CN114686616A - Rice stigma exsertion rate main effect QTL-qTSE8, detection primer, kit and application - Google Patents
Rice stigma exsertion rate main effect QTL-qTSE8, detection primer, kit and application Download PDFInfo
- Publication number
- CN114686616A CN114686616A CN202210510256.1A CN202210510256A CN114686616A CN 114686616 A CN114686616 A CN 114686616A CN 202210510256 A CN202210510256 A CN 202210510256A CN 114686616 A CN114686616 A CN 114686616A
- Authority
- CN
- China
- Prior art keywords
- rate
- stigma
- qtse8
- qtl
- rice
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Granted
Links
- 235000007164 Oryza sativa Nutrition 0.000 title claims abstract description 36
- 235000009566 rice Nutrition 0.000 title claims abstract description 36
- 230000000694 effects Effects 0.000 title claims abstract description 19
- 238000001514 detection method Methods 0.000 title claims abstract description 11
- 240000007594 Oryza sativa Species 0.000 title 1
- 241000209094 Oryza Species 0.000 claims abstract description 35
- 210000000349 chromosome Anatomy 0.000 claims abstract description 33
- 239000002773 nucleotide Substances 0.000 claims description 8
- 125000003729 nucleotide group Chemical group 0.000 claims description 8
- 239000000126 substance Substances 0.000 claims description 3
- 238000004519 manufacturing process Methods 0.000 abstract description 6
- 238000009401 outcrossing Methods 0.000 abstract description 6
- 239000003147 molecular marker Substances 0.000 abstract description 4
- 239000003550 marker Substances 0.000 abstract description 2
- 230000000996 additive effect Effects 0.000 description 16
- 230000002146 bilateral effect Effects 0.000 description 12
- 238000004458 analytical method Methods 0.000 description 11
- 239000000654 additive Substances 0.000 description 9
- 238000010219 correlation analysis Methods 0.000 description 8
- 238000012360 testing method Methods 0.000 description 8
- 230000000306 recurrent effect Effects 0.000 description 7
- 238000012098 association analyses Methods 0.000 description 5
- 230000007613 environmental effect Effects 0.000 description 5
- 241000196324 Embryophyta Species 0.000 description 4
- 235000013339 cereals Nutrition 0.000 description 4
- 108090000623 proteins and genes Proteins 0.000 description 4
- 238000011835 investigation Methods 0.000 description 3
- 230000004807 localization Effects 0.000 description 3
- 238000013507 mapping Methods 0.000 description 3
- 238000000034 method Methods 0.000 description 3
- 238000011160 research Methods 0.000 description 3
- 240000002582 Oryza sativa Indica Group Species 0.000 description 2
- 230000009418 agronomic effect Effects 0.000 description 2
- 239000002131 composite material Substances 0.000 description 2
- 238000005034 decoration Methods 0.000 description 2
- 230000002068 genetic effect Effects 0.000 description 2
- 238000012986 modification Methods 0.000 description 2
- 230000004048 modification Effects 0.000 description 2
- 241000746966 Zizania Species 0.000 description 1
- 235000002636 Zizania aquatica Nutrition 0.000 description 1
- 230000009286 beneficial effect Effects 0.000 description 1
- 238000011161 development Methods 0.000 description 1
- 238000002474 experimental method Methods 0.000 description 1
- 238000012215 gene cloning Methods 0.000 description 1
- 230000003993 interaction Effects 0.000 description 1
- 230000001737 promoting effect Effects 0.000 description 1
- 238000000926 separation method Methods 0.000 description 1
- 238000012163 sequencing technique Methods 0.000 description 1
- 230000002195 synergetic effect Effects 0.000 description 1
Images
Classifications
-
- 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
- C12Q1/6895—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for plants, fungi or algae
-
- 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
- C12Q2600/13—Plant traits
-
- 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
- C12Q2600/158—Expression markers
-
- Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
- Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
- Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
- Y02A40/00—Adaptation technologies in agriculture, forestry, livestock or agroalimentary production
- Y02A40/10—Adaptation technologies in agriculture, forestry, livestock or agroalimentary production in agriculture
Landscapes
- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Analytical Chemistry (AREA)
- Engineering & Computer Science (AREA)
- Organic Chemistry (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Health & Medical Sciences (AREA)
- Biotechnology (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Immunology (AREA)
- Mycology (AREA)
- Microbiology (AREA)
- Molecular Biology (AREA)
- Botany (AREA)
- Biophysics (AREA)
- Physics & Mathematics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Abstract
The invention relates to a major QTL-qTSE8 for rice stigma exsertion rate, a detection primer, a kit and application, belonging to the technical field of molecular biology. The invention provides a main effect QTL-qTSE8 for the rice stigma exsertion rate, wherein the main effect QTL-qTSE8 is positioned on the 8 th chromosome and is positioned between linkage markers RM38 and RM 25. The linkage marker is utilized to construct the isogenic line stigma exsertion rate containing the major QTL-qTSE8 of the invention, which obviously improves the stigma exsertion rate of the rice and provides reference for the auxiliary selection of the molecular marker and the improvement of the outcrossing seed setting rate and the seed production yield of the sterile line.
Description
Technical Field
The invention relates to the technical field of molecular biology, in particular to a major QTL-qTSE8 for rice stigma exsertion rate, a detection primer, a kit and application.
Background
As one of the most important grain crops, rice lives more than half of the population of the world, the abundance and shortage of the rice yield directly influence the grain safety and social stability, and the improvement of the grain yield per unit area is always the most important target of breeders. The commercial popularization of hybrid rice greatly promotes the increase of grain yield, and the improvement of seed production capacity plays an important role. The outcrossing performance of the sterile line is a key factor influencing the seed production yield of hybrid rice, and the stigma exposure rate is the most important character for improving the outcrossing performance of the sterile line.
With the development of genomics and molecular markers, different researchers perform related QTL positioning research by utilizing wild rice and cultivated rice or indica-japonica hybrid constructed mapping populations based on linkage analysis or utilizing natural populations of core germplasm based on association analysis, so that over 40 QTL sites for controlling stigma exposure rate are distributed on 12 rice chromosomes, the positioning results are different, and only a small amount of QTL explains more than 10% of phenotypic variation, thereby indicating that the stigma exposure rate is a quantitative character controlled by a micro-effective polygene. The method for improving the rice stigma exposure rate character by using molecular marker-assisted selection is an effective means. Digging a stable and reliable QTL for controlling the stigma exsertion rate, playing an important role in improving the improvement efficiency of the stigma exsertion rate, being beneficial to improving the yield and reducing the cost of hybrid seed production and promoting the commercial popularization and application of hybrid rice.
Disclosure of Invention
The invention aims to provide a rice stigma exsertion rate main effect QTL-qTSE8, a detection primer, a kit and application. The linkage marker is utilized to construct the isogenic line stigma exsertion rate containing the major QTL-qTSE8 of the invention, which obviously improves the stigma exsertion rate of the rice and provides reference for the auxiliary selection of the molecular marker and the improvement of the outcrossing seed setting rate and the seed production yield of the sterile line.
The invention provides a main effect QTL-qTSE8 for the rice stigma exsertion rate, wherein the main effect QTL-qTSE8 is positioned on the 8 th chromosome and is positioned between linkage markers RM38 and RM 25.
The invention also provides a group of primers for detecting the main effect QTL-qTSE8 of the rice stigma exsertion rate, wherein the primers comprise a primer RM38 and a primer RM 25; the nucleotide sequence of the primer of RM38 is shown as SEQ ID NO.1 and SEQ ID NO. 2; the nucleotide sequence of the primer of the RM25 is shown as SEQ ID NO.3 and SEQ ID NO. 4.
The invention also provides a kit for detecting the main effect QTL-qTSE8 of the rice stigma exsertion rate, which comprises the primers and the reaction solution in the technical scheme.
The invention also provides application of the QTL-qTSE8 substance in the technical scheme in cultivation or detection of rice varieties with high stigma exposure rate.
The invention provides a main effect QTL-qTSE8 for the rice stigma exsertion rate. The invention utilizes linkage analysis of the recombinant inbred line and association analysis of natural population to repeatedly identify a main effect QTL site which stably influences the stigma exposure rate on the 8 th chromosome, provides reliable basis for further fine positioning and candidate gene cloning, utilizes linkage markers to construct an isogenic line containing the main effect QTL site, obviously improves the stigma exposure rate, improves the sterile line outcrossing seed setting rate and the seed production yield, and provides reference for molecular marker-assisted selection and improvement of the rice stigma exposure rate and improvement of the sterile line outcrossing seed setting rate. The reliable main effect QTL-qTSE8 positioned by the joint linkage and association analysis strategy has the advantages that the results are verified mutually, the confidence interval is small, and the method can be used as an important candidate section for fine positioning.
Drawings
FIG. 1 shows the result of localization of unilateral stigma exsertion rate of the recombinant inbred line population provided by the present invention;
FIG. 2 is the bilateral stigma exhibition rate positioning result of the recombinant inbred line population provided by the invention;
FIG. 3 is the total stigma exsertion rate positioning result of the recombinant inbred line population provided by the invention;
FIG. 4 is a Manhattan chart of correlation analysis of stigma exsertion rate provided by the present invention.
Detailed Description
The invention provides a rice stigma exsertion rate major QTL-qTSE8, wherein the major QTL-qTSE8 is positioned on chromosome 8 and is positioned between linkage markers RM38 and RM25, and the nucleotide sequence of a primer of RM38 is shown as SEQ ID No.1(ACGAGCTCTCGATCAGCCTA) and SEQ ID No.2 (TCGGTCTCCATGTCCCAC); the nucleotide sequence of the primer of the RM25 is shown as SEQ ID NO.3(GGAAAGAATGATCTTTTCATGG) and SEQ ID NO.4 (CTACCATCAAAACCAATGTTC).
In the embodiment of the invention, 1 set of recombinant inbred line population is utilized, constructed by Zhenshan 97B and IRAT109 and comprises 163 strains, and the stigma exsertion rates of two test sites are subjected to phenotype investigation for three years (including unilateral stigma exsertion rate, bilateral stigma exsertion rate and total stigma exsertion rate). And (3) applying a genetic map constructed in the early stage, taking data of three years as an environmental factor, and performing combined QTL analysis by adopting a composite interval mapping method of a mixed linear model. For the unilateral stigma exposure rate trait, 3 additive QTLs (qSSE1, qSSE2 and qSSE8) were detected in total, located on chromosomes 1, 2 and 8, respectively, accounting for 10.3%, 4.4% and 9.0% phenotypic variation; for bilateral stigma exposure rate traits, 2 additive QTLs (qDSE1 and qDSE8) were detected in total, located on chromosome 1 and chromosome 8, respectively, accounting for phenotypic variation of 4.0% and 4.3%; for the total stigma exposure rate trait, 3 additive QTLs (qTSE1, qTSE2, and qTSE8) were detected in total, located on chromosomes 1, 2, and 8, respectively, accounting for the phenotypic variation of 9.5%, 4.5%, and 10.0%.
The invention also utilizes 138 indica rice subgroups in 1 set of rice core germplasm groups to carry out two-year phenotype investigation on the stigma exsertion rate of two test sites (including unilateral stigma exsertion rate, bilateral stigma exsertion rate and total stigma exsertion rate). SNP genotype data for about 102 ten thousand sites obtained using genome resequencing, with an average of one SNP per 2.7Kb of coverage on the genome. And (3) carrying out whole genome association analysis on the stigma exposure probability by adopting a mixed linear model according to SNP genotype and phenotype information. For the unilateral stigma exsertion rate trait, the same significant association site is located on the 8 th chromosome in two years, and one significant association site is also detected on the 3 rd chromosome in Hainan in 2016; for the bilateral stigma exsertion rate trait, 4 significant association sites are detected on chromosomes 3, 5, 7 and 10 in the Shanghai in 2016, and 12 significant association sites are co-located in Hainan in 2017 and distributed on chromosomes 1, 2, 3, 4, 8, 10, 11 and 12; for the total stigma exsertion rate trait, the same significant association site was located on chromosome 3 and chromosome 8 in two years, and two significant association sites were detected on chromosomes 9 and 11 in Hainan in 2017.
Comparing the two positioning analysis results, finding that the SNP which is detected on the 8 th chromosome and is obviously related to the stigma exsertion rate is positioned in an RM38-RM25 interval, namely, the QTL-qTSE8 interval which is detected on the 8 th chromosome through linkage positioning, and the interval is not reported to be related to the stigma exsertion rate and is a new locus. By utilizing two analysis methods, a new QTL locus which stably influences the stigma exposure rate is repeatedly detected on the 8 th chromosome under different environmental conditions, thereby providing reliable basis for fine positioning and candidate gene analysis of follow-up research.
The invention also provides a group of primers for detecting the main effect QTL-qTSE8 of the rice stigma exsertion rate, wherein the primers comprise a primer RM38 and a primer RM 25; the nucleotide sequence of the primer of RM38 is shown as SEQ ID NO.1 and SEQ ID NO. 2; the nucleotide sequence of the primer of the RM25 is shown as SEQ ID NO.3 and SEQ ID NO. 4.
The invention also provides a kit for detecting the main effect QTL-qTSE8 of the rice stigma exsertion rate, which comprises the primers and the reaction solution in the technical scheme.
The invention also provides application of the QTL-qTSE8 substance in cultivation or detection of rice varieties with high stigma exsertion rate. The invention takes Zhenshan 97B as a donor parent, IRAT109 as a receptor parent and a recurrent parent, utilizes qTSE8 locus linkage markers RM38 and RM25 to select each generation of heterozygous locus single plants to backcross with the recurrent parent IRAT109, backcross is carried out for 4 generations, in BC4F2 population, RM38 and RM25 markers are selected to detect that the band types are consistent with Zhenshan 97B, the single plants with similar agronomic characters to IRAT109 are self-crossed for 5 generations continuously, an isogenic line containing the qTSE8 locus is obtained, the total stigma exposure rate is obviously improved compared with the recurrent parent IRAT109, and the QTL locus is proved to be capable of improving the rice stigma exposure rate and has important significance for auxiliary selection and improvement of the rice stigma exposure rate by molecular markers.
The main effect QTL-qTSE8 for rice stigma exsertion rate, detection primers, kit and application of the present invention are described in further detail with reference to the following specific examples, which include but are not limited to the following examples.
Example 1
1. Zhenshan 97B/IRAT109 recombinant inbred line stigma exposure rate QTL positioning
1.1 expression of stigma exsertion rate of recombinant inbred line population
Three phenotypic surveys of the population of the recombinant inbred line were performed in the summer shanghai of 2016, the spring Hainan of 2017, and the spring Hainan of 2018, respectively. The characters investigated include unilateral stigma exposure rate, bilateral stigma exposure rate and total stigma exposure rate. The parent stigma exsertion rate table has little difference, but the variation range of RIL group is larger, the average value of the stigma exsertion rate in Hainan is higher than that in Shanghai, the stigma exsertion rate shows continuous distribution, and the superparent separation phenomenon is observed (Table 1).
TABLE 1 expression of exposing rate of Zhenshan 97B/IRAT109 RIL group and parental stigma
Correlation analysis of phenotype data of the Hainan investigation in 2018 shows that the unilateral stigma exposure rate, the bilateral stigma exposure rate and the total stigma exposure rate are in extremely obvious positive correlation, wherein the correlation coefficient of the unilateral stigma exposure rate and the total stigma exposure rate is as high as 0.987, and the correlation coefficient of the bilateral stigma exposure rate and the total stigma exposure rate is 0.794, which shows that the unilateral stigma exposure rate has relatively high contribution to the total stigma exposure rate (Table 2).
TABLE 2 RIL group stigma exposure rate trait correlation analysis (2018 Hainan)
**P＝0.01
QTL analysis was performed using QTLNetwork 2.0 software using composite Interval mapping (MCIM) for hybrid Linear models, with environmental factors as variables (Table 3).
For the unilateral stigma exsertion rate character (fig. 1, the unilateral stigma exsertion rate positioning result of the recombinant inbred line group), through replacement test, the F statistic threshold of the additive QTL is 6.7 at the significance level of 5%. 3 additive QTLs were detected together, located on chromosome 1, 2 and 8, accounting for 10.3%, 4.4% and 9.0% phenotypic variation, with the additive effect of the 2 nd stained QTL from parent IRAT109 and the additive effect of the remaining QTLs from parent Zhenshan 97B.
For the bilateral stigma exsertion rate trait (fig. 2, localization result of bilateral stigma exsertion rate of the recombinant inbred line population), through replacement test, the F statistic threshold of the additive QTL is 5.9 at 5% significance level. The total detection of 2 additive QTLs, located on chromosome 1 and 8, accounted for phenotypic variation of 4.0% and 4.3%, additive effect from parent Zhenshan 97B.
For the total stigma exsertion rate trait (fig. 3, total stigma exsertion rate localization result of the recombinant inbred line population), through replacement test, the F statistic threshold of the additive QTL obtained is 6.8 at 5% significance level. 3 additive QTLs were detected together, located on chromosome 1, 2 and 8, accounting for the phenotypic variations of 9.5%, 4.5% and 10.0%, with the additive effect of the 2 nd stained QTL from parent IRAT109 and the additive effect of the remaining QTLs from parent Zhenshan 97B.
TABLE 3 recombinant inbred line stigma exsertion rate QTL location results
Note: additive effect, positive value indicates that the synergistic gene is from Zhenshan 97B; AE1, AE2 and AE 3: the additive effect and the interaction effect of the environmental factors in the 2016 shanghai, 2017 Hainan and 2018 Hainan tests, respectively.
2. Association analysis of stigma exsertion rate of core germplasm group
2.1 core germplasm group stigma exsertion rate Performance
138 indica rice subgroups selected from 270 parts of Chinese rice micro-core germplasm resources and drought-resistant core germplasm resources are used as a correlation analysis group of the test, and two phenotypic surveys are respectively completed in the Shanghai in 2016 summer and in the Hainan in 2017 spring. The variation of the stigma exposure rate of the population is large, the total stigma exposure rate is from 0.5% to 80.5% in the Shanghai in 2016 and from 0.5% to 72.8% in the Hainan in 2017, and is obviously larger than the variation of the recombinant inbred line population, so that the phenotype character of the stigma exposure rate is rich in diversity in the natural population used in the test, has large genetic diversity and is suitable for correlation analysis (Table 4).
TABLE 4 core germplasm group stigma exsertion rate Performance
2.2GWAS analysis
SNP genotype data for about 102 ten thousand sites have been obtained earlier in this experiment by re-sequencing, with an average of one SNP per 2.7Kb overlaid on the genome. Use of SNP molecular markers and phenotypic informationAnd performing whole genome correlation positioning on the stigma exposure rate character by adopting a mixed linear model, and performing P<10-6For the threshold, the results are as follows (table 5, fig. 4, manhattan plot for stigma exposure correlation analysis):
TABLE 5 significant association sites for stigma exsertion rates
Single side column head exposure rate
The same significant association site was located on chromosome 8 in both years, and one was also detected on chromosome 3 in Hainan in 2016.
Bilateral stigma exposure rate
In 2016, 4 significant association sites were detected on 3 rd, 5 th, 7 th and 10 th chromosomes respectively in Shanghai, and in 2017, 12 significant association sites were co-located in Hainan and distributed on 1 st, 2 nd, 3 rd, 4 th, 8 th, 10 th, 11 th and 12 th chromosomes.
Total exposure rate of column cap
The same significant association site was located on chromosome 3 and chromosome 8 in two years, and both sites also affected the unilateral stigma exposure rate, indicating that the total stigma exposure rate is significantly related to the unilateral stigma exposure rate. In 2017 Hainan, two significant association sites were detected on chromosomes 9 and 11.
Coincidence analysis of 3 GWAS associated positioning and linkage QTL positioning results
And comparing the correlation analysis result of the core germplasm group with the linkage positioning result of the recombinant inbred line, and finding that the SNP which is detected on the 8 th chromosome by the correlation analysis and is obviously related to the stigma exsertion rate is positioned in an RM38-RM25 interval, namely QTL-qTSE8 obtained on the 8 th chromosome through linkage positioning. By utilizing two analysis methods, a QTL locus which stably influences the stigma exposure rate is repeatedly detected on the 8 th chromosome under different environmental conditions, thereby providing reliable basis for fine positioning and candidate gene analysis of follow-up research.
4 constructing a near-isogenic line of qTSE8 locus by using linked markers
Using Zhenshan 97B as a donor parent, using IRAT109 as a receptor parent and a recurrent parent, selecting individual plants at heterozygous sites by utilizing qTSE8 site linkage markers RM38 and RM25 for each generation to backcross with the recurrent parent IRAT109, carrying out backcross for 4 generations for selfing, selecting RM38 and RM25 markers in a BC4F2 population to detect that the band types are consistent with Zhenshan 97B, carrying out selfing on the individual plants with agronomic characters similar to the IRAT109, and carrying out continuous selfing for 5 generations to obtain the near-isogenic line containing the TSE8 site. The unilateral stigma exposure rate, the bilateral stigma exposure rate and the total stigma exposure rate of the recurrent parent IRAT109 are respectively 18.6%, 0.3% and 18.9%, the phenotypes of genes containing a qTSE8 locus near isogenic line are respectively 29.4%, 9.5% and 38.9%, and the stigma exposure rate correlation property is remarkably improved compared with that of the recurrent parent.
The foregoing is only a preferred embodiment of the present invention, and it should be noted that, for those skilled in the art, various modifications and decorations can be made without departing from the principle of the present invention, and these modifications and decorations should also be regarded as the protection scope of the present invention.
Sequence listing
<110> Shanghai city agricultural biological gene center
<120> major QTL-qTSE8 for rice stigma exsertion rate, detection primer, kit and application
<160> 4
<170> SIPOSequenceListing 1.0
<210> 1
<211> 20
<212> DNA
<213> Artificial Sequence (Artificial Sequence)
<400> 1
acgagctctc gatcagccta 20
<210> 2
<211> 18
<212> DNA
<213> Artificial Sequence (Artificial Sequence)
<400> 2
tcggtctcca tgtcccac 18
<210> 3
<211> 22
<212> DNA
<213> Artificial Sequence (Artificial Sequence)
<400> 3
ggaaagaatg atcttttcat gg 22
<210> 4
<211> 21
<212> DNA
<213> Artificial Sequence (Artificial Sequence)
<400> 4
ctaccatcaa aaccaatgtt c 21
Claims (4)
1. A rice stigma exsertion rate major QTL-qTSE8, wherein the major QTL-qTSE8 is positioned on chromosome 8 between linkage markers RM38 and RM 25.
2. A group of primers for detecting the main effect QTL-qTSE8 of the rice stigma exsertion rate, which is characterized in that the primers comprise a primer RM38 and a primer RM 25; the nucleotide sequence of the primer of RM38 is shown as SEQ ID NO.1 and SEQ ID NO. 2; the nucleotide sequence of the primer of RM25 is shown in SEQ ID NO.3 and SEQ ID NO. 4.
3. A kit for detecting a main effect QTL-qTSE8 of the rice stigma exsertion rate, which is characterized by comprising the primer and the reaction solution of claim 2.
4. The application of the QTL-qTSE8 substance in the cultivation or detection of rice varieties with high stigma exposure rate is detected.
Priority Applications (1)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| CN202210510256.1A CN114686616B (en) | 2022-05-11 | 2022-05-11 | Rice stigma exposure rate main effect QTL-qTSE8, detection primer, kit and application |
Applications Claiming Priority (1)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| CN202210510256.1A CN114686616B (en) | 2022-05-11 | 2022-05-11 | Rice stigma exposure rate main effect QTL-qTSE8, detection primer, kit and application |
Publications (2)
| Publication Number | Publication Date |
|---|---|
| CN114686616A true CN114686616A (en) | 2022-07-01 |
| CN114686616B CN114686616B (en) | 2023-11-24 |
Family
ID=82144098
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CN202210510256.1A Active CN114686616B (en) | 2022-05-11 | 2022-05-11 | Rice stigma exposure rate main effect QTL-qTSE8, detection primer, kit and application |
Country Status (1)
| Country | Link |
|---|---|
| CN (1) | CN114686616B (en) |
Citations (6)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN101294161A (en) * | 2008-04-22 | 2008-10-29 | 中国水稻研究所 | Numerator mark concatenated with whitebacked planthopper resistance genes of rice, and developing method thereof |
| CN104178560A (en) * | 2013-12-19 | 2014-12-03 | 国家粳稻工程技术研究中心 | Molecular marking method of rice stigma exsertion major QTL sites |
| CN107200775A (en) * | 2017-01-20 | 2017-09-26 | 华中农业大学 | A kind of method for improving Stigma Extrusion of Rice |
| CN107435066A (en) * | 2017-07-13 | 2017-12-05 | 中国水稻研究所 | Stigma Extrusion of Rice main effect QTL and its localization method and application |
| CN109207621A (en) * | 2018-09-30 | 2019-01-15 | 上海市农业生物基因中心 | The molecular labeling and its methods and applications of Stigma Extrusion of Rice gene qSE7 |
| CN114752601A (en) * | 2020-12-29 | 2022-07-15 | 中国科学院分子植物科学卓越创新中心 | Gene for regulating and controlling rice stigma exsertion and application thereof |
-
2022
- 2022-05-11 CN CN202210510256.1A patent/CN114686616B/en active Active
Patent Citations (6)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN101294161A (en) * | 2008-04-22 | 2008-10-29 | 中国水稻研究所 | Numerator mark concatenated with whitebacked planthopper resistance genes of rice, and developing method thereof |
| CN104178560A (en) * | 2013-12-19 | 2014-12-03 | 国家粳稻工程技术研究中心 | Molecular marking method of rice stigma exsertion major QTL sites |
| CN107200775A (en) * | 2017-01-20 | 2017-09-26 | 华中农业大学 | A kind of method for improving Stigma Extrusion of Rice |
| CN107435066A (en) * | 2017-07-13 | 2017-12-05 | 中国水稻研究所 | Stigma Extrusion of Rice main effect QTL and its localization method and application |
| CN109207621A (en) * | 2018-09-30 | 2019-01-15 | 上海市农业生物基因中心 | The molecular labeling and its methods and applications of Stigma Extrusion of Rice gene qSE7 |
| CN114752601A (en) * | 2020-12-29 | 2022-07-15 | 中国科学院分子植物科学卓越创新中心 | Gene for regulating and controlling rice stigma exsertion and application thereof |
Non-Patent Citations (7)
| Title |
|---|
| KEQIN ZHANG等: "qSE7 is a major quantitative trait locus (QTL) influencing stigma exsertion rate in rice (Oryza sativa L.)", SCIENTIFIC REPORTS, vol. 8, no. 1, pages 14523 * |
| 何晓娟等: "水稻柱头外露率主效QTL qTSE4的定位", 南京农业大学学报, vol. 46, no. 2, pages 217 - 225 * |
| 周浩: "基于连锁和关联分析对水稻柱头外露率的研究", 中国博士学位论文全文数据库（电子期刊）农业科技辑, no. 12, pages 047 - 22 * |
| 王明卓等: "野生稻渗入系苗期耐铝QTL定位分析", 江苏农业科学, no. 11, pages 37 * |
| 苏公车: "水稻细胞质雄性不育系育性稳定性和柱头外露率遗传基础研究", 中国优秀硕士学位论文全文数据库（电子期刊）农业科技辑, no. 7, pages 047 - 55 * |
| 苏晓梅: "水稻保持系58B高柱头外露率的QTL定位", 杂交水稻, vol. 35, no. 4, pages 81 - 85 * |
| 邓应德等: "用近等基因池法定位与水稻柱头外露率相关的QTL", 农业现代化研究, no. 2, pages 105 - 108 * |
Also Published As
| Publication number | Publication date |
|---|---|
| CN114686616B (en) | 2023-11-24 |
Similar Documents
| Publication | Publication Date | Title |
|---|---|---|
| Draye et al. | Toward integration of comparative genetic, physical, diversity, and cytomolecular maps for grasses and grains, using the sorghum genome as a foundation | |
| Babu et al. | Integrating marker-assisted selection in crop breeding–prospects and challenges | |
| Hu et al. | Genetics, genomics and breeding of sunflower | |
| US8039686B2 (en) | QTL “mapping as-you-go” | |
| CN106939349B (en) | Primer combination and its application based on KASP technology for rice yield Genotyping | |
| CN102154471B (en) | Molecular marking method for major quantitative trait loci(QTL) for rice grain length | |
| CN110157831B (en) | Molecular marker coseparated with watermelon short vine gene Cldw1 | |
| CN105283069A (en) | Breeding methods for enhanced grain yield and related materials and methods | |
| US20180371483A1 (en) | Molecular markers for low palmitic acid content in sunflower (helianthus annus), and methods of using the same | |
| CN102021235B (en) | Brassica napus L. grain weight major QTLs molecular marker and application thereof | |
| Watanabe et al. | Development of a high-density linkage map and chromosome segment substitution lines for Japanese soybean cultivar Enrei | |
| Sandhu et al. | Development and validation of a novel core set of KASP markers for the traits improving grain yield and adaptability of rice under direct-seeded cultivation conditions | |
| CN109111511A (en) | The breeding method of super long granule rice | |
| CN110004242B (en) | Molecular marker BrSF0239 primer of main QTL sites in flowering phase and mature phase of brassica napus and application thereof | |
| CN115786567B (en) | Semi-dominant corn dwarf related molecular marker and application thereof | |
| CN108624710B (en) | SSR (simple sequence repeat) marker related to cucumber fruit length traits and application thereof | |
| CN113278723B (en) | Composition for analyzing genetic diversity of Chinese cabbage genome segment or genetic diversity introduced in synthetic mustard and application | |
| CN112795693B (en) | Molecular marker related to chlorophyll content of corn leaf and application thereof | |
| CN114686616A (en) | Rice stigma exsertion rate main effect QTL-qTSE8, detection primer, kit and application | |
| CN107988423A (en) | The SNP marker of rice non-transgenic anti-herbicide gene OsALS and its application | |
| CN108103236B (en) | SSR molecular marker tightly linked with maize leafless tongue gene lg1 and application thereof | |
| Li et al. | Identification of quantitative trait loci for important agronomic traits using chromosome segment substitution lines from a japonica× indica cross in rice | |
| CN107058546B (en) | InDel molecular marker of corn embryogenic callus induction related gene GRMZM2G023133 and application | |
| CN111004857A (en) | Molecular marker primer of major QTL (quantitative trait locus) site of soybean branch number and application of molecular marker primer | |
| CN113897352B (en) | Closely linked marker of southern rust resistance gene of corn and application thereof |
Legal Events
| Date | Code | Title | Description |
|---|---|---|---|
| PB01 | Publication | ||
| PB01 | Publication | ||
| SE01 | Entry into force of request for substantive examination | ||
| SE01 | Entry into force of request for substantive examination | ||
| GR01 | Patent grant | ||
| GR01 | Patent grant |