Study on the relationship between genetic variation of DNA methylation and heterosis in soybean leaves

In order to well understand the molecular basis of heterosis in soybean, the methylation-sensitive amplification polymorphism (MSAP) method based on capillary electrophoresis was used to estimate levels and patterns of cytosine methylation in 15-day post-emergence leaves of four parental lines [Jilin 47 (no. 19), EXP (no. 12), Jilin 38 (no. 3) and Yi 3 (no. 6)] and 12 hybrids [Jilin 38 × Yi 3(3 × ?6), Jilin 38 × ?EXP(3 × ?12), Jilin 38 × ?Jilin 47(3 × ?19), Yi 3 × ?Jilin 38(6 × ?3), Yi 3 × ?EXP(6 × ?12), Yi 3 × ?Jilin 47(6 × ?19), EXP × Jilin 38(12 ×?3), EXP × Yi 3(12 × ?6), EXP × ?Jilin 47(12 × ?19), Jilin 47 × ?Jilin 38(19 × ?3), Jilin 47 × Yi 3(19 × 6), Jilin 47 × EXP(19 × 12)]. In addition, 12 traits of the hybrids and their parents were also analyzed to understand the relationship between DNA methylation variation and heterosis. MSAP results showed that the total relative methylation level of all hybrids was lower than the corresponding middle parent value, indicating that the methylation degree was decreasing. And may express a variety of genes related to the phenotypic variation of hybridization. Moreover, the hemi-methylation levels of Jilin 38 × Jilin 47 and Yi 3 × Jilin 47 hybrids and full-methylation levels of EXP × Yi 3 and EXP × Jilin 47 hybrids was significant higher than the corresponding mid-parent values. In addition, the heredity of methylation from parents in hybrids is more than the variations, in which there were four types appeared great higher: A1, B4, B8, and D2. Furthermore, the results of relationship between genetic variation in DNA methylation and heterosis showed that the hypo-methylation had a promoting effect to increase node number, and the hype-methylation of hybrids was helpful to add to stem thick. Our results may provide new insights into well understanding the molecular mechanisms of heterosis at the epigenetic level in soybean.     

Indica-Japonica differentiation of paddy rice and its relationship with heterosis

The Indica‐Japonica differentiation of three photoperiod‐sensitive and/or thermosensitive genetic male‐sterile rice (PGMS or TGMS, respectively) lines and 47 male parental lines from seven ecotypes were studied for their restriction fragment length polymorphism marker data to determine which ecotype crosses with the three PGMS and/or TGMS lines could lead to higher yield potential, and to estimate the relationship between the Indica‐Japonica differentiation of parents and heterosis in grain yield and its components. The results indicated that hybrids derived from ‘N422s’ and the early‐middle ripening Indica varieties from southern China, and hybrids between ‘Pei'ai64s’ and three Japonica ecotypes, including North‐eastern Japonica varieties, restoring lines of Japonica hybrid rice and north China Japonica varieties, showed the highest grain yields. There was less variation of yield among the F1s between ‘108s’ and the seven ecotypes than among the other F₁s. Highly significant positive correlations between heterosis of the F₁ yield and genetic distance of the parents were detected, although the correlation between F₁ yield performance and genetic distance did not reach a significant level. Considerable variation of correlation between heterosis and genetic distance was also detected in the Indica × Indica crosses and Indica × Japonica crosses. There was much higher correlation (r = 0.63) between the F₁ yield performance and the genetic distance of parents in the Indica × Indica crosses than in the others. It is proposed that a genetic distance of 0.4‐0.8 between the two parents of hybrid rice might be appropriate not only for F₁ performance, but also for heterosis.     

Relationship between heterosis and genetic divergence in 'Tongil'-type rice

Improving grain yield and quality of ‘Tongil’‐type rice (indica/japonica) continues to be a major breeding objective in Korea. In this study, genetic divergence among 13‘Tongil’‐type rice cultivars was evaluated and the relationship between genetic distance and hybrid performance in all possible nonreciprocal crosses between them assessed. The 78 F₁ hybrids together with the 13 parents were evaluated for eight traits of agronomic importance, including yield, in a replicated field trial. The 13 parents were examined for DNA polymorphism using 71 micro‐satellite or simple sequence repeats and 46 random decamer oligonucleotide primers. A total of 319 polymorphic variants were generated and, based on the polymorphism data, genetic distances (GDs) ranged from 0.021 to 0.437. Cluster analysis based on GDs revealed associations among cultivars which was in agreement with the pedigree data. Heterosis was observed in hybrids for most of the traits, and yield exhibited the highest heterosis among the eight traits examined. The correlation values of GDs with F₁ performance were mostly nonsignificant, except for yield, culm length and spikelets per panicle. The correlations of GDs with midparent and better‐parent heterosis were not significant enough to be of predictive value. These results indicate that GDs based on the microsatellite and random amplified polymorphic DNA (RAPD) markers may not be useful for predicting heterotic combinations in ‘Tongil’‐type rice and support the idea that the level of correlation between hybrid performance and genetic divergence is dependent on the germplasm used.     

Inheritance studies of characters associated with floating habit and their linkage relationship in rice

Summary Deep water rice varieties in general have certain peculiar characters which are associated with floating habit. These characters are (i) early nodal differentiation, (ii) nodal rooting, (iii) spreading habit, (iv) awned grains, (v) brown hull colour, (vi) red pericarp (red rice), and (vii) seed dormancy. Inheritance of these characters and linkage relationship of genes governing these characters were studied in a cross between Pankaj (non floating) and Nageribao (floating) rice varieties. Nageribao, a cultivar from Assam possesses these characters.Early nodal differentiation was observed to be controlled by a single dominant gene, designated as Nd. Nodal rooting was controlled by two dominant complementary genes, designated as Nr ₁ and Nr ₂. We found an inhibitory factor for spreading habit and one for brown hull colour in Pankaj; the operation of two dominant duplicate genes An ₁ and An ₂ for controlling awning characters, a single dominant gene Rd for red pericarp colour and a single dominant gene Gd for grain dormancy. Joint segregations between these characters resulted in the assignment of genes in the X linkage group of indica rices with estimated map distances based on the cross-over values. The genes An (awning), Es (spreading habit), Nr (nodal rooting) and Nd (nodal differentiation) were observed to be associated with each other. The gene for red pericarp (Rd) was observed to be linked with the grain dormaney gene Gd.     

人工合成甘蓝型油菜抗旱性及DNA甲基化水平分析

甘蓝型油菜是具有重要经济价值的多倍体物种,是优质食用植物油和饲料蛋白质的重要来源之一。但是其驯化历史较短,遗传背景狭窄,且在整个生命周期中都对干旱胁迫敏感,因此培育高产耐旱品种是甘蓝型油菜的重要育种目标之一。本文用15%PEG-6000模拟干旱胁迫,对人工合成甘蓝型油菜不同世代(S1～S4)及其二倍体亲本进行不同时间的胁迫处理,并结合表型观察,以及叶片中丙二醛(MDA)、可溶性蛋白含量、过氧化物酶(POD)、超氧化物歧化酶(SOD)等生理指标的测定,初步了解上述材料的抗旱性差异。结合表型观察和叶片中相对含水量分析,发现人工合成甘蓝型油菜S1～S4及其亲本的抗旱性表现为甘蓝 Bn-S3 Bn-S4 Bn-S1 Bn-S2白菜型油菜。干旱胁迫后Bn-S3、Bn-S4的POD及SOD活性较高,MDA含量较低,表明Bn-S3和Bn-S4能更加有效地清除活性氧(ROS),对过氧化损伤的防御能力更强。通过HPLC分析发现所有材料的甲基化水平在胁迫12 h时最高,其中亲本白菜型油菜Br的甲基化水平最高, Bn-S1和Bn-S4介于两亲本之间,而Bn-S2和Bn-S3低于两亲本。甲基化敏感多态性分析也显示人工合成甘蓝型油菜在干旱胁迫后,甲基化和去甲基化水平均发生了明显的变化,表明植物的甲基化变化可能有利于提高其抗旱能力。     

Quantitative trait loci for phytate in rice grain and their relationship with grain micronutrient content

Phytate (inositol-hexa-phosphate) has an important role in plants but it also may have anti-nutritional properties in animals and humans. While there is debate within the plant breeding and nutrition communities regarding an optimum level in grain, there appears to be little information at the molecular level for the genetics of this trait, and its association with important trace elements, in particular, Fe and Zn. In this preliminary study, quantitative trait loci (QTL) for grain phytates, Zn and Fe in glasshouse-grown rice lines from an IR64 × Azucena doubled haploid population were identified. Correlations between phytate and essential nutrients were also studied. Transgressive segregation was found for most traits. Phytate and total P concentrations had one QTL in common located on chromosome five with the (high concentration) allele contributed from Azucena. There were significant positive correlations between phytate and inorganic phosphorus (P), total P, Fe, Zn, Cu and Mn concentrations for both grain concentration and content. However, the QTLs of phytate were not located on the same chromosomal regions as those found for Fe, Zn and Mn, suggesting that they were genetically different and thus using molecular markers in breeding and selection would modify the phytate level without affecting grain micronutrient density.     

Genetic diversity in the parental lines and heterosis of the tropical rice hybrids

Genetic diversity within and between the maintainer (B) and restorer (R) lines used in hybrid breeding programs of the Philippine was investigated with information from analysis of pedigree record, quantitative traits and SSR assays. Mean coefficients of coancestry were calculated as 0.11 within R lines, 0.27 within B lines, and 0.04 between R and B lines, indicating greater diversity among R lines than among B lines, and the significant divergence between B and R lines. These results are consistent with those obtained from quantitative trait analysis and SSR marker assays. Relative gene diversity for 37 random SSR markers averaged 0.20 within B lines,0.28 within R lines, and 0.52 between two groups of lines. There were no consistent associations among various genetic diversity measures. Random sets of SSR marker and pedigree based diversity measures had no significant correlation with mid-parent heterosis for grain yield and biomass, indicating that prediction of heterosis for complex traits based on these two genetic diversity estimates is difficult. This revised version was published online in August 2006 with corrections to the Cover Date.     

Combining ability,heterosis, genetic distance and their intercorrelations for waterlogging tolerance traits in chrysanthemum

Waterlogging tolerance (WT) is a major objective in chrysanthemum breeding programs, and although certain genotypes with different tolerance levels have been identified, their value as parents for WT breeding is unknown. Here, twelve F₁ crosses derived from an incomplete diallel mating scheme were conducted to investigate combining ability and heterosis for WT and their relationships with parental genetic distance. The results showed that the membership function value of waterlogging (MFVW) was controlled by additive and non-additive gene effects, whereas other growth and biomass traits were mainly controlled by non-additive gene effects. The estimated broad and narrow sense heritabilities of the MFVW were 97.5 and 51.5%, respectively. Combining ability analyses indicated that ‘Nannong Xuefeng’ showing the largest general combining ability (GCA) effect for the MFVW was the best combiner, and identified several best cross combinations with high positive specific combining ability (SCA) effects for most WT-related traits. Mid- and high-parent heterosis occurred widely. The three distance measures, based on phenotypic traits (PD), molecular markers (GD) and markers linked with quantitative trait loci (QTL-GD), presented a non-significant correlation with combining ability except for the GD with GCA for the relative root fresh weight. The correlations between the QTL-GD and heterosis were significant for certain traits and generally higher than that of the PD or GD and heterosis. The SCA effects were positively correlated with heterosis for most of the WT traits (0.51 ≤ r ≤ 0.80). The findings benefit understanding the inheritance mode and then achieving desirable improvement for WT in chrysanthemum.     

Analysis of embryo, endosperm, cytoplasmic and maternal effects for heterosis of protein and lysine content in indica hybrid rice

The heterosis controlled by genetic main effects and genotype × environment (GE) interaction effects for protein content and lysine content traits of indica hybrid rice, Oryza sativa L., was studied by using a genetic model for quantitative traits of triploid endosperm. The experiment was conducted over 2 years in a factorial design that included nine cytoplasmic male-sterile lines as females and five restorer lines as males. It was revealed that heterosis of protein content and lysine content were simultaneously controlled by genetic main effects and GE interaction effects. Maternal general heterosis and maternal interaction heterosis were observed. Embryo heterosis or cytoplasm heterosis for lysine content and endosperm heterosis for protein content were more important in general heterosis. Embryo interaction heterosis and cytoplasm interaction heterosis were more important for protein content, but endosperm heterosis was only important for lysine content in GE interaction heterosis. It was shown that some indica hybrid crosses had significant positive heterosis for protein content. Negative heterosis for lysine content was observed in most hybrid crosses.     

Prediction of heterosis for grain yield in rice using 'key' informative EST-SSR markers

This study was undertaken to assess the comparative potential of 25 Expressed Sequence Tag derived simple sequence repeats (EST-SSRs) and 25 genomic SSRs in the prediction of grain yield heterosis using a set of nine cytoplasmic male sterile (CMS) lines and 32 restorer lines of rice. EST-SSRs and genomic SSRs exhibited an average Polymorphism Information Content value of 0.37 and 0.45, respectively. The coefficient of marker polymorphism among parental lines with respect to a set of hypervariable EST and genomic SSRs was correlated with standard heterosis for grain yield of six public bred rice hybrids. EST-SSRs gave a better correlation (r = 0.75) as compared with genomic SSRs (r = 0.09). When 10 'key' informative EST-SSR markers which showed a higher positive correlation with grain yield heterosis were validated in a new set of 14 experimental hybrids, the markers exhibited a higher correlation (r = 0.79), indicating the predictive value of these EST-SSRs. We recommend these 10 'key' informative EST-SSR markers for analysis of genetic diversity of parental lines and prediction of heterosis in hybrid rice breeding programmes.     

Aluminium tolerance in lentil (Lens culinaris Medik.) with monogenic inheritance pattern

The objectives of this study were to determine genetics of Al tolerance and whether the Al tolerance observed is governed by the same gene. The lines ‘L‐7903’ and ‘L‐4602’ have been developed through breeding programme as Al‐tolerant lines. These lines showed maximum root regrowth and minimum accumulation of Al and callose as compared to sensitive genotypes (‘BM‐4’ and ‘L‐4147’). Al tolerance in the parents, F₁, F₂ and backcross generations was estimated using the regrowth of the primary root after staining and scoring of fluorescent signals. The F₁ hybrids responded similarly to the tolerant parents, indicating dominance of Al tolerance over sensitivity. The segregation ratios obtained for Al tolerance and sensitivity in the F₂ and backcross generations were 3 : 1 and 1 : 1, respectively. Test of allelism confirmed the same gene was conferring Al tolerance in both genotypes (‘L‐7903’ and ‘L‐4602’) as the F₁ was also tolerant and no segregation of tolerant : sensitive was recorded. These results indicated that Al tolerance is a monogenic dominant trait that can be easily transferred to agronomic bases through backcross breeding technique.     

Parental genetic distance and combining ability analyses in relation to heterosis in various rice origins

Journal of Crop Science and Biotechnology - Information on parental genetic distance and combining ability is a fundamental prerequisite for hybrid rice breeding. Based on a study of genetic...     

Wheat spike fertility: inheritance and relationship with spike yield components in early generations

In wheat, grain number is considered as the product of spike dry weight (SDW) and the number of grains per unit of SDW, that is an indicator of spike fertility (SF). The aim of this study was to determine the heritability of SF and the effect of early selection for high SF on its relationship with other spike yield components. Two field experiments were conducted in the south‐eastern Pampas (Argentina) with 400 F₂ and F_2:3 families obtained from two crosses between varieties with contrasting SF (PIG/SSN and B10/KCJ). Heritability estimates in PIG/SSN and B10/KCJ were, respectively, 0.60 and 0.51 by variance component analysis, 0.43 and 0.43 by F₂ : F₃ parent–offspring regression and 0.30 and 0.28 by realized heritability analysis. The existence of transgressive segregation (i.e. the occurrence of families with SF values that were more extreme than those of the parents) was observed. The top 25% F₃ families with the highest SF had 12% more grains per spike, despite a 13% and 5% decrease in SDW per spike and weight per grain, respectively, than the remaining families. These results give support to the application of early selection for high SF.     

Genetic analysis of mechanisms associated with inheritance of resistance to sheath rot of rice

Understanding genetic mechanisms controlling inheritance of disease resistance traits is essential in breeding investigations targeting development of resistant genotypes. Using North Carolina design II, 32 F₁ hybrids were generated by crossing eight susceptible to four resistant parents and submitted for field evaluation. The analysis of general and specific combining ability (GCA and SCA) indicated involvement of additive and non‐additive gene action controlling inheritance of horizontal resistance to sheath rot of rice. High GCA/SCA ratio and high heritability estimates revealed additive effects and were more predominant than none additive ones. The level of dominance indicated dominant genes was more important than recessive genes. Estimates of GCA and SCA analysis suggested that crop improvement programmes should be directed towards selection of superior parents or good combiners, emphasizing on GCA. As far as source of resistance is concerned, most promising genotypes were Cyicaro, Yunertian and Yunkeng. The predominance of additive genetic effects together with the relevance of dominant genes suggested possibilities of improving the resistance by introgression of resistance genes through recurrent selection coupled with phenotypic selection.     

基于通路分析剖析水稻农艺性状配合力和杂种优势

按照NCII遗传交配设计构建测交群体,考察包括产量性状在内的9个农艺性状,对水稻农艺性状表型、配合力和杂种优势进行通路分析,以期为水稻品种的培育和改良提供理论基础。结果表明,主穗实粒数与生物调控、千粒重与半胱氨酸和蛋氨酸代谢、主穗长与SNARE相关囊泡运动、主穗一/二次枝梗与依赖DNA的转录、株高与大分子代谢过程、主穗颖花数与花粉识别、有效穗数与水解酶活性、单株实粒重与嘌呤核苷结合等通路相关。为获得优良性状,高配合力,杂种优势可以从某一性状的相关通路进行研究,找到调控该通路的相关基因,以期为改良水稻一般配合力和获得杂种优势提供一定帮助。     

Inheritance and linkage relationship of scent in rice

Summary The inheritance of scent in rice and linkage relationship of genes governing scent with those controlling leaf sheath colour, ripening hull colour and apiculus pigmentation were studied in a cross between Pankaj (nonscented) and Kalabhat (scented) rice cultivars. The scent was identified by leaf analysis.Two dominant complementary genes Sk ₁ and Sk ₂ were found to be responsible for controlling scent. Either of the genes produce mild scent, the presence of both Sk ₁ and Sk ₂ is necessary for production of parental type scent. The genes were independent of other genes controlling leaf sheath colour, ripening hull colour and apiculus pigmentation.     

Hybrid performance and heterosis in spring bread wheat, and their relations to SSR-based genetic distances and coefficients of parentage

Development of hybrids is considered to be a promising avenue to enhance the yield potential of crops. We investigated (i) the amount of heterosis observed in hybrid progeny, (ii) relative importance of general (GCA) versus specific (SCA) combining ability, and (iii) the relationship between heterosis and genetic distance measures in four agronomic traits of spring bread wheat. Eight male and 14 female lines, as well as 112 hybrids produced in a factorial design were grown in replicated trials at two environments in Mexico. Principal coordinate analysis based on Rogers' distance (RD) estimates calculated from 113 SSRs revealed three different groups of parents. Mid-parent heterosis (MPH) for grain yield averaged 0.02 t ha⁻¹ (0.5%) and varied from −15.33% to 14.13%. MPH and hybrid performance (F1P) were higher for intra-group hybrids than for inter-group hybrids, with low values observed in inter-group crosses involving two non-adapted Chinese parents. Combined analyses of variance revealed significant differences among parents and among hybrids. Estimates of GCA variances were more important than SCA variances for all traits. Tight correlations of GCA with line per se performance, and mid-parent value with F1P were observed for all traits. In contrast, correlations of MPH with RD and coefficient of parentage were not significant. It was concluded that the level of heterosis in spring wheat was too low to warrant a commercial exploitation in hybrids. SSRs proved to be a powerful tool for the identification of divergent groups in advanced wheat breeding materials.