times, and is famous with golden scale red tail, graceful in posture and tender and delicious in meat quality. In recent years, the germplasm resources of the yellow river carps are seriously destroyed due to environmental changes, human factors and the like, and the high-density intensive culture conditions are added to cause the hybridization of the germplasm of the carps, so that red individuals appear in the cultured yellow river carps. The red yellow river carp body color is different from that of the wild yellow river carp, is difficult to accept by consumers, and has certain negative interference on yellow river carp breeding and industry.
The red yellow river carp individuals are generated because a certain proportion of recessive red mutation alleles are mixed in the yellow river carp population in the culture history process, and through continuous selfing and hybridization with other populations, recessive homozygous individuals are reserved in the population, the phenotype is red, but the parent fish phenotype carrying the red mutation alleles is normal body color and cannot be distinguished from external morphology, so that the characteristics cannot be thoroughly cleared. So far, no related molecular technology is used for identifying whether the yellow river carp carries recessive red mutation alleles, so that the breeding of the yellow river carp is seriously influenced.
Disclosure of Invention
The invention aims to provide a method for rapidly identifying yellow river carp carrying red mutation alleles, which can rapidly identify whether parent fish of yellow river carp carries body color mutation alleles or not by using a small amount of tissues such as fin, thereby preventing generation of red mutation offspring.
To achieve these objects and other advantages and in accordance with the purpose of the invention, there is provided a primer pair for identifying yellow river carp carrying a red mutant allele by PCR, the primer pair consisting of an upstream primer and a downstream primer, wherein the upstream primer has the sequence: TTAGATGACTGATCGCTTCCTA, the downstream primer sequences are:
TGTATGTATGCCGTACCTGAT。
a method for rapidly identifying yellow river carp harboring a red mutant allele comprising:
1) Extracting sample DNA;
2) PCR amplification
Performing PCR amplification on the DNA extracted in the step 1) by using specific primers, wherein the sequences of the primers are as follows:
upstream primer sequence TTAGATGACTGATCGCTTCCTA
A downstream primer sequence TGTATGTATGCCGTACCTGAT;
3) Performing agarose gel electrophoresis detection on the PCR amplification product obtained in the step 2);
4) Identifying the yellow river carp according to the band condition in the gel electrophoresis pattern
Each of 512bp and 468bp in the gel electrophoresis pattern shows a band of yellow river carps carrying red mutant alleles.
Preferably, in the method for rapidly identifying the yellow river carp carrying the red mutant allele, the PCR system is as follows: 2 XEs Taq Master mix 20. Mu.l, sample DNA 2. Mu.l, upstream primer 1. Mu.l at a concentration of 10. Mu.M, downstream primer 1. Mu.l at a concentration of 10. Mu.M, sterile water 16. Mu.l;
the PCR process is as follows: denaturation at 94℃for 4 min; preheating at 94 ℃ for 30s, coupling at 60 ℃ for 30s, extending at 72 ℃ for 45s, and circulating for 30 times; extending at 72 ℃ for 10 min; preserving at 4 ℃.
Preferably, in the method for rapidly identifying yellow river carp carrying red mutant allele, the PCR amplification product in step 3) is electrophoresed on agarose gel with mass-volume ratio of 2% at 80V for 1 hour.
A PCR amplification reagent for rapid identification of yellow river carp harboring a red mutant allele, said amplification reagent comprising the primer pair described above.
The application of the primer pair in identifying yellow river carp carrying red mutant alleles.
The invention at least comprises the following beneficial effects:
according to the invention, on the premise of not killing the fish, whether the parent fish of the yellow river carp carries the body color mutation allele can be rapidly identified by only a small amount of tissues such as fin, so that the generation of red mutation offspring is prevented. The result can be applied to yellow river carp breeding, can be used for rapidly screening out germplasm homozygous yellow river carp as a parent for breeding, eliminates interference of red recessive genes, and improves economic benefit of yellow river carp breeding industry.
The invention adopts less reagents, the whole method is convenient and quick, the operation is easy, and the identification can be quickly and accurately carried out in a short time. Thus being beneficial to scientific research departments or actual production departments to rapidly identify the taken samples, accurately picking parent fish without red mutant alleles for breeding, and effectively avoiding the generation of red offspring fries which are not accepted by the market.
Additional advantages, objects, and features of the invention will be set forth in part in the description which follows and in part will become apparent to those having ordinary skill in the art upon examination of the following or may be learned from practice of the invention.
Drawings
FIG. 1 is an agarose gel electrophoresis of PCR amplification products;
1 in FIG. 1 is 2K DNAmarker;2-4 is red mutated yellow river carp; 5-10 is yellow river carp with normal body color, wherein 5-8 is yellow river carp carrying red mutation allele, and a certain proportion of red fish fries appear in offspring generated after the yellow river carp is bred by using the yellow river carp as a father parent;
FIG. 2 is a gel electrophoresis detection plot of 83 samples.
Detailed Description
The present invention is described in further detail below with reference to the drawings to enable those skilled in the art to practice the invention by referring to the description.
The experimental methods described in the following embodiments are conventional methods unless otherwise indicated, and the reagents and materials are commercially available.
Example 1
The invention provides a primer pair for identifying yellow river carp carrying red mutant alleles by adopting a PCR method, wherein the primer pair consists of an upstream primer and a downstream primer, and the sequence of the upstream primer is as follows: TTAGATGACTGATCGCTTCCTA, the downstream primer sequences are: TGTATGTATGCCGTACCTGAT.
A method for rapidly identifying yellow river carp harboring a red mutant allele comprising:
1) Extracting fin sample DNA;
2) Performing PCR amplification;
performing PCR amplification on the DNA extracted in the step 1) by using specific primers, wherein the sequences of the primers are as follows:
upstream primer sequence TTAGATGACTGATCGCTTCCTA
A downstream primer sequence TGTATGTATGCCGTACCTGAT;
3) Performing agarose gel electrophoresis detection on the PCR amplification product obtained in the step 2);
4) Identifying the yellow river carp according to the strip condition in the gel electrophoresis pattern;
each of 512bp and 468bp in the gel electrophoresis pattern shows a band of yellow river carps carrying red mutant alleles. As shown in figure 1, the gene locus is in an upper band and a lower band in the yellow river carp carrying red mutation alleles, wherein the upper band is 512bp, the lower band is 468bp, and in other normal body color yellow river carp, only the upper single band is provided, and in the red mutation yellow river carp, only the lower single band is provided.
In the method for rapidly identifying the yellow river carp carrying the red mutant allele, a PCR system is as follows: 2 XEs Taq Master mix 20. Mu.l, sample DNA 2. Mu.l, upstream primer 1. Mu.l at a concentration of 10. Mu.M, downstream primer 1. Mu.l at a concentration of 10. Mu.M, sterile water 16. Mu.l;
the PCR process is as follows: denaturation at 94℃for 4 min; preheating at 94 ℃ for 30s, coupling at 60 ℃ for 30s, extending at 72 ℃ for 45s, and circulating for 30 times; extending at 72 ℃ for 10 min; preserving at 4 ℃.
In the method for rapidly identifying the yellow river carp carrying the red mutant allele, in the step 3), the PCR amplification product is subjected to electrophoresis for 1 hour at 80V voltage by using agarose gel (prepared by dissolving 2g agarose in 100 mL buffer solution) with the mass-volume ratio of 2% (0.02 g/mL).
A PCR amplification reagent for rapid identification of yellow river carp harboring a red mutant allele, said amplification reagent comprising the primer pair described above.
The application of the primer pair in identifying yellow river carp carrying red mutant alleles.
Experiment 1
83 yellow river carp parent fishes are randomly selected for testing, wherein the yellow river carp parent fishes comprise 37 red yellow river carp parent fishes, 25 yellow river carp parent fishes carrying red mutation alleles (which are verified to be used as parent-offspring fish fries with a certain proportion after breeding), and 21 yellow river carp parent fishes with other normal body colors.
According to the method of example 1, a small amount of fin is cut off, DNA is extracted, and the results of PCR amplification and electrophoresis detection are as follows: 37 yellow river carps carrying red mutation alleles are detected in red, and 21 yellow river carps with other normal body colors are detected in red. The detection accuracy was 83/83×100% =100%. For details, please see table 1, the double band in the electrophoretic phenotype indicates two bands one above the other, the single (upper band) indicates only the upper single band, and the single (lower band) indicates only the lower single band. The electrophoresis diagram is shown in fig. 2.
Table 1 sample information table
Figure BDA0003349978340000041
Figure BDA0003349978340000051
Figure BDA0003349978340000061
Although embodiments of the present invention have been disclosed above, it is not limited to the details and embodiments shown and described, it is well within the ability of one skilled in the art to adapt the present invention to various modifications and other changes may be readily made therein without departing from the general concept defined by the appended claims and their equivalents.
SEQUENCE LISTING
<110> national institute of aquatic science
<120> method for rapidly identifying yellow river carp carrying red mutant allele
<160> 4
<170> PatentIn version 3.5
<210> 1
<211> 22
<212> DNA
<213> artificial sequence
<223> upstream primer
<400> 1
ttagatgact gatcgcttcc ta 22
<210> 2
<211> 21
<212> DNA
<213> artificial sequence
<223> downstream primer
<400> 2
tgtatgtatg ccgtacctga t 21
<210> 3
<211> 512
<212> DNA
<213> artificial sequence
<223> PCR amplified product 512bp
<400> 3
ttagatgact gatcgcttcc tagctgcagg agtgatttgt tactttgaat gataggattg 60
gattttcaca actaaattta aacctgaagt gtttcatttc catgagacta gcgacaacaa 120
atgcgactgc aataataatg atgattgtaa acaagtttac cgggtcaaac taattaattt 180
taccactaaa cagatagtcc tgccccaaac tcatgccatt ggttgagtca gaagtcaata 240
tcttggactg ctcaaacaaa cagagcaaca tttagcaagc accactgtgt ttaacacact 300
gtttttatgc tgttctgtgc agtataacct acatgacact gcatgagccc agcctgggat 360
ctggagagga atcatgggag gccagctctg ctgaattgga gaggaggtgt aggctgggca 420
gtgaggtggc cagtctctcc cacatcacat ccatggataa atgtgaacat tatttcaaac 480
tatcaccccc catcaggtac ggcatacata ca 512
<210> 4
<211> 468
<212> DNA
<213> artificial sequence
<223> 468bp of PCR amplified product
<400> 4
ttagatgact gatcgcttcc tagctgcagg agtgatttgt tactttgaat gataggattg 60
gattttcaca actaaattta aacctgaagt gtttcatttc catgagacta gcgacaacaa 120
atgcgactgc aataataatg atgattgtaa acaagtttac cgggtcaaac taattaattt 180
taccactaaa cagatagtac agactgctca aacaaacaga gcaacattta gcaagcacca 240
ctgtgtttaa cacactgttt ttatgctgtt ctgtgcagta taacctacat gacactgcat 300
gagcccagcc tgggatctgg agaggaatca tgggaggcca gctctgctga attggagagg 360
aggtgtaggc tgggcagtga ggtggccagt ctctcccaca tcacatccat ggataaatgt 420
gaacattatt tcaaactatc accccccatc aggtacggca tacataca 468

Claims (6)

1. The PCR method is used for identifying primer pairs of yellow river carps carrying red mutant alleles, and the primer pairs are characterized by comprising an upstream primer and a downstream primer, wherein the sequence of the upstream primer is as follows:
TTAGATGACTGATCGCTTCCTA, the downstream primer sequences are: TGTATGTATGCCGTACCTGAT.
2. A method for rapidly identifying yellow river carps harboring a red mutant allele comprising:
1) Extracting sample DNA;
2) PCR amplification
Performing PCR amplification on the DNA extracted in the step 1) by using specific primers, wherein the sequences of the primers are as follows:
upstream primer sequence TTAGATGACTGATCGCTTCCTA
A downstream primer sequence TGTATGTATGCCGTACCTGAT;
3) Performing agarose gel electrophoresis detection on the PCR amplification product obtained in the step 2);
4) Identifying the yellow river carp according to the band condition in the gel electrophoresis pattern
Each of 512bp and 468bp in the gel electrophoresis pattern shows a band of yellow river carps carrying red mutant alleles.
3. The method for rapidly identifying yellow river carps carrying red mutant alleles according to claim 2, wherein the PCR system is: 2 XEs Taq Master mix 20. Mu.l, sample DNA 2. Mu.l, upstream primer 1. Mu.l at a concentration of 10. Mu.M, downstream primer 1. Mu.l at a concentration of 10. Mu.M, sterile water 16. Mu.l;
the PCR process is as follows: denaturation at 94℃for 4 min; preheating at 94 ℃ for 30s, coupling at 60 ℃ for 30s, extending at 72 ℃ for 45s, and circulating for 30 times; extending at 72 ℃ for 10 min; preserving at 4 ℃.
4. The method for rapidly identifying yellow river carps harboring red mutant alleles according to claim 2, wherein the PCR amplification products are electrophoresed at 80V for 1 hour using agarose gel having a mass-to-volume ratio of 2%.
5. A PCR amplification reagent for rapid identification of yellow river carp harboring a red mutant allele, characterized in that the amplification reagent comprises the primer pair of claim 1.
6. Use of a primer pair according to claim 1 for identifying yellow river carp harboring a red mutant allele.
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Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN110495445A (en) * 2019-09-20 2019-11-26 河南师范大学 A kind of method of the Yellow River carp postlarva intermuscular bone dyeing

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN110495445A (en) * 2019-09-20 2019-11-26 河南师范大学 A kind of method of the Yellow River carp postlarva intermuscular bone dyeing

Non-Patent Citations (5)

* Cited by examiner, † Cited by third party
Title
Comparative Transcriptome Analysis Reveals the Genetic Basis of Skin Color Variation in Common Carp;Yanliang Jiang 等;PLOS ONE;e108200 *
Cyprinus carpio genome assembly common carp genome, scaffold: LG11, chromosome: 11;Li,Jiong.-Tang.;GenBank: LN590705.1;序列说明 *
Variations in 5S rDNAs in diploid and tetraploid offspring of red crucian carp X common carp;Lihai Ye 等;BMC Genetics;1-8 *
黄河鲤全同胞家系的微卫星标记亲子鉴定;王新华;俞小牧;冯建新;童金苟;;中国水产科学(05);全文 *
黄河鲤酪氨酸酶基因的克隆、表达模式及定位分析;王良炎;田雪;庞小磊;李梦荣;李学军;;水产学报(07);全文 *

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