CN105331703B - A kind of method and its dedicated kit identified or assist identification pig 100kg weight eye muscle areas - Google Patents

A kind of method and its dedicated kit identified or assist identification pig 100kg weight eye muscle areas Download PDF

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CN105331703B
CN105331703B CN201510784021.1A CN201510784021A CN105331703B CN 105331703 B CN105331703 B CN 105331703B CN 201510784021 A CN201510784021 A CN 201510784021A CN 105331703 B CN105331703 B CN 105331703B
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CN105331703A (en
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李奎
唐中林
孙浩
梁如意
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Institute of Animal Science of CAAS
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Abstract

The invention discloses a kind of identification or the methods and its dedicated kit of auxiliary identification pig 100kg weight eye muscle areas.The method of the present invention is that the 16th deoxyribonucleotide of the h19 gene for detecting pig to be measured is C or T or C and T, and the genotype with determination pig to be measured is TT or CC or TC, and the pig 100kg weight eye muscle area size is determined according to the genotype of the pig:The pig individual 100kg weight eye muscle areas of TT genotype are more than the pig individual of CT genotype, and the pig individual 100kg weight eye muscle areas of CT genotype are more than the pig individual of CC genotype.It is proved by testing:The method of the present invention can accurately and quickly identify pig 100kg weight eye muscle areas, and the genetic breeding and Performance Testing to pig have important reference significance.

Description

A kind of identification or the auxiliary identification method of pig 100kg weight eye muscle areas and its special Kit
Technical field
The invention belongs to genetic engineering fields, and in particular to a kind of to identify or assist identification pig 100kg weight eye muscle areas Method and its dedicated kit.
Background technology
Pig is first of six domestic animals, and pig breeding industry occupies an important position in the world especially China's national economy.Pork is many Proportion in meat products is always held at one third or so, is people than one of preferable non-staple foodstuff.People’s lives are not Disconnected to improve, traditional cultural technique cannot meet demand of the people to pork.With the development of GENERALIZATION OF MODERN BREEDING TECHNIQUE, pig Production performance significantly improve, the healthy aquaculture of pig and fattening just seem increasingly important.
Fat thickness at back of pig and eye muscle area are directly related with pig lean meat percentage, are important on the genetic breeding and Performance Testing of pig The eye muscle area of index parameter, pig is bigger, and lean meat percentage is higher.Genetic force is the important parameter of quantitative character, according to genetic force Size can predict genetic progress, individual breeding value.Therefore, how to increase eye muscle area and improve lean meat percentage, and make in advance Judge, is the target that each pig farm operator and breeding scholar pursue.
Nearly ten years, the breeding for developing into pig of molecular biotechnology provides a kind of novel heredity to make a variation based on DNA Label.The especially appearance of Molecular Marker Assisted Selection Technology, these quantitative characters to significantly improve pig provide possibility.
Invention content
It is an object of the present invention to provide a kind of identification or auxiliary identification pig 100kg weight eye muscle area and/or lean meat The method of rate.
Identification provided by the invention or auxiliary identification pig 100kg weight eye muscle area and/or the method for lean meat percentage are detections 16th deoxyribonucleotide of the h19 gene of pig to be measured is C or T or C and T, and the genotype with determination pig to be measured is TT genotype or CC genotype or TC genotype determine pig 100kg weight eye muscle face according to the genotype of the pig The size of product and/or lean meat percentage:The pig individual 100kg weight eye muscle area and/or lean meat percentage of TT genotype are more than CT genotype Pig individual, the pig individual 100kg weight eye muscle area and/or lean meat percentage of CT genotype are more than the pig individual of CC genotype;
The CC genotype is the homozygote that h19 gene is C from the deoxyribonucleotide of 5 ' ends the 16th;
The CT genotype is h19 gene from the heterozygote that the deoxyribonucleotide of 5 ' ends the 16th is C and T;
The TT genotype is the homozygote that h19 gene is T from the deoxyribonucleotide of 5 ' ends the 16th;
In the nucleotide sequence of the h19 gene such as sequence table shown in sequence 1.
In the above method, the 16th deoxyribonucleotide of the h19 gene of the detection pig to be measured is T or C or T Method with C is following A) or B):
A) direct Sequencing;
B) use can expand pig to be measured described in the primer pair amplifies of the 16th deoxyribonucleotide containing pig h19 gene Genomic DNA, obtain pcr amplification product, it is described if pcr amplification product the 16th base from 5 ' ends is C The genotype of pig is CC genotype, if pcr amplification product the 16th base from 5 ' ends is C and T, the base of the pig Because type is CT genotype, if pcr amplification product the 16th base from 5 ' ends is T, the genotype of the pig is TT genotype.
In the above method, the B) include the following steps:Primer pair used in the amplification meets following condition:With described The genomic DNA of pig individual is the 16th deoxyribonucleotide that template carries out that the product of PCR amplification contains h19 gene;
The primer pair is single-stranded shown in sequence 3 in single strand dna and sequence table shown in sequence in sequence table 2 The primer pair of DNA molecular composition.
It is a further object to provide a kind of identification or auxiliary identification pig 100kg weight eye muscle areas and/or thin The reagent of meat rate.
Identification provided by the invention or the reagent of auxiliary identification pig 100kg weight eye muscle area and/or lean meat percentage are detections 16th deoxyribonucleotide of the h19 gene of pig to be measured is the substance of T or C or T and C;
In the nucleotide sequence of the h19 gene such as sequence table shown in sequence 1.
In mentioned reagent, the substance is sequence 3 in single strand dna and sequence table shown in sequence in sequence table 2 Shown in single strand dna composition primer pair.
It is a still further object of the present invention to provide a kind of identification or auxiliary identification pig 100kg weight eye muscle areas and/or thin The kit of meat rate.
Identification provided by the invention or auxiliary identification pig 100kg weight eye muscle area and/or the kit of lean meat percentage contain Mentioned reagent.
The application of mentioned reagent or mentioned reagent box in identifying or assisting identification pig 100kg weight eye muscle areas also belongs to Protection scope of the present invention.
Mentioned reagent or mentioned reagent box are in the product for preparing identification or auxiliary identification pig 100kg weight eye muscle areas Using also belonging to protection scope of the present invention.
The application of mentioned reagent or mentioned reagent box in identifying or assisting identification pig lean meat percentage also belongs to the guarantor of the present invention Protect range.
The application of mentioned reagent or mentioned reagent box in the product for preparing identification or auxiliary identification pig lean meat percentage also belongs to Protection scope of the present invention.
The application of the above method or mentioned reagent or mentioned reagent box in pig breeding also belongs to protection scope of the present invention.
The above method or mentioned reagent or mentioned reagent box are big in selection and breeding lean meat percentage height and/or 100kg weight eye muscle areas Boar in application also belong to protection scope of the present invention.
Final object of the present invention is to provide that a kind of selection and breeding lean meat percentage is high and/or 100kg weight eye muscle area is big The method of boar.
The method of selection and breeding lean meat percentage height provided by the invention and/or the big boar of 100kg weight eye muscle areas includes selection The pig of TT genotype carries out breeding;
The TT genotype is the homozygote that the 16th deoxyribonucleotide of h19 gene is T;
In the nucleotide sequence of the h19 gene such as sequence table shown in sequence 1.
Present invention finds the sites C16T of the 4th introne of pig h19 gene have to pig 100kg weight eye muscle areas it is aobvious Writing influences, and provides a kind of method identified or auxiliary identifies pig 100kg weight eye muscle areas based on the SNP site:TT bases Because the pig individual 100kg weight eye muscle areas of type are higher than the pig individual of CT genotype, the pig individual 100kg weight eyes of CT genotype Pig individual of the flesh area higher than CC genotype.It is proved by testing:The method of the present invention can accurately and quickly identify pig 100kg weight eye muscle areas, genetic breeding and Performance Testing to pig have important reference significance.
Specific implementation mode
Experimental method used in following embodiments is conventional method unless otherwise specified.
The materials, reagents and the like used in the following examples is commercially available unless otherwise specified.
Pig 100kg weight eye muscle areas in following embodiments are live body eye muscle area when pig weight reaches 100kg.
A kind of method of embodiment 1, identification or auxiliary identification pig 100kg weight eye muscle areas
One, the screening of the SNP site of pig h19 gene
1, the extraction of pig ear tissue sample DNA
It acquires the blood sample of 32 Landraces from Hebei pig farm respectively, after sample collection, is stored in 75% alcohol In, and in -20 DEG C of preservations.The genomic DNA that blood sample is extracted using phenol-chloroform extraction method, obtains the base of pig ear tissue Because of a group DNA.It is as follows:
(1) preparation of ear tissue sample:The ear tissue sample that clip is of moderate size, with normal saline flushing fall surface impurity and Blood stains are put in 1.5ml centrifuge tubes, are shredded with eye scissors, and Tissue lysates (the safe section in Beijing hundred of 500uL is added thereto Bioisystech Co., Ltd;Product identification:AU19011);
(2) according to the size of the ear tissue sample of institute's clip, the Proteinase K (SIGMA- of 25uL is added into centrifuge tube ALDRICH;Product identification:SRE0005);
(3) it is put on shaking bath, 55 DEG C of digestion are overnight, it is ensured that the digestion of ear tissue sample is complete, obtains digesting thorough ear Tissue;
(4) by the thorough ear tissue sample of above-mentioned digestion in being placed at room temperature for, isometric Tris- saturated phenols are added, and (Jiangsu is precious Lay bio tech ltd), overturn reverse mixing 5min;
(5) 14000rpm/min centrifuges 10min, and lamination is will appear in centrifuge tube, and upper layer is the water phase containing nucleic acid, Lower layer is the organic phase containing other impurities;
(6) water phase of the upper layer containing nucleic acid is carefully drawn using micropipettor, be positioned in a new 1.5ml centrifuge tube (in order to avoid picking up the organic phase of lower layer, preferably with the blue electron gun head of removal tip), abandons lower layer's organic phase;
(7) step (4)~(6) are repeated;
(8) isometric saturated phenol is added into the centrifuge tube containing water phase:Chloroform=1:1, mixing 5min is overturned repeatedly, 14000rpm/min centrifuges 10min, then draws supernatant liquid, is put in a new 1.5mL centrifuge tube;
(9) step (8) is repeated;
(10) saturated phenol, chloroform and isoamyl alcohol, saturated phenol are added thereto:Chloroform:The volume ratio of isoamyl alcohol is 25:24: 1, reverse mixing is overturned, 14000rpm/min centrifuges 10min;
(11) supernatant liquid is absorbed, absolute ethyl alcohol (being put in precooling in -20 DEG C of refrigerators in advance) precipitation of 2 times of volumes is added Filamentous or cotton-shaped DNA precipitations can occur in centrifuge tube at this time in DNA;
(12) it is precipitated with the careful Filamentous or cotton-shaped DNA that chooses of yellow pipette tips, is put in the EP pipes of a new 1.5mL, to 70% ethyl alcohol (- 20 DEG C of precoolings) 500uL is wherein added, washing DNA precipitations mildly overturn 30s, abandon 70% ethyl alcohol;
(13) step (12) is repeated;
(14) it will be put in room temperature environment containing the centrifuge tube that DNA is precipitated, dry 20~30min;
(15) the TE buffer solutions or distilled water dissolving DNA precipitation (not acutely oscillation or centrifugation) of 60~80uL is added, by it It is stored in -20 DEG C of refrigerators.
2, the amplification and sequencing of target fragment
(1) PCR amplification
The genomic DNA obtained using step 1 is template, using sense primer:Tcccaggtggaaagagcatc (sequence 2) And downstream primer:Cgcaggctgtgctttgtg (sequence 3) carries out PCR amplification, obtains pcr amplification product.
PCR amplification system:10 × LA PCR Buffer 2ul, 10mM dNTP Mix 1.6ul, upstream and downstream primer (10pmol/L) each 1ul, LA Taq archaeal dna polymerase (5U/ul), genomic DNA 1ul, ddH2O 13.2ul.
PCR response procedures:94 DEG C of pre-degenerations, 5min;94 DEG C of denaturation, 30s, 58 DEG C of annealing, 30s, 72 DEG C of extensions, 30s, 72 DEG C extend, 10min.
(2) recovery purifying of PCR product
Utilize agarose gel purification QIAquick Gel Extraction Kit (hundred Tyke Bioisystech Co., Ltd of Beijing), recycling step (1) The pcr amplification product of acquisition, concrete operation step is according to the incidental specification of the kit.
(3) connection reaction
The pcr amplification product that above-mentioned purifying is recycled is attached with pMD18-T carriers.Coupled reaction system is 5 μ L:It is pure Change PCR product 2ul, pMD18-T carrier 0.5ul, the Solution I 2.5ul of recycling, 4 DEG C of connections overnight, obtain connection production Object.
(4) it converts
Connection product is converted into bacillus coli DH 5 alpha competent cell.Concrete operation step:Out of -80 DEG C ultra low temperature freezers 1 DH5 α competent cell (100 μ L) is taken, is put in rapidly on ice, makes its thawing;Connection product (volume 5uL) is added and is experienced It in state cell, is gently blown and beaten repeatedly with pipettor, makes its mixing, be positioned on ice, stand 30min;It is positioned in 42 DEG C of water-baths, Thermal shock 90s, immediately after 2~3min of ice bath;The LB liquid medium (being free of ampicillin) of 600 μ L is added thereto;It puts It is placed in 37 DEG C of constant-temperature tables, with the rotating speed culture 1h of 170~200r/min, makes bacteria resuscitation.
(5) positive clone identification
Bacterium solutions of 50~100 μ L by recovery is drawn with pipettor, it is flat to be spread evenly across the agar containing ampicillin On plate, after bacterium solution is absorbed completely, it is put in 30min in 37 DEG C of constant incubators, bacterium solution is made to be absorbed completely, then by agar Flat-plate inverted is placed in constant incubator, 37 DEG C of overnight incubations.
According to the bacterium colony growing state on agar plate, carry out choosing bacterium.The LB cultures of 1mL liquid are added into 1.5mL EP pipes Base, while the ampicillin of 2 μ L is added into each EP pipes, then with the white colony on 10 μ L pipette tips picking agar plates (selected shape is complete, is in the bacterium colony of circular point shape) totally 20, is put in respectively in the 1.5mL EP pipes for filling 1mL fluid nutrient mediums, It is put in 37 DEG C of shaking tables, 3~4h of culture is expanded with the rotating speed of 220r/min, wait for occurring turbid phenomenon in EP pipes or white is Filamentous When precipitation, carried out using sense primer (tcccaggtgg aaagagcatc) and downstream primer (cgcaggctgtgctttgtg) Bacterium solution PCR identifications.
PCR reaction systems are as follows:10 × LA Buffer 1ul, dNTP Mix (2.5mM) 0.8ul, upstream and downstream primer (pmol/L) each 0.5ul, LA polymerase 0.1ul, bacterium solution 0.5ul, ddH2O 6.6ul, total system 10ul.
PCR after reaction, draw 1 μ L PCR products carry out 1.5% agarose gel electrophoresis detection, Ago-Gel at As instrument is taken pictures, positive colony is primarily determined.
(6) sequence verification
The bacterium solution for being initially identified as positive colony by PCR amplification is delivered Shanghai Invitrogen Co., Ltd to survey Sequence.
(7) acquisition of SNP site (sites C16T)
According to above-mentioned multiple sequencing results, it is compared using DNAman softwares, it is SNP site to obtain difference site, That is the 16th deoxyribonucleotide of h19 gene (sequence 1).
Base in the sites C16T of pig h19 gene (sequence 1) is the individual of C, which is homozygous individual, by this The genotype of individual is named as homozygous CC genotype, and the base in the sites C16T of pig h19 gene (sequence 1) is the individual of T, should Individual is homozygous individual, and the genotype of the individual is named as homozygous TT genotype, the positions C16T of pig h19 gene (sequence 1) The base of point is the individual of C and T, which is heterozygous individual, and the genotype of the individual is named as heterozygosis CT genotype.
Two, the correlation analysis in the sites C16T of pig h19 gene and pig 100kg weight eye muscle areas
To determine whether the pig sites h19 gene C16T and pig 100kg weight eye muscle area are related, with the 297 of Hebei pig farm Head Large White is experiment material, and the method in step 1 is used to determine the genotype of pig to be measured for TT genotype or CC genotype Or CT genotype, and pig 100kg weight eye muscle areas are determined according to the genotype of pig:The pig individual 100kg bodies of TT genotype Weight eye muscle area is more than the pig individual of CT genotype;The pig individual 100kg weight eye muscle areas of CT genotype are more than CC genotype Pig individual.
1, genotype
The genotype call results of 297 pigs to be measured show:The genotype of 118 pigs is CC genotype, the gene of 4 pigs Type is TT genotype, and the genotype of 175 pigs is TC genotype.It genotype frequency of the pig h19 gene in detecting swinery and waits The results are shown in Table 1 for position gene frequency:As can be seen from Table 1:CT heterozygous is significantly larger than that TT is homozygous, point of allele C Cloth is higher than the distribution of allele T.
The genotype frequency and gene frequency of table 1, pig h19 gene in detecting swinery
2, the correlation analysis of pig genotype and pig 100kg weight eye muscle areas
It is for statistical analysis to genotype and pig 100kg weight eye muscle areas using 20.0 softwares of SPSS, and do between sample Multiple range test.
The results are shown in Table 2:As can be seen from the table, the sites C16T have a significant impact pig 100kg weight eye muscle areas, The big 4.76cm of pig 100kg weight eye muscle area ratio CC genotype of TT genotype2, the pig 100kg weight eye muscle face of CT genotype Product is bigger 0.92cm than CC genotype2.So in actual pig breeding, selects TT genotype pigs to carry out breeding, there can be higher Lean meat percentage.
The single nucleotide polymorphism and eye muscle area correlation analysis of table 2, the 4th introne of pig h19 gene
Remarks:With different lowercase letter indication differences significantly (P in table<0.05), same letter indicates difference not significantly (P> 0.05), numerical value least squares means ± standard error.
In conclusion can determine that pig individual is TT genes by the nucleotide in the sites C16T of determining pig h19 gene Type or TC genotype or CC genotype, to assist identifying pig 100kg weight eye muscle areas to be measured:The pig of TT genotype Body 100kg weight eye muscle areas are more than the pig individual of CT genotype, and the pig individual 100kg weight eye muscle areas of CT genotype are more than The pig individual of CC genotype;
TT genotype is that the 16th nucleotide of pig h19 gene is T;
CC genotype is that the 16th nucleotide of pig h19 gene is C;
TC genotype is that the 16th nucleotide of pig h19 gene is C and T.

Claims (5)

1. a kind of method of identification or auxiliary identification pig 100kg weight eye muscle area and/or lean meat percentage is detection pig to be measured 16th deoxyribonucleotide of h19 gene is C or T or C and T, and the genotype with determination pig to be measured is TT genotype Or CC genotype or TC genotype determine the pig 100kg weight eye muscle area and/or thin according to the genotype of the pig The size of meat rate:The pig individual 100kg weight eye muscle area and/or lean meat percentage of TT genotype are more than the pig individual of CT genotype, The pig individual 100kg weight eye muscle area and/or lean meat percentage of CT genotype are more than the pig individual of CC genotype;
The CC genotype is the homozygote that h19 gene is C from the deoxyribonucleotide of 5 ' ends the 16th;
The CT genotype is h19 gene from the heterozygote that the deoxyribonucleotide of 5 ' ends the 16th is C and T;The TT bases Because type is the homozygote that h19 gene is T from the deoxyribonucleotide of 5 ' ends the 16th;
In the nucleotide sequence of the h19 gene such as sequence table shown in sequence 1.
2. according to the method described in claim 1, it is characterized in that:16th deoxidation of the h19 gene of the detection pig to be measured Ribonucleotide is that the method for T or C or T and C are following A) or B):
A) direct Sequencing;
B) with the base that can expand pig to be measured described in the primer pair amplifies of the 16th deoxyribonucleotide containing pig h19 gene Because of a group DNA, pcr amplification product is obtained, if the 16th base from 5 ' ends of h19 gene shown in sequence 1 is C, institute The genotype for stating pig is CC genotype, if the 16th base from 5 ' ends of h19 gene shown in sequence 1 is C and T, institute The genotype for stating pig is CT genotype, described if the 16th base from 5 ' ends of h19 gene shown in sequence 1 is T The genotype of pig is TT genotype;
The primer pair is single stranded DNA shown in sequence 3 in single strand dna and sequence table shown in sequence in sequence table 2 The primer pair of molecular composition.
3. application of the method as claimed in claim 1 or 2 in pig breeding.
4. method as claimed in claim 1 or 2 is in the boar that selection and breeding lean meat percentage is high and/or 100kg weight eye muscle areas are big Using.
5. a kind of method of selection and breeding lean meat percentage height and/or the big boar of 100kg weight eye muscle areas, including selection TT genotype Pig carries out breeding;
The TT genotype is the homozygote that the 16th deoxyribonucleotide of h19 gene is T;
In the nucleotide sequence of the h19 gene such as sequence table shown in sequence 1.
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