CN111500756A - A05 chromosome main effect QT L locus of brassica napus main inflorescence silique density character, SNP molecular marker and application - Google Patents

A05 chromosome main effect QT L locus of brassica napus main inflorescence silique density character, SNP molecular marker and application Download PDF

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CN111500756A
CN111500756A CN202010115937.9A CN202010115937A CN111500756A CN 111500756 A CN111500756 A CN 111500756A CN 202010115937 A CN202010115937 A CN 202010115937A CN 111500756 A CN111500756 A CN 111500756A
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向阳
杜才富
梁龙兵
唐敏强
秦信蓉
喻时周
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GUIZHOU RAPE INSTITUTE
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Abstract

The invention provides an A05 chromosome main effect QT L site of a cabbage type rape main inflorescence silique density character, which is positioned between 20957390 th base to 21315610 th base of a05 chromosome of the cabbage type rape, preferably, the contribution rate to the cabbage type rape main inflorescence silique density character is 15.36%, the A05 chromosome main effect QT is tightly linked with a first SNP molecular marker, the A20957390 th base is A or G, the mutation causes polymorphism, the A21315610 th base is C or T, the mutation causes polymorphism, the peak SNP molecular marker is tightly linked with a 21171737 th base is C or T, the mutation causes polymorphism, the related SNP molecular marker and application are also provided, the A05 chromosome main effect L site of the invention has high contribution rate to the cabbage type rape main inflorescence silique density character, and plays a key role in regulating and controlling the cabbage type rape main inflorescence silique density, can be used as a mapping and an auxiliary molecular marker, and is suitable for popularization and application.

Description

A05 chromosome main effect QT L locus of brassica napus main inflorescence silique density character, SNP molecular marker and application
Technical Field
The invention relates to the technical field of molecular biology and rape breeding, in particular to the technical field of the density character of a main inflorescence pod of a brassica napus, and specifically relates to a QT L locus of a main effect of an A05 chromosome of the density character of the main inflorescence pod of the brassica napus, an SNP molecular marker and application.
Background
The demand of edible oil in China is rigidly increased at the speed of 100 ten thousand tons per year, and the demand of vegetable oil is estimated to be 3.5-4.0 times of the current domestic production capacity by 2025 years, but the arable land resources in China are continuously reduced, so that the improvement of the unit yield of oil crops is a fundamental way for realizing the increase of the total yield of oil crops. The rape is the first large oil crop in China, the annual sowing area exceeds 1 hundred million acres, the total yield is more than 1500 ten thousand tons, and the rape seed oil accounts for more than 55 percent of the total amount of edible vegetable oil in China. At present, the planting area and the yield of the rape industry in China continuously decline for years, the industrial safety degree declines year by year, and China is the largest oil import country in the world. The yield per unit is improved, the production cost is reduced to promote the income of farmers, and the method is a core measure for promoting the development of the rape industry in China and ensuring the safety of edible vegetable oil supply.
At present, the rape yield level in China is low, and the planting enthusiasm of farmers is influenced. The regional test yield level of the winter rape variety examined by China in 2001-2016 is 2.26-3.75 tons/hm2In between, the test is far lower than that of a new variety in 2013-2015 of Canada by 4.06 tons/hm2The level of yield of (a); in recent years, the yield per unit of rape field production in China is about 1.92 tons/hm2And 3.12 tons/hm in the European Union2Canada of 2.24 tons/hm2. Because the yield per unit of rape is low and the economic benefit is low, the enthusiasm of farmers for rape planting is influenced, and the normal development of the rape industry is restricted. In production, the need of creating new varieties of ultra-high yield rape with a yield level exceeding that of European Union and Canada is high.
The lack of varieties suitable for the whole-process mechanized production causes the production cost to be high. The total rape production cost in China is as high as 640 yuan/mu, wherein the labor input and management is higher than 360 yuan, and the total cost is 60-70%; and the total production cost of the rape in the European Union and Canada is less than 300 yuan/mu, wherein the labor input and management is only 7.5 yuan/mu, and the total cost is about 2.5 percent. The traditional rape varieties are high and large in lodging, branches are scattered and staggered, the maturity is inconsistent, siliques are easy to crack, great difficulty is caused to mechanized harvesting, semi-short-stalk lodging resistance, compact plant types, good maturity consistency and angle cracking resistance are urgently needed in production, and rape varieties suitable for mechanized operation are needed, but at present, mechanized breeding of rape in China just starts, and the production is extremely lack of suitable mechanized varieties.
One of the characteristics of rape varieties suitable for mechanized harvesting is suitable for close planting, under the planting condition of 0.8-1.2 ten thousand plants/mu, the effective silique number of a single plant is a main factor influencing the yield, but under the planting condition of more than 2.6 ten thousand plants/mu, the silique density is the largest factor improving the yield, the silique density is in positive correlation with the yield and is an index of key selection in breeding, QT L mapping analysis shows that the silique density is genetically controlled by QT L s and is mainly controlled by additive effect, crops such as rice, corn and the like have been cloned to genes controlling the impact density, and the research on the silique density of rape is very few.
Therefore, a main effect QT L site for the main inflorescence silique density character of the brassica napus is needed, the contribution rate of the main inflorescence silique density character of the brassica napus is high, the main inflorescence silique density character of the brassica napus plays a key role in regulating and controlling the density of the main inflorescence siliques of the brassica napus, and the main effect QT L site can be used for site-directed cloning and molecular marker assisted selection.
Disclosure of Invention
In order to overcome the defects in the prior art, the invention aims to provide the A05 chromosome main effect QT L locus with the main inflorescence silique density character of the brassica napus, which has high contribution rate to the main inflorescence silique density character of the brassica napus, plays a key role in regulating and controlling the main inflorescence silique density of the brassica napus, can be used for map cloning and molecular marker assisted selection, and is suitable for large-scale popularization and application.
The invention also aims to provide an SNP molecular marker of the main inflorescence silique density character A05 chromosome main effect QT L locus of the brassica napus, which can detect the density of the brassica napus main inflorescence silique, can predict the density of the brassica napus main inflorescence silique, can effectively select the density of the brassica napus main inflorescence silique, can be used for molecular marker assisted breeding of the brassica napus with high main inflorescence silique density, accelerates the breeding process of the brassica napus with high main inflorescence silique density, and is suitable for large-scale popularization and application.
The invention also aims to provide the SNP molecular marker of the main effect QT L locus of the A05 chromosome with the main inflorescence pod density character of the brassica napus, which has the advantages of ingenious design, simple and quick detection, low cost, no environmental influence and suitability for large-scale popularization and application.
The invention also aims to provide application of the SNP molecular marker of the main inflorescence silique density character A05 chromosome main effect QT L locus of the brassica napus, which can be used for detecting the density of the brassica napus main inflorescence silique, predicting the density of the brassica napus main inflorescence silique, effectively selecting the density of the brassica napus main inflorescence silique, and assisting breeding by the molecular marker of the brassica napus with high main inflorescence silique density, accelerating the breeding process of the brassica napus with high main inflorescence silique density, and is suitable for large-scale popularization and application.
The invention also aims to provide application of the SNP molecular marker of the main effect QT L locus of the A05 chromosome with the main inflorescence pod density character of the brassica napus, which has the advantages of ingenious design, simple and quick detection, low cost, no environmental influence and suitability for large-scale popularization and application.
In order to achieve the above object, in a first aspect of the present invention, there is provided a major QT L locus of the a05 chromosome for the main inflorescence silique density trait of brassica napus, wherein the major QT L locus of the a05 chromosome for the main inflorescence silique density trait of brassica napus is located between the 20957390 th and 21315610 th bases of the a05 chromosome of brassica napus.
Preferably, the contribution rate of the A05 chromosome major QT L bit of the brassica napus major inflorescence silique density trait to the brassica napus major inflorescence silique density trait is 15.36%.
Preferably, the A05 chromosome major QT L site of the main inflorescence silique density trait of the Brassica napus is closely linked with a first SNP molecular marker, the first SNP molecular marker is located at 20957390 th base, the 20957390 th base is A or G, and the mutation causes polymorphism.
Preferably, the A05 chromosome major QT L site of the main inflorescence silique density trait of the Brassica napus is closely linked with a second SNP molecular marker, the second SNP molecular marker is located at 21315610 th base, the 21315610 th base is C or T, and the mutation causes polymorphism.
Preferably, the A05 chromosome major QT L site of the main inflorescence silique density trait of the Brassica napus is closely linked with a peak SNP molecular marker, the peak SNP molecular marker is located at 21171737 th base, the 21171737 th base is C or T, and the mutation causes polymorphism.
In a second aspect of the invention, the SNP molecular marker of the main effective QT L locus of the A05 chromosome of the main inflorescence silique density trait of the cabbage type rape is provided, and is characterized in that the SNP molecular marker is located at the 20957390 th base of the A05 chromosome of the cabbage type rape, the 20957390 th base is A or G, and the mutation causes polymorphism.
In a third aspect of the present invention, an application of the SNP molecular marker at the major QT L locus of the a05 chromosome for the major inflorescence silique density trait of brassica napus in molecular marker-assisted breeding for detecting the level of the major inflorescence silique density of brassica napus, predicting the level of the major inflorescence silique density of brassica napus, selecting the level of the major inflorescence silique density of brassica napus, or determining the level of the major inflorescence silique density of brassica napus is provided.
In the fourth aspect of the invention, the SNP molecular marker of the main effective QT L locus of the A05 chromosome of the main inflorescence silique density trait of the cabbage type rape is provided, and is characterized in that the SNP molecular marker is positioned at the 21315610 th base of the A05 chromosome of the cabbage type rape, the 21315610 th base is C or T, and the mutation causes polymorphism.
In the fifth aspect of the present invention, the application of the SNP molecular marker of the major inflorescence silique density trait a05 chromosome major QT L locus described above in molecular marker-assisted breeding for detecting the level of the major inflorescence silique density of brassica napus, predicting the level of the major inflorescence silique density of brassica napus, selecting the level of the major inflorescence silique density of brassica napus, or high-level the major inflorescence silique density of brassica napus is provided.
In the sixth aspect of the invention, the peak SNP molecular marker of the main effect QT L locus of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape is provided, and is characterized in that the peak SNP molecular marker is located at the 21171737 th base of the A05 chromosome of the cabbage type rape, the 21171737 th base is C or T, and the mutation causes polymorphism.
In the seventh aspect of the invention, the application of the peak SNP molecular marker at the main effect QT L locus of the a05 chromosome for the main inflorescence silique density trait of brassica napus in molecular marker-assisted breeding for detecting the main inflorescence silique density of brassica napus, predicting the main inflorescence silique density of brassica napus, selecting the main inflorescence silique density of brassica napus or high-main-inflorescence silique density of brassica napus is provided.
The invention has the following beneficial effects:
1. the A05 chromosome main effect QT L site of the cabbage type rape main inflorescence silique density character is positioned between the 20957390 th base and the 21315610 th base of the A05 chromosome of the cabbage type rape, has high contribution rate to the cabbage type rape main inflorescence silique density character, plays a key role in regulating and controlling the cabbage type rape main inflorescence silique density, can be used for map location cloning and molecular marker assisted selection, and is suitable for large-scale popularization and application.
2. The SNP molecular marker of the main inflorescence silique density character A05 chromosome main effect QT L site of the cabbage type rape comprises an SNP molecular marker of a 20957390 th base of an A05 chromosome of the cabbage type rape, an SNP molecular marker of a 21315610 th base of an A05 chromosome of the cabbage type rape and a peak SNP molecular marker of a 21171737 th base of an A05 chromosome of the cabbage type rape, can detect the density of the main inflorescence silique of the cabbage type rape, can predict the density of the main inflorescence silique of the cabbage type rape, can effectively select the density of the main inflorescence silique of the cabbage type rape, can also be used for molecular marker assisted breeding of the cabbage type rape with high main inflorescence silique density, accelerates the breeding process of the high main inflorescence silique density of the cabbage type rape, and is suitable for large-scale popularization and application.
3. The SNP molecular marker of the main effective QT L locus of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape comprises an SNP molecular marker of a 20957390 th basic group of an A05 chromosome of the cabbage type rape, an SNP molecular marker of a 21315610 th basic group of an A05 chromosome of the cabbage type rape and a peak SNP molecular marker of a 21171737 th basic group of an A05 chromosome of the cabbage type rape.
4. The application of the SNP molecular marker of the main inflorescence silique density trait A05 chromosome main effect QT L locus of the brassica napus comprises the application of the SNP molecular marker of the 20957390 th base of the A05 chromosome of the brassica napus, the application of the SNP molecular marker of the 21315610 th base of the A05 chromosome of the brassica napus and the application of the peak SNP molecular marker of the 21171737 th base of the A05 chromosome of the brassica napus.
5. The application of the SNP molecular marker of the main effective QT L locus of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape comprises the application of the SNP molecular marker of the 20957390 th base of the A05 chromosome of the cabbage type rape, the application of the SNP molecular marker of the 21315610 th base of the A05 chromosome of the cabbage type rape and the application of the peak SNP molecular marker of the 21171737 th base of the A05 chromosome of the cabbage type rape.
These and other objects, features and advantages of the present invention will become more fully apparent from the following detailed description, the accompanying drawings and the claims, and may be realized by means of the instrumentalities, products and combinations particularly pointed out in the appended claims.
Drawings
FIG. 1 is a schematic diagram of the distribution results of the pod density trait of the brassica napus main inflorescence of the present invention.
FIG. 2 is a schematic diagram of allelic analysis by using a peak SNP molecular marker of a main effect QT L locus of A05 chromosome of A05 chromosome of the main inflorescence silique density trait of Brassica napus in the invention.
Detailed Description
The inventor of the invention, through intensive research, firstly discloses an A05 chromosome main effect QT L locus with a cabbage type rape main inflorescence silique density character and an SNP molecular marker thereof, and can effectively and efficiently improve the cabbage type rape high main inflorescence silique density by utilizing the locus.
The main QT L locus of the A05 chromosome with the main inflorescence silique density character of the brassica napus is positioned between the 20957390 th base and the 21315610 th base of the A05 chromosome of the brassica napus.
Preferably, the contribution rate of the A05 chromosome major QT L bit of the brassica napus major inflorescence silique density trait to the brassica napus major inflorescence silique density trait is 15.36%.
Preferably, the A05 chromosome major QT L site of the main inflorescence silique density trait of the Brassica napus is closely linked with a first SNP molecular marker, the first SNP molecular marker is located at 20957390 th base, the 20957390 th base is A or G, and the mutation causes polymorphism.
Preferably, the A05 chromosome major QT L site of the main inflorescence silique density trait of the Brassica napus is closely linked with a second SNP molecular marker, the second SNP molecular marker is located at 21315610 th base, the 21315610 th base is C or T, and the mutation causes polymorphism.
Preferably, the A05 chromosome major QT L site of the main inflorescence silique density trait of the Brassica napus is closely linked with a peak SNP molecular marker, the peak SNP molecular marker is located at 21171737 th base, the 21171737 th base is C or T, and the mutation causes polymorphism.
The SNP molecular marker of the main effective QT L site of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape is also provided, the 20957390 th base is positioned on the A05 chromosome of the cabbage type rape, the 20957390 th base is A or G, and the mutation causes polymorphism, namely the first SNP molecular marker.
Also provides application of the SNP molecular marker of the A05 chromosome major QT L locus of the main inflorescence silique density character of the cabbage type rape in detecting the height of the main inflorescence silique density of the cabbage type rape, predicting the height of the main inflorescence silique density of the cabbage type rape, selecting the height of the main inflorescence silique density of the cabbage type rape or in molecular marker assisted breeding of the cabbage type rape with the high main inflorescence silique density.
The SNP molecular marker of the main effective QT L site of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape is also provided, the 21315610 th base is positioned on the A05 chromosome of the cabbage type rape, the 21315610 th base is C or T, and the mutation causes polymorphism, namely the second SNP molecular marker.
Also provides application of the SNP molecular marker of the A05 chromosome major QT L locus of the main inflorescence silique density character of the cabbage type rape in detecting the height of the main inflorescence silique density of the cabbage type rape, predicting the height of the main inflorescence silique density of the cabbage type rape, selecting the height of the main inflorescence silique density of the cabbage type rape or in molecular marker assisted breeding of the cabbage type rape with the high main inflorescence silique density.
Also provides a peak SNP molecular marker of the main effective QT L site of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape, which is positioned at the 21171737 th base of the A05 chromosome of the cabbage type rape, wherein the 21171737 th base is C or T, and the mutation causes polymorphism.
Also provides application of the peak SNP molecular marker of the main QT L locus of the A05 chromosome of the main inflorescence silique density character of the cabbage type rape in detecting the main inflorescence silique density of the cabbage type rape, predicting the main inflorescence silique density of the cabbage type rape, selecting the main inflorescence silique density of the cabbage type rape or in molecular marker assisted breeding of the cabbage type rape with the high main inflorescence silique density.
The invention will be further illustrated with reference to the following specific examples. It should be understood that these examples are for illustrative purposes only and are not intended to limit the scope of the present invention. The experimental procedures, for which specific conditions are not noted in the following examples, are generally performed according to conventional conditions such as those described in J. SammBruk et al, molecular cloning protocols, third edition, scientific Press, 2002, or according to the manufacturer's recommendations.
Example 1 determination of phenotype of Brassica napus Master inflorescence silique Density traits
1. Determination of dominant inflorescence silique density phenotype of related populations
(1) Carrying out field seed test analysis on the agronomic and quality traits of 627 parts of core germplasm materials (from a seed bank of the oil-vegetable research institute in Guizhou province), and selecting 300 high-generation brassica napus strains from all over the world to form a natural population, wherein the natural population comprises 98 parts of resources, 110 parts of breeding materials and 92 parts of varieties or parents; the method is divided into regions, wherein 246 parts belong to domestic and 54 parts belong to foreign sources. 3-year 2-point phenotype identification is completed on rape bases in Weiyuan village and Changxing town of Kaiyang county in Guiyang city.
(2) Direct seeding and final singling are adopted, the row spacing is 40cm, the plant spacing is 25cm, the row length is 3.5m, and 4 rows are arranged in each cell. And (4) planting protective rows around the test material field.
(3) Density of main inflorescence siliques: after the plants are normally mature, measuring the length of the main inflorescence of 10 cabbage type rape in units of centimeters to be accurate to 0.1cm in each cell, counting the number of effective siliques on the main inflorescence, and then obtaining the density of the main inflorescence siliques in units of per cm by using the number (number) of the effective siliques of the main inflorescence/the length (cm) of the main inflorescence. The tabular values for all environments were averaged for 300 parts of material and the results are summarized as follows:
TABLE 1300 materials average values of Main inflorescence silique Density phenotype values for all environments
Figure BDA0002391492360000071
Figure BDA0002391492360000081
Figure BDA0002391492360000091
The result of the density distribution of the main inflorescence siliques of the associated population shows that the performance distribution of the main inflorescence siliques density character is in continuous distribution, and the main inflorescence siliques density character is proved to be controlled by the major gene locus, which is shown in figure 1.
2. Acquisition of related population high quality SNP data set
The method comprises the following steps of (1) extracting total DNA of leaves by adopting a CTAB method, and extracting the total DNA of the leaves of each material of a related population, wherein the specific method comprises the following steps:
rinsing young leaf blades in 10% ethanol, shearing 0.1-0.2g leaf blades into a bowl, rapidly grinding into powder by liquid nitrogen, placing into a 2m L centrifuge tube, adding 700. mu. L of preheated DNA extract, mixing uniformly, placing in a 65 ℃ water bath for 1h, mixing uniformly every 10-15min for 1 time, adding 700. mu. L mixed solution (phenol: chloroform: isoamyl alcohol: 25: 24: 1), mixing uniformly by gentle inversion for 10min, centrifuging at room temperature for 15min at 10000L g, sucking supernatant into a new 2m L centrifuge tube, adding equal volume (chloroform: isoamyl alcohol: 24: 1), mixing uniformly by inversion for 5min, 3878655 g, centrifuging for 15min, sucking supernatant into a new centrifuge tube with a gun, mixing uniformly, adding 2 volumes of absolute ethanol, standing at-20 ℃ for 1h, 10000 × g, sucking 10min, discarding supernatant, adding 75% ethanol of 500. mu. L, washing supernatant for 2 min, washing precipitate for 2 min, washing supernatant for 2 min, drying after centrifugation for 2 min, adding supernatant into a limited absorbance of RNase 20.1, detecting DNA by ultraviolet light, adding a gel (RNE) and detecting DNA concentration of DNA by a limited light, centrifuging for 5.1: 24: 1min, after electrophoresis for 30 min, detecting the concentration of DNA and 30 μ 1.8 g of DNA, and electrophoresis for 30 min, and detecting DNA concentration of DNA by a gel (30.1.8).
After obtaining high quality DNA according to the description above, a sequencing company (Huada Gene science and technology Co., Ltd.) performs 9 × depth-of-coverage sequencing and returns data, firstly performs sequencing quality evaluation by using FastQC software, then performs adapter and low quality reads filtration on a sequencing sequence to obtain cleardata of double-ended sequencing of each material, then performs mapping and GATK software for mutation detection by using bwa software to obtain a total SNP data set of a related group, performs SNP data set quality filtration according to the minimum allele frequency of more than or equal to 0.05, the deletion rate of less than or equal to 0.1 and the heterozygosity of less than or equal to 0.15, and finally obtains a high quality SNP data set of the group for subsequent analysis.
3. Whole genome association analysis
Using plink software to perform format conversion on a VCF file of the high-quality SNP data set generated in the last step, then using EMMAX software to perform whole-gene association analysis on the obtained main inflorescence silique density phenotype and the SNP data set to obtain a P value of each site of the main inflorescence silique density trait, and when the P value is less than 5 × 10-7The SNP is the obvious SNP, the SNP with the minimum P value is the peak SNP, the materials are grouped by different allele types of the peak SNP in a group, variance analysis is carried out, and the percentage of the ratio of the variance between the groups to the total variance is the contribution rate of the peak SNP.
Through analysis, the interval of the main effect QT L site of the main inflorescence silique density character of the cabbage type rape is limited between 20957390 th base and 21315610 th base of an A05 chromosome of the cabbage type rape, corresponding SNPs are chrA 05-20957390 (A/G), chrA 05-21315610 (C/T), peak SNPs are chrA 05-21171737 (C/T), the contribution rate of the QT L to the main inflorescence silique density character of the cabbage type rape is 15.36% (materials are grouped according to different allele types of the peak SNPs, single-factor analysis of variance is carried out, and the percentage of the variance between groups divided by the total variance is the contribution rate).
The peak SNP of the density character of the main inflorescence silique is as follows: chrA05_21171737(C/T), corresponding to the major inflorescence silique density phenotype grouped as: when the SNP at position chrA05_21171737 is CC, the average main inflorescence silique density of the material is 1.52/cm; at CT, the average main inflorescence silique density of the material is 1.20/cm; at TT, the average major inflorescence silique density of the material was 1.13/cm, as shown in FIG. 2.
One of the border SNPs for the main inflorescence silique density trait is: chrA05_20957390(A/G), the corresponding major inflorescence silique density phenotype was grouped as: when the SNP at position chrA05_20957390 is AA, the average main inflorescence silique density of the material is 1.44/cm; AG, the average main inflorescence silique density of the material is 1.35 per cm; GG showed that the average major inflorescence silique density of the material was 1.13/cm, and the contribution rate of the border SNP was 11.37%.
Another border SNP for the main inflorescence silique density trait is: chrA05_21315610(C/T), corresponding to the major inflorescence silique density phenotype grouped as: when the SNP at position chrA05_21315610 is CC, the average main inflorescence silique density of the material is 1.43/cm; at CT, the average main inflorescence silique density of the material is 1.26/cm; at TT, the average major inflorescence silique density of the material was 1.13/cm, and the contribution rate of this border SNP was 9.04%.
The whole genome sequence of Brassica napus has been published, see http:// www.genoscope.cns.fr/brassicianapus/. The sequences (801 bp in total) of 400bp in front and back of the sequence containing chrA 05-20957390 (A/G) are shown as SEQ ID NO:1, the sequences (801 bp in total) of 400bp in front and back of the sequence containing chrA 05-21315610 (C/T) are shown as SEQ ID NO:2, and the sequences (801 bp in total) of 400bp in front and back of the sequence containing chrA 05-21171737 (C/T) are shown as SEQ ID NO: 3. The technicians in the field can adopt a conventional method to design a specific primer for detecting the SNP locus according to the sequence so as to detect the genotype of the SNP locus, thereby being capable of detecting the density of the siliques of the main inflorescence of the brassica napus, predicting the density of the siliques of the main inflorescence of the brassica napus, effectively selecting the density of the siliques of the main inflorescence of the brassica napus, being also capable of being used for molecular marker assisted breeding of the brassica napus with high density of the siliques, and accelerating the process of the high-density breeding of the siliques of the brassica napus.
Therefore, the invention detects a main QT L site of the main pod silique density character of the brassica napus on a chromosome A05 of the brassica napus through phenotype analysis and whole genome re-sequencing of the main pod silique density character, and the contribution rate to the main pod silique density of the brassica napus is 15.36%, the main QT L site of the main pod silique density character of the brassica napus is positioned between bases 20957390 th to 21315610 th of a chromosome A05 of the brassica napus, the SNP with obvious boundary is chrA05_20957390(A/G), chrA05_21315610(C/T), and the peak SNP is chrA05_21171737(C/T), and the SNP molecular marker tightly linked with the main QT L site can be used for detecting the high or low main pod silique density of the brassica napus, can be used for predicting the high flower density of the main pod silique of the brassica napus, can be used for accelerating the main pod density character marker of the main pod silique and can be used for the auxiliary breeding of the brassica napus.
The SNP molecular marker disclosed by the invention is used for carrying out molecular marker-assisted selection, the identification method is simple, the selection efficiency is high, and the silique density of the main inflorescence of the brassica napus can be predicted. The selection target is clear and is not influenced by the environment. The individual cabbage type rape with high main inflorescence silique density can be identified in the early growth stage of the cabbage type rape, and other individual plants are eliminated.
In conclusion, the A05 chromosome main effect QT L locus of the main inflorescence silique density character of the brassica napus has high contribution rate to the main inflorescence silique density character of the brassica napus, plays a key role in regulating and controlling the main inflorescence silique density of the brassica napus, can be used for map cloning and molecular marker assisted selection, and is suitable for large-scale popularization and application.
It will thus be seen that the objects of the invention have been fully and effectively accomplished. The functional and structural principles of the present invention have been shown and described in the embodiments, and the embodiments may be modified without departing from the principles. Therefore, this invention includes all modifications encompassed within the spirit and scope of the claims.
Figure BDA0002391492360000131
Figure BDA0002391492360000141

Claims (11)

1. A main QT L locus of the A05 chromosome of the main inflorescence silique density character of the brassica napus is characterized in that the main QT L locus of the A05 chromosome of the main inflorescence silique density character of the brassica napus is positioned between the 20957390 th base and the 21315610 th base of the A05 chromosome of the brassica napus.
2. The A05 chromosome major QT L locus for the brassica napus major inflorescence silique density trait of claim 1, wherein the A05 chromosome major QT L locus for the brassica napus major inflorescence silique density trait contributes 15.36%.
3. The A05 chromosome major QT L locus for the brassica napus major inflorescence silique density trait of claim 1, wherein the A05 chromosome major QT L locus for the brassica napus major inflorescence silique density trait is closely linked to a first SNP molecular marker, the first SNP molecular marker is located at the 20957390 th base, the 20957390 th base is A or G, and the mutation causes polymorphism.
4. The A05 chromosome major QT L locus for the brassica napus major silique density trait of claim 1, wherein the A05 chromosome major QT L locus for the brassica napus major silique density trait is closely linked to a second SNP molecular marker, the second SNP molecular marker is located at base 21315610, the base 21315610 is C or T, and the mutation results in polymorphism.
5. The A05 chromosome major QT L locus for the brassica napus major inflorescence silique density trait of claim 1, wherein the A05 chromosome major QT L locus for the brassica napus major inflorescence silique density trait is closely linked to a peak SNP molecular marker, the peak SNP molecular marker is located at base 21171737, the base 21171737 is C or T, and the mutation causes polymorphism.
6. An SNP molecular marker of a main QT L locus of an A05 chromosome of a main inflorescence silique density trait of Brassica napus, which is characterized in that the SNP molecular marker is located at the 20957390 th base of an A05 chromosome of the Brassica napus, the 20957390 th base is A or G, and the mutation causes polymorphism.
7. The application of the SNP molecular marker of A05 chromosome major QT L locus of the main inflorescence silique density trait of Brassica napus as claimed in claim 6 in detection of the main inflorescence silique density of Brassica napus, prediction of the main inflorescence silique density of Brassica napus, selection of the main inflorescence silique density of Brassica napus or molecular marker-assisted breeding of Brassica napus with high main inflorescence silique density.
8. An SNP molecular marker of a main QT L locus of an A05 chromosome of a main inflorescence silique density trait of Brassica napus, which is characterized in that the SNP molecular marker is located at the 21315610 th base of an A05 chromosome of the Brassica napus, the 21315610 th base is C or T, and the mutation causes polymorphism.
9. The application of the SNP molecular marker of A05 chromosome major QT L locus of the main inflorescence silique density trait of Brassica napus according to claim 8 in detection of the main inflorescence silique density of Brassica napus, prediction of the main inflorescence silique density of Brassica napus, selection of the main inflorescence silique density of Brassica napus or molecular marker-assisted breeding of Brassica napus with high main inflorescence silique density.
10. A peak SNP molecular marker of a main QT L locus of an A05 chromosome with a main inflorescence and silique density character of Brassica napus is characterized in that the peak SNP molecular marker is located at the 21171737 th base of the A05 chromosome of the Brassica napus, the 21171737 th base is C or T, and the mutation causes polymorphism.
11. The application of the peak SNP molecular marker of A05 chromosome major QT L locus of the main inflorescence silique density trait of Brassica napus according to claim 10 in detecting the main inflorescence silique density of Brassica napus, predicting the main inflorescence silique density of Brassica napus, selecting the main inflorescence silique density of Brassica napus or molecular marker-assisted breeding of Brassica napus with high main inflorescence silique density.
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