普通小麦抗倒伏相关性状的全基因组关联分析

解析小麦抗倒伏遗传机制,发掘抗倒伏位点,选育抗倒伏品种,对于保障我国粮食生产安全具有重要意义.周8425B是我国黄淮麦区重要的小麦骨干亲本,农艺性状优良,其衍生品种具有较好的抗倒伏特性.本研究对周8425B及其衍生品种等62份材料的8个抗倒伏相关性状进行评价,并结合50K SNP芯片数据进行全基因组关联分析(GWAS,...     

一粒小麦×野燕麦衍生系细胞学特征及条锈病抗性鉴定

在一粒小麦与葡萄牙野燕麦远缘杂交后代中,选育了5个形态学稳定的抗条锈病衍生系(‘一粒葡’)YLP-1、YLP-7、YLP-9、YLP-13和YLP-16,为筛选含有外源染色体且抗性优良的植株,对该衍生系的细胞学特征和抗病性进行了鉴定。细胞学初步鉴定表明:根尖染色体数目均为2n=42,花粉母细胞减数分裂中期Ⅰ染色体构型为2n=21Ⅱ;5个选系与‘中国春’杂交F1花粉母细胞减数分裂中期Ⅰ的异常细胞构型率为16%～50%;初步鉴定这5个‘一粒葡’材料均为易位系,验证了‘一粒葡’是远缘杂交的后代。用9个条锈菌小种分别对9个株系进行苗期抗病性鉴定,有5个株系YLP-1-4、YLP-7、YLP-9-1、YLP-9-3、YLP-16-1对所有参试小种都表现为高抗,且与已知的Yr5、Yr10、Yr15、Yr24/Yr26基因不同,表明‘一粒葡’中可能含有新的抗病基因,可作为抗源用于小麦抗病育种。     

小麦抗病基因Lr46/Yr29/Pm39、Sr2/Yr30和Lr68的遗传特性及其与主要农艺性状的关联分析

利用与抗病基因Lr46/Yr29/Pm39、Sr2/Yr30和Lr68等紧密连锁的分子标记,对小麦品种(系)‘RL6077’和‘西农979’构建的BC1F1和F2群体进行抗病基因遗传分析,结合主要农艺性状分析,探究小麦抗病基因Lr46/Yr29/Pm39、Sr2/Yr30和Lr68的遗传特性及其与主要农艺性状的关联性;并对检测的聚合有3个抗慢锈病基因(Lr68+Sr2/Yr30+Lr46/Yr29/Pm39)位点的聚合体进行SSR标记遗传背景回复率检测。结果表明:(1)F2群体中Lr68基因的传递率(65.41%)比理论值(75%)偏低,Lr46/Yr29/Pm39基因和Sr2/Yr30基因的传递率(分别为75.83%、74.53%)与理论值(75%)相符合;BC1F1群体中Lr68基因的传递率(44.27%)比理论值(50%)偏低,Lr46/Yr29/Pm39基因和Sr2/Yr30基因的传递率(分别为56.64%、55.11%)均比理论值(50%)偏高。(2)Lr46/Yr29/Pm39和Sr2/Yr30基因位点均与株高、穗长、穗下茎长、穗下节长呈极显著正相关关系;Lr68和Sr2/Yr30基因位点均与穗粒数呈显著或极显著正相关关系;Lr46/Yr29/Pm39基因位点与千粒重呈显著负相关、与单株成穗数呈显著正相关关系。(3)对BC1F1群体中聚合有Lr68+Sr2/Yr30+Lr46/Yr29/Pm39基因位点的92个聚合体的遗传背景回复率检测发现,轮回亲本‘西农979’遗传背景回复率最高达91.67%,其中遗传回复率达90%以上的聚合体有3株,占回交群体(655株)总体的0.46%。该研究结果为优异抗病基因资源‘RL6077’的进一步利用提供了理论参考,对创制小麦多种抗病新种质具有重要意义。     

小麦-冰草衍生后代 3558-2 穗部相关性状的遗传分析和QTL定位

从普通小麦Fukuho与冰草(Agropyron cristatum,2n=4x=28,PPPP)Z559的衍生系中发现3558-2具有小穗数、小穗粒数和穗粒数多的优异性状.为了揭示衍生系3558-2优异性状的遗传特征,本研究对其与小麦品种京4841间的282个F2单株的穗长、小穗数、小穗粒数、穗粒数等穗部相关性状进行了遗传分析和QTL定位.主基因+多基因混合遗传模型分析结果显示小麦穗部相关性状都符合数量性状特征.利用单标记分析将穗部相关性状的QTL主要定位于小麦1 A染色体上,同时发现在小麦的2A、5B和5D染色体上也有QTL分布.通过加密标记重点构建了1 A染色体短臂的遗传连锁图,利用复合区间作图法解析了小麦1AS染色体上的穗部相关性状的QTL效应,发现在1A染色体上存在与穗长、小穗数、小穗粒数和穗粒数相关的重要QTL各1个,解释变异度分别为14.41%、5.15%、14.84%和10.87%.本研究发现在3558-2的1 AS染色体上成簇分布着涉及穗长、小穗教、小穗粒数和穗粒数重要性状的QTL,这一结果对指导进一步研究与利用3558-2具有重要意义.     

大麦种质资源白粉病抗性鉴定与应用

为了充分利用抗病大麦种质资源,对本所多年来征集的921份国内外大麦品种资源进行白粉病田间自然鉴定.结果表明,田间表现高抗品种有181个,占总数19.65%,抗病品种163个,占总数17.70%;表现感病品种有447个,占总数的48.53%,高感品种130个,占总数14.12%.通过品种的全生育期、株高、穗长、穗实粒数、结实率、穗粒重和千粒重等7个主要农艺性状的分析表明,181个高抗种质主要农艺性状均存在较大的遗传分化.本文还对抗病种质木石港3号、植3和S-096等在育种中的应用进行了阐述.     

玉米产量相关性状定位和Meta-QTL整合

以自交系PHB47为轮回亲本,美国GEM种质YUCATAN TOL389 ICA为供体,构建包含115个株系的BC3F4群体为材料,利用玉米56K SNP芯片鉴定基因型,采用基于似然比测验的逐步回归分析法,对产量相关性状进行QTL定位分析。共获得7个穗粒数、穗长、粒宽、株高和穗位高加性QTL,解释3.72%～21.90%的表型变异;5个控制单穗重、百粒重、穗长和株高的显性QTL,表型变异解释率为8.40%～21.90%。同时,利用Meta-QTL分析方法,对2005-2018年已发表的不同环境条件下产量相关性状QTL的定位结果进行了整合分析。在正常田间管理条件和营养胁迫条件分别获得37个和16个MQTL。本研究中穗位高加性位点AX-116871591位于MQTL16区段内,并且与MQTLNP7位置相近,该区段内包含生长素/脱落酸转录因子IAA5。穗粒数加性位点AX-86281411,粒宽加性位点AX-86267702和株高显性位点AX-116875920均位于MQTLNP9区段内,该区段内包含NAC转录因子NACTF36。NAC转录因子、MYB转录因子和SOD基因均存在于两个环境条件MQTL区段内。     

玉米雌穗性状遗传分析与形成机制*

雌穗是玉米重要的生殖器官,雌穗发育决定成熟果穗大小及单穗粒重,进而直接影响玉米产量。雌穗性状主要包括穗长、穗粗、穗行数、行粒数、穗重、单穗粒重等,均为多基因控制的数量遗传性状,且其遗传结构各不相同。解析雌穗性状的遗传基础,优化雌穗结构,是玉米增产的重要途径。前人通过数量性状位点(quantitative trait locus mapping,QTL)定位和全基因组关联分析(genome-wide association study, GWAS)等方法,已经鉴定出较多雌穗性状相关的遗传位点,但是目前已鉴定功能的基因较少,所建立的遗传位点一致性图谱并不完整,因此难以全面揭示雌穗性状遗传结构。通过综合前人雌穗性状遗传定位进展,现将已鉴定QTL位点和显著关联SNP整合至玉米B73参考基因组V4版本,并鉴定出雌穗性状定位热点区间,对深入解析雌穗性状遗传结构、指导雌穗性状基因克隆和理解雌穗发育分子机制均具有重要意义。     

高原粳稻骨干亲本及其衍生品种的主要农艺性状比较分析

对2个高原粳稻骨干亲本滇榆1号和轰早生及其衍生品种的农艺性状进行主成分及聚类分析。结果表明:(1)2个亲本的穗长、剑叶角度、宽度和结实率差异不显著,其余性状差异显著。(2)2个亲本衍生品种的剑叶角度、单株穗数、穗实粒数、结实率和千粒重存在较大差异,其余性状差异较小。(3)滇榆1号和轰早生衍生品种的前5个主因子累积贡献率分别为85.5%和85.3%,第1主成分因子分别是株型和粒数,其贡献率分别为39.9%和41.1%。(4)74个品种聚为6类,其中85%的品种分布在第Ⅰ类和第Ⅲ类,这些品种的主要特征是株高90~100 cm,剑叶长25~34 cm、宽1.5~1.7 cm,穗长20 cm左右,每穗91~138粒,每株7穗,结实率和千粒重分别为85%和27 g。     

大麦种质资源白粉病抗性鉴定与应用

为了充分利用抗病大麦种质资源,对本所多年来征集的921份国内外大麦品种资源进行白粉病田间自然鉴定。结果表明,田间表现高抗品种有181个,占总数19.65％,抗病品种163个,占总数17.70％;表现感病品种有447个,占总数的48.53％,高感品种130个,占总数14.12％。通过品种的全生育期、株高、穗长、穗实粒数、结实率、穗粒重和千粒重等7个主要农艺性状的分析表明,181个高抗种质主要农艺性状均存在较大的遗传分化。本文还对抗病种质木石港3号、植3和S-096等在育种中的应用进行了阐述。     

小麦-簇毛麦6VS/6AL易位染色体对小麦农艺性状的影响

南京农业大学细胞遗传研究所选育的小麦－簇毛麦6VS/6AL易位系在6VS上携有Pm21基因,用它作抗源已选育出一批高抗白粉病的新品系和新品种。为了研究6VS/6AL易位染色体对普通小麦农艺性状的影响,本研究选用由不同生态类型的推广品种与6VS/6AL易位系经过杂交回交选育的11个高代品系(种)及其轮回亲本和3份涉及6VS/6AL的高代分离品系以及5个F2群体,对产量、株高、穗长、穗粒数、穗粒重和千粒重等农艺性状进行比较分析。结果表明,6VS/6AL易位染色体对后代的小穗数、穗粒数、穗粒重和产量等农艺性状没有表现出明显的影响,对穗长和千粒重表现出一定的正向效应。多数6VS/6AL衍生品系的株高与亲本相比有所增加,但在同一组合的不同品系之间表现出一定的差异,在育种过程中通过选择能够改变增高趋势。6VS/6AL易位系对白粉病免疫,并且遗传稳定,对小麦的抗病育种是很有潜力的抗源亲本。     

Genetic Dissection of Yield and Its Component Traits Using High-Density Composite Map of Wheat Chromosome 3A: Bridging Gaps between QTLs and Underlying Genes

Earlier we identified wheat (Triticum aestivum L.) chromosome 3A as a major determinant of grain yield and its component traits. In the present study, a high-density genetic linkage map of 81 chromosome 3A-specific markers was developed to increase the precision of previously identified yield component QTLs, and to map QTLs for biomass-related traits. Many of the previously identified QTLs for yield and its component traits were confirmed and were localized to narrower intervals. Four novel QTLs one each for shoot biomass (Xcfa2262-Xbcd366), total biomass (wPt2740-Xcfa2076), kernels/spike (KPS) (Xwmc664-Xbarc67), and Pseudocercosporella induced lodging (PsIL) were also detected. The major QTLs identified for grain yield (GY), KPS, grain volume weight (GVWT) and spikes per square meter (SPSM) respectively explained 23.2%, 24.2%, 20.5% and 20.2% of the phenotypic variation. Comparison of the genetic map with the integrated physical map allowed estimation of recombination frequency in the regions of interest and suggested that QTLs for grain yield detected in the marker intervals Xcdo549-Xbarc310 and Xpsp3047-Xbarc356 reside in the high-recombination regions, thus should be amenable to map-based cloning. On the other hand, QTLs for KPS and SPSM flanked by markers Xwmc664 and Xwmc489 mapped in the low-recombination region thus are not suitable for map-based cloning. Comparisons with the rice (Oryza sativa L.) genomic DNA sequence identified 11 candidate genes (CGs) for yield and yield related QTLs of which chromosomal location of two (CKX2 and GID2-like) was confirmed using wheat aneuploids. This study provides necessary information to perform high-resolution mapping for map-based cloning and for CG-based cloning of yield QTLs.     

Molecular mapping of QTLs for Karnal bunt resistance in two recombinant inbred populations of bread wheat

Karnal bunt (KB) of wheat, caused by the fungus Tilletia indica, is a challenge to the grain industry, owing not to direct yield loss but to quarantine regulations that may restrict international movement of affected grain. Several different sources of resistance to KB have been reported. Understanding the genetics of resistance will facilitate the introgression of resistance into new wheat cultivars. The objectives of this study were to identify quantitative trait loci (QTLs) associated with KB resistance and to identify DNA markers in two recombinant inbred line populations derived from crosses of the susceptible cultivar WH542 with resistant lines HD29 and W485. Populations were evaluated for resistance against the KB pathogen for 3 years at Punjab Agricultural University, Ludhiana, India. Two new QTLs (Qkb.ksu-5BL.1 and Qkb.ksu-6BS.1) with resistance alleles from HD29 were identified and mapped in the intervals Xgdm116–Xwmc235 on chromosome 5B (deletion bin 5BL9-0.76-0.79) and Xwmc105–Xgwm88 on chromosome 6B (C-6BS5-0.76). They explained up to 19 and 13% of phenotypic variance, respectively. Another QTL (Qkb.ksu-4BL.1) with a resistance allele from W485 mapped in the interval Xgwm6–Xwmc349 on chromosome 4B (4BL5-0.86-1.00) and explained up to 15% of phenotypic variance. Qkb.ksu-6BS.1 showed pairwise interactions with loci on chromosomes 3B and 6A. Markers suitable for marker-assisted selection are available for all three QTLs. Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Genetics of pre-harvest sprouting resistance in a cross of Canadian adapted durum wheat genotypes

Severe losses attributable to pre-harvest sprouting (PHS) have been reported in Canada in recent years. The genetics of PHS resistance have been more extensively studied in hexaploid wheat and generally not using combinations of elite agronomic parents. The objective of our research was to understand the genetic nature of PHS resistance in an elite durum cross. A doubled haploid (DH) population and checks were phenotyped in replicated trials for grain yield and PHS traits over 3 years in western Canada. The response of intact spikes to sprouting conditions, sampled over two development time points, was measured in a rain simulation chamber. The DH population was genotyped with simple sequence repeat and Diversity Arrays Technology markers. Genotypes were a significant source of variation for grain yield and PHS resistance traits in each tested environment. Transgressive segregant DH genotypes were identified for grain yield and PHS resistance measurements. Low or no correlation was detected between grain yield and PHS, while correlation between PHS resistance measurements was moderate. The heritability of PHS resistance was moderate and higher than grain yield. Significant quantitative trait loci with small effect were detected on chromosomes 1A, 1B, 5B, 7A and 7B. Both parents contributed to the PHS resistance. Promising DH genotypes with high and stable grain yield as well as PHS resistance were identified, suggesting that grain yield and PHS can be improved simultaneously in elite genetic materials, and that these DH genotypes will be useful parental material for durum breeding programs.     

Quantitative trait loci for resistance to fusarium head blight in a Chinese wheat landrace Haiyanzhong

Fusarium head blight (FHB) of wheat causes not only significant reduction in grain yield and end-use quality, but also the contamination of the grain with mycotoxins that are detrimental to human and animal health after consumption of infected grain. Growing resistant varieties is an effective approach to minimize the FHB damage. The Chinese wheat landrace Haiyanzhong (HYZ) shows a high level of resistance to FHB. To identify quantitative trait loci (QTL) that contribute to FHB resistance in HYZ, 136 recombinant inbred lines (RIL) were developed from a cross of HYZ and Wheaton, a hard spring wheat cultivar from the USA. The RIL and their parents were evaluated for percentage of scabbed spikelets (PSS) in both greenhouse and field environments. Five QTL were detected for FHB resistance in HYZ with one major QTL on 7DL. The 7DL QTL peaked at SSR marker Xwmc121, which is flanked by the SSR markers Xcfd46 and Xwmc702. This QTL explained 20.4?C22.6% of the phenotypic variance in individual greenhouse experiments and 15.9% in a field experiment. Four other minor QTL on 6BS (two QTL), 5AS and 1AS each explained less than 10% of the phenotypic variance in individual experiments. HYZ carried the favorable alleles associated with FHB resistance at the QTL on 7DL, 6BS and 5AS, and the unfavorable allele at the QTL on 1AS. The major QTL on 7D can be used to improve the FHB resistance in wheat breeding programs and add diversity to the FHB resistance gene pool.     

Molecular mapping and physical location of major gene conferring seedling resistance to Septoria tritici blotch in wheat

Septoria tritici blotch (STB) caused by Mycosphaerella graminicola (anamorph: Septoria tritici), is one of the most important foliar diseases of wheat. We assessed three doubled-haploid (DH) populations derived from Chara (STB-susceptible)/WW2449 (STB-resistant), Whistler (STB-susceptible)/WW1842 (STB-resistant) and Krichauff (STB susceptible)/WW2451 (STB-resistant) for resistance to a single-pycnidium isolate 79.2.1A of M. graminicola at the seedling stage. STB resistance in each of the three DH populations was conditioned by a single major gene designated as StbWW2449, StbWW1842 and StbWW2451. Linkage analyses and physical mapping indicated that the StbWW loci were located on the short arm of chromosome 1B (IBS). Four simple sequence repeat (SSR) markers linked with STB resistance: Xwmc230, Xbarc119b, Xksum045 and Xbarc008 were located to the distal bin of 1BS.sat1BS-4 (FL: 0.52–1.00) in the 1BS physical map. Xwmc230, Xbarc119b and Xksum045 markers, mapped within 7 cM from StbWW were validated for their linkage and predicted the STB resistance with over 94% accuracy in the 79 advanced breeding lines having WW2449 as one of the parents. The marker interval Xwmc230/Xksum045-Xbarc119b also explained up to 38% of the phenotypic variance at the adult plant stage in all three DH mapping populations. These results have proven that SSR markers are useful in monitoring STB resistance both at seedling and adult plant stages and hence are suitable for routine marker-assisted selection in the wheat breeding programs. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Mapping QTLs for Plant Phenology and Production Traits Using Indica Rice (Oryza sativa L.) Lines Adapted to Rainfed Environment

Drought is a major abiotic stress limiting rice production and yield stability in rainfed ecosystems. Identifying quantitative trait loci (QTL) for rice yield and yield components under water limited environments will help to develop drought resilient cultivars using marker assisted breeding (MAB) strategy. A total of 232 recombinant inbred lines of IR62266/Norungan were used to map QTLs for plant phenology and production traits under rainfed condition in target population of environments. A total of 79 QTLs for plant phenology and production traits with phenotypic variation ranging from 4.4 to 72.8% were detected under non-stress and drought stress conditions across two locations. Consistent QTLs for phenology and production traits were detected across experiments and water regimes. The QTL region, RM204-RM197-RM217 on chromosome 6 was linked to days to 50% flowering and grain yield per plant under both rainfed and irrigated conditions. The same genomic region, RM585-RM204-RM197 was also linked to harvest index under rainfed condition with positive alleles from Norungan, a local landrace. QTLs for plant production and drought resistance traits co-located near RM585-RM204-RM197-RM217 region on chromosome 6 in several rice genotypes. Thus with further fine mapping, this region may be useful as a candidate QTL for MAB, map-based cloning of genes and functional genomics studies for rainfed rice improvement.     

Genome mapping of kernel characteristics in hard red spring wheat breeding lines

Kernel characteristics, particularly kernel weight, kernel size, and grain protein content, are important components of grain yield and quality in wheat. Development of high performing wheat cultivars, with high grain yield and quality, is a major focus in wheat breeding programs worldwide. Here, we report chromosome regions harboring genes that influence kernel weight, kernel diameter, kernel size distribution, grain protein content, and grain yield in hard red spring wheat breeding lines adapted to the Upper Midwest region of the United States. A genetic linkage map composed of 531 SSR and DArT marker loci spanned a distance of 2,505 cM, covering all 21 chromosomes of wheat. Stable QTL clusters influencing kernel weight, kernel diameter, and kernel size distribution were identified on chromosomes 2A, 5B, and 7A. Phenotypic variation explained by individual QTL at these clusters varied from 5 to 20% depending on the trait. A QTL region on chromosome 2B confers an undesirable pleiotropic effect or a repulsion linkage between grain yield (LOD = 6.7; R ² = 18%) and grain protein content (LOD = 6.2; R ² = 13.3%). However, several grain protein and grain yield QTL independent of each other were also identified. Because some of the QTL identified in this study were consistent across environments, DNA markers will provide an opportunity for increasing the frequency of desirable alleles through marker-assisted selection.     

Mapping quantitative trait loci controlling common bunt resistance in a doubled haploid population derived from the spring wheat cross RL4452 × AC Domain

Wheat resistance to common bunt is a highly desirable trait for environmentally friendly grain grade protection. Valuable breeding achievements have been made to develop wheat varieties with enhanced resistance to the disease, and mapping of race-specific resistance genes has been reported. However, less is known of the chromosomal regions that control non-race specific resistance to common bunt. In this study, we have characterized a segregating population of 185 doubled haploid spring wheat lines derived from the cross RL4452 × AC Domain. Reactions to a mixture of common bunt races were assessed under field simulated spring-sown conditions in greenhouses in two locations over 2 years. A total 369 polymorphic maker loci including 356 microsatellite loci, five expressed sequences tag (ESTs), and eight genes were used to develop a linkage map. Quantitative trait loci (QTL) analysis using composite interval mapping detected three QTLs associated with common bunt resistance, of which two were located on chromosome 1B and one on chromosome 7A. AC Domain alleles contributed the common bunt resistance at all three QTLs. Usefulness of gene tagging within the identified chromosomal regions for common bunt resistance breeding is discussed.     

Mapping QTL associated with resistance to <Emphasis Type="Italic">Fusarium</Emphasis> head blight in the Nanda2419 × Wangshuibai population. I. Type II resistance

Scab disease caused by Fusarium spp. has been a major concern for both wheat producers and consumers. Deployment of scab-resistant varieties is the major strategy to curb this disease. To identify the scab resistance genes in wheat cv. Wangshuibai, we produced a F_6:7 recombinant inbred line (RIL) population by crossing Wangshuibai with the scab-susceptible cultivar Nanda2419. The RILs were evaluated for scab resistance in the field by single floret inoculation in two replicates in 2002 and one replicate in 2003. The number of diseased spikelets (NDS) and the length of diseased rachides (LDR) were investigated to reflect the Type II resistance. Among 654 simple sequence repeat (SSR) markers surveyed, 326 were found to be polymorphic between the parents. A partial molecular map was constructed with these markers that covered over 2,210 cM of the wheat genome. Six chromosome regions showed association with both NDS and LDR in a one-way anova analysis, even though the variation explained by them varied between the two traits. Eight intervals were detected for their association with Type II resistance through interval mapping, five of which were not identified in single-point analysis. The quantitative trait loci (QTL) with large effects were the ones in the interval of Xgwm533-3–Xgwm533-1 on chromosome 3B and in the interval of Xwmc539–Xbarc024 on chromosome 6B, whose alleles favoring resistance originate from Wangshuibai. In addition, a QTL whose resistance allele originated from Nanda2419 was consistently detected in the interval of Xs1021m–Xgwm47-1 on chromosome 2B. These results suggest that Wangshuibai is the major source for Type II resistance in this population. The markers associated with these QTL would facilitate the use of scab-resistant genes of Wangshuibai in scab resistance breeding programs of wheat.F. Lin and Z.X. Kong have equally contributed to this work.