KR20140085170A - Kits and methods for detecting intramuscular fat tissue of Hanwoo using TNMD and DUSP27 - Google Patents

Abstract

The present invention relates to a kit for detecting intramuscular fat tissue of Korean native cattle using TNMD and DUSP27 which are specific expression genes for intramuscular fat tissue of the Korean native cattle and a detection method using the same and, more specifically, to a kit which can detect intramuscular fat tissue of the Korean native cattle by investigating expression amount of TNMD and DUSP27 genes in a subject, and to a detection method using the same. According to the present invention, commercialization of the kit for detecting intramuscular fat tissue of the Korean native cattle can be possible; production of high quality beef can be possible by inducing specific fat accumulation within longissimus muscle of the Korean native cattle; development of body composition control technique can be possible through fat content control of the Korean native cattle; and body fat control information through the same can be applied to other domestic animal species.

Description

TECHNICAL FIELD The present invention relates to a kits for detecting intramuscular fat tissue of Korean beef cattle using TNMD and DUSP27 gene expressing intramuscular fat tissue of a Korean beef cattle and a method of detecting the intramuscular fat tissue using Hanwoo using TNMD and DUSP27,

The present invention relates to a kit for detecting intramuscular fat tissue of Korean beef cattle using the TNMD and DUSP27 gene expressing intramuscular fat tissue of Korean beef cattle and a method of detecting the same using TNMD and DUSP27 gene, And a detection method using the kit.

Studies have been actively carried out to induce the production of high quality Hanwoo meat by reducing the content of abdominal, subcutaneous, and non-digestible fats in Hanwoo and increasing the content of edible fats such as intramuscular fat in sirloin (Hi Maabing). As a part of this, there is a demand for securing source materials for controlling the accumulation of fat in fat tissues in Korean beef cattle through the digestion of genes expressing differentially expressed adipose tissues and related technologies for detecting them.

Many studies have been carried out to utilize DNA information of individuals as an auxiliary means for accurately selecting livestock with genetically superior traits.

The improvement of Korean beef cattle was selected by combining the current surveillance and the later surveys. In this test, the growth ability of the individual was assessed, and the candidate sows were selected. The growth and conductance of the offspring, , And a two - way test system is being conducted to select certified sushi from candidates. However, in the present test, the trait to evaluate the hereditary ability of an individual is mainly assessed only for growth, but the meat quality data can not be measured. Therefore, it is difficult to accurately evaluate the meat quality of the subject because it is evaluated based on the breeding value of the parents. Therefore, applying genetic markers which can estimate the genetic ability of meat quality will improve the speed and accuracy of Hanwoo supplementation if selected at the time of the test. Since the recent Korea-US Free Trade Agreement (FTA) has been concluded, it is very important to increase the meat weight and quality of Korean beef meat following the opening of cheap US beef imports. Especially, to diversify the quality of imported beef and improve its competitiveness, diverse measures should be sought including the use of advanced science and technology for the production of high quality meat. The carcass price of Hanwoo meat is evaluated by the grade of meat and meat quality. The meat quality is judged on the basis of the carcass, the thickness of the backfat, and the cross sectional area of the carcass, and meat quality is judged by the degree of muscle fat, meat color, local color, texture and maturity Livestock Classification Office, 2004). The degree of intramuscular fat is closely related to the year, juiciness and flavor, which are the criteria of sensory characteristics of beef, so it is very important to increase intramuscular fat content for high quality meat production. Genetic information on the economic performance of Hanwoo at the DNA level provides important information to early breeders as well as producers to select the best Hanwoo. Such DNA information can be used to improve the accuracy of selection by applying marker-assisted selection (MAS) method for meat and meat quality, saving the less expense and time (generation interval) .

A prior art related to the present invention is Korean Patent Publication No. 2012-0011728.

Under the above-mentioned technical background, the present inventors have made intensive efforts to complete the present invention.

It is an object of the present invention to provide a kit for the detection of intramuscular fat tissue of Korean beef cattle using TNMD and DUSP27 gene expressing intramuscular fat tissue of Korean cattle.

It is an object of the present invention to provide a method for detecting intramuscular fat tissue of Korean beef cattle using TNMD and DUSP27 gene expressing intramuscular fat tissue of Korean cattle.

According to one aspect of the present invention, there can be provided a kits for detecting intramuscular fat tissue of a Hanwoo including a primer set having the nucleotide sequences of SEQ ID NOS: 1-2 and a primer set having the nucleotide sequences of SEQ ID NOS: 3-4.

According to another aspect of the present invention,

(a) extracting and preparing tissues from Hanwoo;

(b) amplifying the amount of the transcript of at least one of the DUSP27 and TNMD genes present in the tissue extracted from the Hanwoo using the kit of claim 1;

(c) quantifying the amplified transcript; And

(d) comparing the quantified transcript with an amount of the control;

A method for detecting intramuscular fat tissue of a Hanwoo can be provided.

According to one embodiment, the step of amplifying the amount of the transcript may be carried out by real-time PCR.

According to one embodiment, the control may be an ACTB gene or a GAPDH gene.

According to the present invention, it is possible to commercialize a kit for detecting an intramuscular fat-specific gene, to produce high-quality meat through induction of specific fat accumulation in the rosacea of a Korean beef cattle, and to develop a technique of controlling body composition through controlling the fat content of Korean beef cattle, The information on body fat regulation through this can be applied to the other species.

Figure 1 shows RT-PCR results of TNMD and DUSP27 amplified using the primers of SEQ ID NOS: 1 to 4 of the present invention.
Figure 2 shows the gradient PCR results for the TNMD gene.
FIG. 3 shows the results of quantitative expression analysis of the TNMD and DUSP27 genes by tissue.

Hereinafter, the present invention will be described in more detail.

As used herein, the term " primer " refers to a short nucleic acid sequence that can form a base pair with a complementary template and serves as a starting point for template strand copying.

The expression amount of the gene described in the present invention means the amount of transcription of the genomic DNA of the gene into mRNA.

In the present invention, quantitative expression patterns of TNMD and DUSP27 in tissues are analyzed, and the results are verified and the expression levels of these genes are used for discrimination of adipose tissue.

For this purpose, genes that show site specific differences in the subcutaneous, abdominal, and intramuscular fat tissues of Korean cattle were identified (FDR <0.01) using RNA sequencing method.

The RNA sequencing is a chemical method for determining the base sequence of RNA. For the sequencing of RNAs, such as tRNA and 5S RNA, which are low in molecular weight and contain a large number of modified nucleotides in the molecule, it is best to use the two-dimensional thin layer chromatography combined formamide degradation method. In the case of polymer RNA such as mRNA or rRNA, the Donis-Keller method in which the nucleotide sequence of the terminal region is first carried out using various ribonucleic acid hydrolases, or the method of chemically decomposing RNA, Peattie method). Next, reverse transcription PCR was performed using an oligonucleotide primer based on the sequence, and the target RNA was substituted with DNA, and the order was determined using the Maxam-Gilbert method or the Sanger method .

Among the genes identified through RNA sequencing, genes with a difference in expression level of logFC? 2 or more were selected. The above-selected genes have not been reported to have a site-specific difference in expression between adipose tissues in humans or other animals.

In order to easily detect the selected genes, a primer was designed for each gene. RT-PCR was performed on the selected genes using the designed primers, and it was confirmed whether expression products expressed for each gene showed specific expression patterns in the intramuscular fat. The results are shown in the following table and drawings.

In the present invention, a set of primers for detecting intramuscular fat-specific genes using each of the designed primer characteristics and a detection method using the same are presented.

According to an aspect of the present invention, there can be provided a kits for detecting Korean adductor muscle fat tissue comprising a primer set having the nucleotide sequences of SEQ ID NOS: 1-2 and a primer set having the nucleotide sequences of SEQ ID NOS: 3-4.

The kit may further comprise reagents and compositions that are capable of amplifying the nucleic acid of the subject, as is well known in the art. In general, since the nucleic acid of a subject is generally amplified by PCR, it may include various buffers and salts used for PCR, other nucleosides and polymerases, and the like.

According to one embodiment, the kit comprises a primer set having primers of SEQ ID NOS: 1 to 2, or 3 to 4, or 1 to 4; Taq DNA polymerase; dNTP; MgCl ₂ ; 10 x reaction buffer; ddH ₂ O; And DMSO, and may further include a transcript of the target Hanwoo which is a target sample.

In addition, the detection kit may further include a conventional PCR instrument having a temperature control function for further performing PCR.

The expression level of the gene of the present invention can be determined through various methods and may be the use of an oligonucleotide complementary to the mRNA. In the present invention, the expression amount is detected by performing real-time PCR using a DNA oligomer, that is, a primer. However, a method using a fragment of a primer such as a Northern blot, a microarray, or a program using a large- It may be used.

When the intramuscular fat tissue of the Korean native cattle is to be detected by a method other than PCR using the primer contained in the kit, other reagents may be included. When a hybrid assay using complementarity between nucleic acid materials is desired to be used, a group of reagents well known in the art can be included.

In addition, the primer is not limited to the nucleotide nucleic acid, and PNA, LNA and the like may also be used as long as the primer contains sequence information that can be used to determine the expression level of the disclosed gene.

According to another aspect of the present invention, there is provided a method for producing a protein, the method comprising: (a) extracting and preparing tissue from a Hanwoo; (b) amplifying the amount of the transcript of at least one of the DUSP27 and TNMD genes present in the tissue extracted from the Hanwoo using the kit of claim 1; (c) quantifying the amplified transcript; And (d) an analysis step of comparing the quantified transcript with the expression level of the control.

At this time, in the step (a), it is preferable to extract the tissue of the cattle in a single tissue, not in a mixed state of various kinds of tissues. In the case of the present invention, determination of intra-muscular adipose tissue, subcutaneous adipose tissue, and abdominal adipose tissue should be made, and therefore, mixing of these tissues may adversely affect the judgment result.

The 'preparation' in the step (a) means that the structure of the Korean beef cattle obtained in a natural state is put into a kit for easy analysis. This may include biochemical processing such as disruption of Hanwoo tissues, hemolysis of cells, separation of nucleic acids, preservation of RNA, removal of genomic DNA, and removal of cell organelles and biomaterials not required for analysis. There is no particular limitation thereon, and it may be a protocol that is commonly used in the art, and is a proven protocol capable of extracting tissues and performing RT RCR.

According to one embodiment, the step of amplifying the amount of the transcript may be carried out by real-time PCR.

The DNA amplified through amplifying the amount of the transcript may be used for discrimination of intramuscular fat tissue of Hanwoo. The DNA may be analyzed by using the size and the degree of fluorescence of the DNA. Preferably, the method may be a method using PAGE (polyacrylamide gel electrophoresis) or a method using the automatic base sequence analyzer Can be performed. The ABI PRISM 3130XL Genetic Analyzer (Applied Biosystems, Foster City, Calif.) Can be used to perform the above-described method using the ABI PRISM 3130XL Genetic Analyzer. The fluorescence intensity of the first base present in the region of fluorescence and the size of the DNA in the maximum absorbance range of the fluorescence can be analyzed.

According to one embodiment, the control may be an ACTB gene or a GAPDH gene.

In this case, a material such as a primer for detecting the expression level of the ACTB gene or the GAPDH gene may be included in the kit.

In the present invention, the expression levels of TNMD and DUSP27 genes used as markers are significantly higher in intramuscular adipose tissues than those of the present invention. The expression level of these control can be used to correct or compare the expression level of the gene to be detected. For example, when the expression level of the gene to be detected is higher than the expression level of the control, the expression level of the gene to be detected may be determined to be 'overexpression'.

In addition, when the amount of expression of the gene to be detected appears different for each tissue, the different expression amounts thereof can be normalized to the expression amount of the control, thereby reducing the inherent errors in experiments. As shown in the examples of the present invention, the expression levels of TNMD and DUSP27 genes are significantly higher in subcutaneous adipose tissue and abdominal adipose tissue than in subcutaneous adipose tissue and abdominal adipose tissue. Therefore, Or not.

Furthermore, by examining the ratio of these expression amounts, it is possible to accumulate the ratio of expression amount of Hanwoo individuals having better traits as data. When this data is utilized, it is possible to easily judge the Hanwoo which is excellent in muscle fat content in the field.

For example, Hanwoo individuals having excellent intramuscular fat content can be investigated to quantify the amount of expression of TNMD gene and the amount of DUSP23 expression, which can be used as a database to calculate an average expression amount of individuals having excellent intramuscular fat tissue . The intramuscular fat excellence of any Hanwoo can be determined by examining the expression level of the gene of the subject in need of judgment of adipose tissue and comparing it with the database calculated from these excellent individuals.

Hereinafter, examples of the present invention will be described. The following examples are for illustrative purposes only and are not intended to limit the scope of the present invention.

Experimental Method

After isolating the intramuscular, subcutaneous, and abdominal fat from 9 - month old Korean noodles, RNA was extracted from each adipose tissue. The extracted fat RNAs were converted into cDNAs, and gene expression profile of each adipose tissue was generated by RNA sequencing method using Illumina HiSeq2000. The expression levels of the genes expressed in the tissues can be measured from the nucleotide sequences of the generated genes and the expression amounts of the tissues are compared with each other using EdgeR, Respectively.

In order to confirm the expression of the gene, a primer for each gene was designed and the amplification conditions of the corresponding DNA in the PCR process through the prepared primers were determined through temperature-dependent tests. Finally, conditions for real-time PCR progression were confirmed by gradient PCR and optimal conditions were determined based on this

Real-time PCR using the designed primers revealed differences in the expression pattern of the corresponding genes.

Experiment result

The decrease in the expression of site-specific expression genes in the adipose tissue of Hanwoo is shown in Table 1 below.

SEQ ID NO: A specific tissue gene Expression level Primer direction
Base sequence
One Intramuscular fat
DUSP27 Up Forward ggtcaaggaagatgaggatgagg 2 Reverse cagggaggagaaggtgtctgttt 3 Intramuscular fat TNMD Up Forward ctcttattgtcctgttttggggg 4 Reverse tcttcttcttctctccattgctgt

RT-PCR results of Realtime PCR conditions for quantitative expression analysis of the genes are shown in FIG.

Figure 1 shows the test results for the primers of the gene. TNMD and DUSP27 primers were identified by RT-PCR, and M is a DNA marker. Asterik (*, **) means size of 200bp, 100bp respectively. The PCR conditions were as follows. 95 ° C for 5 minutes (1 cycle); 95 ° C for 30 seconds, 58 ° C for 30 seconds, 72 ° C for 30 seconds (40 cycles); 72 ° C for 10 minutes (1 cycle).

RT-PCR was performed based on the Tm value of each primer identified through a Tm calculator. As a result of electrophoresis, the above results were confirmed. The primers of each gene showed that TNMD, CCL2 and CD136 were inadequate to perform real-time PCR under the corresponding conditions. Gradient PCR was performed to find the optimal conditions for the gene and optimal conditions were established.

1 shows an electrophoresis photograph of the PCR product of the DUSP27 gene, which is the product of SEQ ID NOs: 1 and 2, and an electrophoresis photograph of the PCR product of the TNMD gene according to SEQ ID NOS: 3 and 4, respectively.

Figure 2 shows that the primer against the TNMD gene showed the highest PCR efficiency at an annealing temperature of 56 [deg.] C through a gradient PCR result.

The size of the real-time PCR product for the DUSP27 gene according to SEQ ID NOS: 1 and 2 is 133 bp, and the size of the TNMD gene product according to SEQ ID NOS: 3 and 4 is 105 bp. When sequencing or RFRP is used, it can be more accurately confirmed whether or not it is an amplified product from the gene.

Tables 2 and 3 below are the results of quantitative expression analysis of the TNMD and DUSP27 genes by tissue. This was confirmed by real-time PCR. ACTB and GAPDH were used as reference genes. That is, the expression level of ACTB and the expression level of GAPDH are shown as 1, and the expression level of each gene is calculated.

Subcutaneous adipose tissue, intramuscular adipose tissue and abdominal adipose tissue were extracted from three cows, three cows, three cows, and three cows, respectively, in order to accurately calculate the difference in the expression amounts of the respective genes. Using the primers described above, PCR was performed.

In Table 2 below, 'correction' refers to statistical normalize processing.

TNMD DUSP27 When calibrating with ACTB When calibrating with GAPDH  When calibrating with ACTB When calibrating with GAPDH Abdominal fat 5.8E-05 0.00076 0.00068 0.01228 Subcutaneous fat 6.1E-05 0.00169 0.00021 0.00195 Intramuscular fat 0.00719 0.15542 0.00068 0.00784

Referring to Table 2, it can be seen that the expression levels of TNMD and DUSP27 genes were higher in the intramuscular fat than the other adipose tissues in the two cases where the expression levels of the TNMD and DUSP27 genes were corrected by the reference genes ACTB and DUSP27. In the case of DUSP27, the measurement value in one individual is extremely high, so that the value of the intramuscular fat is not the highest in the mean value.

TNMD DUSP27 When calibrating with ACTB When calibrating with GAPDH When calibrating with ACTB When calibrating with GAPDH  Intramuscular / abdominal fat 165.605 251.814 27.07 29.90 Intramuscular / subcutaneous fat 429.139 723.695 34.31 137.93

Referring to Table 3, it can be seen that the result of the correction shown in Table 2 is corrected by the reference gene in consideration of the error. The expression level of the TNMD gene in the intramuscular adipose tissue is known to be 165% ~ 723% as compared to the abdominal adipose tissue and subcutaneous adipose tissue.

Expression of TNMD gene was 166 ~ 429 times and 251 ~ 723 times higher in intramuscular fat than in abdominal fat and subcutaneous fat, 27 ~ 34 times, 29 ~ 137 times higher in DUSP27 . Thus, it can be confirmed that the real-time PCR analysis method using the primer according to the present invention can be applied to analysis of establishment of muscle-specific marker.

3 shows the graph of FIG. 3. In the graph of FIG. 3, the vertical axis indicates the relative expression amount in the intramuscular fat when the abdomen and subcutaneous fat are used as a standard.

The present invention provides kits and detection methods for intramuscular fat tissue detection of Korean beef cattle using TNMD and DUSP27 gene expressing intramuscular fat tissue of Korean cattle. According to the present invention, it is possible to commercialize a kit for detecting an intramuscular fat-specific gene, to produce high-quality meat through induction of specific fat accumulation in the rosacea of a Korean beef cattle, and to develop a technique of controlling body composition through controlling the fat content of Korean beef cattle, The information on body fat regulation through this can be applied to the other species.

While the present invention has been particularly shown and described with reference to specific embodiments thereof, those skilled in the art will appreciate that such specific embodiments are merely preferred embodiments and that the scope of the present invention is not limited thereby. something to do. It is therefore intended that the scope of the invention be defined by the claims appended hereto and their equivalents.

                         SEQUENCE LISTING <110> RURAL DEVELOPMENT ADMINISTRATION   <120> Kits and methods for detecting intramuscular fat tissue of Hanwoo         using TNMD and DUSP27 <130> NPF22805 <160> 4 <170> PatentIn version 3.2 <210> 1 <211> 23 <212> DNA <213> Bos taurus coreanae <400> 1 ggtcaaggaa gatgaggatg agg 23 <210> 2 <211> 23 <212> DNA <213> Bos taurus coreanae <400> 2 cagggaggag aaggtgtctg ttt 23 <210> 3 <211> 23 <212> DNA <213> Bos taurus coreanae <400> 3 ctcttattgt cctgttttgg ggg 23 <210> 4 <211> 24 <212> DNA <213> Bos taurus coreanae <400> 4 tcttcttctt ctctccattg ctgt 24

Claims (4)

A kit for detecting an intramuscular fat tissue of a Hanwoo comprising a primer set having a nucleotide sequence of SEQ ID NO: 1 to 2 and a primer set having a nucleotide sequence of SEQ ID NO: 3 to 4.
(a) extracting and preparing tissues from Hanwoo;
(b) amplifying the amount of the transcript of at least one of the DUSP27 and TNMD genes present in the tissue extracted from the Hanwoo using the kit of claim 1;
(c) quantifying the amplified transcript; And
(d) comparing the quantified transcript with an amount of the control;
Wherein the method comprises the steps of:
3. The method according to claim 2, wherein the step of amplifying the amount of the transcription product is performed by real-time PCR. 3. The method according to claim 2, wherein the control is an ACTB gene or a GAPDH gene.

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