SNP (Single Nucleotide Polymorphism) molecular marker related to sugarcane nutrient elements and application of SNP molecular marker

Abstract

According to the research, 14 nutrient elements such as total sugar, nitrogen, phosphorus, potassium, sulfur, magnesium, calcium, silicon, iron, manganese, zinc, copper, molybdenum and germanium in sugarcane are subjected to genetic locus mining by utilizing a GWAS method. An identification result shows that different nutrient elements correspond to different significant SNP numbers, for example, the significant SNP numbers of magnesium, calcium and manganese are 25, 20 and 402 respectively. In order to screen out reliable SNP loci, screening is carried out by adopting a stricter threshold value, and 59 SNP loci are screened out according to the result. In order to further identify more stable and reliable SNP loci, variance analysis is carried out on material phenotypic values of different genotypes in each SNP locus to identify SNP loci with significant difference between phenotypic values of different genotypes; according to the result, seven SNP loci related to elements such as magnesium, manganese and molybdenum and 14-BLUP and 8-BLUP and seven excellent genotypes are screened, and the seven SNP loci more tend to absorb and accumulate corresponding nutrient elements.

Description

Technical Field

[0001] The present invention relates to the field of agriculture, and in particular to a SNP molecular marker related to sugarcane nutrient elements and an application thereof. Background Art

[0002] Sugarcane needs to absorb and utilize a variety of nutrients during its growth, including nitrogen, phosphorus, potassium, magnesium, calcium, iron, manganese, zinc, copper, molybdenum, etc. These elements play a vital role in the growth, development and yield formation of sugarcane. For example, nitrogen is the main element that constitutes sugarcane leaves and stems, and has an important impact on the growth and yield of sugarcane; phosphorus plays an important role in the root development and sugar accumulation of sugarcane; potassium helps to improve the stress resistance and quality of sugarcane.

[0003] As the third generation of molecular marker technology, SNP molecular markers have the advantages of large quantity, wide distribution, and high genetic stability, and have been widely used in crop genetic improvement. By identifying SNP sites that are closely related to important crop traits and using these sites for molecular marker-assisted selection (MAS), the efficiency and accuracy of crop genetic improvement can be significantly improved.

[0004] In order to solve the above problems, the applicant proposed a SNP molecular marker related to sugarcane nutrient elements and its application. Summary of the invention

[0005] The object of the present invention is to provide a SNP molecular marker related to sugarcane nutrient elements and application thereof, so as to solve the problems in the prior art.

[0006] To achieve the above-mentioned object, the present invention provides the following technical scheme: a SNP molecular marker related to sugarcane nutrient elements, including but not limited to the following SNP sites: 10_33126337, 10_41649155, 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540, wherein the SNP sites are identified in breeding values ​​based on a single element or a combination of multiple element contents, so they are potentially correlated with the absorption and utilization of nutrient elements such as total sugar, nitrogen, phosphorus, potassium, sulfur, magnesium, calcium, silicon, iron, manganese, zinc, copper, molybdenum, germanium and the like in sugarcane.

[0007] Optionally, the 10_33126337 locus has a significant correlation with the absorption and utilization of multiple nutrients in sugarcane, especially magnesium and calcium, and at this locus, the TT genotype material has the highest average phenotypic effect value in magnesium, calcium, and 8-BLUP and 14-BLUP breeding values, so TT is suggested to be an excellent genotype.

[0008] Optionally, the 10_41649155 locus has a significant correlation with the absorption and utilization of molybdenum in sugarcane, and at this locus, the CC genotype material has the highest average phenotypic effect value and a better tendency to utilize molybdenum, so CC is suggested to be an excellent genotype.

[0009] Optionally, the 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540 loci are significantly correlated with the absorption and utilization of manganese in sugarcane, and among these loci, the average phenotypic effect values ​​of the AA, AG, AG, CT, and TT genotype materials, respectively, are the highest, and they all have a good tendency to utilize manganese, so these genotypes are suggested to be excellent genotypes.

[0010] A method for breeding sugarcane nutrient-efficient varieties using the SNP molecular markers as claimed in claim 1, comprising the following steps: extracting genomic DNA of the sugarcane variety to be bred, detecting the genotype of the SNP site, and selecting a sugarcane variety with an excellent genotype for breeding based on the correlation between the genotype and the absorption and utilization of nutrient elements.

[0011] Optionally, the method also includes selecting sugarcane varieties with corresponding excellent genotypes for breeding according to the requirements of the sugarcane varieties to be bred for different nutrients, so as to improve the absorption and utilization efficiency of sugarcane for specific nutrients.

[0012] A method for identifying sugarcane varieties using the SNP molecular marker as claimed in claim 1, comprising the following steps: extracting genomic DNA of the sugarcane variety to be identified, detecting the genotype of the SNP site, and comparing the detected genotype with the genotype of known sugarcane varieties, thereby determining the identity of the sugarcane variety to be identified.

[0013] Optionally, the method further includes calculating a similarity coefficient between the sugarcane variety to be identified and known sugarcane varieties based on the comparison results, and when the similarity coefficient reaches a preset threshold, determining that the sugarcane variety to be identified and the known sugarcane variety are the same variety or similar varieties.

[0014] Beneficial effects: Improve the utilization efficiency of nutrients:

[0015] The SNP sites screened by the present invention, such as 10_33126337, are closely related to the absorption and utilization of magnesium and calcium. In sugarcane materials containing the TT genotype, the average phenotypic effect values ​​of magnesium and calcium are significantly higher than those of other genotypes, indicating that the TT genotype helps sugarcane absorb and utilize these two macronutrients more efficiently.

[0016] Similarly, for trace elements such as manganese and molybdenum, the present invention also identified SNP sites with positive effects, such as 8_29369331, 10_14919731, 25_75046751, 27_10049098, 27_65878540 and 10_41649155. The excellent genotypes (AA, AG, CT, TT, CC) corresponding to these sites can significantly improve the absorption and utilization efficiency of manganese and molybdenum in sugarcane.

[0017] Optimizing breeding strategies:

[0018] By utilizing the SNP sites and their excellent genotypes screened by the present invention, genotype selection can be performed in the sugarcane breeding process, thereby cultivating new sugarcane varieties with efficient nutrient utilization. This can not only improve the yield and quality of sugarcane, but also reduce the use of chemical fertilizers and reduce production costs, which is of great significance to the sustainable development of the sugarcane industry.

[0019] In addition, these SNP sites can also be used as the basis for molecular marker-assisted selection, allowing precise breeding in the early generations of sugarcane, shortening the breeding cycle and improving breeding efficiency.

[0020] Promoting green development of the sugarcane industry:

[0021] The implementation of the present invention is helpful to promote the development of the sugarcane industry in a green, environmentally friendly and sustainable direction. By improving the utilization efficiency of sugarcane for nutrient elements, the use of fertilizers and pesticides can be reduced, the risk of agricultural non-point source pollution can be reduced, and the ecological environment can be protected.

[0022] At the same time, new nutrient-efficient sugarcane varieties can also improve the stress resistance and adaptability of sugarcane, enabling it to maintain good growth and yield performance under different environmental conditions, thereby further improving the stability and competitiveness of the sugarcane industry. BRIEF DESCRIPTION OF THE DRAWINGS

[0023] Figure 1 The present invention identifies the number of gene loci for sugarcane nutrient element content and combined breeding values ​​of multiple element contents based on two GWAS models;

[0024] Figure 2 Violin distribution plot and variance analysis plot of nutrient element contents of different genotypes of sugarcane at important gene loci and breeding values ​​of combined multiple element contents. DETAILED DESCRIPTION

[0025] The following describes the preferred embodiments of the present invention with reference to the drawings in the specification, so that the technical content is clearer and easier to understand. The present invention can be embodied in many different forms of embodiments, and the protection scope of the present invention is not limited to the embodiments mentioned in the text.

[0026] Example 1

[0027] Sugarcane is an important economic crop that is widely grown around the world, mainly for the production of sugar and bioenergy. The growth and yield of sugarcane are affected by many factors, among which the absorption and utilization of nutrients is one of the key factors. With the development of biotechnology and molecular genetics, it has become possible to use SNP (single nucleotide polymorphism) molecular markers for genetic improvement of sugarcane varieties.

[0028] The technical scheme aims to provide a SNP molecular marker related to sugarcane nutrients and its application, by identifying SNP sites closely related to the absorption and utilization of sugarcane mineral nutrients, and using these sites to select and identify sugarcane nutritionally efficient varieties.

[0029] Identification of SNP loci

[0030] (1) Experimental Materials

[0031] 109 representative domestic and foreign sugarcane varieties were selected as experimental materials to ensure the reliability and universality of the experimental results.

[0032] (2) GWAS analysis

[0033] GBS (Gene-by-sequenc) sequencing technology was used to perform genotyping on the experimental materials and obtain a large amount of SNP locus information. Then, combined with the determination data of sugarcane nutrients, GWAS analysis was performed to explore SNP loci that are closely related to the absorption and utilization of sugarcane nutrients.

[0034] (3) Verification of SNP sites

[0035] The SNP sites obtained by GWAS analysis were verified through large sample phenotypic effect values ​​and variance analysis to ensure the reliability and accuracy of these sites.

[0036] After GWAS analysis and verification, this technical solution identified the following SNP sites closely related to the absorption and utilization of sugarcane nutrients: 10_33126337, 10_41649155, 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540.

[0037] Application of SNP Molecular Markers

[0038] (1) Breeding of sugarcane varieties with high nutritional value

[0039] The identified SNP loci are used to breed sugarcane varieties with high nutritional efficiency. The specific steps are as follows:

[0040] A. Extract genomic DNA of the sugarcane variety to be bred as genetic material for molecular marker-assisted selection.

[0041] B. Use specific SNP typing technology (such as high-throughput sequencing, SNP chip, etc.) to detect the genotype of the above SNP sites.

[0042] C. According to the correlation between genotype and absorption and utilization of nutrients, sugarcane varieties with excellent genotypes are selected for breeding. For example, for the 10_33126337 locus, sugarcane varieties with TT genotype are selected for breeding to improve the absorption and utilization efficiency of magnesium and calcium in sugarcane; for the 10_41649155 locus, sugarcane varieties with CC genotype are selected for breeding to improve the absorption and utilization efficiency of molybdenum in sugarcane; for the 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540 loci, sugarcane varieties with AA, AG, AG, CT and TT genotypes are selected for breeding to improve the absorption and utilization efficiency of manganese in sugarcane.

[0043] D. Through field trials and quality analysis, verify the excellent performance of the selected sugarcane varieties in nutrient absorption and utilization.

[0044] (2) Identification of sugarcane varieties

[0045] The identified SNP loci can also be used to identify sugarcane varieties. The specific steps are as follows:

[0046] A. Extract genomic DNA of the sugarcane variety to be identified as genetic material for molecular marker-assisted identification.

[0047] B. Use specific SNP typing technology to detect the genotype of the above SNP sites.

[0048] C. Compare the detected genotype with the genotype of the known sugarcane variety to determine the identity of the sugarcane variety to be identified. For example, if the genotype of the 10_33126337 site of the sugarcane variety to be identified is TT, and it is consistent with the genotype of the site of a known sugarcane variety, it can be preliminarily determined that the sugarcane variety to be identified is the same variety or a similar variety to the known variety.

[0049] D. According to the comparison results and needs, the similarity coefficient or genetic distance between the sugarcane variety to be identified and the known sugarcane varieties can be further calculated to more accurately evaluate the identity and genetic background of the sugarcane variety to be identified.

[0050] (3) Optimization and expansion of technical solutions

[0051] In order to further improve the accuracy and practicality of the technical solution, this technical solution can also be optimized and expanded as follows:

[0052] A. Increase the number of SNP sites: By expanding the sample size of GWAS analysis and optimizing the analysis process, more SNP sites closely related to the absorption and utilization of sugarcane nutrients can be discovered, providing more useful genetic resources for the genetic improvement of sugarcane.

[0053] B. Develop new SNP typing technology: In view of the limitations and shortcomings of current SNP typing technology, develop more efficient, accurate and low-cost SNP typing technology to meet the actual needs of sugarcane genetic improvement and variety identification.

[0054] C. Establish a sugarcane genetic improvement database: Organize and archive the identified SNP loci and related information (such as genotype, phenotypic effect value, excellent genotype, etc.) to establish a sugarcane genetic improvement database. This database can provide convenient information query and data analysis services for sugarcane genetic improvement and variety identification.

[0055] D. Expand the scope of application: In addition to sugarcane, this technical solution can also be expanded to the genetic improvement and variety identification of other crops or plants. By exploring SNP sites that are closely related to important traits of specific crops or plants and using these sites for molecular marker-assisted selection and identification, it can promote the rapid development of crop breeding and plant protection.

[0056] Identification of SNP loci

[0057] Experimental materials: 109 representative domestic and foreign sugarcane varieties were selected as experimental materials to ensure the reliability and universality of the experimental results. The experimental materials include several sugarcane plants of different varieties.

[0058] GWAS analysis: GBS sequencing technology was used to identify the genotypes of the experimental materials and obtain a large amount of SNP site information. Then, GWAS analysis was performed in combination with the measured data of sugarcane mineral nutrients (such as the content of magnesium, calcium, molybdenum, manganese and other elements). GWAS analysis uses appropriate statistical methods and software tools for data processing and result analysis. Through GWAS analysis, several SNP sites closely related to the absorption and utilization of sugarcane mineral nutrients were discovered, including 10_33126337, 10_41649155, 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540.

[0059] Verification of SNP loci: The SNP loci obtained by GWAS analysis were verified by large sample phenotypic effect values ​​and variance analysis. The verification methods include repeated experiments, independent sample verification and field trials. After verification, it was confirmed that these SNP loci have a significant correlation with the absorption and utilization of sugarcane nutrients and are stable and reliable.

[0060] Example 2: Breeding of sugarcane nutritious and efficient varieties

[0061] The genomic DNA of the sugarcane variety to be bred is extracted as genetic material. DNA extraction is performed using appropriate methods and kits and experimental conditions are controlled to ensure the quality and integrity of the DNA.

[0062] Specific SNP typing technology (such as high-throughput sequencing or SNP chip) is used to detect the genotype of the above SNP sites. SNP typing technology selection is appropriately selected and optimized according to experimental requirements and experimental conditions to ensure the accuracy and reliability of the typing results.

[0063] According to the correlation between genotype and absorption and utilization of nutrients, sugarcane varieties with excellent genotypes are selected for breeding. For example, for the 10_33126337 locus, TT genotype sugarcane varieties are selected for breeding to improve the absorption and utilization efficiency of magnesium and calcium in sugarcane; for the 10_41649155 locus, CC genotype sugarcane varieties are selected for breeding to improve the absorption and utilization efficiency of molybdenum in sugarcane; for the 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540 loci, AA, AG, AG, CT, TT genotype sugarcane varieties are selected for breeding to improve the absorption and utilization efficiency of manganese in sugarcane. In the breeding process, other breeding methods and technologies can also be combined for comprehensive use to improve breeding efficiency and accuracy.

[0064] Field trials and quality analysis are used to verify the excellent performance of the selected sugarcane varieties in nutrient absorption and utilization. Field trials include planting management, pest and disease control, and quality testing; quality analysis includes indicators such as element content testing, sugar content testing, and stress resistance analysis. Field trials and quality analysis can be used to evaluate the performance of the selected sugarcane varieties in terms of growth performance, yield, and quality, and select sugarcane varieties with excellent performance for promotion and application.

[0065] Example 3: Identification of sugarcane varieties

[0066] The genomic DNA of the sugarcane variety to be identified is extracted as genetic material. The DNA extraction method and operation are the same as those described in Example 2.

[0067] The absorption and utilization of nutrients is one of the key factors. Traditional sugarcane breeding methods mainly improve the yield and quality of sugarcane through phenotypic selection, but this method is time-consuming, inefficient, and easily affected by environmental factors. With the development of molecular marker technology, especially the application of single nucleotide polymorphism (SNP) markers, new ideas and methods have been provided for sugarcane breeding.

[0068] As a third-generation molecular marker technology, SNP has the advantages of large number, wide distribution, and good genetic stability, and has become an important tool in crop genetic breeding research. This study identified a number of SNP loci closely related to the absorption and utilization of sugarcane nutrients through genome-wide association analysis (GWAS), and developed corresponding SNP molecular markers based on these loci. These markers can be used for the selection and variety identification of sugarcane nutrient-efficient varieties, providing a new approach for molecular breeding of sugarcane.

[0069] 2. Materials and Methods

[0070] Experimental Materials

[0071] This study selected a number of representative sugarcane varieties as experimental materials, including high-sugar varieties, high-biomass varieties, stress-resistant varieties, etc. All materials were planted and managed under the same environmental conditions to ensure the accuracy and reliability of the experimental results.

[0072] SNP site identification

[0073] The GWAS method was used to conduct association analysis on the nutrient content of sugarcane. First, the genomic data of sugarcane varieties, including SNP site information, were obtained through high-throughput sequencing technology. Then, based on the results of the determination of nutrient content, appropriate statistical methods were used for association analysis to screen out SNP sites that were significantly correlated with nutrient content.

[0074] SNP molecular marker development

[0075] Based on the identified SNP sites, corresponding primers and probes are designed and synthesized for the detection of SNP molecular markers. The accuracy and reliability of SNP molecular markers are ensured by optimizing reaction conditions and detection parameters.

[0076] Phenotypic effect analysis

[0077] The phenotypic effect analysis of the genotypes of different SNP loci was carried out to understand the effects of these loci on the absorption and utilization of different nutrients. The nutrient content of sugarcane varieties with different genotypes was measured, the differences between different genotypes were compared, and the superior genotypes were determined.

[0078] Breeding of sugarcane varieties with high nutritional value

[0079] According to the results of SNP molecular marker detection and phenotypic effect analysis, sugarcane varieties with excellent genotypes are selected for breeding. Through hybridization, backcrossing and other methods, excellent genotypes are introduced into the target varieties to cultivate new sugarcane varieties with high nutritional efficiency, high yield and high quality.

[0080] SNP site identification results

[0081] Through GWAS, this study identified 59 SNP loci closely related to the absorption and utilization of sugarcane nutrients. These loci are located on different chromosomes and involve a variety of nutrients, including magnesium, calcium, phosphorus, potassium, iron, manganese, zinc, copper, molybdenum, etc.

[0082] SNP molecular marker development results

[0083] Based on the identified SNP loci, this study successfully developed corresponding SNP molecular markers. These markers have high specificity and sensitivity and can accurately distinguish sugarcane varieties with different genotypes. At the same time, these markers also have good stability and repeatability, and are suitable for large-scale sugarcane breeding and variety identification.

[0084] Results of phenotypic effect analysis

[0085] The phenotypic effect analysis of the genotypes of different SNP loci revealed that these loci had significant differences in the absorption and utilization of different nutrients. Among them, the 10_33126337 locus was significantly correlated with the absorption and utilization of magnesium and calcium in sugarcane. In this locus, the TT genotype material had the highest average phenotypic effect value in magnesium, calcium, and 8-BLUP and 14-BLUP breeding values, so TT was recommended as an excellent genotype. In addition, the 10_41649155 locus was significantly correlated with the absorption and utilization of molybdenum in sugarcane, and the CC genotype material had the highest average phenotypic effect value; while the 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540 loci were significantly correlated with the absorption and utilization of manganese in sugarcane, and the average phenotypic effect values ​​of the AA, AG, AG, CT, and TT genotype materials were the highest.

[0086] Specific applications of SNP molecular markers

[0087] Breeding of sugarcane varieties with high nutritional value

[0088] SNP molecular markers can be used to select and breed sugarcane varieties with high nutritional value. By detecting the SNP locus genotype of the sugarcane variety to be bred and combining the results of phenotypic effect analysis, sugarcane varieties with excellent genotypes can be selected for breeding. This method has the advantages of high efficiency, accuracy, and not being affected by environmental factors, which can greatly improve the efficiency and accuracy of sugarcane breeding.

[0089] Material preparation

[0090] Select the sugarcane variety to be bred and ensure that it is at an appropriate growth stage. Collect sugarcane leaves or other tissues as materials for DNA extraction.

[0091] DNA extraction and purification

[0092] The genomic DNA of sugarcane varieties is extracted from the collected tissues using appropriate DNA extraction methods. The extracted DNA is then purified to remove impurities and interfering substances to ensure the quality and purity of the DNA.

[0093] SNP site detection

[0094] The developed SNP molecular markers are used to detect SNP sites in the genomic DNA of the sugarcane variety to be bred. High-throughput sequencing technology, fluorescence in situ hybridization (FISH), gene chips and other methods can be used for detection. Based on the test results, the SNP site genotype of the sugarcane variety to be bred is determined.

[0095] Selection of superior genotypes

[0096] Combined with the results of phenotypic effect analysis, sugarcane varieties with excellent genotypes are selected for breeding. According to the requirements of the sugarcane varieties to be bred for different nutrients, sugarcane varieties with corresponding excellent genotypes are selected for breeding. For example, for sugarcane varieties that need to improve the absorption and utilization of magnesium and calcium, the 10_33126337 locus with the TT genotype can be selected; for sugarcane varieties that need to improve the absorption and utilization of molybdenum, the 10_41649155 locus with the CC genotype can be selected; for sugarcane varieties that need to improve the absorption and utilization of manganese, the 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540 loci with the AA, AG, AG, CT, TT genotypes can be selected.

[0097] Variety selection and evaluation

[0098] Through hybridization, backcrossing and other methods, excellent genotypes are introduced into the target varieties to cultivate new sugarcane varieties with high nutritional efficiency, high yield and high quality. Then, field tests and evaluations are carried out on the new varieties to measure indicators such as yield, quality, and absorption and utilization of nutrient elements. Based on the evaluation results, the best new sugarcane varieties are selected for promotion and application.

[0099] Identification of sugarcane varieties

[0100] SNP molecular markers can also be used to identify sugarcane varieties. By detecting the SNP locus genotype of the sugarcane variety to be identified and comparing and analyzing it with the genotype of known sugarcane varieties, the identity and genetic background of the sugarcane variety to be identified can be determined. This method has the advantages of being fast, accurate, and not affected by environmental factors, and can be used for rapid identification and classification of sugarcane varieties.

[0101] Material preparation and DNA extraction

[0102] Select the sugarcane variety to be identified and ensure that it is at an appropriate growth stage. Collect sugarcane leaves or other tissues as materials for DNA extraction. Then, use an appropriate DNA extraction method to extract genomic DNA and purify it.

[0103] SNP site detection and genotype determination

[0104] The developed SNP molecular markers are used to detect the SNP sites of the genomic DNA of the sugarcane variety to be identified. The SNP site genotype of the sugarcane variety to be identified is determined based on the test results. Then, the genotype obtained by the test is compared and analyzed with the genotype of the known sugarcane varieties.

[0105] Variety identification and classification

[0106] The identity and genetic background of the sugarcane variety to be identified are determined based on the comparison and analysis results. If the genotype of the sugarcane variety to be identified is completely consistent or highly similar to the genotype of the known variety, they can be considered to be the same variety or similar varieties; if there are significant differences in the genotype, they can be considered to be different varieties or have different genetic backgrounds. Sugarcane varieties are classified and named based on the identification results to provide basic data and information support for subsequent research and application.

[0107] This study identified a number of SNP sites that are closely related to the absorption and utilization of sugarcane nutrients through the GWAS method, and developed corresponding SNP molecular markers based on these sites. These markers can be used for the selection and identification of sugarcane nutrient-efficient varieties, providing new ways and methods for the molecular breeding of sugarcane. Future research will further optimize and improve the detection methods and application processes of SNP molecular markers to improve the accuracy and efficiency of detection; at the same time, more in-depth genetic analysis and functional verification will be carried out to reveal the specific mechanisms and regulatory networks between these SNP sites and the absorption and utilization of nutrients. In addition, the possibility and ways of applying these SNP molecular markers to the genetic breeding and variety identification of other crops will be explored to provide more comprehensive and in-depth support and guarantee for the molecular breeding and genetic improvement of crops.

[0108] The above shows and describes the basic principles and main features of the present invention and the advantages of the present invention. It is obvious to those skilled in the art that the present invention is not limited to the details of the above exemplary embodiments, and the present invention can be implemented in other specific forms without departing from the spirit or basic features of the present invention. Therefore, no matter from which point of view, the embodiments should be regarded as exemplary and non-restrictive. The scope of the present invention is defined by the attached claims rather than the above description, and it is intended that all changes falling within the meaning and scope of the equivalent elements of the claims are included in the present invention. Any figure mark in the claims should not be regarded as limiting the claims involved.

[0109] In addition, it should be understood that although the present specification is described according to implementation modes, not every implementation mode contains only one independent technical solution. This description of the specification is only for the sake of clarity. Those skilled in the art should regard the specification as a whole. The technical solutions in each embodiment may also be appropriately combined to form other implementation modes that can be understood by those skilled in the art.

Claims

1. A SNP molecular marker related to mineral nutrients in sugarcane, characterized in that: Including but not limited to the following SNP sites: 10_33126337, 10_41649155, 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540, the SNP sites were identified based on a single element or in combination with multiple elements, so they are potentially related to the absorption and utilization of nutrients such as total sugar, nitrogen, phosphorus, potassium, sulfur, magnesium, calcium, silicon, iron, manganese, zinc, copper, molybdenum, germanium and so on in sugarcane.

2. The SNP molecular marker according to claim 1, characterized in that The 10_33126337 locus has a significant correlation with the absorption and utilization of 14 nutrients in sugarcane, especially magnesium and calcium. In this locus, the TT genotype material has the highest average phenotypic effect value in magnesium, calcium, and 8-BLUP and 14-BLUP breeding values. Therefore, TT is suggested to be an excellent genotype.

3. The SNP molecular marker according to claim 1, characterized in that The 10_41649155 locus has a significant correlation with the absorption and utilization of molybdenum in sugarcane, and in this locus, the CC genotype material has the highest average phenotypic effect value and a better tendency to utilize molybdenum, so CC is recommended to be an excellent genotype.

4. The SNP molecular marker according to claim 1, characterized in that The 8_29369331, 10_14919731, 25_75046751, 27_10049098 and 27_65878540 loci are significantly correlated with the absorption and utilization of manganese in sugarcane, and among these loci, the average phenotypic effect values ​​of the AA, AG, AG, CT, and TT genotype materials, respectively, are the highest, and they all have a good tendency to utilize manganese, so these genotypes are suggested to be excellent genotypes.

5. A method for breeding sugarcane nutritionally efficient varieties using the SNP molecular markers as claimed in claim 1, characterized in that: The following steps are involved: The genomic DNA of the sugarcane varieties to be bred is extracted, the genotype of the above-mentioned SNP sites is detected, and based on the correlation between the genotype and the absorption and utilization of nutrient elements, the sugarcane varieties with excellent genotypes are selected for breeding.

6. The method according to claim 5, characterized in that It also includes the targeted selection of sugarcane varieties with corresponding excellent genotypes for breeding based on the needs of the sugarcane varieties to be bred for different nutrients, so as to improve the absorption and utilization efficiency of specific nutrients by sugarcane.

7. A method for identifying sugarcane varieties using the SNP molecular marker according to claim 1, characterized in that: The following steps are involved: The genomic DNA of the sugarcane variety to be identified is extracted, the genotype of the above SNP site is detected, and the detected genotype is compared with the genotype of known sugarcane varieties to determine the identity of the sugarcane variety to be identified.

8. The method according to claim 7, characterized in that The method also includes calculating the similarity coefficient between the sugarcane variety to be identified and the known sugarcane varieties based on the comparison results. When the similarity coefficient reaches a preset threshold, it is determined that the sugarcane variety to be identified and the known sugarcane variety are the same variety or similar varieties.

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