WO2021121209A1 - Rice brown-planthopper-resistant gene bph37, and protein, vector, host cell, molecular marker, method and use thereof - Google Patents

Rice brown-planthopper-resistant gene bph37, and protein, vector, host cell, molecular marker, method and use thereof Download PDF

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WO2021121209A1
WO2021121209A1 PCT/CN2020/136427 CN2020136427W WO2021121209A1 WO 2021121209 A1 WO2021121209 A1 WO 2021121209A1 CN 2020136427 W CN2020136427 W CN 2020136427W WO 2021121209 A1 WO2021121209 A1 WO 2021121209A1
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rice
bph37
brown planthopper
gene
resistance gene
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何光存
周聪
杜波
杨远柱
廖翠猛
陈荣智
祝莉莉
秦鹏
王凯
邓钊
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武汉大学
袁隆平农业高科技股份有限公司
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    • C07KPEPTIDES
    • C07K14/00Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/415Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from plants
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    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/63Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/82Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8241Phenotypically and genetically modified plants via recombinant DNA technology
    • C12N15/8261Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield
    • C12N15/8271Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance
    • C12N15/8279Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance for biotic stress resistance, pathogen resistance, disease resistance
    • C12N15/8286Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance for biotic stress resistance, pathogen resistance, disease resistance for insect resistance
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/6895Nucleic 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
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    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/13Plant traits

Definitions

  • the invention belongs to the field of plant genetic engineering, and specifically relates to a rice brown planthopper resistance gene Bph37, protein, vector, host cell, molecular marker, method and application.
  • Rice is an important food crop, and more than half of the world's people eat it as their staple food. As the rice genome has been refined genetic map and physical map, its transgenic technology is relatively easy, and it has collinearity with other grass crop genomes, so it is regarded as a model plant. With the completion of the sequencing of the genomes of a variety of organisms, including rice, humans have begun to enter the post-genome era. The full development of functional genomics research has become a frontier field of life sciences. Therefore, the research on rice functional genes is of great significance to socio-economic development and biological research.
  • brown planthopper has become the largest pest in my country's rice production, and has poses a serious threat to my country's current food security.
  • control of brown planthoppers mainly relied on the application of chemical pesticides. Because brown planthopper outbreaks mostly occur during rice maturity and filling stage, rice plants are growing vigorously at this time, and it is very difficult to apply pesticides to the base of rice plants. In fact, due to the continuous application of large quantities of chemical insecticides, the resistance of brown planthoppers has doubled, and the effect of chemical control is limited. At the same time, the use of chemical insecticides to control brown planthoppers increases the production cost of farmers. On the other hand, chemical insecticides also cause environmental and ecological problems such as poisoning and killing non-target organisms and polluting the environment and food.
  • GWAS Genome-wide association study
  • the GWAS method has unearthed target genes in crop morphological traits, physiological traits, and yield-related traits.
  • the gene LOC_Os01g62780 that controls the days of heading in rice the gene LOC_Os11g08410 that controls the height and ear length of rice, and the tiller number gene NAL1 (Yano et al. 2016, Genome-wide association study using whole-genome sequencing rapidly identifying new genes influencing agronomic Genetics, 48: 927-934), which controls the rice grain type gene OsSPL13 (Si et al. 2016, OsSPL13 controls grain size in cultivated rice. Nature Genetics, 48:447-456).
  • the purpose of the present invention is to provide a rice brown planthopper resistance gene Bph37, protein, carrier, molecular marker, method and application.
  • the invention uses the GWAS method to identify the rice brown planthopper resistance gene Bph37.
  • the susceptible rice showed a phenotype resistant to brown planthopper, confirming the function of this gene.
  • the present invention provides a rice brown planthopper resistance gene Bph37, which is characterized in that the nucleotide sequence of the gene is shown in SEQ ID NO.1.
  • the gene has a full length of 1279 bp, with 1 intron and 2 exons. Its CDS is segment 1-116 bp and 523-1279 bp, respectively, and the full-length cDNA is 873 bp.
  • the cDNA sequence of the gene is shown in SEQ ID NO. 2, which encodes 291 amino acids.
  • the present invention provides a protein encoded by the rice brown planthopper resistance gene Bph37, characterized in that the amino acid sequence of the protein is shown in SEQ ID NO.3.
  • the polynucleotide encoding the above-mentioned protein The sequence is modified. Therefore, the present invention also includes the substitution, addition and/or deletion of one or more nucleotides to the polynucleotide sequence encoding the above-mentioned protein, and the nucleotide sequence having the same function as the above-mentioned encoding protein.
  • the above-mentioned polynucleotide fragment provided by the present invention is operably linked to a homologous or heterologous promoter sequence.
  • the present invention provides a vector containing the above-mentioned rice brown planthopper resistance gene Bph37.
  • the vector includes a cloning vector or an expression vector containing the polynucleotide sequence or a fragment thereof.
  • the solution of the present invention also includes a sense sequence or an antisense sequence based on the polynucleotide, including a cloning vector or expression vector containing the polynucleotide sequence or a fragment thereof, a host cell containing the vector, and the nucleoside Transformed plant cells and transgenic plants of acid sequences or fragments thereof.
  • the present invention provides a host cell containing the above-mentioned rice brown planthopper resistance gene Bph37, characterized in that: the host cell is a plant cell transformed with the nucleotide sequence or a fragment thereof.
  • the present invention provides a transgenic plant transformed with a nucleotide sequence containing the rice brown planthopper resistance gene Bph37 or a fragment thereof as described above.
  • the present invention provides a molecular marker of the rice brown planthopper resistance gene Bph37, characterized in that: the molecular marker is 156-35, and the primer pairs used to amplify the molecular marker 156-35 are as follows:
  • Forward primer 156-35F TTGCTCATGGGTGTGCAGAAG, its sequence is shown in SEQ ID NO.4;
  • Reverse primer 156-35R TTGGGGGTGTCAAAGCCTAC, its sequence is shown in SEQ ID NO.5.
  • the present invention provides a molecular detection method for the rice brown planthopper resistance gene Bph37, which is characterized in that the genomic DNA of the rice to be tested is amplified by the primer pair, and the amplified product is detected: if primers 156-35F and The 825bp amplified fragment from 156-35R indicates the existence of the rice brown planthopper resistance gene Bph37.
  • the present invention provides a method for screening brown planthopper-resistant rice, which is characterized in that the genomic DNA of the rice to be tested is amplified by the above-mentioned primer pair, and the amplified product is detected: if the primers 156-35F and 156-35R are used for amplification
  • the 825bp amplified fragment indicates the existence of resistance to brown planthopper in rice varieties.
  • the present invention provides an application of the above-mentioned molecular marker of the rice brown planthopper resistance gene Bph37 in the breeding of brown planthopper-resistant rice.
  • the scheme of the present invention also covers a method for cultivating plants with brown planthopper resistance, which includes the following steps:
  • the solution of the present invention also covers a method for producing plants with brown planthopper resistance, the method comprising crossing plants with the brown planthopper resistance gene Bph37 with other plants to produce offspring plants with brown planthopper resistance.
  • the plant is a monocotyledonous plant; preferably, the plant is rice.
  • the Bph37 gene is cloned through the following steps:
  • Bph37 gene can be amplified from the brown planthopper-resistant rice genome by designing appropriate PCR primers according to the nucleotide sequence of Bph37 disclosed in the present invention.
  • the overexpression vector was introduced into the normal japonica rice variety Nipponbare, and finally 20 Bph37-positive plants were obtained.
  • T1 generation plants were used for pest resistance identification.
  • the seedling stage was identified by the seedling group method, the control rice Nipponbare all died, the transgenic positive plants survived, and the insect resistance level was 1-5. It is confirmed that Bph37 gene has the function of resisting brown planthopper. Therefore, the rice brown planthopper resistance gene Bph37 can be used in rice or in rice seeds to cultivate rice varieties with resistance to brown planthopper.
  • the present invention successfully cloned rice brown planthopper resistance gene Bph37 by using GWAS.
  • the Bph37 gene cloned in the present invention has obvious resistance to brown planthopper, which is of great significance for comprehensive understanding of the diversity of rice brown planthopper resistance gene types.
  • Bph37 improves the resistance of rice to brown planthoppers. Applying Bph37 to rice breeding through genetic transformation or hybridization can improve the resistance of rice varieties to brown planthoppers, thereby reducing the damage of brown planthoppers, and achieving the purpose of increasing and stabilizing production.
  • Figure 1 shows the geographical distribution of 1520 rice varieties.
  • the picture shows the distribution of 1520 rice varieties in 74 countries around the world; the size of the pie chart is correct Compared with the number of rice varieties from this country; in each pie chart, the area of the different colored sectors is proportional to The number of different types of rice varieties.
  • Figure 2 shows the identification results of 1520 rice varieties for resistance to brown planthopper.
  • the figure shows the histogram of the weight gain rate of brown planthopper feeding on 1520 rice varieties for 48 hours; the abscissa WGR in the figure represents the weight gain rate of brown planthoppers, the ordinate represents the number of rice varieties; the insect source is the brown planthopper biotype I.
  • Figure 3 shows the GWAS results.
  • FIG. 1 The figure shows the Manhattan graph of genome-wide association analysis; each point represents a SNP marker and The degree of association of brown planthopper resistance, the smaller the p-value (the greater the -log 10 (p)), the higher the degree of association with brown planthopper resistance; -The site with log 10 (p) exceeding the threshold of 8 is considered to be a significant associated site; chromosome 6 0.8-1.57Mb is full The region with the highest degree of genome association, -log 10 (p) far exceeds the threshold 8; the model used is EMMAX software Mixed linear model.
  • Figure 4 shows the resistance results of haplotypes A and B to Nilaparvata lugens.
  • haplotypes According to the different forms of peakSNP, 1520 rice materials are divided into two haplotypes, haplotypes
  • the brown planthopper weight gain rate (WGR) of type A is significantly higher than that of haplotype B, that is, haplotype B is more resistant to brown planthopper.
  • Figure 5 shows the results of identification of resistance to brown planthopper in transgenic rice.
  • TN1 is Taichung local No. 1, which is susceptible to brown planthopper Sex
  • 156-13 are Bph37 transgenic negative plants
  • 156-17, 156-15, 156-32 are Bph37 transgenic plants Positive plants.
  • the transgenic positive lines of Bph37 gene all have obvious resistance to brown planthopper.
  • Figure 6 is an example of functional molecular markers 156-35 developed based on the Bph37 genome sequence, and the amplified fragment length is 825bp.
  • SE382 is the insect-resistant parent carrying the rice brown planthopper resistance gene Bph37, Yangdao No. 6 (93-11) It is susceptible rice, F2-1 to F2-11 are susceptible water in F 2 population constructed by crossing SE382 with Yangdao No. 6 Rice, F2-12 to F2-22 are insect-resistant rice in the F 2 population constructed by crossing SE382 with Yangdao No. 6.
  • 1520 rice varieties were obtained, covering 12 types, located in 74 countries around the world ( Figure 1).
  • the resistance of 1520 rice varieties was tested by measuring the body weight of the female adults of the brown planthopper before and after feeding. Eight seeds of each experimental rice variety were sown and grown in a plastic cup (9 ⁇ 15 cm). The resistance test was conducted on rice plants at the five-leaf stage. The newly emerged female adults of the biotype I of the brown planthopper were collected and weighed with an electronic balance (Shimadzu; type: AUW120D). The brown planthopper with an initial body weight of 1.80 ⁇ 2.70 mg was selected for the experiment.
  • Each brown planthopper was put into a 2 ⁇ 2 cm film bag made of parafilm, and then fixed on a rice plant 1 cm from the soil.
  • the brown planthopper feeds on the leaf sheath for 48 hours, and then measures the body weight again to obtain the 48-hour body weight, thereby obtaining the weight gain rate (WGR) of the brown planthopper.
  • WGR weight gain rate
  • the weight gain rate of 12 brown planthoppers was used to indicate the resistance level.
  • the resistance levels of 1520 rice varieties to brown planthoppers showed a left-skewed distribution (Figure 2), that is, more susceptible varieties than insect-resistant varieties.
  • the 3K rice genome data has been published (Li, Z. et al., 2014 The 3,000 rice genomes project. GigaScience 3, 7).
  • primers were designed according to the gene prediction results to amplify a cDNA sequence of the candidate gene. Design primers based on this sequence and use TaKaRa's 5'and 3'Full RACE kits to obtain the 5'end and 3'end sequences of the candidate gene, determine the transcription start site and termination site of the candidate gene, and splice them Get the full-length cDNA sequence of the gene. The primers were re-synthesized according to the full-length cDNA sequence and amplified to obtain the full-length cDNA of Bph37. Its nucleotide sequence is shown in SEQ ID NO. 2 of the sequence list.
  • the forward primer sequence TTGCTCATGGGTGTGCAGAAG is shown in SEQ ID NO.4;
  • the reverse primer sequence TTGGGGGTGTCAAAGCCTAC is shown in SEQ ID NO.5;
  • primers 156-35 can be used to amplify the 825bp amplified fragment, which marks the existence of the rice brown planthopper resistant gene Bph37. Therefore, the use of the above-mentioned molecular marker method provided by the present invention to identify the existence of the Bph37 resistance gene has a very high efficiency, can predict the brown planthopper resistance of rice plants, and accelerate the breeding process of brown planthopper-resistant rice varieties.
  • Bph37 gene overexpression vector The vector used is pCXUN (provided by Professor Wang Guoliang from Ohio State University, USA).
  • the pCXUN vector is digested with XcmI, and the exogenous fragment can be directly connected after adding A.
  • the ORF was directly amplified by PCR, and then connected to the vector after adding A. After the sequencing was verified, the vector obtained was the Bph37 gene overexpression vector, which was transferred into Agrobacterium EHA105. Pick a single clone to expand the culture, and after the PCR verification is correct, add an equal volume of 50% glycerol to mix, and store at -70°C for use.
  • a genetic transformation method mediated by Agrobacterium EHA105 Hiei et al., 1994, Efficient transformation of rice (Oryza sativa L.) mediated by Agrobacterium and sequence analysis of the boundaries of the T-DNA. Plant Journal 6:271-282) will The above-mentioned Bph37 gene over-expression vector is introduced into Nipponbare, a common rice variety susceptible to brown planthopper.
  • Bph37 gene overexpression transformation vector obtained 20 positive transgenic plants. After the seeds were harvested, Bph37 transgenic plants of the T 1 generation were used for pest resistance identification using the seedling group method. As shown in Figure 6, the transgenic negative strain 156-13 and the transgenic positive strain 156-17, 156-15 and 156-32 were identified for resistance to brown planthopper. The identification results are shown in Figure 6. 7 days after the brown planthopper was inserted, the susceptible control variety TN1 all died, the transgenic negative plants withered, and the transgenic positive plants grew healthy without damage to the leaves. The insect resistance level was 2-4, which confirmed Bph37 The gene has the function of resisting brown planthopper. Therefore, the rice brown planthopper resistance gene Bph37 can be used in rice or rice seeds to cultivate rice varieties with resistance to brown planthopper.
  • Brown planthopper resistant parent SE382 (containing rice brown planthopper resistance gene Bph37), brown planthopper susceptible rice variety Yangdao No. 6 (93-11) and F 2 strain constructed by crossing SE382 and Yangdao No. 6.
  • Molecular marker primers 156-35, the nucleotide sequences of which are shown in SEQ ID No. 4-5, respectively.
  • the genomic DNA of rice samples was extracted by CTAB extraction method. Amplify the sample DNA with primers 156-35. 10 ⁇ l system.
  • the 10 ⁇ l reaction system includes: 2 ⁇ Es Taq MasterMix (Dye), 5.0 ⁇ l; ddH 2 O, 3.7 ⁇ l; 10 ⁇ M primer, 0.4 ⁇ l; and 50ng DNA template.
  • the amplification reaction was carried out on the Bioer PCR instrument: 94°C for 3 min; 94°C for 30s, 55°C for 30s, 72°C for 60s, 30 cycles; 72°C for 5 minutes.
  • the amplified products of 156-35 are separated with 1% agarose gel and can be directly analyzed after electrophoresis.

Abstract

Provided are a rice brown-planthopper-resistant gene Bph37, and a protein, a vector, a host cell, a molecular marker, a method and the use thereof. The rice brown-planthopper-resistant gene Bph37 has a nucleotide sequence as shown in SEQ ID NO. 1 and a cDNA sequence as shown in SEQ ID NO. 2. Rice containing the rice brown-planthopper-resistant gene Bph37 can be screened by means of using a molecular marker 156-35. The gene Bph37 is transferred to a common rice variety through genetic transformation, which can improve the resistance of the rice to brown planthoppers, so as to reduce the harm caused by the brown planthoppers and achieve the purposes of increasing the yield and stabilizing the yield.

Description

水稻抗褐飞虱基因Bph37、蛋白、载体、宿主细胞、分子标记、方法及应用Rice brown planthopper resistance gene Bph37, protein, vector, host cell, molecular marker, method and application 技术领域Technical field
本发明属于植物基因工程领域,具体涉及一种水稻抗褐飞虱基因Bph37、蛋白、载体、宿主细胞、分子标记、方法及应用。The invention belongs to the field of plant genetic engineering, and specifically relates to a rice brown planthopper resistance gene Bph37, protein, vector, host cell, molecular marker, method and application.
背景技术Background technique
水稻是一种重要的粮食作物,世界上有超过一半的人以其为主食。由于水稻基因组精细遗传图和物理图谱已完成,其转基因技术相对容易,并且与其它禾本科作物基因组具有共线性,因而被视做模式植物。随着包括水稻在内的多种生物基因组测序的完成,人类开始进入后基因组时代。全面开展功能基因组研究已成为生命科学的前沿领域。因此水稻功能基因的研究对社会经济发展和生物学研究具有重大意义。Rice is an important food crop, and more than half of the world's people eat it as their staple food. As the rice genome has been refined genetic map and physical map, its transgenic technology is relatively easy, and it has collinearity with other grass crop genomes, so it is regarded as a model plant. With the completion of the sequencing of the genomes of a variety of organisms, including rice, humans have begun to enter the post-genome era. The full development of functional genomics research has become a frontier field of life sciences. Therefore, the research on rice functional genes is of great significance to socio-economic development and biological research.
粮食安全问题,是全世界人民面临的挑战。50、60年代的矮化育种和70年代的杂交水稻培育两次科技革命使水稻产量大幅度提高。矮化高产水稻的推广导致飞虱为害开始严重起来。尤其是进入21世纪整个亚洲水稻产区飞虱爆发的频率和规模有逐渐扩大的趋势,目前已经成为了水稻生产上最大的威胁。我国每年褐飞虱发生面积3.87亿亩次,尽管全力防治,仍损失稻谷120万吨,人民币35.8亿元,约占水稻病虫害总损失的30%,是水稻生产中的头号害虫。Food security is a challenge facing people all over the world. The two technological revolutions of dwarf breeding in the 1950s and 1960s and hybrid rice breeding in the 1970s have greatly increased rice production. The promotion of dwarfing and high-yielding rice caused planthopper damage to become serious. Especially in the 21st century, the frequency and scale of planthopper outbreaks in the entire Asian rice-producing areas have gradually expanded, and they have become the biggest threat to rice production. my country’s annual brown planthopper occurrence area is 387 million acres. Despite the full prevention and control, it still loses 1.2 million tons of rice, which is 3.58 billion yuan, accounting for about 30% of the total loss of rice pests and diseases. It is the number one pest in rice production.
目前,褐飞虱已经成为我国水稻生产中的第一大虫害,对我国当前粮食安全已形成严重威胁。长期以来,褐飞虱的防治主要是依靠施用化学杀虫剂。由于褐飞虱爆发多发生在水稻成熟灌浆期,此时稻株长势旺盛,将杀虫剂施到稻株基部的操作非常困难。事实上由于化学杀虫剂的连年大量施用,褐飞虱抗药性成倍增 加,使药剂防治的效果有限。同时使用化学杀虫剂防治褐飞虱,一方面增加了农民的生产成本,另一方面化学杀虫剂还造成对非目标生物的毒杀、对环境和粮食污染等环境和生态问题。At present, the brown planthopper has become the largest pest in my country's rice production, and has poses a serious threat to my country's current food security. For a long time, the control of brown planthoppers mainly relied on the application of chemical pesticides. Because brown planthopper outbreaks mostly occur during rice maturity and filling stage, rice plants are growing vigorously at this time, and it is very difficult to apply pesticides to the base of rice plants. In fact, due to the continuous application of large quantities of chemical insecticides, the resistance of brown planthoppers has doubled, and the effect of chemical control is limited. At the same time, the use of chemical insecticides to control brown planthoppers increases the production cost of farmers. On the other hand, chemical insecticides also cause environmental and ecological problems such as poisoning and killing non-target organisms and polluting the environment and food.
利用抗褐飞虱基因培育抗虫水稻品种是褐飞虱综合防治中最为经济有效的方法。国际水稻研究所(IRRI)的研究结果和东南亚的水稻生产实践证明,即使是只有中等抗性水平的水稻品种,也足以将褐飞虱的群体控制在造成危害的水平以下,不至于对水稻造成实际的危害和产量损失。因此,挖掘水稻抗褐飞虱基因并在水稻育种项目中应用是防治水稻褐飞虱的根本措施。Breeding insect-resistant rice varieties with brown planthopper resistance genes is the most economical and effective method in the comprehensive control of brown planthoppers. The research results of the International Rice Research Institute (IRRI) and the practice of rice production in Southeast Asia have proved that even rice varieties with only moderate resistance levels are sufficient to control the population of brown planthoppers below the level that causes damage, and will not cause actual damage to rice. Harm and yield loss. Therefore, mining rice brown planthopper resistance genes and applying them in rice breeding projects is a fundamental measure to prevent rice brown planthoppers.
水稻抗褐飞虱基因的研究始于上世纪70年代初。至今已经在普通栽培稻和野生稻资源中鉴定和定位了三十多个水稻抗褐飞虱的主效抗虫基因(具体见Hu等,2018.Identification and fine mapping of Bph33,a new brown planthopper resistance gene in rice(Oryza sativa L.).Rice 2018,11:55)。8个基因(Bph14,Bph26,Bph3,Bph29,Bph9,Bph18,Bph32和Bph6)已经被克隆,这些基因都是利用图位克隆法得到(Du et al.,2009;Tamura et al.2014;Liu et al.2014;Wang et al.2015b;Zhao et al.2016;Ji et al.2016;Ren et al.2016;Guo et al.2018)。The research on rice brown planthopper resistance genes began in the early 1970s. So far, more than 30 major insect resistance genes for rice brown planthopper resistance have been identified and located in common cultivated rice and wild rice resources (see Hu et al., 2018. Identification and fine mapping of Bph33, a new brown planthopper resistance gene in rice(Oryza sativa L.).Rice 2018,11:55). Eight genes (Bph14, Bph26, Bph3, Bph29, Bph9, Bph18, Bph32, and Bph6) have been cloned. These genes are all obtained by map-based cloning (Du et al., 2009; Tamura et al. 2014; Liu et al. al. 2014; Wang et al. 2015b; Zhao et al. 2016; Ji et al. 2016; Ren et al. 2016; Guo et al. 2018).
全基因组关联分析(Genome-wide association study,GWAS)最早应用于人类疾病的遗传分析。近年来,随着基因组技术的快速发展,特别是测序技术手段的提高,许多动植物的全基因组测序已经完成,GWAS成为研究作物复杂性状的有力工具。与传统的图位克隆发掘基因相比,关联分析法具有无需构建专门的作图群体、节省时间,可实现精细定位等优点。同时,GWAS突破了图位克隆法一般适合于较小基因组物种的局限,只需全基因组SNPs标记和表型性状即可。近几年,GWAS分析方法也得到较快的发展。我国科学家和国际同行的研究结果表 明,GWAS方法在作物形态性状、生理性状和产量相关性状等方面均发掘到目的基因。例如,控制水稻抽穗天数的基因LOC_Os01g62780、控制水稻株高和穗长基因LOC_Os11g08410以及分蘖数基因NAL1(Yano等2016,Genome-wide association study using whole-genome sequencing rapidly identifies new genes influencing agronomic traits in rice.Nature Genetics,48:927-934),控制水稻粒型基因OsSPL13(Si等2016,OsSPL13 controls grain size in cultivated rice.Nature Genetics,48:447-456)。Genome-wide association study (GWAS) was first applied to the genetic analysis of human diseases. In recent years, with the rapid development of genome technology, especially the improvement of sequencing technology, the whole genome sequencing of many plants and animals has been completed. GWAS has become a powerful tool for studying the complex traits of crops. Compared with the traditional map-based cloning to discover genes, the association analysis method has the advantages of not needing to construct a special mapping population, saving time, and achieving fine positioning. At the same time, GWAS breaks through the limitations of map-based cloning that is generally suitable for smaller genome species, and only requires genome-wide SNPs markers and phenotypic traits. In recent years, GWAS analysis methods have also developed rapidly. The research results of Chinese scientists and international colleagues show that the GWAS method has unearthed target genes in crop morphological traits, physiological traits, and yield-related traits. For example, the gene LOC_Os01g62780 that controls the days of heading in rice, the gene LOC_Os11g08410 that controls the height and ear length of rice, and the tiller number gene NAL1 (Yano et al. 2016, Genome-wide association study using whole-genome sequencing rapidly identifying new genes influencing agronomic Genetics, 48: 927-934), which controls the rice grain type gene OsSPL13 (Si et al. 2016, OsSPL13 controls grain size in cultivated rice. Nature Genetics, 48:447-456).
发明内容Summary of the invention
本发明的目的在于提供一种水稻抗褐飞虱基因Bph37、蛋白、载体、分子标记、方法及应用。本发明利用GWAS的方法,鉴定到水稻抗褐飞虱基因Bph37。通过遗传转化Bph37基因,使感性水稻出现抗褐飞虱的表型,证实了该基因的功能。The purpose of the present invention is to provide a rice brown planthopper resistance gene Bph37, protein, carrier, molecular marker, method and application. The invention uses the GWAS method to identify the rice brown planthopper resistance gene Bph37. By genetically transforming the Bph37 gene, the susceptible rice showed a phenotype resistant to brown planthopper, confirming the function of this gene.
为实现上述目的,本发明的技术方案如下:In order to achieve the above objective, the technical solution of the present invention is as follows:
第一方面,本发明提供一种水稻抗褐飞虱基因Bph37,其特征在于:所述基因的核苷酸序列如SEQ ID NO.1所示。该基因全长1279bp,具有1个内含子和2个外显子,其CDS分别为区段1-116bp和523-1279bp,cDNA全长873bp。In the first aspect, the present invention provides a rice brown planthopper resistance gene Bph37, which is characterized in that the nucleotide sequence of the gene is shown in SEQ ID NO.1. The gene has a full length of 1279 bp, with 1 intron and 2 exons. Its CDS is segment 1-116 bp and 523-1279 bp, respectively, and the full-length cDNA is 873 bp.
作为优选方案,所述基因的cDNA序列如SEQ ID NO.2所示,编码291个氨基酸。As a preferred solution, the cDNA sequence of the gene is shown in SEQ ID NO. 2, which encodes 291 amino acids.
第二方面,本发明提供一种如上述水稻抗褐飞虱基因Bph37编码的蛋白,其特征在于:所述蛋白的氨基酸序列如SEQ ID NO.3所示。In the second aspect, the present invention provides a protein encoded by the rice brown planthopper resistance gene Bph37, characterized in that the amino acid sequence of the protein is shown in SEQ ID NO.3.
应当理解,在不影响BPH37蛋白活性的前提下(即不在蛋白的活性中心), 本领域技术人员可对SEQ ID NO.3所示的氨基酸序列进行各种取代、添加和/或缺失一个或几个氨基酸获得具有同等功能的氨基酸序列。It should be understood that without affecting the activity of the BPH37 protein (that is, not in the active center of the protein), those skilled in the art can make various substitutions, additions and/or deletions of one or more of the amino acid sequences shown in SEQ ID NO.3. Amino acids obtain an amino acid sequence with the same function.
此外,考虑到密码子的简并性,例如可在其编码区,在不改变氨基酸序列的条件下,或在其非编码区在不影响蛋白表达的条件下,对编码上述蛋白的多核苷酸序列进行修改。因此,本发明还包含对编码上述蛋白的多核苷酸序列进行的替换、添加和/或缺失一个或多个核苷酸,具有与上述编码具有形同功能蛋白的核苷酸序列。In addition, considering the degeneracy of codons, for example, in its coding region, without changing the amino acid sequence, or in its non-coding region without affecting protein expression, the polynucleotide encoding the above-mentioned protein The sequence is modified. Therefore, the present invention also includes the substitution, addition and/or deletion of one or more nucleotides to the polynucleotide sequence encoding the above-mentioned protein, and the nucleotide sequence having the same function as the above-mentioned encoding protein.
本发明提供的上述多核苷酸片段其与一个同源或异源启动子序列可操纵地连接。The above-mentioned polynucleotide fragment provided by the present invention is operably linked to a homologous or heterologous promoter sequence.
第三方面,本发明提供一种含有上述水稻抗褐飞虱基因Bph37的载体。所述载体包括含有所述多核苷酸序列或其片段的克隆载体或表达载体。In the third aspect, the present invention provides a vector containing the above-mentioned rice brown planthopper resistance gene Bph37. The vector includes a cloning vector or an expression vector containing the polynucleotide sequence or a fragment thereof.
本发明方案还包括基于所述多核苷酸的正义序列或反义序列,包括含有所述多核苷酸序列或其片段的克隆载体或表达载体、含有所述载体的宿主细胞、含有所述核苷酸序列或其片段的转化的植物细胞和转基因植物。The solution of the present invention also includes a sense sequence or an antisense sequence based on the polynucleotide, including a cloning vector or expression vector containing the polynucleotide sequence or a fragment thereof, a host cell containing the vector, and the nucleoside Transformed plant cells and transgenic plants of acid sequences or fragments thereof.
第四方面,本发明提供一种含有上述水稻抗褐飞虱基因Bph37的宿主细胞,其特征在:所述宿主细胞为含有所述核苷酸序列或其片段转化的植物细胞。In a fourth aspect, the present invention provides a host cell containing the above-mentioned rice brown planthopper resistance gene Bph37, characterized in that: the host cell is a plant cell transformed with the nucleotide sequence or a fragment thereof.
第五方面,本发明提供一种含有如上述含有水稻抗褐飞虱基因Bph37的核苷酸序列或其片段转化的转基因植物。In the fifth aspect, the present invention provides a transgenic plant transformed with a nucleotide sequence containing the rice brown planthopper resistance gene Bph37 or a fragment thereof as described above.
第六方面,本发明提供一种如上述水稻抗褐飞虱基因Bph37的分子标记,其特征在于:所述分子标记为156-35,用于扩增分子标记156-35的引物对如下:In a sixth aspect, the present invention provides a molecular marker of the rice brown planthopper resistance gene Bph37, characterized in that: the molecular marker is 156-35, and the primer pairs used to amplify the molecular marker 156-35 are as follows:
正向引物156-35F:TTGCTCATGGGTGTGCAGAAG,其序列如SEQ ID NO.4所示;Forward primer 156-35F: TTGCTCATGGGTGTGCAGAAG, its sequence is shown in SEQ ID NO.4;
反向引物156-35R:TTGGGGGTGTCAAAGCCTAC,其序列如SEQ ID NO.5所示。Reverse primer 156-35R: TTGGGGGTGTCAAAGCCTAC, its sequence is shown in SEQ ID NO.5.
第七方面,本发明提供一种如上述水稻抗褐飞虱基因Bph37的分子检测方法,其特征在于:通过上述引物对扩增待检水稻基因组DNA,并检测扩增产物:若利用引物156-35F和156-35R扩增出825bp的扩增片段,则标志着水稻抗褐飞虱基因Bph37的存在。In the seventh aspect, the present invention provides a molecular detection method for the rice brown planthopper resistance gene Bph37, which is characterized in that the genomic DNA of the rice to be tested is amplified by the primer pair, and the amplified product is detected: if primers 156-35F and The 825bp amplified fragment from 156-35R indicates the existence of the rice brown planthopper resistance gene Bph37.
第八方面,本发明提供一种筛选抗褐飞虱水稻的方法,其特征在于:通过上述引物对扩增待检水稻基因组DNA,并检测扩增产物:若利用引物156-35F和156-35R扩增出825bp的扩增片段,则标志着水稻品种褐飞虱抗性的存在。In an eighth aspect, the present invention provides a method for screening brown planthopper-resistant rice, which is characterized in that the genomic DNA of the rice to be tested is amplified by the above-mentioned primer pair, and the amplified product is detected: if the primers 156-35F and 156-35R are used for amplification The 825bp amplified fragment indicates the existence of resistance to brown planthopper in rice varieties.
第九方面,本发明提供一种如上述水稻抗褐飞虱基因Bph37的分子标记在选育抗褐飞虱水稻中的应用。In a ninth aspect, the present invention provides an application of the above-mentioned molecular marker of the rice brown planthopper resistance gene Bph37 in the breeding of brown planthopper-resistant rice.
同时,本发明的方案中还涵盖培育具有褐飞虱抗性的植物的方法,包括如下步骤:At the same time, the scheme of the present invention also covers a method for cultivating plants with brown planthopper resistance, which includes the following steps:
1)用多核苷酸转化植物细胞;所述多核苷酸含有水稻抗褐飞虱Bph37基因,其核苷酸序列如SEQ ID NO.1或SEQ ID NO.2所示;1) Transform plant cells with a polynucleotide; the polynucleotide contains the rice brown planthopper resistance Bph37 gene, and its nucleotide sequence is shown in SEQ ID NO. 1 or SEQ ID NO. 2;
2)将被转化的植物细胞再生为植物;2) Regenerate the transformed plant cells into plants;
3)培养再生的植物并使上述多核苷酸得到表达。3) Cultivating the regenerated plant and expressing the above-mentioned polynucleotide.
本发明的方案中还涵盖产生具有褐飞虱抗性的植物的方法,所述方法包括将具有褐飞虱抗性基因Bph37的植物与其他植物杂交产生具有褐飞虱抗性的子代植物。其中所述植物是单子叶植物;优选地,所述植物是水稻。The solution of the present invention also covers a method for producing plants with brown planthopper resistance, the method comprising crossing plants with the brown planthopper resistance gene Bph37 with other plants to produce offspring plants with brown planthopper resistance. Wherein the plant is a monocotyledonous plant; preferably, the plant is rice.
本领域技术人员应能理解,根据本发明公开的序列来设计或产生分子标记可用于抗褐飞虱水稻的选育工作。Those skilled in the art should be able to understand that the design or production of molecular markers based on the sequences disclosed in the present invention can be used in the breeding of brown planthopper-resistant rice.
本发明通过如下步骤克隆得到Bph37基因:In the present invention, the Bph37 gene is cloned through the following steps:
(1)收集水稻自然群体。来自全球74个国家、12种类型的1520份水稻品种,作为水稻抗褐飞虱基因定位群体。(1) Collect natural populations of rice. 1520 rice varieties from 74 countries and 12 types are used as a genetic mapping group for rice brown planthopper resistance.
(2)抗褐飞虱鉴定。褐飞虱体重增加率鉴定定位群体的抗褐飞虱性能。每份材料大约8粒种子,播种在一个塑料杯(10×15cm)中。5叶期时,将一头刚羽化雌虫用万分之一电子天平称取初始体重,然后放入封口膜制作的蜡袋(2×2cm)中,并固定在叶鞘上,48h后称取褐飞虱体重,计算增重率,每份材料重复12次实验。去除体重增加率极值后的平均值作为每份水稻品种对褐飞虱的抗性值。(2) Identification of resistance to brown planthopper. The weight gain rate of brown planthopper was used to identify the anti-brown planthopper performance of the localized population. Approximately 8 seeds per material are sown in a plastic cup (10×15 cm). At the five-leaf stage, weigh the initial weight of a newly emerging female with a 1/10,000 electronic balance, then put it into a wax bag (2×2cm) made of sealing film, and fix it on the leaf sheath, weigh the brown planthopper after 48 hours Weight, calculate the weight gain rate, repeat the experiment 12 times for each material. The average value after removing the extreme value of weight gain rate was used as the resistance value of each rice variety to brown planthopper.
(3)水稻抗褐飞虱基因定位。应用EMMAX软件的混合线性模型,检测到第6号染色体0.81-1.57M存在显著关联位点。(3) Mapping of rice brown planthopper resistance genes. Using the mixed linear model of EMMAX software, it is detected that there are significant association sites on chromosome 6 0.81-1.57M.
(4)候选基因确定。根据日本晴参考基因组在0.81-1.57Mb区间内候选基因的基因功能注释,选定NBS-LRR基因,即LOC_Os06g03500作为候选基因。(4) Confirmation of candidate genes. According to the gene function annotations of candidate genes in the 0.81-1.57Mb interval of Nipponbare reference genome, the NBS-LRR gene, namely LOC_Os06g03500, was selected as the candidate gene.
(5)抗褐飞虱材料选择。根据关联区域的peak SNP,将1520份材料分成单倍型A和单倍型B。单倍型B的材料对褐飞虱抗性显著高于单倍型A的材料。选择单倍型B中的SE382作为扩增LOC_Os06g03500的材料。(5) Selection of anti-brown planthopper materials. According to the peak SNP of the relevant area, 1520 materials are divided into haplotype A and haplotype B. The resistance of haplotype B materials to brown planthopper is significantly higher than that of haplotype A materials. SE382 in haplotype B was selected as the material for amplification of LOC_Os06g03500.
(6)全长cDNA克隆。根据预测的cDNA序列设计引物,从抗褐飞虱水稻SE382的cDNA中扩得310bp片段,以该段序列设计引物,通过RACE(cDNA末端快速扩增技术)得到了cDNA的3’端和5’端序列,最终获得Bph37的全长cDNA。(6) Full-length cDNA clone. Primers were designed according to the predicted cDNA sequence, and a 310bp fragment was amplified from the cDNA of brown planthopper resistant rice SE382. The primers were designed with this sequence, and the 3'end and 5'end sequences of the cDNA were obtained by RACE (rapid amplification of cDNA ends). Finally, the full-length cDNA of Bph37 was obtained.
然而,本领域技术人员应当理解,根据本发明公开的Bph37的核苷酸序列,通过设计恰当的PCR引物,即可从抗褐飞虱水稻基因组中扩增得到Bph37基因。However, those skilled in the art should understand that the Bph37 gene can be amplified from the brown planthopper-resistant rice genome by designing appropriate PCR primers according to the nucleotide sequence of Bph37 disclosed in the present invention.
(7)遗传转化Bph37基因验证其功能。根据Bph37基因的ORF序列,用 PCR的方法扩增出含有Bph37基因的ORF的873bp的片段经加A后连入经XcmI酶切的pCXUN载体内。测序验证无误后,所得载体即为Bph37基因遗传转化载体,将其转入农杆菌EHA105中。(7) Genetic transformation of Bph37 gene to verify its function. According to the ORF sequence of the Bph37 gene, PCR was used to amplify the 873bp fragment containing the ORF of the Bph37 gene. After adding A, it was connected to the pCXUN vector digested with XcmI. After the sequencing verification is correct, the obtained vector is the Bph37 gene genetic transformation vector, which is transferred into Agrobacterium EHA105.
采用农杆菌EHA105介导的遗传转化方法,将过表达载体导入正常粳稻品种Nipponbare中,最后获得Bph37阳性植株20株。先用T1代的植株进行了抗虫鉴定。苗期采用苗期集团法鉴定,对照水稻Nipponbare全部死亡,转基因阳性植株存活,抗虫级别为1-5级。证实Bph37基因具有抗褐飞虱的功能。因此,水稻抗褐飞虱基因Bph37可以在水稻中应用也可以在水稻种子中应用,培育具有抗褐飞虱性能的水稻品种。Using the genetic transformation method mediated by Agrobacterium EHA105, the overexpression vector was introduced into the normal japonica rice variety Nipponbare, and finally 20 Bph37-positive plants were obtained. First, T1 generation plants were used for pest resistance identification. The seedling stage was identified by the seedling group method, the control rice Nipponbare all died, the transgenic positive plants survived, and the insect resistance level was 1-5. It is confirmed that Bph37 gene has the function of resisting brown planthopper. Therefore, the rice brown planthopper resistance gene Bph37 can be used in rice or in rice seeds to cultivate rice varieties with resistance to brown planthopper.
本发明的优点和效果:Advantages and effects of the present invention:
(1)本发明利用GWAS成功克隆了水稻抗褐飞虱基因Bph37。(1) The present invention successfully cloned rice brown planthopper resistance gene Bph37 by using GWAS.
(2)本发明克隆的Bph37基因具有明显的抗褐飞虱性能,这对全面理解水稻抗褐飞虱基因类型的多样性有重要意义。(2) The Bph37 gene cloned in the present invention has obvious resistance to brown planthopper, which is of great significance for comprehensive understanding of the diversity of rice brown planthopper resistance gene types.
(3)Bph37使水稻抗褐飞虱性能提高,通过遗传转化或杂交将Bph37应用于水稻育种中,可以改善水稻品种的抗褐飞虱性,从而减轻褐飞虱的为害,达到增产和稳产的目的。(3) Bph37 improves the resistance of rice to brown planthoppers. Applying Bph37 to rice breeding through genetic transformation or hybridization can improve the resistance of rice varieties to brown planthoppers, thereby reducing the damage of brown planthoppers, and achieving the purpose of increasing and stabilizing production.
(4)刺吸式昆虫是农业生产中的一大类虫害,Bph37基因克隆和抗褐飞虱功能证实,对于其他植物的抗刺吸式昆虫研究具有重要参考作用。(4) Piercing-sucking insects are a major type of insect pests in agricultural production. The Bph37 gene cloning and brown planthopper resistance proved that it has an important reference for the research on piercing-sucking insects of other plants.
附图说明Description of the drawings
图1为1520份水稻品种地理分布。Figure 1 shows the geographical distribution of 1520 rice varieties.
图中:图示为1520份水稻品种在世界范围74个国家的分布;饼图的大小正Picture: The picture shows the distribution of 1520 rice varieties in 74 countries around the world; the size of the pie chart is correct 比于来自这个国家的水稻品种的个数;每个饼图中,不同颜色扇形的面积正比于Compared with the number of rice varieties from this country; in each pie chart, the area of the different colored sectors is proportional to 不同类型的水稻品种个数。The number of different types of rice varieties.
图2为1520份水稻品种抗褐飞虱鉴定结果。Figure 2 shows the identification results of 1520 rice varieties for resistance to brown planthopper.
图中:图示为褐飞虱取食1520水稻品种48h的体重增加率直方图;图中横坐标WGR表示褐飞虱体重增加率,纵坐标表示水稻品种个数;虫源为褐飞虱生物型I。In the figure: the figure shows the histogram of the weight gain rate of brown planthopper feeding on 1520 rice varieties for 48 hours; the abscissa WGR in the figure represents the weight gain rate of brown planthoppers, the ordinate represents the number of rice varieties; the insect source is the brown planthopper biotype I.
图3为GWAS结果。Figure 3 shows the GWAS results.
图中:图示为全基因组关联分析的曼哈顿图;每个点代表一个SNP标记与Figure: The figure shows the Manhattan graph of genome-wide association analysis; each point represents a SNP marker and 褐飞虱抗性的关联程度,p值越小(-log 10(p)越大),与褐飞虱抗性关联程度越高; The degree of association of brown planthopper resistance, the smaller the p-value (the greater the -log 10 (p)), the higher the degree of association with brown planthopper resistance; -log 10(p)超过阈值8的位点认为是显著关联位点;第6号染色体0.8-1.57Mb是全 -The site with log 10 (p) exceeding the threshold of 8 is considered to be a significant associated site; chromosome 6 0.8-1.57Mb is full 基因组关联程度最高的区域,-log 10(p)远超过阈值8;所用模型为EMMAX软件 The region with the highest degree of genome association, -log 10 (p) far exceeds the threshold 8; the model used is EMMAX software 的混合线性模型。Mixed linear model.
图4为单倍型A和B对褐飞虱抗性结果。Figure 4 shows the resistance results of haplotypes A and B to Nilaparvata lugens.
图中:根据peakSNP的不同形式,1520份水稻材料分为两种单倍型,单倍Picture: According to the different forms of peakSNP, 1520 rice materials are divided into two haplotypes, haplotypes 型A的褐飞虱增重率(WGR)显著高于单倍型B,即单倍型B更抗褐飞虱。The brown planthopper weight gain rate (WGR) of type A is significantly higher than that of haplotype B, that is, haplotype B is more resistant to brown planthopper.
图5为转基因水稻抗褐飞虱的鉴定结果。Figure 5 shows the results of identification of resistance to brown planthopper in transgenic rice.
图中:转基因植株放虫后7天的结果;TN1为台中本地1号,对褐飞虱呈感In the picture: the results of 7 days after the transgenic plant was released; TN1 is Taichung local No. 1, which is susceptible to brown planthopper 性,156-13为Bph37转基因阴性植株,156-17、156-15、156-32为Bph37转基因Sex, 156-13 are Bph37 transgenic negative plants, 156-17, 156-15, 156-32 are Bph37 transgenic plants 阳性植株。Bph37基因的转基因阳性株系均对褐飞虱有明显抗性。Positive plants. The transgenic positive lines of Bph37 gene all have obvious resistance to brown planthopper.
图6为根据Bph37基因组序列开发的功能性分子标记156-35示例,其扩增片段长度为825bp。Figure 6 is an example of functional molecular markers 156-35 developed based on the Bph37 genome sequence, and the amplified fragment length is 825bp.
图中:SE382为携带水稻抗褐飞虱基因Bph37的抗虫亲本,扬稻6号(93-11)In the picture: SE382 is the insect-resistant parent carrying the rice brown planthopper resistance gene Bph37, Yangdao No. 6 (93-11) 为感虫水稻,F2-1至F2-11为SE382与扬稻6号杂交构建的F 2群体中的感虫水 It is susceptible rice, F2-1 to F2-11 are susceptible water in F 2 population constructed by crossing SE382 with Yangdao No. 6 稻,F2-12至F2-22为SE382与扬稻6号杂交构建的F 2群体中的抗虫水稻。 Rice, F2-12 to F2-22 are insect-resistant rice in the F 2 population constructed by crossing SE382 with Yangdao No. 6.
具体实施方式Detailed ways
以下结合附图和具体实施例对本发明作进一步地详细阐述。The present invention will be further described in detail below with reference to the drawings and specific embodiments.
实施例1 Bph37基因的克隆及分子标记开发Example 1 Cloning of Bph37 gene and development of molecular markers
1.GWAS1.GWAS
从中国农业科学院作物科学研究所取得1520份水稻品种,涵盖12种类型,位于世界范围的74个国家(图1)。对1520个水稻品种进行了褐飞虱抗性测定,测定的方法是测定褐飞虱雌成虫取食前和取食后的体重。每个试验水稻品种的8颗种子被播种并生长在一个塑料杯(9×15厘米)中。对五叶期水稻植株进行了抗性试验。收集刚羽化的褐飞虱生物型I雌性成虫,用电子天平称重(岛津;类型:AUW120D)。选择初始体重为1.80~2.70mg的褐飞虱进行实验。每一只褐飞虱被放入一个2×2厘米、封口膜制作的薄膜袋中,然后被固定在离土壤1厘米的水稻植株上。褐飞虱取食叶鞘48小时,然后再次测量体重以获得48小时的体重,进而获得褐飞虱的体重增加率(WGR)。对每个水稻品种,用12只褐飞虱的体重增加率来指示抗性水平。1520份水稻品种对褐飞虱的抗性水平呈现左偏态分布(图2),即感虫品种远多于抗虫品种。3K水稻基因组数据已经公布(Li,Z.等,2014 The 3,000rice genomes project.GigaScience 3,7)。用plink软件提取出次要等位基因频率大于0.01、缺失率小于0.2的全基因组SNPs数据。由于种群结构比较明显,所以采用前7个主成分(Q)作为固定效应,每个个体间的balding-Nichols 亲缘矩阵(K)作为随机效应进行种群结构修正。利用EMMAX软件中的混合线性模型进行GWAS分析。用公式P=0.05/N(N为SNPs数目)评价全基因组显著性阈值。显著性p值阈值约为1.0×10 -8From the Institute of Crop Science of the Chinese Academy of Agricultural Sciences, 1520 rice varieties were obtained, covering 12 types, located in 74 countries around the world (Figure 1). The resistance of 1520 rice varieties was tested by measuring the body weight of the female adults of the brown planthopper before and after feeding. Eight seeds of each experimental rice variety were sown and grown in a plastic cup (9×15 cm). The resistance test was conducted on rice plants at the five-leaf stage. The newly emerged female adults of the biotype I of the brown planthopper were collected and weighed with an electronic balance (Shimadzu; type: AUW120D). The brown planthopper with an initial body weight of 1.80~2.70 mg was selected for the experiment. Each brown planthopper was put into a 2×2 cm film bag made of parafilm, and then fixed on a rice plant 1 cm from the soil. The brown planthopper feeds on the leaf sheath for 48 hours, and then measures the body weight again to obtain the 48-hour body weight, thereby obtaining the weight gain rate (WGR) of the brown planthopper. For each rice variety, the weight gain rate of 12 brown planthoppers was used to indicate the resistance level. The resistance levels of 1520 rice varieties to brown planthoppers showed a left-skewed distribution (Figure 2), that is, more susceptible varieties than insect-resistant varieties. The 3K rice genome data has been published (Li, Z. et al., 2014 The 3,000 rice genomes project. GigaScience 3, 7). Use plink software to extract genome-wide SNPs data with minor allele frequencies greater than 0.01 and deletion rates less than 0.2. Because the population structure is relatively obvious, the first 7 principal components (Q) are used as fixed effects, and the balding-Nichols kinship matrix (K) between each individual is used as a random effect to modify the population structure. Use the mixed linear model in EMMAX software for GWAS analysis. Use the formula P=0.05/N (N is the number of SNPs) to evaluate the significance threshold of the whole genome. The significance p-value threshold is about 1.0×10 -8 .
2.确定候选基因2. Identify candidate genes
第6号染色体0.8-1.57Mb存在一个显著关联SNPs簇(图3),说明该区域含有水稻抗褐飞虱基因,作为候选区域。根据日本晴参考基因组基因功能注释信息(http://rice.plantbiology.msu.edu/),候选区域内的NBS-LRR基因,LOC_Os06g03500作为候选基因。根据关联区域的peak SNP,将1520份材料分成单倍型A和单倍型B。单倍型B的材料对褐飞虱抗性显著高于单倍型A的材料。选择单倍型B中的SE382作为扩增LOC_Os06g03500的材料。There is a cluster of significantly associated SNPs on chromosome 6 0.8-1.57Mb (Figure 3), indicating that this region contains the rice brown planthopper resistance gene as a candidate region. According to the Nipponbare reference genome gene function annotation information (http://rice.plantbiology.msu.edu/), the NBS-LRR gene in the candidate region, LOC_Os06g03500 is the candidate gene. According to the peak SNP of the relevant area, 1520 materials are divided into haplotype A and haplotype B. The resistance of haplotype B materials to brown planthopper is significantly higher than that of haplotype A materials. SE382 in haplotype B was selected as the material for amplification of LOC_Os06g03500.
3.RACE获得Bph37全长cDNA3. RACE obtains the full-length cDNA of Bph37
以抗褐飞虱亲本SE382叶鞘总RNA反转录产物为模板,根据基因预测结果设计引物,扩增出候选基因的一段cDNA序列。通过该序列设计引物,使用TaKaRa公司5’与3’Full RACE试剂盒,获得了该候选基因5’末端及3’末端序列,确定了候选基因的转录起始位点及终止位点,并拼接出该基因的全长cDNA序列。根据全长cDNA序列重新合成引物,扩增获得Bph37的全长cDNA,其核苷酸序列如序列表SEQ ID NO.2所示。Using the total RNA reverse transcription product of the brown planthopper resistant parent SE382 leaf sheath as a template, primers were designed according to the gene prediction results to amplify a cDNA sequence of the candidate gene. Design primers based on this sequence and use TaKaRa's 5'and 3'Full RACE kits to obtain the 5'end and 3'end sequences of the candidate gene, determine the transcription start site and termination site of the candidate gene, and splice them Get the full-length cDNA sequence of the gene. The primers were re-synthesized according to the full-length cDNA sequence and amplified to obtain the full-length cDNA of Bph37. Its nucleotide sequence is shown in SEQ ID NO. 2 of the sequence list.
4.水稻抗褐飞虱基因Bph37分子标记4. Molecular marker of rice brown planthopper resistance gene Bph37
相比感性材料,Bph37内含子区域存在474bp缺失。在抗性亲本中,标记156-35扩增片段长度为825bp;在感性亲本中,标记156-35扩增片段长度为1299bp。因此,分子标记即是用:Compared with inductive materials, there is a 474bp deletion in the intron region of Bph37. In the resistant parent, the length of the marker 156-35 amplified fragment is 825 bp; in the susceptible parent, the length of the marker 156-35 amplified fragment is 1299 bp. Therefore, molecular markers are used:
156-35标记引物:156-35 labeled primer:
正向引物序列TTGCTCATGGGTGTGCAGAAG,如SEQ ID NO.4所示;The forward primer sequence TTGCTCATGGGTGTGCAGAAG is shown in SEQ ID NO.4;
反向引物序列TTGGGGGTGTCAAAGCCTAC,如SEQ ID NO.5所示;The reverse primer sequence TTGGGGGTGTCAAAGCCTAC is shown in SEQ ID NO.5;
扩增水稻抗褐飞虱品种或者育种材料DNA,如果用引物156-35能够扩增出825bp的扩增片段,标志着水稻抗褐飞虱基因Bph37的存在。因此,利用本发明提供的上述分子标记方法来鉴定Bph37抗性基因的存在具有非常高的效率,可以预测水稻植株的褐飞虱抗性,加快抗褐飞虱水稻品种育种进程。Amplify the rice brown planthopper resistant varieties or breeding material DNA, if primers 156-35 can be used to amplify the 825bp amplified fragment, which marks the existence of the rice brown planthopper resistant gene Bph37. Therefore, the use of the above-mentioned molecular marker method provided by the present invention to identify the existence of the Bph37 resistance gene has a very high efficiency, can predict the brown planthopper resistance of rice plants, and accelerate the breeding process of brown planthopper-resistant rice varieties.
实施例2 Bph37基因的功能验证和应用Example 2 Functional verification and application of Bph37 gene
1.遗传转化载体的构建1. Construction of genetic transformation vector
Bph37基因过表达载体的构建。所用载体为pCXUN(由美国Ohio State University的王国梁教授提供),采用XcmI酶切pCXUN载体,将外源片段加A后可以直接连入。Construction of Bph37 gene overexpression vector. The vector used is pCXUN (provided by Professor Wang Guoliang from Ohio State University, USA). The pCXUN vector is digested with XcmI, and the exogenous fragment can be directly connected after adding A.
根据RACE的结果,采用PCR的方法直接扩增ORF,经加A后连入载体。测序验证无误后,所得载体即为Bph37基因过表达载体,将其转入农杆菌EHA105中。挑取单克隆扩大培养,进行PCR验证无误后,加等体积的50%甘油混匀,-70℃保存备用。According to the results of RACE, the ORF was directly amplified by PCR, and then connected to the vector after adding A. After the sequencing was verified, the vector obtained was the Bph37 gene overexpression vector, which was transferred into Agrobacterium EHA105. Pick a single clone to expand the culture, and after the PCR verification is correct, add an equal volume of 50% glycerol to mix, and store at -70°C for use.
2.遗传转化2. Genetic transformation
采用农杆菌EHA105介导的遗传转化方法(Hiei等,1994,Efficient transformation of rice(Oryza sativa L.)mediated by Agrobacterium and sequence analysis of the boundaries of the T-DNA.Plant Journal 6:271-282)将上述Bph37基因过表达载体导入褐飞虱感性的普通水稻品种Nipponbare。A genetic transformation method mediated by Agrobacterium EHA105 (Hiei et al., 1994, Efficient transformation of rice (Oryza sativa L.) mediated by Agrobacterium and sequence analysis of the boundaries of the T-DNA. Plant Journal 6:271-282) will The above-mentioned Bph37 gene over-expression vector is introduced into Nipponbare, a common rice variety susceptible to brown planthopper.
3.Bph37基因转基因功能验证3. Bph37 gene transgene function verification
Bph37基因过表达转化载体获得阳性转基因植株20株。收获种子后,用T 1代Bph37转基因植株,采用苗期集团法进行了抗虫鉴定。如图6所示,对转基因阴性株系156-13和转基因阳性株系156-17、156-15和156-32进行了抗褐飞虱鉴定。鉴定结果如图6所示,接入褐飞虱7天后,感虫对照品种TN1整株全部死亡,转基因阴性植株枯萎,转基因阳性植株生长健康,无叶片受害,抗虫级别为2-4级,证实Bph37基因具有抗褐飞虱的功能。因此,水稻抗褐飞虱基因Bph37可以在水稻中应用也可以在水稻种子中应用,培育具有抗褐飞虱性能的水稻品种。 Bph37 gene overexpression transformation vector obtained 20 positive transgenic plants. After the seeds were harvested, Bph37 transgenic plants of the T 1 generation were used for pest resistance identification using the seedling group method. As shown in Figure 6, the transgenic negative strain 156-13 and the transgenic positive strain 156-17, 156-15 and 156-32 were identified for resistance to brown planthopper. The identification results are shown in Figure 6. 7 days after the brown planthopper was inserted, the susceptible control variety TN1 all died, the transgenic negative plants withered, and the transgenic positive plants grew healthy without damage to the leaves. The insect resistance level was 2-4, which confirmed Bph37 The gene has the function of resisting brown planthopper. Therefore, the rice brown planthopper resistance gene Bph37 can be used in rice or rice seeds to cultivate rice varieties with resistance to brown planthopper.
实施例3 分子标记的验证Example 3 Verification of Molecular Markers
1、材料和方法1. Materials and methods
1.1材料:抗褐飞虱亲本SE382(含水稻抗褐飞虱基因Bph37)、褐飞虱感性水稻品种扬稻6号(93-11)及SE382与扬稻6号杂交构建的F 2株系。 1.1 Materials: Brown planthopper resistant parent SE382 (containing rice brown planthopper resistance gene Bph37), brown planthopper susceptible rice variety Yangdao No. 6 (93-11) and F 2 strain constructed by crossing SE382 and Yangdao No. 6.
分子标记引物:156-35,其核苷酸序列分别如SEQ ID No.4-5所示。Molecular marker primers: 156-35, the nucleotide sequences of which are shown in SEQ ID No. 4-5, respectively.
1.2方法1.2 method
CTAB抽提法提取水稻样品基因组DNA。用引物156-35扩增样品DNA。10μl体系。10μl反应体系包括:2×Es Taq MasterMix(Dye),5.0μl;ddH 2O,3.7μl;10μM引物,0.4μl;和50ng DNA模板。扩增反应在BioerPCR仪上进行:94℃3min;94℃30s,55℃30s,72℃60s,30个循环;72℃5min。156-35的扩增产物用1%的琼脂糖胶分离,电泳后可以直接分析。 The genomic DNA of rice samples was extracted by CTAB extraction method. Amplify the sample DNA with primers 156-35. 10μl system. The 10μl reaction system includes: 2×Es Taq MasterMix (Dye), 5.0μl; ddH 2 O, 3.7μl; 10μM primer, 0.4μl; and 50ng DNA template. The amplification reaction was carried out on the Bioer PCR instrument: 94°C for 3 min; 94°C for 30s, 55°C for 30s, 72°C for 60s, 30 cycles; 72°C for 5 minutes. The amplified products of 156-35 are separated with 1% agarose gel and can be directly analyzed after electrophoresis.
2、结果:用上述方法,分别对水稻品种SE382、扬稻6号、SE382与扬稻6号杂交构建的22份F 2株系进行扩增。结果表明,利用156-35分子标记引物能扩 增出相应的825bp片段的株系对褐飞虱均表现出抗虫性。而不能扩出上述特异性片段的株系对褐飞虱均表现出感虫性(图6)。 2. Results: Using the above method, 22 F 2 strains constructed by crossing rice varieties SE382, Yangdao No. 6, SE382 and Yangdao No. 6 were amplified. The results showed that the strains that can amplify the corresponding 825bp fragment by using the 156-35 molecular marker primers all showed resistance to the brown planthopper. The strains that could not expand the above-mentioned specific fragments all showed susceptibility to the brown planthopper (Figure 6).
由此说明,本发明提供的分子标记方法能够准确筛选出含有水稻抗褐飞虱基因Bph37,从而大大提高育种效率。This shows that the molecular marker method provided by the present invention can accurately screen out the rice brown planthopper resistance gene Bph37, thereby greatly improving the breeding efficiency.

Claims (10)

  1. 一种水稻抗褐飞虱基因Bph37,其特征在于:所述基因的核苷酸序列如SEQ ID NO.1所示。A rice brown planthopper resistance gene Bph37, characterized in that: the nucleotide sequence of the gene is shown in SEQ ID NO.1.
  2. 根据权利要求1所述的水稻抗褐飞虱基因Bph37,其特征在于:所述基因的cDNA序列如SEQ ID NO.2所示。The rice brown planthopper resistance gene Bph37 according to claim 1, wherein the cDNA sequence of the gene is shown in SEQ ID NO.2.
  3. 一种如权利要求1或2所述水稻抗褐飞虱基因Bph37编码的蛋白,其特征在于:所述蛋白的氨基酸序列如SEQ ID NO.3所示。A protein encoded by the rice brown planthopper resistance gene Bph37 according to claim 1 or 2, characterized in that the amino acid sequence of the protein is shown in SEQ ID NO.3.
  4. 一种含有权利要求1或2所述水稻抗褐飞虱基因Bph37的载体,其特征在于:所述载体包括含有所述多核苷酸序列或其片段的克隆载体或表达载体。A vector containing the rice brown planthopper resistance gene Bph37 of claim 1 or 2, wherein the vector comprises a cloning vector or an expression vector containing the polynucleotide sequence or a fragment thereof.
  5. 一种含有如权利要求1或2所述含有水稻抗褐飞虱基因Bph37的宿主细胞,其特征在:所述宿主细胞为含有所述核苷酸序列或其片段转化的植物细胞。A host cell containing the rice brown planthopper resistance gene Bph37 according to claim 1 or 2, characterized in that: the host cell is a plant cell transformed with the nucleotide sequence or a fragment thereof.
  6. 一种含有如权利要求1或2所述含有水稻抗褐飞虱基因Bph37的核苷酸序列或其片段转化的转基因植物。A transgenic plant containing the nucleotide sequence of the rice brown planthopper resistance gene Bph37 or a fragment thereof as described in claim 1 or 2.
  7. 一种如权利要求1或2所述的水稻抗褐飞虱基因Bph37的分子标记,其特征在于:所述分子标记为156-35,用于扩增分子标记156-35的引物对如下:A molecular marker for the rice brown planthopper resistance gene Bph37 according to claim 1 or 2, characterized in that: the molecular marker is 156-35, and the primer pairs used to amplify the molecular marker 156-35 are as follows:
    正向引物156-35F:,其序列如SEQ ID NO.4所示;Forward primer 156-35F: its sequence is shown in SEQ ID NO.4;
    反向引物156-35R,其序列如SEQ ID NO.5所示。Reverse primer 156-35R, its sequence is shown in SEQ ID NO.5.
  8. 一种如权利要求1或2所述水稻抗褐飞虱基因Bph37的分子检测方法,其特征在于:通过权利要求7中所述引物对扩增待检水稻基因组DNA,并检测扩增产物:若利用引物156-35F和156-35R扩增出825bp的扩增片段,则标志着水稻抗褐飞虱基因Bph37的存在。A method for molecular detection of rice brown planthopper resistance gene Bph37 according to claim 1 or 2, characterized in that the genomic DNA of rice to be tested is amplified by the primer pair described in claim 7, and the amplified product is detected: if primers are used The 825bp amplified fragments from 156-35F and 156-35R indicate the presence of the rice brown planthopper resistance gene Bph37.
  9. 一种筛选抗褐飞虱水稻的方法,其特征在于:通过权利要求7中所述引物对扩增待检水稻基因组DNA,并检测扩增产物:若利用引物156-35F和156-35R 扩增出825bp的扩增片段,则标志着水稻品种褐飞虱抗性的存在。A method for screening brown planthopper-resistant rice, characterized in that the genomic DNA of the rice to be tested is amplified by the primer pair described in claim 7, and the amplified product is detected: if primers 156-35F and 156-35R are used to amplify 825bp The amplified fragments indicate the existence of brown planthopper resistance in rice varieties.
  10. 一种如权利要求7所述水稻抗褐飞虱基因Bph37的分子标记在选育抗褐飞虱水稻中的应用。An application of the molecular marker of the rice brown planthopper resistance gene Bph37 according to claim 7 in the breeding of brown planthopper resistant rice.
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