大豆杂种产量相关的位点及等位变异分析

选用来源于中国黄淮和美国的熟期组II~IV的8个大豆品种, 按Griffing方法II设计, 配成28个双列杂交组合, 包括8个亲本共计36份材料。选用300个SSR标记, 对8个大豆亲本进行全基因组扫描, 利用基于回归的单标记分析法, 对大豆杂种产量和分子标记进行相关性分析, 估计等位变异的效应和位点的基因型值, 剖析杂种组合的等位变异。结果表明, 300个SSR标记中有38个与杂种产量显著相关, 分布于17个连锁群上, 其中D1a和M等连锁群上较多, 有8个位于连锁定位的QTL区段内(±5 cM)。单个位点可分别解释杂种产量表型变异的11.95%~30.20%。杂种的位点构成中包括有增效显性杂合位点、增效加性纯合位点、减效加性纯合位点和减效显性杂合位点4部分, 其相对重要性依次递减。从38个显著相关的SSR标记位点中, 遴选出Satt449、Satt233和Satt631等9个优异标记基因位点, Satt449~A311、Satt233~A217和Satt631~A152等9个优异等位变异, 以及Satt449~A291/311、Satt233~A202/207和Satt631~A152/180等9个优异杂合基因型位点。这些结果为理解杂种优势的遗传构成和大豆杂种产量聚合育种提供了依据。     

Segregation of bunch orientation in plantain and banana hybrids

Bunch orientation is an economically important trait in plantain (Musa spp. AAB group) and banana (Musa spp. AAA or ABB groups). Pendulous bunches are more symmetrical than subhorizontal, horizontal, or erect bunches and are, therefore, better adapted for transportation. Erect, horizontal, subhorizontal, and pendulous bunches were observed in segregating populations derived from crosses between plantains and bananas and among bananas. A proposed genetic model controlling this trait was tested in four populations. The true breeding diploid banana line, 'Calcutta 4' shows a pendulous bunch and has recessive alleles at three bunch orientation loci. The diploid banana cultivar 'Pisang lilin', which is heterozygous for the three loci, has a subhorizontal bunch. The triploid AAB plantain cultivar 'Bobby Tannap' has two simplex and one duplex loci, which also results in subhorizontal bunch orientation. The other plantain cultivar, 'Obino l'Ewai', which is simplex for two loci and nulliplex for the third, has a pendulous bunch due to dosage effects at the triploid level of the recessive alleles at simplex loci. Two tetraploid hybrids (TMPx 582-4 and 1187-8) have a subhorizontal bunch because of its duplex genotype for two loci and simplex genotype for the other locus. Bunch orientation might be an oligogenic trait regulated by the epistatic effects of at least three dominant loci. This revised version was published online in July 2006 with corrections to the Cover Date.     

Pattern of inheritance of a self-fertility gene in an autotetraploid perennial ryegrass (Lolium perenne) population

A mutation causing self-fertility (SF) in perennial ryegrass was studied at the tetraploid level. The aim of this work was to determine a) whether SF remains functional in a tetraploid population and b) whether the SF mutation expresses dominance in heterozygous pollen grains. A tetraploidized plant carrying SF alleles was self-pollinated to create a segregating F₂ population. In the F₂ individuals, pollen compatibility ranged between 38% and 84% showing that SF remained functional. The SF locus genotype was the main determinant of pollen compatibility explaining 78% of the variation. The observed segregation was significantly different from the expected under both SF being dominant or recessive models (P_(χ2)≤0.001) and tended to be intermediate between them, indicating partial dominance or additive gene action. The frequency of the different genotypes suggested that pollen grains homozygous for the mutation have a competitive advantage over heterozygous pollen and that pollen compatibility is affected by the interaction with additional loci. The implications of our results for breeding polyploid grasses are discussed.     

两套水稻籼粳交DH群体的亲和性及其遗传分析

以两套水稻籼、 粳交DH群体为材料, 研究了籼、 粳程度及籼、 粳基因组的比例与亲和性 的关系, 结果 表明, 两套群体与籼、 粳测交F1小穗的育性与DH系的籼、 粳程度及基因组比例存在相 关, 但广亲和DH系(与籼和与粳测交F1小穗育性均大于70%)在籼、 粳程度及基因组比例 上的特异性不明显。 通过DH系与籼、 粳测交F1小穗育     

高丹草遗传效应与杂种表现预测模型

以5个高粱不育系材料为母本, 18个优质苏丹草材料为父本, 按照遗传交配设计(NCII)配制成90个杂交组合。分别在内蒙呼市和包头两地, 利用与高丹草产量相关的QTL位点标记检测亲本间的遗传差异, 并将F₁的8个性状表型值对亲本材料进行标记位点的筛选, 建立标记效应和标记型值估算体系。估算特异性位点对性状表现的效应及杂种标记型值, 进而分析杂种标记型值与杂种表现的相关性, 应用逐步回归分析法建立8个性状杂种表现的预测模型, 并通过Jackknife抽样技术检测模型的精确度和稳定性。结果显示, 在分别考虑显性、加性作用下8个性状的标记型值与表型值的相关系数平均为0.65, 各性状的可决系数较大(0.51~0.88), 而且两地结果趋势一致, 表明该预测模型稳定性强, 精确度较高。该模型对高丹草的杂种表现预测以及亲本选配都具有一定的指导意义。     

Resistance gene deployment strategies in cereal hybrids using marker-assisted selection: Gene pyramiding, three-way hybrids, and synthetic parent populations

Marker-assisted selection (MAS) for resistance genes (R-genes), identified using molecular markers and quantitative trait loci (QTL) analysis, is now possible in many crops. MAS can be used to pyramid several R-genes into a single host genotype. However, this may not provide durable genetic resistance because the pathogen is exposed to a full homozygous pyramid during hybrid seed production and to a full heterozygous pyramid in the resultant hybrid. Alternative gene deployment strategies that generate genetic variability were analysed, for hybrid cereal cultivars of pearl millet, maize, sorghum and rice, using maintainer lines (B-lines) with two smaller complementary pyramids. An F₁ seed parent, produced on two such B-lines, can be used to produce a three-way hybrid. All target loci are heterozygous for resistance alleles in the F₁ seed parent, and the pathogen is exposed in the hybrid to a host population that is heterogeneous and heterozygous for alleles at the resistance loci targeted by MAS. Alternatively, single-cross hybrids can be made on seed parents that are maintained by two B-lines that differ for the complementary resistance gene pyramids. In a cross-pollinated crop, the B-lines are allowed to intermate to produce a synthetic B-line. In an inbreeding crop, the B-lines are equivalent to a two-component multiline variety. In inbreeding crops, because there is no intermating between the B-line components, the resultant synthetic seed parents have a higher frequency of genotypes with resistance alleles (R-alleles) at several resistance loci. However, in both cross-pollinated and inbreeding crops the genotypic structure in the hybrids is almost the same. All alternatives to a single-cross hybrid having a full pyramid produce hybrid cultivars having lower frequencies of resistance alleles. The frequency of genotypes having R-alleles at several loci increases greatly in both seed parent and hybrid when the overall frequency of R-alleles in the maintainer lines increases. This is simply done by adding a maintainer line that has a full pyramid or by the component lines having overlapping pyramids. This revised version was published online in July 2006 with corrections to the Cover Date.     

Genome-wide detection of genetic loci associated with soybean aphid resistance in soybean germplasm PI 603712

Soybean aphid (Aphis glycines Matsumura) has become one of the major pests of soybean [Glycine max (L.) Merr.] in North America since 2000. At least four biotypes of soybean aphid have been confirmed in the United States. Genetic characterization of new sources of soybean aphid resistance will facilitate the expansion of soybean gene pool for soybean aphid resistance and thus will help to develop soybean aphid resistant cultivars. To characterize the genetic basis of soybean aphid resistance in PI 603712, a newly identified resistant germplasm line, 142 F₂ plants derived from the cross ‘Roberts’ × PI 603712 and their parents were evaluated for soybean aphid resistance in the greenhouse, and were genotyped with BARCSoySNP6K Illumina Infinium II BeadChip. A genome-wide molecular linkage map was constructed with 1495 polymorphic SNP markers. QTL analysis revealed that PI 603712 possessed two major loci associated with soybean aphid resistance, located on chromosome 7 and 16, respectively. The locus on chromosome 7 was dominantly expressed and positioned about one Mega-base-pair distant from the previously identified resistance locus Rag1. The locus on chromosome 16 was positioned near the previously identified resistance locus Rag3 and expressed partially dominance or additive effect. Interestingly, two minor loci were also detected on chromosomes 13 and 17 but the alleles from PI 603712 decreased the resistance. In developing soybean aphid resistant cultivars through marker-assisted selection, an appropriate combination of resistance loci should be selected when PI 603712 is used as a donor parent of resistance.     

Associations between 23 Quantitative Traits and 10 Genetic Markers in a Barley Cross

Associations of 23 quantitative traits and 10 genetic marker characters were examined in 63 chromosome-doubled lines (DH-lines) derived from the F₁- generation of a cross between an old and a modern spring barley variety. One fourth of the marker × trait combinations showed significant associations. More than two thirds of these associations were to earliness (heading date). Earliness was found to be controlled by two loci: the previously known eak locus and a new locus designated Ea. It is concluded that the associations of quantitative traits with the earliness loci were caused by pleiotropy. Associations were found between two absolutely linked C-bands on chromosome 3 and QTLs (quantitative trait loci) for lodging, straw diameter, and length of top internode of the straw. The three loci on chromosome 5, eak and the two linked powdery mildew loci, Mla9 and Mlk, were associated with a possible QTL for magnesium concentration in grain. Association to the C-band on chromosome 6 suggests QTLs for TGW (thousand grain weight), straw diameter and magnesium concentration in grain. Locus Estl on chromosome 3 was not associated with any of the quantitative traits.     

The genetic relations between length of time to germination and seed dormancy in lisianthus (Eustoma grandiflorum)

Summary The inheritance of speed of germination and its genetic relations with seed dormancy was investigated in lisianthus (Eustoma grandiflorum). The study was based on data from parental, F1, BC1F1 and F2 generations of a cross between a normally germinating genotype (P1) and a chill-requiring genotype (P2). The mean post-chilling germination speed of P2 was considerably lower than that of P1. Germination speed was found to be under nuclear embryonic control. Analysis of generation means for prechilled seeds revealed an additive gene action with complete dominance of the alleles conferring higher germination speed, since the means of the F1 and the BC1 (P1) were indentical to that of P1. Such dominance was not found for unchilled seeds, in which the mean germination speed of the F1 and the BC1 (P1) was lower than that of P1. It was hypothesized that slow germination speed was induced by pleiotropic effects of seed dormancy alleles. Seed prechilling seemed to eliminate these effects in progeny heterozygous for dormancy alleles, but not in progeny homozygous for dormancy alleles.Contribution from the Agricultural Research Organization, The Volcani Center, Bet Dagan, No 1292-E, 1993 series.     

QTL mapping in diploid potato by using selfed progenies of the cross <Emphasis Type="Italic">S. tuberosum</Emphasis> × <Emphasis Type="Italic">S. chacoense</Emphasis>

Usually, mapping studies in potato are performed with segregating populations from crosses between highly heterozygous diploid or tetraploid parents. These studies are hampered by a high level of genetic background noise due to the numerous segregating alleles, with a maximum of eight per locus. In the present study, we aimed to increase the mapping efficiency by using progenies from diploid inbred populations in which at most two alleles segregate. Selfed progenies were generated from a cross between S. tuberosum (D2; a highly heterozygous diploid) and S. chacoense (DS; a homozygous diploid clone) containing the self-incompatibility overcoming S locus inhibitor (Sli-gene). The Sli-gene enables self-pollination and the generation of selfed progenies. One F2 population was used to map several quality traits, such as tuber shape, flesh and skin color. Quantitative trait loci were identified for almost all traits under investigation. The identified loci partially coincided with known mapped loci and partially identified new loci. Nine F3 populations were used to validate the QTLs and monitor the overall increase in the homozygosity level.     

Evidence suggests that Mycosphaerella pinodes infection of Pisum sativum is inherited as a quantitative trait

Before likely sources of resistance in pea to Mycosphaerella pinodes can be exploited in a breeding program, the inheritance of genetic mechanisms governing the variation in resistance need to be understood. Disease responses were first examined in a diallel cross of nine Pisum sativum genotypes. An analysis of variance of parental and F₁ data detected significant additive and dominance variation but no reciprocal effects. Gene interactions were not significant in leaves with the exception of the line JI 252 and there was no association detected between the frequencies of dominant or recessive alleles and parental disease response. In stems, the slope of the regression line of the covariance if array members with their non recurrent parent on the variance of an array was significantly different from one and the additive-dominance model was therefore rejected. The non-significance of interactions among genes determining disease response in leaves was supported by the triple test cross analyses. These analyses showed that the narrow-sense heritability of disease response was higher in crosses involving SA 1160 than in the cross Wirrega × Austrian Winter. These crosses are likely to generate inbred lines more resistant to M. pinodes infection than either parent. This revised version was published online in July 2006 with corrections to the Cover Date.     

QTL遗传效应正反交差异研究

应用改良AD模型对转基因棉花QTL突变体系进行遗传效应的正反交比较分析,结果表明,农艺性状的主要遗传方差组分分解正反交表现一致,除铃重存在显著的遗传背景加性效应(A2)外,子棉产量、皮棉产量、衣分和铃数均存在显著或极显著的 dQTL加性效应(A1)和显性效应(D1),农艺性状均有显著或极显著的遗传背景显性效应(D2);棉花纤维性状的主要遗传效应正反交之间无显著差异.铃重的dQTL的加性和显性效应与环境的互作存在显著差异.对转基因系、受体及三个品系的dQTL加性效应分解结果也表明,正反交对不同材料各性状的加性效应估计也是一致的.本文还对不同组合正反交时的纯合及杂合显性效应进行预测比较.     

RFLP diversity within and between major groups of barley in Europe

Restriction fragment length polymorphism (RFLP) diversity has been determined and analyzed as expressed by 33 single‐ or low‐copy clone/ enzyme combinations at 32 loci distributed over all chromosomes of the barley genome within a sample of 223 European barley accessions comprised of pure line (single‐head progenies) genotypes. The accessions have been selected to include landraces and widely grown cultivars derived from crossbreeding during the 20th century in North‐, West‐ and Central European countries. Genetic diversity obtained from 83 alleles across all accessions is characterized by the diversity index H = 0.385. The diversity indices determined for landraces and cultivars were almost equal, with the difference between spring (H = 0.260) and winter (H = 0.415) barley approaching statistical significance, while comparisons of other groupings only revealed statistically insignificant trends. A more detailed analysis based on differences in allele frequency distributions at each locus (clone/enzyme combinations resp.) revealed very clear differences related to the existence, continuity and dynamics of changes in group‐specific RFLP profiles. With the majority (69%) of RFLP alleles at 23 out of 32 loci on all barley chromosomes involved, contributions from chromosomes 1H, 3H, 4H and 5H seem to be of special importance. Differences in the overall average of abundance indicate higher levels of genetic diversity within both groups of winter barley compared with both groups of spring barley, from which the most frequent alleles at 15 (2‐rowed spring barley) and 17 (6‐rowed spring barley) RFLP loci approach fixation. The results of this study are discussed in relation to the history of barley cultivation and barley breeding in Europe, and possible explanations for group‐specific differences in the RFLP profiles of landraces and cultivars as well as for the high levels of (nearly) fixed alleles of both subsets of spring barley, and with respect to progress in barley breeding that it has been possible to obtain within the rather narrow RFLP profiles.     

Searching for interacting QTL in related populations of an outbreeding species

Many important crop species are outbreeding. In outbreeding species the search for genes affecting traits is complicated by the fact that in a single cross up to four alleles may be present at each locus. This paper is concerned with the search for interacting quantitative trait loci (QTL) in populations which have been obtained by crossing a number of parents. It will be assumed that the parents are unrelated, but the methods can be extended easily to allow a pedigree structure. The approach has two goals: (1) finding QTL that are interacting with other loci and also loci which behave additively; (2) finding parents which segregate at two or more interacting QTL. Large populations obtained by crossing these parents can be used to study interactions in detail. QTL analysis is carried out by means of regression on predictions of QTL genotypes.     

利用PCR技术鉴别普通小麦Glu-1位点的某些等位基因

Glu-1位点的等位基因变异与普通小麦的烘烤品质有密切的关系, 本文利用根据Glu-Dly位点的基因序列设计的一对引物, 通过PCR技术, 可以准确鉴别等位基因的变异Glu-Dly10和Glu-Dly12, 同时还可以初步鉴定Glu-B1位点的等位基因变异Glu-Blh(14+15), 为分子标记辅助选择在小麦品质育种中的应用提供了基础.     

四向杂交设计QTL分析的极大似然方法

四向杂交（four-way cross）设计是指4个纯系亲本参与杂交衍生分离群体的一种交配设计。尽管国际上已经提出基于四向杂交设计的迭代重新加权最小平方（iteratively reweighed least squares，IRWLS）QTL作图方法，但该方法忽略了双侧标记基因型内QTL基因型的混合分布特性，当QTL位置和标记的位置不重合时作图精度较低。本文根据四向杂交设计的数量遗传模型，发展出基于四向杂交设计和混合分布理论的QTL作图的极大似然估计方法。首先利用染色体上所有标记基因型联合计算该染色体上任一假定位置QTL的条件概率，然后根据混合分布理论建立基于EM算法实现的QTL作图的极大似然估计方法。以计算机模拟数据研究了QTL遗传力、样本容量和分子标记信息含量3个因素对方法的影响，结果表明,（1）在QTL的被发现能力上，标记信息不完全的四向杂交设计仅略低于信息完全时的四向杂交设计；（2）随着QTL遗传力、样本容量和标记信息含量的增大，QTL位置以及效应估计值的准确度和精确度逐步提高。     

Isozyme polymorphism in Festuca rubraL.

Summary Six Festuca rubra populations from Europe and Scandinavia were studied for variation at three isozyme loci; phosphoglucoisomerase (PGI-2), glutamate oxaloacetate transaminase (GOT-3) and superoxide dismutase (SOD-1). Seven alleles were found at the Pgi-2 locus, four at the Got-3 locus and five at the Sod-1 locus. Most plants were heterozygous and up to five alleles were found in the same plant at the Pgi-2 locus. Each population could be distinguished by the presence or absence of certain alleles or by differences in the frequencies of the alleles present. Values for the Shannon diversity index were calculated which showed that there was considerable heterogeneity both within and between loci. In general, 53% of this diversity could be attributed to within population variation.     

Production of all eight genotypes of null alleles at 'waxy' loci in bread wheat, Triticum aestivum L.

Null alleles of the three loci coding for ‘waxy’ proteins in bread wheat have been identified. Plants carrying different null alleles were collected and segregation of the null alleles in both selfed and doubled haploid progeny of plants simultaneously heterozygous for the null alleles at each of the three loci were examined by sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE). Mendelian segregation of these alleles in both types of progeny was shown, indicating that they can easily be utilized in breeding programmes. Iodine staining of the eight possible null phenotypes showed that only the triple null type had zero amylose in its endosperm starch.     

Marker-based screening of maize inbred lines using support vector machine regression

The phenomenon of heterosis is widely used in hybrid breeding programmes, despite the fact that no satisfactory molecular explanation is available. Estimators of quantitative genetic components like GCA and SCA values are tools used by the plant breeder to identify superior parental individuals and to search for high heterosis combinations. Obtaining these estimators usually requires the creation of new parental combinations and testing their offspring in multi-environment field trials. In this study we explore the use of ɛ-insensitive Support Vector Machine Regression (ɛ-SVR) for the prediction of GCA and SCA values from the molecular marker scores of parental inbred lines as an alternative to these field trials. Prediction accuracies are obtained by means of cross-validation on a grain maize data set from the private breeding company RAGT R2n. Results indicate that the proposed method allows the routine screening of new inbred lines despite the fact that predicting the SCA value of an untested hybrid remains problematic with the available molecular marker information and standard kernel functions. The genotypical performance of a testcross hybrid, originating from a cross between an untested inbred line and a well-known complementary tester, can be predicted with moderate to high accuracy while this cannot be said for a cross between two untested inbred lines.     

Development, characterization and utilization of microsatellite markers in pigeonpea

Pigeonpea is a major legume of the semi‐arid tropics that has been neglected in terms of molecular breeding. The objectives of this study were to develop microsatellite markers and evaluate their potential for use in pigeonpea genetics and breeding. Two hundred and eight microsatellite loci were isolated by screening a non‐enriched partial genomic library. Primers were designed for 39 microsatellite loci, 20 of which amplified polymerase chain reaction products of the expected size. Nineteen of the primer pairs were polymorphic amongst 15 cultivated and nine wild pigeonpea accessions providing evidence for cross‐species transferability within the genus Cajanus. A total of 98 alleles were detected at the 19 polymorphic loci with an average of 4.9 alleles per locus. The observed heterozygosity ranged from 0.17 to 0.80 with a mean of 0.42 per locus. Less allelic variation (31 alleles) was observed within the cultivated species than across the wild species (92 alleles). The diversity analysis readily distinguished all wild relatives from each other and from the cultivated germplasm. Development of more microsatellites is recommended for future genomic studies in pigeonpea.