WO2023001211A1 - Puce génétique, combinaison de sondes moléculaires et kit pour l'analyse des caractéristiques de la laine de mouton, et utilisation - Google Patents
Puce génétique, combinaison de sondes moléculaires et kit pour l'analyse des caractéristiques de la laine de mouton, et utilisation Download PDFInfo
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- WO2023001211A1 WO2023001211A1 PCT/CN2022/106906 CN2022106906W WO2023001211A1 WO 2023001211 A1 WO2023001211 A1 WO 2023001211A1 CN 2022106906 W CN2022106906 W CN 2022106906W WO 2023001211 A1 WO2023001211 A1 WO 2023001211A1
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- sheep
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/124—Animal traits, i.e. production traits, including athletic performance or the like
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/156—Polymorphic or mutational markers
Definitions
- the invention relates to the field of biotechnology, specifically to the technical field of sheep detection, and more specifically to a gene chip for sheep wool traits, a molecular probe combination, a kit and its application.
- Sheep is one of the most important economic animals in the world, not only as food for human consumption, but also as a source of dairy products.
- its wool value also plays an important role in social development.
- SNP single nucleotide polymorphisms
- SNP-based SNP chip is a convenient and efficient tool for modern genetic breeding. Because it is easy to realize high-throughput and automatic detection of SNP, it can detect the change of each base pair on genomic DNA, including insertion, deletion, inversion, conversion, etc. , has become a very ideal SNP detection technology, and it is used more and more in the field of sheep breeding.
- the present invention provides a molecular probe combination, gene chip, kit and application for analyzing sheep wool.
- Point information can quickly and accurately realize sheep tail fat deposition evaluation, breed screening, breed identification, breed traceability, and sheep breeding, which is conducive to the protection and improvement of germplasm resources, with short time consumption, low cost and broad market benefits.
- the present invention provides the following technical solutions:
- 2A method for analyzing sheep wool traits comprising comparing the 2849 SNP site genotypes of the genomic DNA of the sheep to be tested with the 3072 SNP site genotypes of the control sheep genomic DNA; the 2849 SNP site genotypes 2849 SNP sites shown in Table 1.
- molecular probe combination for analyzing sheep wool traits, said molecular probe combination detects the SNP site combination shown in Table 1 in the sample to be tested, and the physical position information of the site combination in Table 1 is based on sheep v4 .0 Confirmed by genome sequence alignment.
- the present invention provides a combination of SNP sites for the analysis of sheep wool traits consisting of only 2849 SNP sites. Good performance, can quickly evaluate the wool traits of individual sheep from the genetic level to obtain more accurate breeding evaluation information, select the wool traits that are difficult to measure in the early stage, shorten the generation interval, speed up the breeding process, and save breeding costs.
- using the combination of SNP sites for wool traits provided by the present invention can also realize the identification and traceability of sheep breeds from the perspective of sheep wool performance, and provide technical support for the protection of germplasm resources and the improvement of germplasm resources.
- the probe combinations, gene chips, and kits formed based on the SNP loci for analyzing the traits of sheep wool provided by the present invention have small throughput, low cost, easier analysis, wide applicability, and broad market prospects.
- Figure 1 is the Manhattan map of the Chinese Merino sheep (fine-wool sheep) Vs Altay sheep (MFW versus ALS) group;
- Figure 2 is the Manhattan map of the Chinese Merino sheep (fine-wool sheep) Vs Tan sheep (MFW versus TAN) group;
- Figure 3 is the Manhattan diagram of the Chinese Merino sheep (superfine wool sheep) Vs Altay sheep (MSF versus ALS) group;
- Figure 4 is the Manhattan diagram of the Chinese Merino sheep (superfine wool sheep) Vs Tan sheep (MSF versus TAN) group;
- Figure 5 is the Manhattan diagram of the Shetland sheep Vs Altay sheep (SHE versus ALS) group
- Fig. 6 is a result diagram of the significance test performed on the judgment result of the group threshold analysis in the present application.
- sheep wool referred to in the present invention are a comprehensive reflection of multiple indicators, including shearing amount, net wool rate, hair length, and capillary degree.
- the wool shearing amount of this breed is high, the net wool rate is high, and the fineness is good, and the wool is long, it is judged that the wool performance of this breed is good.
- the above-mentioned index values can be adjusted, and then the variety threshold value of wool performance can be adjusted, which is not limited in the present invention.
- SNP in the present invention refers to single nucleotide polymorphism (Single Nucleotide Polymorphism), mainly refers to the DNA sequence polymorphism caused by the variation of a single nucleotide on the genome level, the single nucleotide Acid variations include those resulting from single base transitions, transversions, insertions, or deletions.
- the molecular markers referred to in the present invention are all heritable and detectable DNA sequences or proteins, including but not limited to molecular markers based on molecular hybridization, such as RFLP, MinisatelliteDNA; molecular markers based on PCR technology, such as RAPD, STS, SSR and SCAR; DNA markers based on restriction enzyme digestion and PCR technology; molecular markers based on DNA chip technology, such as SNP; analytical marker technology based on EST database development, etc.
- the molecular markers provided by the invention can be used for genome mapping, gene location research, map-based gene cloning, species relationship and system classification, and the like.
- the probe referred to in the present invention is a nucleic acid sequence (DNA or RNA) with a detection label and known sequence that is complementary to the target gene, such as Taqman-MGB probe.
- the kit referred to in the present invention is any kit routinely used in the art that contains reagents for detection or experimentation, so that operators can get rid of the burdensome reagent preparation and optimization process.
- it includes primers for amplifying the site information provided by the present invention, molecular markers or probes or gene chips for detecting the site information provided by the present invention, and enzymes and gene chips used for amplification. buffer, or also detect with a fluorescent label.
- Samples carrying genetic information in individual sheep in Step 1 are collected by conventional methods in the art, including but not limited to blood, cells, tissues, skin, hair, excrement, and the like. Extract the genetic information (such as DNA) in the sample for high-depth sequencing, use SAMtools and GATK to compare with the sheep 4.0 reference genome (obtained from NCBI) released in 2015, and combine the two methods to obtain a common result to form a SNP
- genetic information referred to in the present invention refers to the information that organisms pass from parent to offspring, or from cell to cell each time each cell divides, in order to replicate the same thing as itself.
- the extraction of genetic information (such as DNA) in the sample for high-depth sequencing can be done by biological companies, such as Huada Gene Company, Illumina Company, etc.
- the high-depth sequencing method adopts conventional methods in the field or methods of biological companies.
- the average sequencing depth is ⁇ 25.7 ⁇ , and the resequencing analysis process is used for high-depth sequencing.
- the inventor will Chinese Merino sheep ( Fine-wool sheep) Vs Altay sheep (MFW versus ALS) as a group, Chinese Merino sheep (fine-wool sheep) Vs Tan sheep (MFW versus TAN) as a group, Chinese Merino sheep (ultra-fine-wool sheep) Vs Altay sheep (MSF versus ALS) as a group, Chinese Merino sheep (superfine wool) Vs Tan sheep (MSF versus TAN) as a group, Shetland sheep Vs Altay sheep (SHE versus ALS) A group.
- Use XP-CLR to scan the multi-locus allele frequency difference between each sheep group, and scan out the functional areas related to wool use (the scanned Manhattan map is shown in Figure 1-5, and use ⁇ ratio (ie ⁇ value) to mine the functional areas related to wool use in the sheep breeds in each group, and then take the intersection of the two results to screen out the functional areas related to wool use.
- probes such as tanqman probes also belongs to the protection scope of the present invention.
- the SNP gene chip of the present application adopts conventional method to immobilize the primers or probes obtained in Example 2 on polymer substrates, such as nylon membranes, nitrocellulose membranes, plastics, silica gel wafers, micro-magnetic beads, etc., or to immobilize the probes
- polymer substrates such as nylon membranes, nitrocellulose membranes, plastics, silica gel wafers, micro-magnetic beads, etc.
- the primers or probes obtained in Example 2 are directly synthesized on a glass plate, or on a hard surface such as glass, and the use method of the SNP gene chip of the present application is the same as the conventional method.
- the SNP detection kit for hair includes primers or probes or gene chips obtained based on the combination of SNP sites obtained in Example 1.
- the corresponding detection reagents are also included, for example, when the Taqman probe is obtained based on the combination of SNP sites obtained in Example 1, it also includes buffers, ligases, AceQUniversal U +Probe Master Mix V2, TaqMan Probe, etc.
- the purchased sheep are detected for wool, and the shearing amount, net wool rate, hair length, and capillary degree of the sheep are observed at the same time.
- the first-level standard (GB/T 2426-1981) of the introduction of Xinjiang fine-wool sheep breed identification is adopted to observe the sheep, specifically:
- the peripheral blood of sheep was collected by conventional methods, and the whole genome DNA in it was collected;
- Adopt conventional methods to design gene chips according to the site information in the SNP site combination provided by the present invention detect the whole genome DNA of the sheep to be tested, and obtain the typing result of each site in each lamb (that is, each site Whether it is the result of homozygosity, heterozygosity, mutant homozygosity or base deletion), the detection result is obtained by calculating the frequency value of the typing result of each site and comparing it with the population threshold.
- the observation results show that the excellent sheep are all sheep that meet the first-class standard in the chip test results, and the wool performance of poor sheep is inferior to the sheep that meet the first-class standard according to the chip test results.
- the population threshold in the present application is obtained by analyzing the population with good wool traits and the population with poor wool traits, and the method is the same as above.
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Abstract
La présente invention concerne une puce génétique, une combinaison de sondes moléculaires et un kit pour l'analyse des caractéristiques de la laine de mouton, et une utilisation de ceux-ci, appartenant au domaine technique de la biologie. La combinaison de sondes moléculaires, la puce génétique et le kit sont préparés à partir d'une combinaison de 2849 sites SNP, tels que découverts par la recherche, capables d'analyser les caractéristiques de la laine de mouton, et sont utilisés pour analyser les caractéristiques de la laine de mouton. La détection des caractéristiques, au niveau génétique, difficilement mesurables au stade précoce peut non seulement accélérer le processus de sélection et économiser les coûts de sélection, mais peut également être utilisée pour le dépistage et l'identification des variétés de moutons, la reconstruction du pedigree des moutons, la protection des ressources en germoplasme et l'amélioration des ressources en germoplasme.
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| CN202110834457.2A CN113278716B (zh) | 2021-07-23 | 2021-07-23 | 分析绵羊毛用性状的基因芯片、分子探针组合、试剂盒及应用 |
| CN202110834457.2 | 2021-07-23 |
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| Publication Number | Publication Date |
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| WO2023001211A1 true WO2023001211A1 (fr) | 2023-01-26 |
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| PCT/CN2022/106906 Ceased WO2023001211A1 (fr) | 2021-07-23 | 2022-07-20 | Puce génétique, combinaison de sondes moléculaires et kit pour l'analyse des caractéristiques de la laine de mouton, et utilisation |
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| CN (1) | CN113278716B (fr) |
| WO (1) | WO2023001211A1 (fr) |
Cited By (8)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN116287298A (zh) * | 2023-02-20 | 2023-06-23 | 民勤同泽农业有限公司 | 一种与湖羊免疫性状相关的分子标记、其检测方法及应用 |
| CN117025787A (zh) * | 2023-08-18 | 2023-11-10 | 中国农业科学院兰州畜牧与兽药研究所 | 一种与细毛羊净毛率相关的snp位点及其应用 |
| CN117385061A (zh) * | 2023-12-13 | 2024-01-12 | 中国农业科学院北京畜牧兽医研究所 | 一种与湖羊生长性状相关的分子标记及其应用 |
| CN117737258A (zh) * | 2024-01-15 | 2024-03-22 | 内蒙古农业大学 | 一种与山羊毛长性状相关的snp分子标记及其应用 |
| CN118638932A (zh) * | 2024-06-26 | 2024-09-13 | 宁夏大学 | 与滩羊体重或羊毛性状相关的分子标记及其应用 |
| CN118995952A (zh) * | 2024-09-14 | 2024-11-22 | 南京农业大学 | 一种山羊snp分子标记组合及其制备的全基因组液相芯片和应用 |
| CN119410780A (zh) * | 2024-09-12 | 2025-02-11 | 新疆畜牧科学院畜牧研究所 | 一种用于中国美利奴羊快速鉴定的snp位点组合 |
| CN120796513A (zh) * | 2025-09-11 | 2025-10-17 | 内蒙古农业大学 | 与绒山羊毛长性状相关的分子标记的检测试剂的应用 |
Families Citing this family (4)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN113278716B (zh) * | 2021-07-23 | 2021-11-09 | 中国农业大学 | 分析绵羊毛用性状的基因芯片、分子探针组合、试剂盒及应用 |
| CN114790483B (zh) * | 2022-05-30 | 2023-06-23 | 中国农业科学院兰州畜牧与兽药研究所 | 一种与细毛羊净毛率相关的snp位点组合及其应用 |
| CN117025786B (zh) * | 2023-08-18 | 2024-09-24 | 中国农业科学院兰州畜牧与兽药研究所 | 一种基于靶向捕获测序的细毛羊50k snp液相芯片及其应用 |
| CN117089633B (zh) * | 2023-10-20 | 2023-12-29 | 中国农业大学 | 分析山羊绒毛有无的分子标记组合及应用 |
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Cited By (9)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN116287298A (zh) * | 2023-02-20 | 2023-06-23 | 民勤同泽农业有限公司 | 一种与湖羊免疫性状相关的分子标记、其检测方法及应用 |
| CN117025787A (zh) * | 2023-08-18 | 2023-11-10 | 中国农业科学院兰州畜牧与兽药研究所 | 一种与细毛羊净毛率相关的snp位点及其应用 |
| CN117385061A (zh) * | 2023-12-13 | 2024-01-12 | 中国农业科学院北京畜牧兽医研究所 | 一种与湖羊生长性状相关的分子标记及其应用 |
| CN117385061B (zh) * | 2023-12-13 | 2024-03-15 | 中国农业科学院北京畜牧兽医研究所 | 一种与湖羊生长性状相关的分子标记及其应用 |
| CN117737258A (zh) * | 2024-01-15 | 2024-03-22 | 内蒙古农业大学 | 一种与山羊毛长性状相关的snp分子标记及其应用 |
| CN118638932A (zh) * | 2024-06-26 | 2024-09-13 | 宁夏大学 | 与滩羊体重或羊毛性状相关的分子标记及其应用 |
| CN119410780A (zh) * | 2024-09-12 | 2025-02-11 | 新疆畜牧科学院畜牧研究所 | 一种用于中国美利奴羊快速鉴定的snp位点组合 |
| CN118995952A (zh) * | 2024-09-14 | 2024-11-22 | 南京农业大学 | 一种山羊snp分子标记组合及其制备的全基因组液相芯片和应用 |
| CN120796513A (zh) * | 2025-09-11 | 2025-10-17 | 内蒙古农业大学 | 与绒山羊毛长性状相关的分子标记的检测试剂的应用 |
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| Publication number | Publication date |
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| CN113278716B (zh) | 2021-11-09 |
| CN113278716A (zh) | 2021-08-20 |
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