Rice ear type regulation gene related salt tolerance molecular marker and application thereof

Abstract

This invention discloses molecular markers related to salt tolerance genes regulating panicle type in rice and their applications. These markers include single nucleotide mutations at the following positions on the rice reference genome: chromosome 7 at positions 9154415bp, 9152655bp, and 9154456bp; chromosome 10 at position 17076252bp; chromosome 9 at positions 16414735bp, 16415104bp, and 16415391bp; chromosome 7 at positions 23483992bp and 23485303bp; and chromosome 6 at positions 8725735bp and 8719282bp. Using these molecular markers, rice can be rapidly and accurately detected. Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d The salt-tolerant genotype of a gene is beneficial for its efficient application in molecular breeding of salt-tolerant rice.

Description

Technical Field

[0001] This invention belongs to the field of crop genetics and breeding technology, specifically relating to salt tolerance molecular markers related to rice panicle type regulation genes and their applications. Background Technology

[0002] Soil salinization often stems from the excessive accumulation of soluble salts, primarily triggered by factors such as rising groundwater levels, inadequate drainage systems, and long-term unsuitable irrigation practices. Such soils exhibit high salinity and strong alkalinity, severely interfering with plants' normal uptake of water and nutrients, leading to stunted growth, malformed development, and ultimately reduced crop yield and quality. Breeding new crop varieties with strong salt and alkali tolerance, suitable for growth in saline soils, is crucial for revitalizing marginal land resources, improving land productivity, expanding grain planting areas, and safeguarding food security. Screening key salt-tolerant genes and developing efficient molecular markers is the most economical and fastest technical approach to accelerate the breeding of salt-tolerant varieties.

[0003] Rice, as a major staple food crop in my country, is highly sensitive to salt content. Salt stress significantly inhibits its growth and development, leading to a substantial decrease in yield. Rice panicle type is a key agronomical trait directly affecting plant yield, mainly including characteristics such as the number of grains per panicle, the number of branches, panicle length, and panicle density. An ideal panicle structure can coordinate the growth relationship between individuals and the population, forming a high-yielding population with high photosynthetic efficiency, strong lodging resistance, and suitability for dense planting. In-depth analysis of the genetic mechanisms of rice panicle type and genetic improvement of this trait are important ways to increase yield per unit area and optimize population structure. Several genes are known to be involved. Ghd7, Ehd1, OsDEP1, OsBZR1 and RAD23d These factors all participate in regulating rice panicle-related traits and play an important role in yield formation.

[0004] Natural variation often contains allelic variations that enhance or weaken gene function, and some superior allelic types have important applications in crop molecular breeding. Discovering superior salt-tolerant allelic variations related to key genes for panicle morphology in rice can provide genetic resources and theoretical basis for simultaneously improving yield and salt tolerance. Molecular marker-assisted selection enables high-throughput and rapid screening of target traits, and is therefore widely used in modern crop genetic improvement. Currently, superior allelic variations of key genes regulating yield formation in rice under salt stress still need systematic discovery, and the corresponding salt-tolerant molecular marker resources are relatively scarce, requiring further supplementation and development. Summary of the Invention

[0005] The purpose of this invention is to provide a molecular marker related to rice salt tolerance and its application, thus providing gene resources for the genetic improvement of rice salt tolerance. This invention also provides genes related to rice panicle type. Ghd7, Ehd1, OsDEP1 OsBZR1、RAD23dThe SNP molecular markers correspond to the primer sets and detection methods, which can be combined with the KASP method for accurate identification of samples.

[0006] A molecular marker related to salt tolerance in rice, the molecular marker comprising SNP_7_9154415_C / T, SNP_7_9152655_T / A, SNP_7_9154456_T / C, SNP_10_17076252_T / A, SNP_9_16414735_A / G, SNP_9_16415104_T / A, SNP_9_16415391_T / A, SNP_7_23483992_A / C, SNP_7_23485303_C / A, SNP_6_8725735_G / A, and SNP_6_8719282_A / C.

[0007] The molecular marker SNP_7_9154415_C / T is located at 9154415bp on chromosome 7 of rice and contains a single nucleotide mutation C / T. The molecular marker SNP_7_9152655_T / A is located at position 9152655 bp on chromosome 7 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_7_9154456_T / C is located at position 9154456 bp on chromosome 7 of rice and contains a single nucleotide mutation T / C. The molecular marker SNP_10_17076252_T / A is located at 17076252 bp on chromosome 10 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_9_16414735_A / G is located at 16414735 bp on chromosome 9 of rice and contains a single nucleotide mutation A / G. The molecular marker SNP_9_16415104_T / A is located at 16415104 bp on chromosome 9 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_9_16415391_T / A is located at 16415391 bp on chromosome 9 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_7_23483992_A / C is located at position 23483992 bp on chromosome 7 of rice and contains a single nucleotide mutation A / C. The molecular marker SNP_7_23485303_C / A is located at position 23485303 bp on chromosome 7 of rice and contains a single nucleotide mutation C / A. The molecular marker SNP_6_8725735_G / A is located at position 8725735 bp on chromosome 6 of rice and contains a single nucleotide mutation G / A. The molecular marker SNP_6_8719282_A / C is located at position 8719282 bp on chromosome 6 of rice and contains a single nucleotide mutation A / C.

[0008] Primer pairs for detecting the molecular markers related to rice salt tolerance include: The primer pair for detecting the molecular marker SNP_7_9154415_C / T includes specific upstream primers X1R and Y1R and a universal downstream primer C1F. The primer sequences are shown in SEQ ID NO: 1-3 of the sequence listing. The primer pair for detecting the molecular marker SNP_7_9152655_T / A includes specific upstream primers X2F and Y2F and a universal downstream primer C2R. The primer sequences are shown in SEQ ID NO: 4-6 of the sequence listing. The primer pair for detecting the molecular marker SNP_7_9154456_T / C includes specific upstream primers X3F and Y3F and a universal downstream primer C3R. The primer sequences are shown in the sequence listing SEQ ID NO: 7-9. The primer pair for detecting the molecular marker SNP_10_17076252_T / A includes specific upstream primers X4F and Y4F and a universal downstream primer C4R. The primer sequences are shown in the sequence listing SEQ ID NO: 10-12. The primer pair for detecting the molecular marker SNP_9_16414735_A / G includes specific upstream primers X5F and Y5F and a universal downstream primer C5R. The primer sequences are shown in the sequence listing SEQ ID NO: 13-15. The primer pair for detecting the molecular marker SNP_9_16415104_T / A includes specific upstream primers X6F and Y6F and a universal downstream primer C6R. The primer sequences are shown in the sequence listing SEQ ID NO: 16-18. The primer pair for detecting the molecular marker SNP_9_16415391_T / A includes specific upstream primers X7F and Y7F and a universal downstream primer C7R. The primer sequences are shown in the sequence listing SEQ ID NO: 19-21. The primer pair for detecting the molecular marker SNP_7_23483992_A / C includes specific upstream primers X8F and Y8F and a universal downstream primer C8R. The primer sequences are shown in the sequence listing SEQ ID NO: 22-24, respectively. The primer pair for detecting the molecular marker SNP_7_23485303_C / A includes specific upstream primers X9F and Y9F and a universal downstream primer C9R. The primer sequences are shown in the sequence listing SEQ ID NO: 25-27. The primer pair for detecting the molecular marker SNP_6_8725735_G / A includes specific upstream primers X10F and Y10F and a universal downstream primer C10R. The primer sequences are shown in the sequence listing SEQ ID NO: 28-30. The primer pair for detecting the molecular marker SNP_6_8719282_A / C includes specific upstream primers X11F and Y11F and a universal downstream primer C11R. The primer sequences are shown in SEQ ID NO: 31-33 of the sequence listing.

[0009] Rice genes Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d The method for detecting salt-tolerant genotypes involves using rice genomic DNA as a template and performing a PCR reaction with the aforementioned primers. The genotype of the SNP_7_9154415_C / T locus in the rice genomic DNA is determined to be either C or T. If the genotype of the SNP_7_9154415_C / T locus is T, the rice is considered to be salt-tolerant. Ghd7 Salt-tolerant genotype; if the genotype of the SNP_7_9154415_C / T locus in the genomic DNA of the rice being tested is genotype C, then the rice being tested is... Ghd7 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_9152655_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_7_9152655_T / A locus in the rice sample is A, then the rice sample is... Ghd7 Salt-tolerant genotype; if the genotype of the SNP_7_9152655_T / A locus in the genomic DNA of the rice being tested is T, then the rice being tested is... Ghd7 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_9154456_T / C locus in the genomic DNA of the rice sample is T or C. If the genotype of the SNP_7_9154456_T / C locus in the rice sample is C, then the rice sample is... Ghd7 Salt-tolerant genotype; if the genotype of the SNP_7_9154456_T / C locus in the genomic DNA of the rice being tested is the T genotype, then the rice being tested is... Ghd7 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_10_17076252_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_10_17076252_T / A locus in the genomic DNA of the rice sample is A, then the rice sample is... Ehd1 Salt-tolerant genotype; if the genotype of the SNP_10_17076252_T / A site in the genomic DNA of the rice being tested is the T genotype, then the rice being tested is... Ehd1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_9_16414735_A / G locus in the genomic DNA of the rice sample is A or G. If the genotype of the SNP_9_16414735_A / G locus in the genomic DNA of the rice sample is G, then the rice sample is... OsDEP1 Salt-tolerant genotype; if the genotype of the SNP_9_16414735_A / G site in the genomic DNA of the rice being tested is genotype A, then the rice being tested is... OsDEP1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_9_16415104_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_9_16415104_T / A locus in the genomic DNA of the rice sample is A, then the rice sample is... OsDEP1 Salt-tolerant genotype; if the genotype of the SNP_9_16415104_T / A locus in the genomic DNA of the rice being tested is T, then the rice being tested is... OsDEP1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_9_16415391_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_9_16415391_T / A locus in the genomic DNA of the rice sample is A, then the rice sample is... OsDEP1 Salt-tolerant genotype; if the genotype of the SNP_9_16415391_T / A locus in the genomic DNA of the rice being tested is T, then the rice being tested is... OsDEP1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_23483992_A / C locus in the genomic DNA of the rice sample is genotype A or C. If the genotype of the SNP_7_23483992_A / C locus in the genomic DNA of the rice sample is genotype C, then the rice sample is... OsBZR1 Salt-tolerant genotype; if the genotype of the SNP_7_23483992_A / C locus in the genomic DNA of the rice being tested is genotype A, then the rice being tested is... OsBZR1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_23485303_C / A locus in the genomic DNA of the rice sample is C or A. If the genotype of the SNP_7_23485303_C / A locus in the genomic DNA of the rice sample is A, then the rice sample is... OsBZR1 Salt-tolerant genotype; if the genotype of the SNP_7_23485303_C / A site in the genomic DNA of the rice being tested is genotype C, then the rice being tested is... OsBZR1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_6_8725735_G / A locus in the genomic DNA of the rice sample is G or A. If the genotype of the SNP_6_8725735_G / A locus in the rice sample is A, then the rice sample is... RAD23d Salt-tolerant genotype; if the genotype of the SNP_6_8725735_G / A site in the genomic DNA of the rice being tested is G, then the rice being tested is... RAD23d Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_6_8719282_A / C locus in the genomic DNA of the rice sample is genotype A or C. If the genotype of the SNP_6_8719282_A / C locus in the genomic DNA of the rice sample is genotype C, then the rice sample is... RAD23d Salt-tolerant genotype; if the genotype of the SNP_6_8719282_A / C locus in the genomic DNA of the rice being tested is genotype A, then the rice being tested is... RAD23d Salt-intolerant genotype.

[0010] A kit for detecting the molecular marker, the kit comprising the primers described above.

[0011] Preferably, the SNP molecular marker-specific primers are respectively linked to FAM and / or HEX fluorescent linker sequences.

[0012] A gene chip comprising primers with nucleotide sequences as shown in sequence listing SEQ ID NO: 1-33.

[0013] The application of molecular markers related to rice salt tolerance in rice breeding.

[0014] A rice breeding method, which involves testing rice genes according to the above-mentioned detection method. Ghd7、Ehd1、OsDEP1、OsBZR1、 RAD23d Genotype testing was conducted to select those carrying salt tolerance. Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d The rice samples of different genotypes were then used for subsequent breeding.

[0015] Beneficial effects of the present invention: Utilizing the present invention as described Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23dMolecular markers can be used to rapidly and accurately detect rice genes in germplasm resources such as indica and japonica rice, as well as in recombinant inbred lines resulting from hybridization of different parents. Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d Salt-tolerant genotypes. This invention utilizes the aforementioned SNP molecular markers to perform large-scale identification of breeding populations via KASP technology, accelerating the molecular breeding process and benefiting gene selection. Ghd7 Ehd1, OsDEP1, OsBZR1, RAD23d Application in salt-tolerant breeding. Attached Figure Description

[0016] Figure 1 The molecular markers of this invention were tested in 124 rice breeding materials. Detailed Implementation

[0017] To facilitate understanding of the present invention, a more comprehensive description will be given below. However, the present invention can be implemented in many different forms and is not limited to the embodiments described herein. Rather, these embodiments are provided to provide a thorough and complete understanding of the disclosure of the present invention.

[0018] The experimental methods used in the examples are all conventional methods, and the materials and yield data under salt stress used are all preserved or created by the applicant. Example 1

[0019] Rice genes Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d The molecular marker and its application: This molecular marker was identified by analyzing yield data from 300 core rice germplasm resources under salt stress to find rice genes. Ghd7, Ehd1 OsDEP1, OsBZR1, RAD23d Several polymorphic sites for moderate salt tolerance, including 11 SNPs, are identified. Details are as follows: 1. Primers were designed for the molecular marker using the rice reference genome (os-Nipponbare-reference-IRGSp-1.0) sequence.

[0020] 2. Sample testing Genomic DNA was extracted from rice leaves using the CTAB method. The molecular markers SNP_7_9154415_C / T, SNP_7_9152655_T / A, SNP_7_9154456_T / C, SNP_10_17076252_T / A, SNP_9_16414735_A / G, SNP_9_16415104_T / A, SNP_9_16415391_T / A, SNP_7_23483992_A / C, SNP_7_23485303_C / A, SNP_6_8725735_G / A, and SNP_6_8719282_A / C were detected using the KASP technique. The KASP reaction system is shown in Table 1. The PCR amplification conditions were as follows: 95℃ for 15 minutes; 95℃ for 10 seconds, 65℃ for 60 seconds, with the annealing temperature decreasing by 1℃ for each cycle, for a total of 10 cycles; 95℃ for 10 seconds, 55℃ for 60 seconds, for a total of 35 cycles. After the reaction, fluorescence data were read at 30℃. An XY scatter plot was plotted with the Y-axis at HEX / ROX and the X-axis at FAM / ROX. If a large amount of fluorescence signal corresponding to primer X was detected in the sample amplification product, the detection site was the genotype corresponding to primer X; if a large amount of fluorescence signal corresponding to primer Y was detected, the detection site was the genotype corresponding to primer Y; if both fluorescence signals were detected simultaneously, the detection site was the heterozygous genotype.

[0021] Table 1 KASP Reaction System

[0022] 3. Validation of 124 rice breeding materials The molecular markers SNP_7_9154415_C / T, SNP_7_9152655_T / A, SNP_7_9154456_T / C, SNP_10_17076252_T / A, SNP_9_16414735_A / G, SNP_9_16415104_T / A, SNP_9_16415391_T / A, SNP_7_23483992_A / C, SNP_7_23485303_C / A, SNP_6_8725735_G / A, and SNP_6_8719282_A / C were validated using 124 rice breeding materials. Representative varieties were selected from the molecular marker detection results of the 124 rice breeding materials, as shown in Tables 2, 3, 4, 5, and 6.

[0023] Table 2 Ghd7 Genotyping results of molecular markers of genes in 124 rice breeding materials

[0024] Table 3 Ehd1Genotyping results of molecular markers of genes in 124 rice breeding materials

[0025] Table 4 OsDEP1 Genotyping results of molecular markers of genes in 124 rice breeding materials

[0026] Table 5 OsBZR1 Genotyping results of molecular markers of genes in 124 rice breeding materials

[0027] Table 6 RAD23d Genotyping results of molecular markers of genes in 124 rice breeding materials

[0028] 4. Validation of the molecular markers described in this invention in the screening of 124 rice breeding materials. Using the molecular markers described in this invention to perform rice gene sequencing Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d After salt tolerance genotyping, further analysis was conducted using yield statistics under salt stress (0.4%) conditions. The results are as follows: Figure 1 As shown, containing Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d Materials with salt-intolerant genotypes (Zhonghua 8, Fengza, Lindao 19, 9YHS055, Liaoyan 241) yielded lower yields than those with salt-intolerant genotypes. Ghd7 Salt-tolerant genotype materials (9YHS064, Jinyou No. 1, C894-21, Shufeng 101, NPT-114). Ehd1 Salt-tolerant genotypes (R15, Guanghui 998, Ce 253, CH1042, Mianhui 725). OsDEP1 Salt-tolerant genotypes of materials (C 894-21, Zhenshan 97, NPT-114, SARD, R15). OsBZR1 Salt-tolerant genotypes (Ajaya, Pokkali, CH1066, Yangdao 2, Ce 253) RAD23d Salt-tolerant genotypes were identified in rice (Luhui 17, FL 478, TKM 9, R106, and Luhan 1). This demonstrates that the molecular markers described in this invention can be used for the identification of salt-tolerant rice materials and their subsequent breeding applications.

[0029] The embodiments described above are merely illustrative of several implementations of the present invention, and while the descriptions are relatively specific and detailed, they should not be construed as limiting the scope of the invention patent. It should be noted that those skilled in the art can make various modifications and improvements without departing from the concept of the present invention, and these all fall within the protection scope of the present invention. Therefore, the protection scope of this invention patent should be determined by the appended claims.

Claims

1. Molecular markers related to salt tolerance in rice, characterized in that, The molecular markers include SNP_7_9154415_C / T, SNP_7_9152655_T / A, SNP_7_9154456_T / C, SNP_10_17076252_T / A, SNP_9_16414735_A / G, SNP_9 _16415104_T / A, SNP_9_16415391_T / A, SNP_7_23483992_A / C, SNP_7_23485303_C / A, SNP_6_8725735_G / A and SNP_6_8719282_A / C; The molecular marker SNP_7_9154415_C / T is located at 9154415bp on chromosome 7 of rice and contains a single nucleotide mutation C / T. The molecular marker SNP_7_9152655_T / A is located at position 9152655 bp on chromosome 7 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_7_9154456_T / C is located at position 9154456 bp on chromosome 7 of rice and contains a single nucleotide mutation T / C. The molecular marker SNP_10_17076252_T / A is located at 17076252 bp on chromosome 10 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_9_16414735_A / G is located at 16414735 bp on chromosome 9 of rice and contains a single nucleotide mutation A / G. The molecular marker SNP_9_16415104_T / A is located at 16415104 bp on chromosome 9 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_9_16415391_T / A is located at 16415391 bp on chromosome 9 of rice and contains a single nucleotide mutation T / A. The molecular marker SNP_7_23483992_A / C is located at position 23483992 bp on chromosome 7 of rice and contains a single nucleotide mutation A / C. The molecular marker SNP_7_23485303_C / A is located at position 23485303 bp on chromosome 7 of rice and contains a single nucleotide mutation C / A. The molecular marker SNP_6_8725735_G / A is located at position 8725735 bp on chromosome 6 of rice and contains a single nucleotide mutation G / A. The molecular marker SNP_6_8719282_A / C is located at position 8719282 bp on chromosome 6 of rice and contains a single nucleotide mutation A / C.

2. A primer pair for detecting the molecular markers related to rice salt tolerance as described in claim 1, characterized in that, The primer pair for detecting the molecular marker SNP_7_9154415_C / T includes specific upstream primers X1R and Y1R and a universal downstream primer C1F. The primer sequences are shown in SEQ ID NO: 1-3 of the sequence listing. The primer pair for detecting the molecular marker SNP_7_9152655_T / A includes specific upstream primers X2F and Y2F and a universal downstream primer C2R. The primer sequences are shown in SEQ ID NO: 4-6 of the sequence listing. The primer pair for detecting the molecular marker SNP_7_9154456_T / C includes specific upstream primers X3F and Y3F and a universal downstream primer C3R. The primer sequences are shown in the sequence listing SEQ ID NO: 7-9. The primer pair for detecting the molecular marker SNP_10_17076252_T / A includes specific upstream primers X4F and Y4F and a universal downstream primer C4R. The primer sequences are shown in the sequence listing SEQ ID NO: 10-12. The primer pair for detecting the molecular marker SNP_9_16414735_A / G includes specific upstream primers X5F and Y5F and a universal downstream primer C5R. The primer sequences are shown in the sequence listing SEQ ID NO: 13-15. The primer pair for detecting the molecular marker SNP_9_16415104_T / A includes specific upstream primers X6F and Y6F and a universal downstream primer C6R. The primer sequences are shown in the sequence listing SEQ ID NO: 16-18. The primer pair for detecting the molecular marker SNP_9_16415391_T / A includes specific upstream primers X7F and Y7F and a universal downstream primer C7R. The primer sequences are shown in the sequence listing SEQ ID NO: 19-21. The primer pair for detecting the molecular marker SNP_7_23483992_A / C includes specific upstream primers X8F and Y8F and a universal downstream primer C8R. The primer sequences are shown in the sequence listing SEQ ID NO: 22-24, respectively. The primer pair for detecting the molecular marker SNP_7_23485303_C / A includes specific upstream primers X9F and Y9F and a universal downstream primer C9R. The primer sequences are shown in the sequence listing SEQ ID NO: 25-27. The primer pair for detecting the molecular marker SNP_6_8725735_G / A includes specific upstream primers X10F and Y10F and a universal downstream primer C10R. The primer sequences are shown in the sequence listing SEQ ID NO: 28-30. The primer pair for detecting the molecular marker SNP_6_8719282_A / C includes specific upstream primers X11F and Y11F and a universal downstream primer C11R. The primer sequences are shown in SEQ ID NO: 31-33 of the sequence listing.

3. Rice genes Ghd7, Ehd1, OsDEP1, OsBZR1, RAD23d A method for detecting salt-tolerant genotypes, characterized in that, Using rice genomic DNA as a template, PCR reaction was performed using the primers described in claim 2 to detect whether the genotype of the SNP_7_9154415_C / T site in the genomic DNA of the rice to be tested was C or T. If the genotype of the SNP_7_9154415_C / T site in the genomic DNA of the rice to be tested was T, the rice to be tested was... Ghd7 Salt-tolerant genotype; if the genotype of the SNP_7_9154415_C / T locus in the genomic DNA of the rice being tested is genotype C, then the rice being tested is... Ghd7 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_9152655_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_7_9152655_T / A locus in the rice sample is A, then the rice sample is... Ghd7 Salt-tolerant genotype; if the genotype of the SNP_7_9152655_T / A locus in the genomic DNA of the rice being tested is T, then the rice being tested is... Ghd7 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_9154456_T / C locus in the genomic DNA of the rice sample is T or C. If the genotype of the SNP_7_9154456_T / C locus in the rice sample is C, then the rice sample is... Ghd7 Salt-tolerant genotype; if the genotype of the SNP_7_9154456_T / C locus in the genomic DNA of the rice being tested is the T genotype, then the rice being tested is... Ghd7 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_10_17076252_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_10_17076252_T / A locus in the genomic DNA of the rice sample is A, then the rice sample is... Ehd1 Salt-tolerant genotype; if the genotype of the SNP_10_17076252_T / A site in the genomic DNA of the rice being tested is the T genotype, then the rice being tested is... Ehd1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_9_16414735_A / G locus in the genomic DNA of the rice sample is A or G. If the genotype of the SNP_9_16414735_A / G locus in the genomic DNA of the rice sample is G, then the rice sample is... OsDEP1 Salt-tolerant genotype; if the genotype of the SNP_9_16414735_A / G site in the genomic DNA of the rice being tested is genotype A, then the rice being tested is... OsDEP1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_9_16415104_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_9_16415104_T / A locus in the genomic DNA of the rice sample is A, then the rice sample is... OsDEP1 Salt-tolerant genotype; if the genotype of the SNP_9_16415104_T / A locus in the genomic DNA of the rice being tested is T, then the rice being tested is... OsDEP1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_9_16415391_T / A locus in the genomic DNA of the rice sample is T or A. If the genotype of the SNP_9_16415391_T / A locus in the genomic DNA of the rice sample is A, then the rice sample is... OsDEP1 Salt-tolerant genotype; if the genotype of the SNP_9_16415391_T / A locus in the genomic DNA of the rice being tested is T, then the rice being tested is... OsDEP1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_23483992_A / C locus in the genomic DNA of the rice sample is genotype A or C. If the genotype of the SNP_7_23483992_A / C locus in the genomic DNA of the rice sample is genotype C, then the rice sample is... OsBZR1 Salt-tolerant genotype; if the genotype of the SNP_7_23483992_A / C locus in the genomic DNA of the rice being tested is genotype A, then the rice being tested is... OsBZR1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_7_23485303_C / A locus in the genomic DNA of the rice sample is C or A. If the genotype of the SNP_7_23485303_C / A locus in the genomic DNA of the rice sample is A, then the rice sample is... OsBZR1 Salt-tolerant genotype; if the genotype of the SNP_7_23485303_C / A site in the genomic DNA of the rice being tested is genotype C, then the rice being tested is... OsBZR1 Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_6_8725735_G / A locus in the genomic DNA of the rice sample is G or A. If the genotype of the SNP_6_8725735_G / A locus in the rice sample is A, then the rice sample is... RAD23d Salt-tolerant genotype; if the genotype of the SNP_6_8725735_G / A site in the genomic DNA of the rice being tested is G, then the rice being tested is... RAD23d Salt-intolerant genotype; The test involves detecting whether the genotype of the SNP_6_8719282_A / C locus in the genomic DNA of the rice sample is genotype A or C. If the genotype of the SNP_6_8719282_A / C locus in the genomic DNA of the rice sample is genotype C, then the rice sample is... RAD23d Salt-tolerant genotype; if the genotype of the SNP_6_8719282_A / C locus in the genomic DNA of the rice being tested is genotype A, then the rice being tested is... RAD23d Salt-intolerant genotype.

4. A kit for detecting the molecular marker of claim 1, characterized in that, The kit includes the primers described in claim 2.

5. A gene chip, characterized in that, The gene chip includes primers with nucleotide sequences as shown in the sequence listing SEQ ID NO: 1-33.

6. The application of the molecular markers related to rice salt tolerance as described in claim 1 in rice breeding.

7. A method for rice breeding, characterized in that, The detection method according to claim 3 is used to detect rice genes. Ghd7 Ehd1, OsDEP1, OsBZR1, RAD23d Genotype testing was conducted to select those carrying salt tolerance. Ghd7, Ehd1, OsDEP1 OsBZR1、RAD23d The rice samples of different genotypes were then used for subsequent breeding.

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