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1.
DNA polymorphisms from nucleotide insertion/deletions (InDels) in genomic sequences are the basis for developing InDel molecular markers.To validate the InDel primer pairs on the basis of the comparative genomic study on DNA sequences between an Indica rice 93-11 and a Japonica rice Nipponbare for identifying Indica and Japonica rice varieties and studying wild Oryza species,we studied 49 Indica,43 Japonica,and 24 wild rice accessions collected from ten Asian countries using 45 InDel primer pairs.Results indicated that of the 45 InDel primer pairs,41 can accurately identify Indica and Japonica rice varieties with a reliability of over 80%.The scatter plotting data of the principal component analysis (PCA) indicated that:(i) the InDel primer pairs can easily distinguish Indica from Japonica rice varieties,in addition to revealing their genetic differentiation;(ii) the AA-genome wild rice species showed a relatively close genetic relationship with the Indica rice varieties;and (iii)the non-AA genome wild rice species did not show evident differentiation into the Indica and Japonica types.It is concluded from the study that most of the InDel primer pairs obtained from DNA sequences of 93-11 and Nipponbare can be used for identifying lndica and Japonica rice varieties,and for studying genetic relationships of wild rice species,particularly in terms of the Indica-Japonica differentiation.  相似文献   

2.
采用盆栽试验研究了长江三角洲14个主要超级稻品种(6个粳型超级稻和8个籼型杂交超级稻)CH4排放特征及其与植株生长特性之间的关系.结果表明: 粳型和籼型超级稻全生育期CH4排放均呈双峰模式,排放峰值分别出现在分蘖盛期和孕穗期.粳型超级稻的平均CH4排放总量比籼型超级稻高37.6%(P<0.01),品种间排放差异主要出现在生长后期.虽然两种类型超级稻的CH4排放总量均与最大叶面积呈显著正相关,但CH4排放与其他生长特性的关系因品种类型而异.在株高上,粳型超级稻CH4排放总量与株高呈显著正相关,而籼型超级稻的相关不显著.在生产力上,籼型超级稻CH4排放总量与其总生物量、籽粒产量和收获指数呈显著负相关,而粳型超级稻的相关不显著.籼型超级稻CH4排放量低主要是由于其根系生物量显著高于粳型超级稻.  相似文献   

3.
采用盆栽试验研究了长江三角洲14个主要超级稻品种(6个粳型超级稻和8个籼型杂交超级稻)CH4排放特征及其与植株生长特性之间的关系.结果表明: 粳型和籼型超级稻全生育期CH4排放均呈双峰模式,排放峰值分别出现在分蘖盛期和孕穗期.粳型超级稻的平均CH4排放总量比籼型超级稻高37.6%(P<0.01),品种间排放差异主要出现在生长后期.虽然两种类型超级稻的CH4排放总量均与最大叶面积呈显著正相关,但CH4排放与其他生长特性的关系因品种类型而异.在株高上,粳型超级稻CH4排放总量与株高呈显著正相关,而籼型超级稻的相关不显著.在生产力上,籼型超级稻CH4排放总量与其总生物量、籽粒产量和收获指数呈显著负相关,而粳型超级稻的相关不显著.籼型超级稻CH4排放量低主要是由于其根系生物量显著高于粳型超级稻.  相似文献   

4.
Four Indica and five Japonica varieties of rice (Oryza sativa L.) were examined to elucidate their differences in photosynthetic activity and dark respiratory rate as influenced by leaf nitrogen levels and temperatures. The photosynthetic rates of single leaf showed correlations with total nitrogen and soluble protein contents in the leaves. Respiratory rate was also positively correlated with the leaf nitrogen content. When compared at the same level of leaf nitrogen or soluble protein content, the four Indica varieties and one of Japonica varieties, Tainung 67, which have some Indica genes derived from one of its parents, showed higher photosynthetic rates than the remaining four Japonica varieties. At the same photosynthetic rate, the Indica varieties showed lower respiratory rate than Japonica varieties. When the leaf temperature rose from 20°C to 30°C, the photosynthetic rate increased by 18 to 41%, whereas the respiratory rate increased by 100 to 150%. These increasing rates in response to temperature were higher in the Japonica than in the Indica varieties. In this respect, Tainung 67 showed the same behavior as of the other four Japonica varieties.Abbreviations 30/20 ratios the ratios of photosynthetic and respiratory rates at 30°C to those at 20°C  相似文献   

5.
Rice is a major source of cadmium(Cd) intake for Asian people. Indica rice usually accumulates more Cd in shoots and grains than Japonica rice. However, underlying genetic bases for differential Cd accumulation between Indica and Japonica rice are still unknown. In this study, we cloned a quantitative trait locus(QTL) grain Cd concentration on chromosome 7(GCC7) responsible for differential grain Cd accumulation between two rice varieties by performing QTL analysis and map-based cloning. We found that the two GCC7 alleles, GCC7~(PA64s) and GCC7~(93-11), had different promoter activity of OsHMA3,leading to different OsHMA3 expression and different shoot and grain Cd concentrations. By analyzing the distribution of different haplotypes of GCC7 among diverse rice accessions, we discovered that the high and low Cd accumulation alleles, namely GCC7~(93-11) and GCC7~(PA64s), were preferentially distributed in Indica and Japonica rice,respectively. We further showed that the GCC7~(PA64s)allele can be used to replace the GCC7~(93-11) allele in the super cultivar 93-11 to reduce grain Cd concentration without adverse effect on agronomic traits. Our results thus reveal that the QTL GCC7 with sequence variation in the OsHMA3 promoter is an important determinant controlling differential grain Cd accumulation between Indica and Japonica rice.  相似文献   

6.
Multiplexed single nucleotide polymorphism (SNP) markers have the potential to increase the speed and cost-effectiveness of genotyping, provided that an optimal SNP density is used for each application. To test the efficiency of multiplexed SNP genotyping for diversity, mapping and breeding applications in rice (Oryza sativa L.), we designed seven GoldenGate VeraCode oligo pool assay (OPA) sets for the Illumina BeadXpress Reader. Validated markers from existing 1536 Illumina SNPs and 44?K Affymetrix SNP chips developed at Cornell University were used to select subsets of informative SNPs for different germplasm groups with even distribution across the genome. A 96-plex OPA was developed for quality control purposes and for assigning a sample into one of the five O. sativa population subgroups. Six 384-plex OPAs were designed for genetic diversity analysis, DNA fingerprinting, and to have evenly-spaced polymorphic markers for quantitative trait locus (QTL) mapping and background selection for crosses between different germplasm pools in rice: Indica/Indica, Indica/Japonica, Japonica/Japonica, Indica/O. rufipogon, and Japonica/O. rufipogon. After testing on a diverse set of rice varieties, two of the SNP sets were re-designed by replacing poor-performing SNPs. Pilot studies were successfully performed for diversity analysis, QTL mapping, marker-assisted backcrossing, and developing specialized genetic stocks, demonstrating that 384-plex SNP genotyping on the BeadXpress platform is a robust and efficient method for marker genotyping in rice.  相似文献   

7.
The origin of rice domestication has been the subject of debate for several decades. We have compared the transpositional history of 110 LTR retrotransposons in the genomes of two rice varieties, Nipponbare (Japonica type) and 93-11 (Indica type) whose complete sequences have recently been released. Using a genomic paleontology approach, we estimate that these two genomes diverged from one another at least 200,000 years ago, i.e., at a time which is clearly older than the date of domestication of the crop (10,000 years ago, during the late Neolithic). In addition, we complement and confirm this first in silico analysis with a survey of insertion polymorphisms in a wide range of traditional rice varieties of both Indica and Japonica types. These experimental data provide additional evidence for the proposal that Indica and Japonica rice arose from two independent domestication events in Asia.Electronic Supplementary Material Supplementary material is available in the online version of this article at Communicated by M.-A. Grandbastien  相似文献   

8.
SSR标记揭示的云南地方稻品种遗传多样性及其保育意义   总被引:18,自引:0,他引:18  
为了探索水稻(Oryza sativa L.)地方品种的遗传多样性及其有效保育方法,对采自云南省17个村寨的82个水稻地方品种和3个国际常用的典型籼稻和粳稻品种进行了微卫星(SSR)分子标记的分析。利用19对SSR引物在85个水稻品种中共扩增出了83个基因型,其分子量变异在100~500 bp之间。基于各品种SSR基因型遗传相似系数聚类分析而获得的UPGMA树状图表明各水稻品种之间存在较大的遗传多样性,其相似系数变异在0.15~0.90之间。但这些地方品种的遗传多样性并非呈均等的地理分布。这85个水稻品种在相似系数为0.52之处分为二组,其中一组包括几乎所有的籼稻品种,而另一组包括全部的粳稻品种,表明SSR标记能很好揭示水稻籼-粳分化。同时,有些来自不同采集地的同名品种表现出一定的遗传差异,说明同名异物的现象存在。云南水稻地方品种具有丰富的遗传多样性,对其有效保育十分重要和迫切, 但只有根据遗传多样性的水平和分布特点,采用正确的保育对策和取样方法才能确保对云南水稻地方品种的有效保育。结果进一步表明,选用适当的微卫星引物,可以为准确鉴定籼稻和粳稻品种及研究其进化规律提供有效的分子标记方法,并有利于有目标的水稻遗传资源保育和育种创新。  相似文献   

9.
Single nucleotide polymorphisms (SNPs) are the most abundant DNA markers in plant genomes. In this study, based on 54,465 SNPs between the genomes of two Indica varieties, Minghui 63 (MH63) and Zhenshan 97 (ZS97) and additional 20,705 SNPs between the MH63 and Nipponbare genomes, we identified and confirmed 1,633 well-distributed SNPs by PCR and Sanger sequencing. From these, a set of 372 SNPs were further selected to analyze the patterns of genetic diversity in 300 representative rice inbred lines from 22 rice growing countries worldwide. Using this set of SNPs, we were able to uncover the well-known Indica-Japonica subspecific differentiation and geographic differentiations within Indica and Japonica. Furthermore, our SNP results revealed some common and contrasting patterns of the haplotype diversity along different rice chromosomes in the Indica and Japonica accessions, which suggest different evolutionary forces possibly acting in specific regions of the rice genome during domestication and evolution of rice. Our results demonstrated that this set of SNPs can be used as anchor SNPs for large scale genotyping in rice molecular breeding research involving Indica-Japonica and Indica-Indica crosses.  相似文献   

10.
为了探索水稻(Oryza sativa L.)地方品种的遗传多样性及其有效保育方法,对采自云南省17个村寨的82个水稻地方品种和3个国际常用的典型籼稻和粳稻品种进行了微卫星(SSR)分子标记的分析.利用19对SSR引物在85个水稻品种中共扩增出了83个基因型,其分子量变异在100~500 bp之间.基于各品种SSR基因型遗传相似系数聚类分析而获得的UPGMA树状图表明各水稻品种之间存在较大的遗传多样性,其相似系数变异在0.15~0.90之间.但这些地方品种的遗传多样性并非呈均等的地理分布.这85个水稻品种在相似系数为0.52之处分为二组,其中一组包括几乎所有的籼稻品种,而另一组包括全部的粳稻品种,表明SSR标记能很好揭示水稻籼-粳分化.同时,有些来自不同采集地的同名品种表现出一定的遗传差异,说明同名异物的现象存在.云南水稻地方品种具有丰富的遗传多样性,对其有效保育十分重要和迫切,但只有根据遗传多样性的水平和分布特点,采用正确的保育对策和取样方法才能确保对云南水稻地方品种的有效保育.结果进一步表明,选用适当的微卫星引物,可以为准确鉴定籼稻和粳稻品种及研究其进化规律提供有效的分子标记方法,并有利于有目标的水稻遗传资源保育和育种创新.  相似文献   

11.
水稻品种多样性遗传分析与稻瘟病控制   总被引:13,自引:0,他引:13  
以2个籼型杂交稻——汕优63(A)和汕优22(B)、2个地方糯稻品种——黄壳糯(C)和紫糯(D)和3个粳稻品种——合系41(E)、楚粳12(F)和8126(G)为材料进行抗病基因同源序列(Resistance Gene Analogue,RGA)遗传分析。结果表明,杂交稻品种间以及粳稻品种间的抗性遗传较为相似,其相似系数分别为0.86和0.84。糯稻品种间以及糯稻、杂交稻和粳稻间的抗性遗传差异较大,相似系数为0.45。聚类分析表明,RGA结果与品种的系谱来源相吻合,与品种的田间抗性基本一致。根据品种的抗性遗传差异、农艺性状和经济性状的不同,在云南籼稻区的建水和石屏县以及温暖粳稻区的泸西县分别选用5种(A/C、A/D、B/C、B/D和A/B)和2种(E/C和E/F/G)不同的品种组合进行品种多样性混合间栽控制稻瘟病田间试验,结果表明,抗性遗传差异大(相似性:0.45~0.77)的5个品种混合间栽组合对稻瘟病有极为显著的控制效果,尤其是在混合间栽中高度感病的优质地方稻品种稻瘟病的发病率、病情指数均有极显著的下降,防治效果达54.47%~92.18%;遗传差异较小(相似性:0.84~0.90)的2个混栽组合混栽对稻瘟病的控制效果不明显,稻瘟病的防治效果在15.12%~25.54%。此外,品种抗性遗传和株高差异大的品种组合具有显著的增产效果,与品种净栽相比,平均增产539.0~900.0kg/ha,增幅5.57%-10.38%;品种抗性遗传和株高相似的品种组合没有增产效果。  相似文献   

12.
A simple mechanical method has been developed which allows the routine isolation of unfertilized and fertilized egg cells from ovules of Japonica and Indica rice varieties. In the experiments described, the majority of the egg cells and zygotes survived the isolation procedure when the donor plants were in a vigorous state. About 40% of the surviving zygotes underwent sustained development when cultured in Millicell inserts with a non-morphogenic rice feeder-cell culture. Nearly all zygote-derived callus cultures regenerated multiple shoots, which could be subsequently rooted with high efficiency. Zygote-derived plantlets matured to fertile plants when transplanted to soil. So far, about 80 independent plants each from the Japonica variety 'Taipei309' and the Indica variety 'IR58' have been regenerated. The potential of this single-cell regeneration system for marker gene-free transformation is discussed. Received: 26 November 1998 / Revision received: 15 March 1999 / Accepted: 21 March 1999  相似文献   

13.
水稻籽粒直链淀粉含量的生态模型研究   总被引:6,自引:0,他引:6  
在中国、日本和泰国不同生态环境下进行了多品种籼稻和粳稻的种植试验,通过分析水稻籽粒直链淀粉含量与纬度、海拔、温度、太阳辐射等气候生态因子的相互关系,确立了影响水稻籽粒直链淀粉积累的主要气候因子函数,并使用权重系数进一步修订各个气候生态因子对籽粒直链淀粉的作用,构建出基于生态效应(综合气候因子函数)的水稻籽粒直链淀粉含量预测模型.利用不同年份、不同生态点和不同品种类型的试验资料对所建模型进行了检验,籼稻和粳稻籽粒直链淀粉含量的预测误差(RMSE)平均分别为0.4%和0.5%;籼稻和粳稻种植区的预测误差(RMSE)平均为0.39%和0.50%,表明模型具有较好的预测性和实用性.  相似文献   

14.
RFLP analysis was conducted on a population derived from a three-way cross to determine the location of the hybrid sterility locus, S-5, in relation to mapped molecular markers and to identify markers that would be useful for selection in breeding. S-5 is of interest to rice breeders because it is associated with spikelet sterility of F1 hybrids in Indica/Japonica crosses. Identification of an S-5 allele which confers fertility in Indica/Japonica hybrids when introgressed into either the Indica or the Japonica parent has been reported. Varieties carrying this S-5 n allele are known as wide compatibility varieties (WCV). Our data suggests that RFLP marker RG213 on chromosome 6 is closely linked to the S-5 locus and can be efficiently used to identify wide compatibility (WC) lines. RG213 is a single-copy genomic clone that detects three bands of different molecular weights in DNA from Japonica (Akihikari) and Indica (IR36) varieties and WC line (Nekken 2). We demonstrate that the three alleles detected by this marker could be used to trace the inheritance of the wide compatible phenotype in breeders' material.  相似文献   

15.
影响籼粳稻DNA限制性片段长度多态性检测的因素分析   总被引:1,自引:0,他引:1  
对窄叶青(籼稻)和京系17(梗稻)的RFLP进行了系统分析。结果表明,某种酶多态性检测能力与同时检测到此多态性的其余酶的数目之间存在极显著的正相关(r=0.962**)。由此推论,籼粳稻大部分RFLP可能来自大范围DNA的结构变化而不是碱基取代。cDNA克隆虽然具有高度的保守性,但却具有比基因组克隆更高的多态性检测能力。在实验使用的探针范围内,探针长度和检测到的多态性无相关性。由探针检测到的多态性位点均匀地散布在水稻的12对染色体上,这可能是这两个品种所属的亚种之间的遗传距离较大的原因。  相似文献   

16.
Summary Thirty mapped Indica rice genomic (RG) clones were partially sequenced from each end. From such sequence data, pairs of oligonucleotides were synthesized to act as primers for polymerase chain reaction (PCR) amplification of the corresponding loci in crude total DNA preparations. The PCR products from DNA of Indica varieties were of the sizes expected from the sizes of the corresponding RG clones. However, size polymorphisms were seen between PCR products from Indica and Japonica varieties, and among wildOryza species. Restriction fragment length polymorphism (RFLP) was observed between PCR products of Indica varieties simply by electrophoretic analysis of restricted products, without the need for Southern hybridization or radiolabelling. The RFLPs noted between varieties ARC6650 and Phalguna were inherited in recombinant inbred lines derived from a cross between them. The RFLPs were detectable in PCR products amplified from DNA extracted by a simple procedure from single seedlings or leaves, and revealed genetic heterogeneity in cultivated lines. An approach is described that is relevant to the acceleration of classical plant breeding through molecular techniques.  相似文献   

17.
Reproductive barriers often arise in hybrid progeny between two varietal groups of Asian cultivated rice ( Oryza sativa L.), Japonica and Indica. Hybrid breakdown showing poor growth habit, and complete sterility was found in the backcrossed progeny derived from a cross between a Japonica variety, Asominori, and an Indica variety, IR24. We employed RFLP analysis in the segregating population to study the genetic basis underlying hybrid breakdown. It was found that the hybrid breakdown is caused by a set of two nuclear genes, which were symbolized as hwe1 and hwe2. The parental varieties, Asominori and IR24, carry hwe1(+) hwe1(+) hwe2hwe2 and hwe1hwe1hwe2(+) hwe2(+) genotypes, respectively, whereas the progenies that showed a weakness performance carry the double recessive genotype ( hwe1hwe1hwe2hwe2). Abnormality was not observed in the progenies that carry the other genotypes, indicating that a single dominant allele at either locus is necessary for normal growth. Based on linkage analysis with RFLP markers, the hwe1 locus was located between RFLP markers R1869 and S1437 on chromosome 12 and the hwe2 locus was located between R3192 and C1211 on chromosome 1. The genetic basis was reconfirmed using near-isogenic lines carrying the genes with reciprocal genetic backgrounds. The present study provides clear evidence, viewed by previous workers, that hybrid breakdown is attributed to complementary genes from both parents.  相似文献   

18.
Rice variety is one of the key factors regulating methane (CH4) production and emission from the paddy fields. However, the relationships between rice varieties and populations of microorganisms involved in CH4 dynamics are poorly understood. Here we investigated CH4 dynamics and the composition and abundance of CH4‐producing archaea and CH4‐oxidizing bacteria in a Chinese rice field soil planted with three types of rice. Hybrid rice produced 50–60% more of shoot biomass than Indica and Japonica cultivars. However, the emission rate of CH4 was similar to Japonica and lower than Indica. Furthermore, the dissolved CH4 concentration in the rhizosphere of hybrid rice was markedly lower than Indica and Japonica cultivars. The rhizosphere soil of hybrid rice showed a similar CH4 production potential but a higher CH4 oxidation potential compared with the conventional varieties. Terminal restriction fragment length polymorphism analysis of the archaeal 16S rRNA genes showed that the hydrogenotrophic methanogens dominated in the rhizosphere whereas acetoclastic methanogens mainly inhabited the bulk soil. The abundance of total archaea as determined by quantitative (real‐time) PCR increased in the later stage of rice growth. However, rice variety did not significantly influence the structure and abundance of methanogenic archaea. The analysis of pmoA gene fragments (encoding the α‐subunit of particulate methane monooxygenase) revealed that rice variety also did not influence the structure of methanotrophic proteobacteria, though variable effects of soil layer and sampling time were observed. However, the total copy number of pmoA genes in the rhizosphere of hybrid rice was approximately one order of magnitude greater than the two conventional cultivars. The results suggest that hybrid rice stimulates the growth of methanotrophs in the rice rhizosphere, and hence enhances CH4 oxidation which attenuates CH4 emissions from the paddy soil. Hybrid rice is becoming more and more popular in Asian countries. The present study demonstrated that planting of hybrid rice will not enhance CH4 emissions albeit a higher grain production than the conventional varieties.  相似文献   

19.
A genome-wide survey of reproductive barriers in an intraspecific hybrid   总被引:6,自引:0,他引:6  
Genetic study of the reproductive barriers between related species plays an essential role in understanding the process of speciation. We developed a new method for mapping all possible factors causing deviations from expected Mendelian segregation ratios in F(2) progeny, which substantially contribute to reproductive isolation. A multiresponse nonlinear regression analysis of the allele frequencies of the markers covering an entire genome in the F(2) population was performed to estimate the map position and intensity of the reproductive barriers on each chromosome. In F(2) plants from a cross between a Japonica variety of rice, Nipponbare, and an Indica variety, Kasalath, the deviations of allele frequencies were well explained by 33 reproductive barriers. Of these, 15 reproductive barriers affected the allele transmission rate through the gametophyte and in 9 of these 15 cases, an Indica allele was transmitted at a higher frequency than a Japonica allele. The other 18 reproductive barriers altered the viability of the zygote via its genotype. Two zygotic reproductive barriers showed overdominance and 5 showed underdominance. The most pronounced reproductive barrier, mapped at 62.3 +/- 0.4 cM on chromosome 3, transmitted the Indica allele by 94% through the male gametophyte. The accuracy of the barrier position in the regression analysis was confirmed by progeny analysis. The regression analysis proved to be a powerful tool for detecting and characterizing every reproductive barrier, irrespective of whether it acted on the male or female gametophyte or the zygote.  相似文献   

20.
不同栽培方式对籼、粳稻根表铁膜和根铁、镉含量的影响   总被引:6,自引:1,他引:6  
在Cd污染土壤中研究淹水、覆膜、覆草和湿润栽培对籼、梗稻不同生育时期根表铁膜Fe、Cd含量和根Cd含量的影响.结果表明,在分蘖期,梗稻根表铁膜Fe含量和根Cd含量在4种栽培方式中平均为6.37和25.49mg.kg-1。分别比籼稻的4.52和16.37mg·kg-1增加1.85和9.12mg·kg-1.在孕穗期,粳稻根表铁膜Fe、Cd含量和根Cd含量在4种栽培方式中平均为1.60、16.35和54.68mg·kg-1,分别比籼稻的1.06、9.56kg和43.31mg·kg-1增加0.54、6.79和11.37mg·kg-1.在灌浆期,梗稻根表铁膜Fe含量覆草和湿润栽培为0.89和1.00mg·kg-1,分别比籼稻的0.63和0.30mg·kg-1增加0.26和0.70mg·kg-1;梗稻根表铁膜Cd和根Cd含量在4种栽培方式中平均为15.23和73.68mg·kg-1,分别比籼稻的3.46和52.38mg·kg-1增加11.77和21.30mg·kg-1收获时。根表铁膜Fe含量淹水栽培的籼稻为1.21mg·g-1,比梗稻的0.65mg·g-1增加0.56mg·g-1,覆草栽培的梗稻为0.94mg·g-1,比籼稻0.55mg·g-1增加0.39mg·g-1;根表铁膜Cd含量湿润栽培的梗稻为7.96mg·kg-1,比籼稻的5.09mg·kg-1增加2.87mg·kg-1;根Cd含量梗稻在4种栽培方式中平均为54.53mg·kg-1,比籼稻的35.91mg·kg-1增加18.62mg·kg-1。  相似文献   

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