烤烟主要农艺性状的遗传与相关分析

利用包括基因型与环境互作的加性-显性遗传模型,对14个烤烟品种(系)及其配制的41个杂交组合在4个环境下的7个农艺性状表现进行遗传分析。结果表明,株高、节距、腰叶宽主要受加性效应控制,叶数、腰叶长受显性×环境互作效应影响最大,茎围以加性×环境互作效应、显性×环境互作效应为主,产量以加性效应、显性×环境互作效应为主。适应当地生态条件的品种（系）具有较高的正向加性效应。许多组合的显性主效应及在各试验点的显性×环境互作效应在方向上不尽一致,杂交组合的选配宜针对特定的生态环境进行。性状相关分析表明,大多数成对性状的各项相关系数为正值,且多以加性遗传相关为主,可利用株高对产量进行间接选择。
     

7个烤烟产量相关性状的QTL定位分析

以烤烟Y3和K326为亲本,采用单粒传法(SSD)获得一个包含262个F6株系的重组自交系群体(RILs)。基于该群体构建了一张含有24个连锁群、626个SSR标记,总长为1 120.45cM的遗传图谱。通过两年一点3次重复的随机区组田间试验,测定了株高、节距、叶数、茎围、茎叶角度、腰叶长和腰叶宽7个与产量相关农艺性状,采用混合线性模型的严格复合区间作图法(rMQM)在烟草全基因组范围内进行QTL扫描分析。结果显示:(1)烤烟7个目标性状在RILs群体内各株系间存在较大范围的连续变异,具有显著的双向超亲分离,且各性状的平均值很接近中亲值;7个农艺性状的平均广义遗传率为73.33%,其中株高和节距的广义遗传率在80%以上,而茎围和茎叶角度的广义遗传率则低于60%,表明7个与烤烟产量相关的农艺性状是既受微效多基因控制又受环境条件影响的数量性状。(2)共检测到30个QTLs分布在9条连锁群上,其中与株高、节距、叶数、腰叶长和腰叶宽相关的5个主效QTLs在连续两年中均可检测到,且具有较大的效应值,可解释大于10%的表型变异。(3)7个目标性状之间存在一定程度的相关性,与之对应在基因组中也存在一些较小区域,每个区域包含2个或2个以上紧密连锁的不同性状的QTLs。烟草产量相关农艺性状的QTL分析和主效QTLs的获得,为进一步利用分子标记辅助选择培育烟草高产新品种奠定了理论基础。     

烤烟主要农艺性状对产量的遗传贡献率分析

为了研究烤烟主要农艺性状对产量的贡献,以14个品种（系）及其配制的41个杂交组合为材料,利用估算条件方差分量和预测条件遗传效应值的统计方法对多点实验数据进行了分析。结果表明,株高对产量的加性遗传方差贡献率最高,腰叶长对产量的显性遗传方差贡献率最高,各农艺性状对产量的加性X环境互作遗传方差、显性X环境互作遗传方差的贡献率均较小。对产量加性效应贡献最大的农艺性状因不同亲本而异,表明各亲本具有其独特的遗传和发育特性。多数杂交组合产量的显性效应主要受腰叶长影响,因此腰叶长可作为间接选择组合产量显性效应的指标。     

结球甘蓝植株相关主要农艺性状 的遗传及相关性分析

利用主要农艺性状上具有显著差异的结球甘蓝高代纯合自交系01-88和02-12杂交获得F1,通过游离小孢子培养获得含有189个基因型的DH群体为试验材料,采用主基因+多基因混合遗传模型对结球甘蓝外叶数、开展度、株高、外叶颜色、外叶长和外叶宽6个与植株相关的主要农艺性状进行遗传和相关性分析。结果表明,在DH分离群体中6个主要农艺性状呈连续的、单峰、偏态分布,说明这些性状为多基因控制的数量性状。除外叶宽和外叶颜色性状受多基因控制外,其余4个农艺性状均受2对主基因+多基因控制。主基因遗传率大小顺序为株高(59.16%)>外叶长(56.56%)>外叶数(55.67%)>开展度(19.56%)。株高、外叶长和外叶数性状具有较高的主基因遗传率,早代选择效果较好。这6个农艺性状间存在一定的相关性,其中外叶数与开展度、外叶长与外叶宽等成对性状呈极显著正相关;外叶数与外叶宽成对性状呈极显著负相关,在育种实践中可利用其相关性实行间接选择。     

云南香型软米水稻资源农艺性状遗传效应研究

选取5份云南地方香型软米水稻种质资源和6份自育香型软米保持系按5×6不完全双列杂交设计(NCⅡ)配制成30个组合,采用加性-显性-上位性遗传模型,分析云南香型软米11个农艺性状的遗传效应。结果表明,云南香型软米多数农艺性状的遗传主要受加×加上位性效应、加性×环境效应、显性×环境效应的影响,还存在不同程度的加性效应和显性效应,单株产量受基因加性效应、显性效应、加×加上位性效应、加性×环境效应、显性×环境效应的影响;株高、有效穗的遗传率以普通狭义遗传率为主,其他性状的普通狭义遗传率和互作狭义遗传率均达极显著水平;产量构成性状之间存在不同类型和不同程度的遗传相关,多数性状之间以加×加上位性、加性×环境和显性×环境互作效应显著。     

烤烟种质焦油释放量及其影响因素的相关性分析

以种植在山东、四川两个省份的205份烤烟种质为研究材料,通过多年多点精准鉴定,筛选出窝里黄0782、P3、黔南七号、82-3041、吉烟9号等低焦油烤烟种质17份。系统调查了株高、叶数、茎围等农艺性状,检测了初烤后烟叶中6项常规化学成分,并采用简单相关分析、通径分析和回归分析等方法探讨农艺性状、化学成分与焦油释放量的相关关系。结果表明,烟叶化学成分对焦油释放量的贡献大于农艺性状,特别是总糖、还原糖与焦油释放量呈极显著正相关,而钾与焦油释放量呈极显著负相关。各因子对焦油释放量的直接作用顺序为:钾总糖烟碱腰叶长叶绿素茎围株高。钾和总糖主要通过直接作用影响焦油释放量,烟碱对焦油释放量的直接影响作用和间接影响作用相近,腰叶长、叶绿素以及茎围等农艺性状可间接影响焦油释放量,其他指标对焦油释放量影响不显著。最后,建立了农艺性状、化学成分与焦油释放量的回归模型,可为低焦油烤烟种质的筛选与利用提供技术支持。     

油用向日葵主要农艺性状的遗传效应及相关性研究

根据加性-显性与环境互作的遗传模型,对6个油用向日葵自交系及其配制的9个杂交组合在2个环境下的7个农艺性状表现进行遗传分析,揭示油用向日葵主要农艺性状遗传性质、规律以及主要农艺性状对含油率的贡献率。结果表明:株高、茎粗、盘径、百粒重、籽仁率和单盘粒重等6个遗传性状主要受加性和显性共同控制,结实率的遗传以加性、显性×环境互作效应为主,籽仁率、单盘粒重以加性、显性、显性×环境互作效应为主;性状间的各项遗传相关性多以加性遗传相关为主。百粒重的净效应对籽实含油率的加性遗传方差贡献率最高,结实率的净效应对籽实含油率的显性遗传方差贡献率最高,单盘粒重对籽实含油率的加性×环境互作遗传方差的贡献率最高。     

烤烟叶数、叶面积的遗传分析

以叶数较少、叶面积较小的烤烟品种丸叶为母本(P1),以叶数较多、叶面积较大的烤烟品种Coker319为父本,构建了6个世代分离群体,利用植物数量性状主基因+多基因混合遗传模型的联合分离分析方法,分析烤烟杂交组合丸叶×Co-ker319叶数、叶面积的遗传效应。结果表明:烤烟的叶数和叶面积均受2对加性-显性-上位性主基因+加性-显性-上位性多基因(E0)控制,其中叶数遗传以加性效应及显性×显性上位性效应为主,叶面积几种遗传效应差不多,其上位性效应>加性效应>显性效应,叶数和叶面积在B1世代的主基因遗传率分别为36.91%和2.13%,多基因遗传率分别为31.00%和19.53%,B2世代的主基因遗传率分别为51.60%和50.92%,多基因遗传率分别为16.84%和13.26%,F2世代的主基因遗传率分别为42.63%和30.32%,多基因遗传率分别为42.08%和12.18%,叶数和叶面积的主基因遗传率较高,适合在早代选择。     

辣椒植株性状Hayman双列杂交分析

用辣椒（Capsicam annuum L．）6个亲本,按（1／2）n（n-1）双列杂交法配制15个杂交组合,用Hayman双列杂交分析法估算了5个植株性状的遗传参数。Wr对Wr的回归分析结果表明,侧枝数、株高、株幅、主茎高和首花节位的遗传都符合加性-显性模型。Wr＋Vr与Yr间相关分析表明,侧枝数、株高、株幅、主茎高呈负相关,说明含有更多显性基因的亲本具有较小的Wr＋Vr值;首花节位呈正相关,且达到极显著水平,说明含有更多显性基因的亲本具有较大的Wr＋Vr值。遗传参数估算表明侧枝数、株幅、主茎高和首花节位性状的遗传以加性效应为主,加性效应比显性效应更加重要。株高的遗传中加性效应和显性效应都很重要。     

蚕豆特矮秆突变体的遗传研究

用在国内首次发现的蚕豆特矮秆突变体的优良后代“鄂农 82矮”及高秆品种“启豆1号”为亲本, 研究了株高及其与株高密切有关的两个性状──节间长和节数的遗传。结果表明:株高、节间长、节数3个性状受核基因控制,不存在任何形式的母性遗传。供试双亲株高性状存在一对基因的差异,我们用Df-df表示这一基因座的两个等位基因,高秆亲本基因型为Df Df,矮秆亲本的基因型为dfdf,高秆对矮秆为显性。数量遗传分析表明,3个性状的遗传均符合加性显性模型,株高、节长的加性效应和显性效应都很重要,显性度接近于1。节数仅受加性效应控制,显性效应不显著。 Abstract:DwarF Enong 82,which derived from the unique dwarf mutant discovered in China,was crossed with the commercial broad bean cultivar Qidou 1.From the crossing six basic generations were generated for studing the genetical behaviors of plant height and two related characters i.e. node length and number of nodes.The results showed that the three characters were governed by nuclear genes.The difference in plant height between two parents was related to a loci,which was designated Df-df.Generation mean analyses revealed that the additive-dominance model was adequate to interpreting the inheritance of the three characters.The estimates of number of genes controlling these characterswere the same astheresults with Mendlian methods.     

Genetic and heterosis analysis for important agronomic traits of Chinese vegetable mustard (<Emphasis Type="Italic">Brassica juncea</Emphasis>) in different environments

Genetic effects and genotype by environment (GE) interaction effects for some important agronomic traits of Chinese vegetable mustard were analyzed by using a genetic model including additive, dominance, additive × additive effects and their interaction effects with the environment. Four variations of Chinese vegetable mustard as parental lines and their F_1s, F_2s were evaluated in two locations. It was revealed that the agronomic traits of Chinese vegetable mustard were mainly controlled by genetic effects except plant weight (PW) and leaf weight (LW) were observed to be more affected by GE interaction effects. Among the genetic effects, additive effects took the main proportion for tiller number (TN), leaf number (LN), leaf breadth (LB) and LW; dominance effects were the main components of PW, leaf length (LL), root weight (RW) and plant height (PH); additive × additive effects were the main components of plant breadth (PB). Among the GE interaction effects, additive × environment interaction effects mainly affected LB, LW and RW, while PW, LL, PH and PB were mainly controlled by dominance × environment interaction effects. Besides, additive × additive × environment interaction was the main factor, which controlled TN and LN of Chinese vegetable mustard. For heterosis analyses, TN, LN, LB and LW of Chinese vegetable mustard showed positive H_PM and negative H_PB. The other traits showed positive H_PM and H_PB. Heterosis arising from GE interaction was found to varying degree for different environments. It was shown that genetic heterosis and GE interaction effects were important factors for agronomic traits in Chinese vegetable mustard.     

黄瓜雄花性状的遗传分析

为了解黄瓜雄花花器的遗传特性,该研究以雄花器官较小的华南型黄瓜二早子为母本,花器较大的加工型黄瓜NC-76为父本,构建4世代遗传群体,并采用多世代联合分离分析方法,分析黄瓜雄花花器性状的遗传特性。结果表明:分离群体的雄花花梗和花冠长2个性状均表现为单峰分布,表明两性状为数量性状且有主基因控制;花梗长性状符合2对完全显性主基因+加性-显性多基因(E-5)模型,花冠长性状符合2对加性-显性-上位性主基因+加性-显性-上位性多基因(E-1)模型;控制花梗长性状的两对主基因的加性效应相等,为0.573,多基因的加性效应和显性效应值相差不大,且均为负向;控制花冠长度性状的2对主基因的加性效应均为0,显性效应分别为-0.226和-0.472,在上位性作用中以加性×加性和显性×显性互作为主,多基因以显性效应为主,正向显性效应值为0.613,大于负向的加性效应值。花梗和花冠长度两个性状在F2群体中主基因遗传率分别为61.04%和69.60%,多基因遗传率均为0。由此看出黄瓜雄花花器性状为数量遗传,遗传率相对较高。该研究结果显示在黄瓜杂交育种中对花器大小选择可以在较早世代选择。     

Broad and narrow heritabilities of quantitative traits in a founder population

Estimation of the components of variance for a quantitative trait allows one to evaluate both the degree to which genetics influences the trait and the trait's underlying genetic architecture. For particular traits, the estimates also may have implications for discriminating between potential models of selection and for choosing an appropriate model for linkage analysis. Using a recently developed method, we estimate the additive and dominance components of variance--or, equivalently, the narrow and broad sense heritabilities--of several traits in the Hutterites, a founder population with extensive genealogical records. As a result of inbreeding and because Hutterite individuals are typically related through multiple lines of descent, we expect that power to detect dominance variance will be increased relative to that in outbred studies. Furthermore, the communal lifestyle of the Hutterites allows us to evaluate the genetic influences in a relatively homogeneous environment. Four phenotypes had a significant dominance variance, resulting in a relatively high broad heritability. We estimated the narrow and broad heritabilities as being, respectively,.36 and.96 for LDL,.51 and 1.0 for serotonin levels, and.45 and.76 for fat free mass (FFM). There was no significant additive component for systolic blood pressure (SBP), resulting in a narrow heritability of 0 and a broad heritability of.45. There were several traits for which we found no significant dominance component, resulting in equal broad and narrow heritability estimates. These traits and their heritabilities are as follows: HDL,.63; triglycerides,.37; diastolic blood pressure,.21; immunoglobulin E,.63; lipoprotein(a),.77; and body-mass index,.54. The large difference between broad and narrow heritabilities for LDL, serotonin, FFM, and SBP are indicative of strong dominance effects in these phenotypes. To our knowledge, this is the first study to report an estimate of heritability for serotonin and to detect a dominance variance for LDL, FFM, and SBP.     

Generation means analysis of climbing ability in common bean (Phaseolus vulgaris L.)

Climbing common bean (Phaseolus vulgaris L.) genotypes have among the highest yield potential of all accessions found in the species. Genetic improvement of climbing beans would benefit from an understanding of the inheritance of climbing capacity (made up of plant height [PH] and internode length [IL] traits). The objective of this study was to determine the inheritance of climbing capacity traits in 3 crosses made within and between gene pools (Andean x Andean [BRB32 x MAC47], Mesoamerican x Mesoamerican [Tío Canela x G2333], and Mesoamerican x Andean [G2333 x G19839]) using generation means analysis. For each population, we used 6 generations (P(1), P(2), F(1), F(2), BC(1)P(1), and BC(1)P(2)) that were evaluated at 2 growth stages (40 and 70 days after planting). Results showed the importance of additive compared with the dominant-additive portion of the genetic model. Broad-sense heritabilities for the traits varied from 62.3% to 85.6% for PH and from 66.5% to 83.7% for IL. The generation means analysis and estimates of heritability suggested that the inheritance of PH and IL in climbing beans is relatively simple.     

GVCBLUP: a computer package for genomic prediction and variance component estimation of additive and dominance effects

Background

Dominance effect may play an important role in genetic variation of complex traits. Full featured and easy-to-use computing tools for genomic prediction and variance component estimation of additive and dominance effects using genome-wide single nucleotide polymorphism (SNP) markers are necessary to understand dominance contribution to a complex trait and to utilize dominance for selecting individuals with favorable genetic potential.

Results

The GVCBLUP package is a shared memory parallel computing tool for genomic prediction and variance component estimation of additive and dominance effects using genome-wide SNP markers. This package currently has three main programs (GREML_CE, GREML_QM, and GCORRMX) and a graphical user interface (GUI) that integrates the three main programs with an existing program for the graphical viewing of SNP additive and dominance effects (GVCeasy). The GREML_CE and GREML_QM programs offer complementary computing advantages with identical results for genomic prediction of breeding values, dominance deviations and genotypic values, and for genomic estimation of additive and dominance variances and heritabilities using a combination of expectation-maximization (EM) algorithm and average information restricted maximum likelihood (AI-REML) algorithm. GREML_CE is designed for large numbers of SNP markers and GREML_QM for large numbers of individuals. Test results showed that GREML_CE could analyze 50,000 individuals with 400 K SNP markers and GREML_QM could analyze 100,000 individuals with 50K SNP markers. GCORRMX calculates genomic additive and dominance relationship matrices using SNP markers. GVCeasy is the GUI for GVCBLUP integrated with an existing software tool for the graphical viewing of SNP effects and a function for editing the parameter files for the three main programs.

Conclusion

The GVCBLUP package is a powerful and versatile computing tool for assessing the type and magnitude of genetic effects affecting a phenotype by estimating whole-genome additive and dominance heritabilities, for genomic prediction of breeding values, dominance deviations and genotypic values, for calculating genomic relationships, and for research and education in genomic prediction and estimation.

Electronic supplementary material

The online version of this article (doi:10.1186/1471-2105-15-270) contains supplementary material, which is available to authorized users.     

烟草主要数量性状的遗传效应分析

利用红花大金元×青梗,红花大金元×中烟14号P1、P2、F1、F2、B1、B2 6个世代资料对7个农艺性状和4个品质性状进行了基因效应分析。结果表明,性状均不符合简单的加性－显性遗传模型,多数性状加性效应显著而显性效应不显著,在3种互作效应中,所有性状至少有一种显著。互作效应普遍存在,是烟草性状杂种优势表现的主要原因之一。 Abstract:Two tobacco F1 hybrids,F2s,backcrosses B1s and B2s and their parents P1 and P2 were used to estimate the gene effects for 7 agronomic and 4 quality characters.The additive-dominance genetic model was not fit for all characters.The additive effects and the epistatic effects of most characters were significant,but the dominant effect not.The epistatic effects could not be ignored in tobacco breeding.They were one of main causes of heterosis for most characters.     

Genomic analysis of dominance effects on milk production and conformation traits in Fleckvieh cattle

Background

Estimates of dominance variance in dairy cattle based on pedigree data vary considerably across traits and amount to up to 50% of the total genetic variance for conformation traits and up to 43% for milk production traits. Using bovine SNP (single nucleotide polymorphism) genotypes, dominance variance can be estimated both at the marker level and at the animal level using genomic dominance effect relationship matrices. Yield deviations of high-density genotyped Fleckvieh cows were used to assess cross-validation accuracy of genomic predictions with additive and dominance models. The potential use of dominance variance in planned matings was also investigated.

Results

Variance components of nine milk production and conformation traits were estimated with additive and dominance models using yield deviations of 1996 Fleckvieh cows and ranged from 3.3% to 50.5% of the total genetic variance. REML and Gibbs sampling estimates showed good concordance. Although standard errors of estimates of dominance variance were rather large, estimates of dominance variance for milk, fat and protein yields, somatic cell score and milkability were significantly different from 0. Cross-validation accuracy of predicted breeding values was higher with genomic models than with the pedigree model. Inclusion of dominance effects did not increase the accuracy of the predicted breeding and total genetic values. Additive and dominance SNP effects for milk yield and protein yield were estimated with a BLUP (best linear unbiased prediction) model and used to calculate expectations of breeding values and total genetic values for putative offspring. Selection on total genetic value instead of breeding value would result in a larger expected total genetic superiority in progeny, i.e. 14.8% for milk yield and 27.8% for protein yield and reduce the expected additive genetic gain only by 4.5% for milk yield and 2.6% for protein yield.

Conclusions

Estimated dominance variance was substantial for most of the analyzed traits. Due to small dominance effect relationships between cows, predictions of individual dominance deviations were very inaccurate and including dominance in the model did not improve prediction accuracy in the cross-validation study. Exploitation of dominance variance in assortative matings was promising and did not appear to severely compromise additive genetic gain.     

HERITABILITIES OF DOMINANCE-RELATED TRAITS IN MALE BANK VOLES (CLETHRIONOMYS GLAREOLUS)

A number of studies have shown that in several animal species females prefer dominant males as mating partners, but fewer attempts have been made to measure possible indirect benefits of this choice. One reason for this may be that, even though dominance is a widely used concept, the definition of dominance still remains controversial Furthermore, defining and measuring the heritability of social behaviors is problematic because they are not individual traits but, by definition, involve interactions between at least two individuals. In this study we estimated heritabilities and coefficients of additive genetic variances (CV_A) for male traits that are closely associated with dominance and female mating preferences in bank voles (Clethrionomys glareolus). The heritability values were estimated using father-offspring regression. All heritability estimates were relatively high ranging from 0.531 (urine marking) to 0.767 (preputial glands). The CV_A-values indicated high levels of additive genetic variance especially in the characters most closely related to dominance: the weight of preputial glands and urine marking behavior. All phenotypic correlations among the traits measured were significantly positive and the genetic correlations were of similar magnitude as the corresponding phenotypic counterparts. Even though heritabilities may be lower in the natural environment than under controlled laboratory conditions, our results suggest that characters closely related to dominance may be at least partly genetically determined.