Revisiting rice breeding methods – evaluating the use of rapid generation advance (RGA) for routine rice breeding

Rice production needs to increase in the future in order to meet increasing demands. The development of new improved and higher yielding varieties more quickly will be needed to meet this demand. However, most rice breeding programmes in the world have not changed in several decades. In this article, we revisit the evidence in favour of using rapid generation advance (RGA) as a routine breeding method. We describe preliminary activities at the International Rice Research Institute (IRRI) to re-establish RGA on a large scale as the main breeding method for irrigated rice breeding. We also describe experiences from the early adoption at the Bangladesh Rice Research Institute. Evaluation of RGA breeding lines at IRRI for yield, flowering time and plant height indicated transgressive segregation for all traits. Some RGA lines were also higher yielding than the check varieties. The cost advantages of using RGA compared to the pedigree method were also empirically determined by performing an economic analysis. This indicated that RGA is several times more cost effective and advantages will be realized after 1 year even if facilities need to be built. Based on our experience, and previous independent research empirically testing the RGA method in rice, we recommend that this method should be implemented for routine rice breeding in order to improve breeding efficiency.     

Progress in ideotype breeding to increase rice yield potential

The ideotype approach has been used in breeding programs at the International Rice Research Institute (IRRI) and in China to improve rice yield potential. First-generation new plant type (NPT) lines developed from tropical japonica at IRRI did not yield well because of limited biomass production and poor grain filling. Progress has been made in second-generation NPT lines developed by crossing elite indica with improved tropical japonica. Several second-generation NPT lines outyielded the first-generation NPT lines and indica check varieties. China's “super” rice breeding project has developed many F₁ hybrid varieties using a combination of the ideotype approach and intersubspecific heterosis. These hybrid varieties produced grain yield of 12 t ha⁻¹ in on-farm demonstration fields, 8–15% higher than the hybrid check varieties. The success of China's “super” hybrid rice was partially the result of assembling the good components of IRRI's NPT design in addition to the use of intersubspecific heterosis. For example, both designs focused on large panicle size, reduced tillering capacity, and improved lodging resistance. More importantly, improvement in plant type design was achieved in China's “super” hybrid rice by emphasizing the top three leaves and panicle position within a canopy in order to meet the demand of heavy panicles for a large source supply. The success of “super” hybrid rice breeding in China and progress in NPT breeding at IRRI suggest that the ideotype approach is effective for breaking the yield ceiling of an irrigated rice crop.     

Genetic Improvement of Rice for Bacterial Blight Resistance: Present Status and Future Prospects

The production and productivity of rice has been challenged due to biotic and abiotic factors. Bacterial blight (BB) disease, caused by Xanthomonas oryzae pv. oryzae, is one of the important biotic stress factors, which reduces rice production by 20%–50%. The deployment of host plant resistance is the most preferred strategy for management of BB disease, and breeding disease resistant varieties remains a very economical and effective option. However, it is difficult to develop rice varieties with durable broad-spectrum resistance against BB using conventional approaches alone. Modern biotechnological tools, particularly the deployment of molecular markers, have facilitated the cloning, characterization and introgression of BB resistance genes into elite varieties. At least 46 BB resistance genes have been identified and mapped from diverse sources till date. Among these, 11 genes have been cloned and characterized. Marker-assisted breeding remains the most efficient approach to improve BB resistance by introducing two or more resistance genes into target varieties. Among the identified genes, xa5, xa13 and Xa21 are being widely used in marker-assisted breeding and more than 70 rice varieties or hybrid rice parental lines have been improved for their BB resistance alone or in combination with genes/QTLs conferring tolerance to other stress. We review the developments related to identification and utilization of various resistance genes to develop BB resistant rice varieties through marker-assisted breeding.     

应用隶属函数法鉴定水稻的抗旱性

采用隶属函数法对25个水稻材料进行了抗旱性综合评价,结果表明:在干旱处理的情况下,短生育期材料生育期缩短,长生育期材料则延长;有效穗、千粒重、株高、每穗实粒数及单株粒重则普遍下降,但抗旱性强的材料降幅较小.依据隶属函数值,筛选出了8份强抗旱材料,可作为水稻抗旱育种的抗旱资源.     

Agronomic performance of rice breeding lines selected based on plant traits or grain yield

Selection for yield per se has greatly contributed to yield improvement in many crops. It is expected that selection based on plant traits is more effective in increasing crop yield potential. This study was conducted to compare the effectiveness of trait-based and yield-based selection in increasing rice yield and to determine whether lines with ideotype traits have the potential to express higher yield under optimal crop management conditions. Lines were selected based on plant traits or on grain yield measured in a breeder's replicated yield trial. The main target traits for selection were plant height, leaf and panicle morphology, grain size, total dry weight, and grain-filling percentage. Yield performance of trait-based selection was compared with that of yield-based selection in an agronomic trial with optimum crop management for three seasons. Trait-based selection increased leaf area index and total dry weight but reduced spikelet number per m² and harvest index compared with yield-based selection. Consequently, selection based on plant traits did not increase grain yield compared with selection based on yield per se. In one of the three seasons, yield of trait-based selection was significantly lower than that of yield-based selection. Among all tested breeding lines, maximum yield was produced by yield-based selection and minimum yield came from trait-based selection. These results suggest that lines with ideotype traits did not express higher grain yield than lines selected based on yield per se under optimal crop management conditions, and yield-based selection was as effective in increasing rice grain yield as trait-based selection in the late generations of the breeding cycle.     

Four Decades of Breeding for Varietal Improvement of Irrigated Lowland Rice in the International Rice Research Institute

Abstract

Since the establishment of the International Rice Research Institute (IRRI) in 1960, IRRI’s breeding effort in varietal improvement for irrigated lowland has passed four decades. Breeding of semi-dwarf rice varieties such as IR8 at IRRI during first decade from 1960 to 1969 resulted in quantum leaps in yield potential, which marked the green revolution in Asia. During the second decade from 1970 to 1979, the primary emphasis of rice improvement has been directed towards incorporation of multiple disease and insect resistance and shortening of growth duration. Grain quality was the main target of crop improvement at IRRI during the third decade from 1980 to 1989. The fourth decade from 1990 to 1999 and beyond was focused again on the improvement of yield potential by developing hybrid rice and new plant type. Up to 1999, 46 indica inbred varieties and 2 indica/indica hybrid rice varieties were developed by IRRI and released in the Philippines for the irrigated lowland rice systems. Large-scale adoption of these improved varieties under modern crop management practices has resulted in a dramatic increase in rice production in major rice-growing countries. The hybrid varieties between indicas increased yield potential by 9% under the tropical conditions. New plant type (NPT) breeding has not yet resulted in an increase in yield potential. The second generation NPT developed by crossing tropical japonica with indica has demonstrated some promising results in terms of improvements in yield potential, disease and insect resistance, and grain quality.     

Responses of SUB1 rice introgression lines to submergence in the field: Yield and grain quality

Prolonged submergence is a major constraint to rice production, affecting over 15 million ha in South and Southeast Asia and causing an annual yield loss of over US$ 600 million. This is because all the modern high-yielding rice varieties are sensitive to complete submergence. A major quantitative trait locus (QTL), SUB1, associated with submergence tolerance, was mapped on chromosome 9 and recently bred into popular rainfed lowland rice varieties sensitive of complete submergence, using marker-assisted backcrossing (MABC). Here, we assessed the impact of introgressing SUB1 into three rice varieties popular in farmers’ fields of South and Southeast Asia, Swarna, Sambha Mahsuri, and IR64, under control conditions as well as following submergence in the field. Under control conditions, no differences were observed between Sub1 introgression lines and their recurrent parents in grain yield or quality aspects. Submergence substantially delayed flowering and maturity, and reduced grain yield, shoot biomass, harvest index, and yield components across cultivars. The reduction in yield was more drastic in the sensitive varieties, particularly when submerged for longer duration (17 d). The significant decline in grain yield was mainly attributed to reductions in grain filling, number of grains per panicle, and grain weight. The SUB1 QTL is effective in conferring tolerance of submergence for about 12–17 d, depending on floodwater conditions. Sub1 introgression lines showed a yield advantage of up to 3.8 t ha⁻¹ and slightly better grain quality after submergence compared with their parents. Apparently, the introgression of SUB1 into popular varieties did not have any negative impact on their performance under control conditions but considerably enhanced their yield and grain quality following short-term submergence.     

Lodging-related morphological traits of hybrid rice in a tropical irrigated ecosystem

Hybrid rice (Oryza sativa L.) has been proven to be effective in increasing yield potential, but lodging often limits its yield in high-yielding environments. This study was conducted to determine genotypic variation in lodging resistance and lodging-related morphological traits among hybrid and non-hybrid check varieties, and to identify the key morphological traits associated with lodging resistance. Lodging behavior of 16 rice genotypes, including 12 hybrids and four inbreds, was studied at the International Rice Research Institute farm during the 2004 wet season (WS) and 2005 dry season (DS). Grain yield and visual score of lodging were determined at maturity. Lodging-related morphological traits were measured at 30 days after flowering. Large genotypic differences in lodging-related morphological traits were observed. Among these traits, dry weight per unit length, breaking resistance, and lodging index (bending moment/breaking resistance × 100) of lower internodes were significantly correlated with visual score of lodging. Several hybrids demonstrated high lodging resistance although their average plant height was over 120 cm. The lodging-related morphological traits and visual score of lodging in these hybrids were comparable with those of the non-hybrid check varieties with strong lodging resistance. These results suggest that increases in dry weight per unit length and breaking resistance of lower internodes are primary targets for reducing lodging index, thus improving overall lodging resistance of hybrid rice in a breeding program.     

植物生长调节剂对再生稻头季抗倒伏能力和两季产量的影响

【目的】为了探明植物生长调节剂对再生稻头季抗倒伏能力及两季产量的影响,【方法】以佳辐占、天优华占和甬优2640为试验材料,于拔节初期叶面喷施多效唑、乙烯利和抗倒酯,研究不同植物生长调节剂对水稻头季茎秆特性、力学指标及两季产量形成的影响。【结果】甬优2640基部节间抗折力和植株抗推力最大,抗倒伏能力强;佳辐占基部节间最长,株高最高,倒伏指数高,抗倒伏能力最差;天优华占基部倒伏指数小,抗倒伏能力介于前二者中间。与喷施清水对照相比,多效唑处理植株节间长、株高、茎壁厚与对照差异较小,增加了倒3节间(N₃)茎粗和倒4节间(N₄)和N₃的抗折力,降低了N₄和N₃的倒伏指数;乙烯利处理则显著增加了N₄长度,N₃茎粗和株高,对茎壁厚没有明显影响, 增强了N₃抗折力,降低了N₃倒伏指数;抗倒酯处理缩短了N₄、倒2节间(N₂)长,降低株高,增加N₃茎粗和N₃、N₂的茎壁厚度,增强了N₄、N₃的抗折力,降低了各节间的倒伏指数。3种植物生长调节剂处理均降低了头季产量,多效唑和抗倒酯处理增加了再生季产量,乙烯利降低了再生季产量。分析产量构成因素,植物生长调节剂处理主要影响了总穗粒数,头季总穗粒数减少,再生季总穗粒数增加。天优华占和甬优2640两季总产量均较对照降低,佳辐占总产量多效唑和抗倒酯处理较对照增加,乙烯利处理较对照降低。【结论】抗倒酯处理增强了再生稻头季茎秆的抗倒伏能力,而对两季总产量无显著影响,对再生稻头季抗倒伏栽培具有现实意义。     

The large-effect drought-resistance QTL qtl12.1 increases water uptake in upland rice

Drought stress is the most important abiotic factor limiting upland rice yields. Identification of quantitative trait loci (QTL) conferring improved drought resistance may facilitate breeding progress. We previously mapped a QTL with a large effect on grain yield under severe drought stress (qtl12.1) in the Vandana/Way Rarem population. In the current paper, we present results from a series of experiments investigating the physiological mechanism(s) by which qtl12.1 affects grain yield under drought conditions. We performed detailed plant water status measurements on a subset of lines having similar crop growth duration but contrasting genotypes at qtl12.1 under field (24 genotypes) and greenhouse (14 genotypes) conditions. The Way Rarem-derived allele of qtl12.1 was confirmed to improve grain yield under drought mainly through a slight improvement (7%) in plant water uptake under water-limited conditions. Such an apparently small increase in water uptake associated with this allele could explain the large effect on yield observed under field conditions. Our results suggest that this improvement of plant water uptake is likely associated with improved root architecture.     

Improvement of Rice Resistance to Sheath Blight by Pyramiding QTLs Conditioning Disease Resistance and Tiller Angle

Rice resistance to sheath blight （SB） is controlled by polygenes or quantitative trait loci （QTLs） and affected by plant morphological traits, qSB-9^TQ and TAG1^TQ, which control SB resistance and tiller angle （TA）, respectively, were employed to test whether the combination of the two genes will further improve rice SB resistance and reduce yield loss rather than only one of them or neither. Using two pairs of near isogenic lines （NILs）, TAC1^TQ was confirmed to contribute to SB resistance. However, its effect was less considerable than that of qSB-9^TQ. Subsequently, the two genes were introduced into two commercial rice varieties to develop a series of NILs. The NILs carrying both TAG1^TQ and qSB-9^TQ showed more resistance than the NILs containing only one of them. Comparing the grain yield per plant （GYP） under the three different SB disease conditions, namely slight, moderate and severe conditions, NILs carrying both genes apparently lost lower GYP than the NILs without the two genes and the NILs carrying only TAC1^TQ. Under slight disease condition, no significant differences were found on morphology, development and GYP associated traits except for TA between the NILs carrying both genes and either of them, indicating that the two genes have no inferior effect on rice agronomic traits. Results indicated that mAC1^TQ and qSB-9^TQ have high breeding potential, and pyramiding SB resistance QTL and morphological trait QTL is a potential approach in improving rice SB resistance.     

Progress in varietal improvement for increasing upland rice productivity in the tropics

Enhancing rice yield in upland rice systems through genetic improvement remains a major challenge in the tropics. This review aims to provide the trends on upland rice cultivation over the last 30 years and recent distribution of upland rice in the tropics, and to report progress in studies on genetic improvement for enhancing productivity in Africa, Asia, and Latin America. While upland rice cultivation area has reduced in Asia and Latin America over the last 30 years, the area in Africa has increased. The current share of upland rice area in total rice area is related to rainfall and gross national income per capita, especially in Africa, and higher share is associated with lower rice self-sufficiency at national level. Breeding programs in Asia and Latin America have developed high-yielding varieties using indica materials as parents. In Africa, New Rice for Africa (NERICA) varieties were developed from crosses between improved tropical japonica and Oryza glaberrima. However, recent studies report that there is scope for improving existing NERICA using upland indica materials from Asia. In highlands of Africa, there are ongoing breeding programs using japonica varieties, such as the Nepalese Chhomrong Dhan. Key important plant traits used in the breeding programs are not largely different across regions, especially intermediate plant height and tillering capacity (which may be related to weed-suppressive ability), and high harvest index. In conclusion, we propose an international network for breeding upland rice with accelerating seed exchange across regions that could enhance upland rice productivity through genetic improvement.     

2008—2019年安徽省审定的水稻品种主要性状分析

分析了2008—2019年通过安徽省审定水稻品种的生育期、产量、抗性、米质等性状。结果表明,2008—2019年共有314个水稻品种通过安徽省审定,其中,籼稻257个、占比81.8%,粳稻57个、占比18.2%;种业企业是选育单位的主体,其参与选育的品种占比高达75.2%;随着年代的推进,除中粳稻品种外,通过审定品种的生育期总体呈延长趋势,晚籼稻和晚粳稻生育期表现更加明显;随着年代的推进,产量水平总体呈现上升趋势,晚粳稻增幅更加显著;对稻瘟病抗性的表现总体较为理想,大部分品种处于“中感”至“中抗”水平,但“抗”级以上品种占比仅为3.8%;对稻曲病抗性的表现同样较为理想,大部分品种处于“感”至“中抗”水平,“抗”级以上品种占比38.7%;米质达部颁标准3级及以上的品种占比83.1%,但达2级及以上的品种仅占36.3%。因此,要围绕“抗性更强、米质更优”进行安徽省的水稻育种。     

黑龙江粳稻育种研究进展与展望

黑龙江是我国粳稻生产大省,总产量、商品量、商品率、商品调出量和人均生产稻谷量全国第一,这主要源自水稻新品种的不断更新换代。近年来,黑龙江省粳稻育种取得了长足发展,创建了寒地早粳稻“一早三抗”半直立穗新株型育种理论和技术体系,培育出以龙粳31为代表的一批优质高产多抗水稻新品种,结束了日本品种空育131独霸我国寒地早粳稻生产10多年的历史,2020年以龙粳31为代表的“寒地早粳稻优质高产多抗龙粳新品种”被评为国家“十三五”十大农业科技标志性成果,标志着我国寒地早粳稻育种取得了历史性突破,在产量、抗性、适应性、应用面积等均超过国内外同类稻区的著名品种,达到世界领先水平。本文针对黑龙江粳稻育种存在的问题,提出了相应建议和对策。     

Influence of Crop Nutrition on Grain Yield, Seed Quality and Water Productivity under Two Rice Cultivation Systems

The system of rice intensification (SRI) is reported to have advantages like lower seed requirement,less pest attack,shorter crop duration,higher water use efficiency and the ability to withstand higher degree of moisture stress than traditional method of rice cultivation.With this background,SRI was compared with traditional transplanting technique at Indian Agricultural Research Institute,New Delhi,India during two wet seasons (2009-2011).In the experiment laid out in a factorial randomized block design,two methods of rice cultivation [conventional transplanting (CT) and SRI] and two rice varieties (Pusa Basmati 1 and Pusa 44) were used under seven crop nutrition treatments,viz.T 1,120 kg/hm2 N,26.2 kg/hm2 P and 33 kg/hm2 K;T 2,20 t/hm2 farmyard manure (FYM);T 3,10 t/hm2 FYM+ 60 kg/hm2 N;T 4,5 t/hm2 FYM+ 90 kg/hm2 N;T 5,5 t/hm2 FYM+ 60 kg/hm2 N+ 1.5 kg/hm2 blue green algae (BGA);T 6,5 t/hm2 FYM+ 60 kg/hm2 N+ 1.0 t/hm2 Azolla,and T 7,N 0 P 0 K 0 (control,no NPK application) to study the effect on seed quality,yield and water use.In SRI,soil was kept at saturated moisture condition throughout vegetative phase and thin layer of water (2-3 cm) was maintained during the reproductive phase of rice,however,in CT,standing water was maintained in crop growing season.Results revealed that CT and SRI gave statistically at par grain yield but straw yield was significantly higher in CT as compared to SRI.Seed quality was superior in SRI as compared to CT.Integrated nutrient management (INM) resulted in higher plant height with longer leaves than chemical fertilizer alone in both the rice varieties.Grain yield attributes such as number of effective tillers per hill,panicle length and panicle weight of rice in both the varieties were significantly higher in INM as compared to chemical fertilizer alone.Grain yields of both the varieties were the highest in INM followed by the recommended doses of chemical fertilizer.The grain yield and its attributes of Pusa 44 were significantly higher than those of Pusa Basmati 1.The seed quality parameters like germination rate and vigor index as well as N uptake and soil organic carbon content were higher in INM than those in chemical fertilizer alone.CT rice used higher amount of water than SRI,with water saving of 37.6% to 34.5% in SRI.Significantly higher water productivity was recorded in SRI as compared to CT rice.     

Identification of New Resistance Loci Against Sheath Blight Disease in Rice Through Genome-Wide Association Study

Sheath blight (SB) caused by the soil borne pathogen Rhizoctonia solani is one of the most serious global rice diseases. Breeding resistant cultivar is the most economical and effective strategy to control the disease. However, no rice varieties are completely resistant to SB, and only a few reliable quantitative trait loci (QTLs) linked with SB resistance have been identified to date. In this study, we conducted a genome-wide association study (GWAS) of SB resistance using 299 varieties from the rice diversity panel 1 (RDP1) that were genotyped using 44 000 high-density single nucleotide polymorphism (SNP) markers. Through artificial inoculation, we found that only 36.5% of the tested varieties displayed resistance or moderate resistance to SB. In particular, the aromatic and aus sub-populations displayed higher SB resistance than the tropical japonica (TRJ), indica and temperate japonica sub-populations. Seven varieties showed similar resistance levels to the resistant control YSBR1. GWAS identified at least 11 SNP loci significantly associated with SB resistance in the three independent trials, leading to the identification of two reliable QTLs, qSB-3 and qSB-6, on chromosomes 3 and 6. Using favorable alleles or haplotypes of significantly associated SNP loci, we estimated that both QTLs had obvious effects on reducing SB disease severity and can be used for enhancing SB resistance, especially in improving SB resistance of TRJ sub-population rice varieties. These results provided important information and genetic materials for developing SB resistant varieties through breeding.     

油菜矮秆基因资源的研究与利用

就近几年来国内外在油菜矮化育种上的研究进行了综述,主要阐述了矮秆资源的矮化机制、矮秆或半矮秆基因的定位与克隆、矮秆基因与资源的利用等方面,并对今后油菜矮秆育种进行了展望。     

Genetic Diversity Analysis of Rice Germplasm in Tripura State of Northeast India Using Drought and Blast Linked Markers

We genotyped 74 rice germplasms including Tripura's local landraces, improved varieties, cultivars and breeding lines and other rice varieties using molecular markers for genetic diversity, drought QTLs, and blast resistance genes. The number of alleles per locus ranged from 2 to 5 with an average of 2.9. The polymorphic information content value per locus ranged from 0.059 (RM537) to 0.755 (RM252) with an average of 0.475. Cluster analysis based on 30 simple sequence repeat markers revealed 5 clusters and also indicated the presence of variability within the rice accessions. The drought QTL qDTY2.1 was found in 56.0% of germplasms and qDTY1.1 was detected in only 6.8% of the germplasms. Out of seven rice blast resistance genes screened, only two rice varieties, RCPL-1-82 and Buh Vubuk (Lubuk), were positive for four blast resistance genes while only Releng possessed two blast resistance genes. Among 74 rice germplasms, only three accessions, Releng, RCPL1-82 and Buh Vubuk (Lubuk), possessed both drought-related QTLs and blast resistance genes. Overall, the 74 indigenous rice genotypes showed low level of genetic diversity, which is in contrast to high level of genetic diversity among rice varieties in northeast India, where highlights the good farming practice, conservation of germplasms and the limitation of molecular markers employed in this study. The presence of both drought related QTLs and blast resistance genes in some of the germplasms can be useful in future breeding programmes.     

Tolerance of longer-term partial stagnant flooding is independent of the SUB1 locus in rice

Longer-term partial stagnant flooding, particularly when it occurs following transient complete submergence causes severe damage to modern rice varieties. Progress was made in developing varieties tolerant of complete submergence through transfer of the Submergence-1 (SUB1) gene into popular varieties. However, SUB1 may not be effective under partial stagnant flooding (SF), as the new varieties may not elongate and continue growth when fully or partially submerged because of the SUB1-mediated suppression of elongation. We tested a set of rice genotypes, including a pair of near-isogenic lines (NILs), Swarna and Swarna-Sub1, under either SF or SF following complete submergence of 12 d. Swarna-Sub1 had higher survival and yield than Swarna following 12 d of submergence, but survival and grain yield of all lines decreased substantially when SF of 15-30 cm followed complete submergence, with the sensitive lines experiencing greater reductions in growth and yield. This suggests the importance of combining SUB1 with tolerance of SF in areas where both stresses are expected during the season. Swarna and Swarna-Sub1 are more sensitive to long-term partial SF than IR49830 and IR42 because of their short stature, and Swarna-Sub1 showed slightly higher reduction in tillering than did Swarna when subjected to deeper SF alone, possibly because of further inhibition of elongation by SUB1 if induced in submerged tissue. The results suggest that tolerance of these genotypes to SF depends less on SUB1 introgression and more so on the genetic background of the recipient genotype, with better performance of the genotypes that are inherently taller, such as IR42 and IR49830. The SUB1 donor landrace FR13A and its derivative breeding line IR49830 had better survival and relatively less reduction in grain yield under SF following complete submergence and under longer-term partial SF, indicating that these genotypes may have genes other than SUB1 for submergence and SF tolerance. For better adaptation to prolonged SF, SUB1 should be introgressed into genotypes that tolerate partial SF through better tillering ability and taller shoots, because SUB1 may not be effective in shorter genotypes, as it promotes survival of submerged plants by hindering shoot elongation to conserve energy reserves. Varieties combining tolerance of prolonged SF with SUB1 will have broader adaptation in flood-prone areas and greater impacts on yield stability.     

水稻品种抗瘟性表型与抗病基因同源序列相似性关系

 用6对RGA引物，即RGA1(XLRR for/XLRR rev)、RGA2(XLRR inv1/XLRR inv2)、RGA3（NLRR for/NLRR rev）、RGA4(NLRR inv1/NLRR inv2)、RGA5(Pto kin1/Pto kin2)和RGA6(Pto kin3/Pto kin4)对21个品种进行RGA PCR的DNA指纹分析。以相似系数0.72和田间叶瘟严重度阈值0.84分别聚类，21个水稻品种均可以分成5类。尽管类与类之间没有一一对应关系，但抗谱广、抗性稳定或具持久抗瘟性的品种，能较好地聚为一类，如湘资3150、IR156、株两优02、ZR02。在6对引物中，RGA1和RGA2来自于水稻抗白叶枯病基因Xa21含 LRR结构，RGA3来自于烟草N基因含LRR结构，上述3对引物比较适宜用于水稻稻瘟病抗性基因遗传背景分析。