CN112159858B - Molecular marker closely linked with purple cauliflower gene and application thereof - Google Patents

Molecular marker closely linked with purple cauliflower gene and application thereof Download PDF

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CN112159858B
CN112159858B CN202010793938.9A CN202010793938A CN112159858B CN 112159858 B CN112159858 B CN 112159858B CN 202010793938 A CN202010793938 A CN 202010793938A CN 112159858 B CN112159858 B CN 112159858B
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张小丽
孙德岭
单晓政
文正华
刘莉莉
江汉民
姚星伟
牛国保
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Abstract

The invention discloses a molecular marker closely linked with purple genes of cauliflowers and application thereof, wherein the nucleotide sequence of the molecular marker is shown as SEQ ID NO.1 and exists on purple cauliflower No. 6 chromosome. The developed PCR primer for purple cauliflower auxiliary screening has the advantages of codominance, strong specificity, good stability and the like, does not produce non-specific amplification at 60 ℃, and can very accurately detect whether the cauliflower material to be detected is purple. By adopting the primer CaPur-F/CaPur-R to assist in screening the purple cauliflower, a target strain can be rapidly screened out in a seedling stage. Therefore, the marker is adopted for auxiliary selection, so that the target individual plant can be rapidly screened, and the breeding efficiency can be improved.

Description

Molecular marker closely linked with purple cauliflower gene and application thereof
Technical Field
The invention belongs to the technical field of molecular markers, and particularly relates to a molecular marker closely linked with a purple gene of cauliflower and application thereof.
Background
Cauliflower (Brassica oleracea var. botrytis L.) belongs to Brassica cabbage vegetables, and is popular among consumers due to rich nutrition, crisp and tender texture and delicious taste. In recent years, the cultivation area and the consumption are rapidly increased, and the cauliflower is one of the main vegetable types in the vegetable market at home and abroad at present. With the improvement of living standard, the demand of people on high-nutrition and high-quality vegetables is gradually increased, and the variety types are also required to be diversified. Purple cauliflower is a natural variation type of cauliflower with purple ball flower and rich anthocyanin, and anthocyanin is a special organic matter, and is considered by medical and nutriologists to have the effects of resisting oxidation, preventing aging, preventing tumors and the like. As a health-care vegetable, purple cauliflower is more and more favored by people, and a beautiful landscape is added for the dining table. For the breeding workers, the cultivation of purple cauliflower varieties has become one of the important targets of cauliflower breeding. Some purple cauliflower varieties are cultivated at present in China, but the traditional breeding method is time-consuming and labor-consuming, and the efficiency is low. The purple cauliflower resources can be rapidly screened in the seedling stage by using the molecular marker-assisted selection, and breeding workers only need to plant and identify target strains, so that the blindness and the resource waste are reduced, and the breeding process is accelerated. At present, no report about the molecular marker of the purple cauliflower exists, so that the development of the efficient and simple molecular marker for identifying the purple cauliflower is necessary.
Disclosure of Invention
The invention aims to provide a molecular marker closely linked with purple cauliflower genes, which has strong specificity and good stability and can quickly and effectively identify purple cauliflower materials.
In order to achieve the purpose, the invention adopts the following technical scheme:
the molecular marker is closely linked with purple cauliflower gene, the nucleotide sequence of the molecular marker is shown in SEQ ID NO.1, and the molecular marker exists on purple cauliflower No. 6 chromosome.
The molecular marker primer of the molecular marker is as follows:
an upstream primer CaPur-F: 5'-ACCGTATCAGCCGCATTA-3' the flow of the air in the air conditioner,
downstream primer CaPur-R: 5'-AACACCCACAACCCCTCT-3' are provided.
The invention also discloses application of the molecular marker primer in purple cauliflower molecular marker assisted breeding.
The method for identifying whether the material to be detected is purple cauliflower specifically comprises the following steps: PCR amplification is carried out by using a primer CaPur-F, CaPur-R and genome DNA of the detected cauliflower material as a template, if a characteristic strip of 487bp shown as SEQ ID NO.1 can be amplified, the detected material is homozygous or heterozygous purple cauliflower, and if the characteristic strip of 487bp shown as SEQ ID NO.1 does not appear, the detected material is non-purple cauliflower.
And when the cauliflower genotype is SEQ ID No.1/SEQ ID No.1, the cauliflower genotype is a purple homozygous strain; when the cauliflower genotype is SEQ ID No. 1/-it is a purple hybrid; when the cauliflower genotype is-/-, it is a non-purple homozygous strain.
In the above method, the PCR amplification system is: the total volume of PCR reaction is 20 μ L, wherein 10 μmol/L of upstream and downstream primers are 1.0 μ L each, Beijing holotype gold organism
Figure BDA0002629589110000021
PCR SuperMix (cat # AS112-11) 10. mu.L, 40 ng/. mu.L DNA template 4. mu.L, ddH 2 O 4μL。
In the above method, the conditions of the PCR reaction are: pre-denaturation at 94 ℃ for 5 min; denaturation at 94 ℃ for 30s, annealing at 60 ℃ for 30s, extension at 72 ℃ for 1min, and 35 cycles; extending for 5min at 72 ℃; storing at 4 ℃.
In the above method, the agarose gel electrophoresis method comprises: weighing 1.2g of agarose gel, and placing the agarose gel into a triangular conical flask; measuring 100mL of 0.5 xTBE buffer solution, and pouring into the triangular conical flask; heating with microwave oven to melt the agarose gel; cooling to about 50 ℃, adding 5 mu L of nucleic acid dye GoldView, pouring the agarose solution into a gel-making mold, and inserting a comb at a proper position; after about 30 minutes, the gel is solidified, and the agarose gel is taken out and put into an electrophoresis tank; adding the PCR sample into the sample well by using a micro-pipetting gun; switching on a power supply, wherein the voltage is 120V, and the time is about 30 minutes; the gel was photographed and observed in a gel imager.
In the above method or the application of PCR marker detection, the cauliflower may be any one of the following varieties:
JHC-7, JHC-21, Shenliang purple flower No.1, rhododendron, amethyst No.1, JHC-2, JHC-3, JHC-4, JHC-5, JHC-6, JHC-7, JHC-8, Youtong 60, Jinsong 75, Jinpin 56 and Jinpin 70.
In addition, a kit comprising the molecular marker primer pair also falls into the protection scope of the invention.
The invention has the following advantages:
the PCR primer for purple cauliflower auxiliary screening is developed, has the advantages of strong specificity, good stability and the like, does not generate non-specific amplification at 60 ℃, and can very accurately detect whether the cauliflower material to be detected is purple. The primer CaPur-F/CaPur-R provided by the invention is used for carrying out auxiliary screening on purple cauliflowers, and a target strain can be rapidly screened out in a seedling stage. Therefore, the marker is adopted for auxiliary selection, so that hybrid plants can be quickly identified, and the breeding efficiency can be improved.
The invention provides a method for auxiliary screening of purple cauliflower, which is simple and easy to operate, and can judge whether purple cauliflower exists in a plant to be detected only by extracting genomic DNA of the cauliflower to be detected, performing PCR reaction by adopting a primer CaPur-F/CaPur-R and detecting a characteristic strip of a PCR product through agarose gel electrophoresis.
The PCR marker provided by the invention is used for screening purple cauliflower, the operation is simple and easy to implement, the breeding period can be greatly shortened, and the breeding efficiency is improved.
Drawings
FIG. 1 shows the amplification of primers in different cauliflower inbred lines;
in the figure, M: DNA marker; pur1-Pur 5: purple cauliflower is respectively as follows: JHC-7, JHC-21, SHENLIANZI No.1, ZIYUN, ZIJING No. I; wh1-Wh 12: non-purple broccoli material, respectively: JHC-1, JHC-2, JHC-3, JHC-4, JHC-5, JHC-6, JHC-7, JHC-8, you Song 60, jin Song 75, jin Pin 56, jin Pin 70.
Detailed Description
The present invention will be described in detail below with reference to specific examples. These embodiments are provided so that this disclosure will be thorough and complete, and will fully convey the scope of the invention to those skilled in the art.
In the following description and in the claims, the terms "include" and "comprise" are used in an open-ended fashion, and thus should be interpreted to mean "include, but not limited to. The description which follows is a preferred embodiment of the invention, but is made for the purpose of illustrating the general principles of the invention and not for the purpose of limiting the scope of the invention. The scope of the present invention is defined by the appended claims.
The experimental reagents which are not particularly described in the invention are all conventional reagents in the field, or are prepared by adopting conventional methods in the field, can be obtained commercially, and have the specification of laboratory pure grade.
The first, the material that the invention chooses is as follows:
cauliflower material: JHC-7, JHC-21, Shenliang purple flower No.1, rhododendron, amethyst No.1, JHC-2, JHC-3, JHC-4, JHC-5, JHC-6, JHC-7, JHC-8, Youtong 60, Jinsong 75, Jinpin 56 and Jinpin 70.
Wherein the Shenlian purple flower No.1, the Ziyun, the Zijing No. one, the Youkong 60, the Jinsong 75, the Jinpin 56 and the Jinpin 70 are known public varieties; JHC-7, JHC-21, JHC-1, JHC-2, JHC-3, JHC-4, JHC-5, JHC-6, JHC-7, JHC-8 are described in the literature: zhangxiaoli, single dao political affairs, consider macroscopia, etc. evaluation of clubroot resistance in seedling stage of cabbage vegetable species (line), plant protection, 2019, DOI: 10.16688/j.zwbh.2019366.
The above biological materials are stored in the laboratories of the applicant units and can be distributed to the public for verification tests within twenty years from the filing date or can be obtained by the public by purchase.
Secondly, developing markers for auxiliary screening of purple cauliflower materials and specific primers thereof:
marker sequences were derived from genomic or re-sequencing data of purple and non-purple material of broccoli. Wherein the non-purple material "C-8" has a complete genome sequence based on three generations of genome assays (document Sun D, Wang C, Zhang X, et al. draft genome sequence of caluliflower (Brassica oleracea L. var. botrytis) videos new identities inter the C genome in Brassica species. hotspot research, 2019, 6: 82.); selecting JHC-7 as a purple material to perform re-sequencing, and specifically: high-quality genomic DNA of cauliflower is extracted by a CTAB (cetyl triethyl ammonium Bromide) method, the concentration is about 1000 ng/mu L, a library is built by Beijing Nozao Yoghurt scientific and technological corporation, sequencing is carried out on a HiSeq 2500 platform, double-ended reads with about 15Gb are obtained, the double-ended reads are aligned to a 'C-8' reference genome, sequences of purple cauliflower 'JHC-7' and non-purple cauliflower 'C-8' are compared and analyzed, a C06 chromosome is detected, and a sequence with the physical position of 39.9Mb is specific to the purple cauliflower.
Primers were then used to design the following primers using primer 5.0 software:
an upstream primer CaPur-F: 5'-ACCGTATCAGCCGCATTA-3'
Downstream primer CaPur-R: 5'-AACACCCACAACCCCTCT-3'
The primers were according to C06: 39911552 and 39912038bp sequence design, in purple cauliflower, corresponding to 487bp SEQ ID No.1 sequence, in non-purple cauliflower, no SEQ ID No.1 sequence.
Thirdly, the accuracy verification of the PCR primer screening purple cauliflower
Step 1, extracting genomic DNA
Extracting genome DNA of cauliflower JHC-7, JHC-21, Shenlian purple flower No.1, purpura, amethyst No.1, JHC-2, JHC-3, JHC-4, JHC-5, JHC-6, JHC-7, JHC-8, Pinus sylvestris 60, Jinsong 75, Jinfan 56 and Jinfan 70 by CTAB (cetyl triethyl ammonium Bromide).
DNA extraction methods are described in Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. nucleic Acids Res 8: 4321-4325.
Step 2, identifying the amplification condition of the primer CaPur-F/CaPur-R in the cauliflower material
In order to identify the amplification condition of the primers in the cauliflower, purple materials JHC-7, JHC-21, No.1 of Shenlian purple, purple clouds and purple crystal I and non-purple materials are selectedJHC-1, JHC-2, JHC-3, JHC-4, JHC-5, JHC-6, JHC-7, JHC-8, you Song 60, jin Song 75, jin Pin 56, jin Pin 70. And (3) carrying out PCR reaction by using the genome DNA obtained in the step (1) as a template according to the following reaction system and reaction program. The total volume of PCR reaction is 20 μ L, wherein 10 μmol/L of upstream and downstream primers are 1.0 μ L each, Beijing holotype gold organism
Figure BDA0002629589110000071
PCR SuperMix (cat # AS112-11) 10. mu.L, 40 ng/. mu.L template DNA 4. mu.L, ddH-2-O4. mu.L. The conditions of the PCR reaction are as follows: pre-denaturation at 94 ℃ for 5 min; denaturation at 94 ℃ for 30s, annealing at 55 ℃ for 30s, and extension at 72 ℃ for 40s for 35 cycles; extending for 5min at 72 ℃; storing at 4 ℃.
Detecting the amplification product by 1.2% polyacrylamide gel electrophoresis, which comprises the following steps: weighing 1.2g of agarose gel, and placing the agarose gel into a triangular conical flask; measuring 100mL of 0.5 xTBE buffer solution, and pouring into the triangular conical flask; heating with microwave oven to melt the agarose gel; cooling to about 50 ℃, adding 5 mu L of nucleic acid dye GoldView, pouring the agarose solution into a gel-making mold, and inserting a comb at a proper position; after about 30 minutes, the gel is solidified, and the agarose gel is taken out and put into an electrophoresis tank; adding the PCR sample into the spot sample hole by using a micro-pipetting gun; switching on a power supply, wherein the voltage is 120V, and the time is about 30 minutes; the gel was placed in a gel imager to take a photograph and observed, and the results are shown in fig. 1: when the primer CaPur-F/CaPur-R is used for the amplification of the broccoli material, a 487bp characteristic strip appears in all purple materials, and the characteristic strip does not exist in non-purple materials.
The experimental data show that the primer CaOr-F/CaOr-R provided by the invention can accurately identify whether the cauliflower material is purple.
Although the invention has been described in detail above with reference to a general description and specific examples, it will be apparent to one skilled in the art that modifications or improvements may be made thereto based on the invention. Accordingly, such modifications and improvements are intended to be within the scope of the invention as claimed.
Sequence listing
<110> Tianjin Kerun agriculture science & technology GmbH
<120> molecular marker closely linked with purple gene of cauliflower and application thereof
<130> 2010
<160> 1
<170> SIPOSequenceListing 1.0
<210> 1
<211> 487
<212> DNA
<213> Brassica oleracea var. botrytis L.
<400> 1
accgtatcag ccgcattacc atatgccaag agacgaatag cagctgtaca cttttggagt 60
gctgagagac caagcttgcc aagaccatct ggcttttggt gaaagaagtc aacttcgttg 120
gagagtcgat aaacaatgcg catgaacaat ggcttgttca ttcgaaaacg ttgtcggaaa 180
taattttcag gatacgttgg agtctcactg aaataatcat tccataaacg tacattgtct 240
gcttcacgat ttctttcgat ataagctcgt tttttttctt tttttccttc gttcttcttg 300
atcaccatta atggttaatt tctcaaaggt ttgaccaaaa catctctcaa aggcttgatc 360
aaaacattcc tcaaattcat catctagagt gttttgagaa gaagaagcca tatatggtga 420
ttgaaaagaa aagatgagta aagaatgaaa ctttggggtt ttataatcaa gaggggttgt 480
gggtgtt 487

Claims (1)

1. The application of the molecular marker or the molecular marker primer which is closely linked with the purple gene of the cauliflower in the purple cauliflower molecular marker assisted breeding or purple cauliflower identification is characterized in that the nucleotide sequence of the molecular marker is shown as SEQ ID NO.1 and exists on the No. 2 chromosome of the purple cauliflower; the molecular marker primer is as follows:
an upstream primer CaPur-F: 5'-ACCGTATCAGCCGCATTA-3', and the adhesive tape is used for adhering the film to a substrate,
downstream primer CaPur-R: 5'-AACACCCACAACCCCTCT-3', respectively;
PCR amplification is carried out by using a primer CaPur-F, CaPur-R and genome DNA of the detected cauliflower material as a template, and if a 487bp characteristic strip shown as SEQ ID NO.1 can be amplified, the detected material is homozygous or heterozygous purple cauliflower.
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CN113604592B (en) * 2021-07-20 2023-10-27 天津市农业科学院 InDel molecular marker with white cauliflower ball purple character, primer and application thereof
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CN114410829B (en) * 2022-03-17 2023-09-29 天津科润农业科技股份有限公司 Application of molecular marker related to purple cauliflower color in purple cauliflower breeding

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紫花椰菜MYB-TT8-TTG1转录因子调控烟草花青素积累的研究;杜杨梅;《中国优秀博硕士学位论文全文数据库(硕士)基础科学辑》;20180215(第2期);摘要 *

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