Genetic Improvement Of Wheat Research Articles

Genetic diversity of Asian and European common wheat lines assessed by fluorescence in situ hybridization.

Understanding the genetic diversity of wheat is important for wheat breeding and improvement. However, there have been limited attempts to evaluate wheat diversity using fluorescence in situ hybridization (FISH). In this study, the chromosomal structures of 149 wheat accessions from 13 countries located between the latitudes of 30°N and 45°N, the principal growing region for wheat, were characterized using FISH with pTa535 and pSc119.2 probes. The ranges of the numbers of FISH types in the A-, B-, and D-genome chromosomes were 2-8, 3-7, and 2-4, respectively, and the average numbers in the A and B genomes were greater than in the D genome. Chromosomal translocations were detected by these probes, and previously undescribed translocations were also observed. Using the FISH, the genetic relationships among the 149 common wheat lines were divided into three groups (G1, G2, and G3). G1 mainly consisted of southern European lines, G2 consisted of most lines from Japan and some lines from western Asia, China, and Korea, and G3 consisted of the other lines from southern Europe and most of the lines from western Asia, China, and Korea. FISH karyotypes of wheat chromosomes distinguished chromosomal structural variations, revealing the genetic diversity among wheat varieties. Furthermore, these results provide valuable information for the further genetic improvement of wheat in China.

Origins and chromosome differentiation of Thinopyrum elongatum revealed by PepC and Pgk1 genes and ND-FISH.

Thinopyrum elongatum is an important gene pool for wheat genetic improvement. However, the origins of the Thinopyrum genomes and the nature of the genus' intraspecific relationships are still controversial. In this study, we used single-copy nuclear genes and non-denaturing fluorescence in situ hybridization (ND-FISH) to characterize genome constitution and chromosome differentiation in Th.elongatum. According to phylogenetic analyses based on PepC and Pgk1 genes, there was an E genome with three versions (Ee, Eb, Ex) and St genomes in the polyploid Th.elongatum. The ND-FISH results of pSc119.2 and pAs1 revealed that the karyotypes of diploid Th.elongatum and Th.bessarabicum were different, and the chromosome differentiation occurred among accessions of the diploid Th.elongatum. In addition, the tetraploid Th.elongatum has two groups of ND-FISH karyotype, indicating that the tetraploid Th.elongatum might be a segmental allotetraploid. In summary, our results suggested that the diploid Th.elongatum, Th.Bessarabicum, and Pseudoroegneria were the donors of the Ee, Eb, and St genomes to the polyploid Th.elongatum, respectively.

Genome-wide association analysis of Mexican bread wheat landraces for resistance to yellow and stem rust.

Deploying under-utilized landraces in wheat breeding has been advocated to accelerate genetic gains in current era of genomics assisted breeding. Mexican bread wheat landraces (Creole wheats) represent an important resource for the discovery of novel alleles including disease resistance. A core set of 1,098 Mexican landraces was subjected to multi-location testing for rust diseases in India, Mexico and Kenya. The landrace core set showed a continuous variation for yellow (YR) and stem rust (SR) disease severity. Principal component analysis differentiated Mexican landraces into three groups based on their respective collection sites. Linkage disequilibrium (LD) decay varied from 10 to 32 Mb across chromosomes with an averge of 23Mb across whole genome. Genome-wide association analysis revealed marker-trait associations for YR resistance in India and Mexico as well as for SR resistance in Kenya. In addition, significant additive-additive interaction effects were observed for both YR and SR resistance including genomic regions on chromosomes 1BL and 3BS, which co-locate with pleiotropic genes Yr29/Lr46/Sr58/Pm39/Ltn2 and Sr2/Yr30/Lr27, respectively. Study reports novel genomic associations for YR (chromosomes 1AL, 2BS, and 3BL) and SR (chromosomes 2AL, 4DS, and 5DS). The novel findings in Creole wheat landraces can be efficiently utilized for the wheat genetic improvement.

Research status and prospect of genes related with resistance to powdery mildew of wheat

Wheat (Triticum aestivum L.) is one of the major grain crops in the world. Wheat powdery mildew is a fungal disease caused by the infection of Blumeria graminis F. sp. tritici. It is one of the most severe wheat diseases globally, seriously affecting the yield and quality of wheat. At present, the main ways to control powdery mildew are the use of fungicides and the cultivation of disease-resistant varieties. The extensive spraying of fungicides causes pesticide residues and environmental pollution. At present, no matter wild type or artificially bred wheat powdery mildew resistant varieties are scarce, so it is urgent to cultivate resistant varieties quickly and efficiently. Traditional cross breeding has a long time and low efficiency. Still, it is a fast and effective way to get disease-resistant sorts by using modern molecular biological means to transfer disease-resistant genes into cultivated varieties. Although the cultivation of resistant varieties is the most economical and effective way to control powdery mildew in wheat, there are some limitations in the cultivation of resistant varieties by introducing resistance genes by conventional means in actual production. With the increase of disease each year, this situation will be more and more unable to meet the needs of wheat genetic improvement. It is urgent to explore a new way of breeding to improve the wheat to powdery mildew lasting broad-spectrum resistance. The disease-resistant breeding needs from cloning in plant and pathogen affinity interactions play a vital role in the study of disease genes and their mechanism of action. At present, in the wheat by manipulating disease genes make infected material gain lasting broad-spectrum resistance is less. In the case of disease genes and mutations after its disease-resistant mechanism are still not clear. So the breeding of resistant varieties need mining and utilization of resistance genes. The paper summarizes the harm and distribution of wheat powdery mildew, the genes resistance mechanism of wheat powdery mildew, and functional analysis, wheat powdery mildew resistance genes in the field of molecular biology research status, and VIGS, RNAi, such as for the prevention and control of wheat powdery mildew, explore new powdery mildew resistance genes and resistance regulation, breeding disease-resistant varieties of wheat provide the feasible scheme.

Conatrigo F2015; nueva variedad de trigo harinero (Triticum aestivum L.) para zonas de riego en México

El INIFAP pone a disposición de los productores de trigo de riego la variedad ‘Conatrigo F2015’, obtenida en el Programa de Mejoramiento Genético de Trigo en el Campo Experimental Valle de México. Se cruzaron los progenitores Thelin y Weebill en El Batán en P-V/2001, la F1 se retrocruzó hacia WEEBILL en Cd. Obregón en O-I/2001-2002. La cruza F1 TOP (CGSS02Y00079T) se sembró en El Batán en P-V/2002, fueron cosechadas en forma masal un número indefinido de plantas (099B), este procedimiento se siguió alternadamente en El Batán, Atizapán y Cd. Obregón hasta la F5 que fue sembrada en Cd. Obregón, Son. en O-I/2004-2005, se seleccionó y cosecho individualmente la planta No. 6 (6Y) obteniéndose la línea que dio origen a la variedad. Del ciclo O-I/2007-2008 hasta O-I/2014-2015 fue evaluada por INIFAP en diez estados y hasta en 120condiciones diferente. Su genealogía es Thelin/2*Wbll1 y pedigrí, CGSS02Y00079T-099B-099B-099Y-099M-6Y-0B. el número de registro definitivo es TRI-174- 231117 y título de obtentor 1895. Posee los genes Lr24 y Lr46 que les otorgan resistencia a las razas de roya de la hoja presentes en México. Posee los genes Yr29 y Yr30 que le confieren resistencia en planta adulta a roya amarilla. Superó en rendimiento desde 3% (Kronstad F2004) hasta 32% (Palmerín F2004) en riego normal. Es de grano duro con masa fuerte (W> 300 J × 10-4), extensible (PL< 1), volumen de pan superior que el de Kronstad F2004, con masa adecuada para panificación mecanizada o como mejoradora de masas suaves y tenaces.

Методи оцінки посухостійкості селекційного матеріалу пшениці

Wheat is one of the most valuable cereals on the planet and plays a leading role in the food supply of mankind. The range of wheat is very large, since it is cultivated on five continents in most countries of the world. The genetic improvement of wheat is crucial because of its direct impact on the economic development, international grain trade and food security of the country, so the relevance of research in solving many genetic-breeding problems regarding this crop is growing and acquires a qualitatively new character. The increase in productivity is the most important criterion in the cultivation of any crops, in particular wheat. Drought is one of the main limiting environmental factors that reduce plant productivity. In order to guarantee agriculture from losses in dry years, it is necessary to have varieties tolerant to moisture deficiency. That is why one of the priority areas of wheat breeding is the creation of varieties tolerant to the action of water deficiency. The success of breeding when creating drought tolerant forms largely depends on the correct assessment of the degree of their tolerance. Conducting research on the assessment of genotypes for tole­rance to water stress is one of conditions for increasing efficiency of the breeding process of this culture. The results obtained in the analysis of literature data, found that for screening of wheat varieties for drought tolerance there are many methods based on different principles of action, and each of them has its advantages and disadvantages. To accelerate the breeding process and obtain reliable results, it is necessary to apply various methods of researching samples on specific signs of tolerance to stress. The choice of method largely depends on the degree of its complexity, the duration of the assessment and throughput. Therefore, the creation of new and improvement of existing methods for assessing wheat breeding material for drought tolerance in conditions of increasing water deficit or temperature increase will make it possible to objectively characterize the level of adaptability of promising genotypes and predict their behavior in appropriate environmental conditions.

Grain proteomic analysis reveals central stress responsive proteins caused by wheat-Haynaldia villosa 6VS/6AL translocation

Haynaldia villosa (2n=14, VV), a wild grass of the subtribe Triticeae, serves as potential gene resources for wheat genetic improvement. In this study, the proteome characterization during grain development of Yangmai 5 and Yangmai 5-H. villosa 6VS/6AL translocation line was investigated by a comparative proteomic approach. Two-dimensional electrophoresis identified 81 differentially accumulated proteins (DAPs) during five grain developmental stages in wheat-H. villosa translocation line. These proteins were mainly involved in stress defense, storage protein, energy metabolism, protein metabolism and folding, carbon metabolism, nitrogen metabolism, and starch metabolism. In particular, 6VS/6AL translocation led to significant upregulation of 36 DAPs and specific expression of 11 DAPs such as chitinase, thaumatin-like proteins, glutathione transferase, α-amylase inhibitor, heat shock proteins, and betaine aldehyde dehydrogenase. These proteins mainly involved in biotic and abiotic stress responses. Further analysis found that the upstream 1 500 promoter regions of these stress-responsive DAP genes contained multiple high-frequency cis-acting elements related to stress defense such as abscisic acid response element ABRE, methyl jasmonate (MeJA)-response element TGACG-motif and CGTCA-motif involved in oxidative stress and antioxidant response element (ARE). RNA-seq and RT-qPCR analyses revealed the high expression of these stress-defensive DAP genes in the developing grains, particularly at the early-middle grain filling stages. Our results demonstrated that 6VS chromosome of H. villosa contains abundant stress-defensive proteins that have potential values for wheat genetic improvement.

Unlocking the relationships among population structure, plant architecture, growing season, and environmental adaptation in Henan wheat cultivars

BackgroundEcological environments shape plant architecture and alter the growing season, which provides the basis for wheat genetic improvement. Therefore, understanding the genetic basis of grain yield and yield-related traits in specific ecological environments is important.ResultsA structured panel of 96 elite wheat cultivars grown in the High-yield zone of Henan province in China was genotyped using an Illumina iSelect 90 K SNP assay. Selection pressure derived from ecological environments of mountain front and plain region provided the initial impetus for population divergence. This determined the dominant traits in two subpopulations (spike number and spike percentage were dominance in subpopulation 2:1; thousand-kernel weight, grain filling rate (GFR), maturity date (MD), and fertility period (FP) were dominance in subpopulation 2:2), which was also consistent with their inheritance from the donor parents. Genome wide association studies identified 107 significant SNPs for 12 yield-related traits and 10 regions were pleiotropic to multiple traits. Especially, GY was co-located with MD/FP, GFR and HD at QTL-ple5A, QTL-ple7A.1 and QTL-ple7B.1 region. Further selective sweep analysis revealled that regions under selection were around QTLs for these traits. Especially, grain yield (GY) is positively correlated with MD/FP and they were co-located at the VRN-1A locus. Besides, a selective sweep signal was detected at VRN-1B locus which was only significance to MD/FP.ConclusionsThe results indicated that extensive differential in allele frequency driven by ecological selection has shaped plant architecture and growing season during yield improvement. The QTLs for yield and yield components detected in this study probably be selectively applied in molecular breeding.

Genetic Diversity and Population Structure of Asian and European Common Wheat Accessions Based on Genotyping-By-Sequencing.

Obtaining information on the genetic diversity and population structure of germplasm facilitates its use in wheat breeding programs. Recently, with the development of next-generation sequencing technology, genotyping-by-sequencing (GBS) has been used as a high-throughput and cost-effective molecular tool for examination of the genetic diversity of wheat breeding lines. In this study, GBS was used to characterize a population of 180 accessions of common wheat originating from Asia and Europe between the latitudes 30° and 45°N. In total, 24,767 high-quality single-nucleotide polymorphism (SNP) markers were used for analysis of genetic diversity and population structure. The B genome contained the highest number of SNPs, followed by the A and D genomes. The polymorphism information content was in the range of 0.1 to 0.4, with a mean of 0.26. The distribution of SNPs markers on the 21 chromosomes ranged from 243 on chromosome 4D to 2,337 on chromosome 3B. Structure and cluster analyses divided the panel of accessions into two subgroups (G1 and G2). G1 principally consisted of European and partial Asian accessions, and G2 comprised mainly accessions from the Middle East and partial Asia. Molecular analysis of variance showed that the genetic variation was greater within groups (99%) than between groups (1%). Comparison of the two subgroups indicated that G1 and G2 contained a high level of genetic diversity. The genetic diversity of G2 was slightly higher as indicated by the observed heterozygosity (Ho) = 0.23, and unbiased diversity index (uh) = 0.34. The present results will not only help breeders to understand the genetic diversity of wheat germplasm on the Eurasian continent between the latitudes of 30° and 45°N, but also provide valuable information for wheat genetic improvement through introgression of novel genetic variation in this region.

Genome-Wide Mining of Wheat DUF966 Gene Family Provides New Insights Into Salt Stress Responses.

Domain of unknown function (DUF) proteins constitute a great deal of families of functionally uncharacterized proteins in eukaryotes. The DUF966 gene family is found in monocotyledons, dicotyledons, mosses, and other species. However, little is known about the functions of DUF966 genes in wheat (Triticum aestivum L.). In this study, we identified and characterized the TaDUF966 gene family members in wheat by in silico analysis. A total of 28 TaDUF966 proteins were identified in wheat. Phylogenetic analysis divided these proteins into two groups (Groups I and II). Proteins in each group showed a highly conserved DUF966 domain and conserved motif distribution, implying their functional conservation. Analysis of gene expression profiling data showed that some TaDUF966 genes were induced by salt stress. We further confirmed the role of TaDUF966-9B in salt stress using virus induced gene silencing (VIGS) assay. Compared with the empty vector control, the TaDUF966-9B knockdown plants exhibited severe leaf curling at 10 days post-inoculation with BSMV under salt stress, suggesting that TaDUF966 genes play a vital role in salt stress tolerance in wheat. Taken together, these results expand our knowledge of the evolution of the DUF966 gene family in wheat and promote the potential application of these genes in wheat genetic improvement.

Genome-wide identification and characterization of novel non-coding RNA-derived SSRs in wheat.

Expression of eukaryotic genes is largely regulated by non-coding RNAs (ncRNA). Sequence variations in the regulatory RNAs may have critical biological consequences including transcriptional and post-transcriptional gene regulation. ncRNA-derived markers thus can be proved useful in molecular breeding, QTL mapping and association studies for trait dissection. In present study, we identified a total of 661 SSRs dwelling in pre-miRNA (15), small nuclear RNA (25) and lncRNA (621). Of these, 46 were validated and 100% amplification success was observed in selected wheat genotypes. A set of 36 ncRNA-SSRs markers was utilized for genetic variability assessment in forty-eight Indian wheat genotypes (which includes bread wheat, durum wheat and relatives). Number of alleles ranged from 1 to 4 with an average of two alleles per SSR locus. Mean PIC, observed heterozygosity and Shannon information index were found to be 0.258, 0.37 and 0.476 which suggests ncRNA-SSRs show higher polymorphism compared to genic SSRs but lower polymorphism compared to genomic SSRs. Thirty-six ncRNA-SSRs showed transferability ranging from 42.1% to 100%. Average genetic dissimilarity among wheat genotypes was found to be 0.29 based on Jaccard's dissimilarity. This is the first report of ncRNA-SSRs in wheat which will be useful for molecular breeding and genetic improvement of wheat.

Elicitation of salt stress-tolerant mutants in bread wheat (Triticum aestivum L.) by using gamma radiation

BackgroundGiven the strategic importance of wheat being the staple food for the vast majority of people, it was necessary to know reasons for the contraction and decline of its area globally and consequently its lower yield. Among the most important of these problems is the problem of a high level of salinity in both soil and irrigation water coming at the forefront of environmental challenges that hinder its production process at the local and global levels. Therefore, the genetic improvement of wheat for salinity tolerance was one of the most important priorities of this investigation.ResultsThe seven wheat accessions (Sakha 8 and its six M5 derived mutants) succeeded in drawing unique cases of salinity tolerance and were excellent especially mutants 1, 2, 3, and 5. The rest genotypes were coming in the second rank for this purpose and were very good in this regard. The promising wheat genotypes which recorded high salinity tolerance in the recent investigation exhibited also high genetic stability. This fact was proved after estimating some agro-morphological and physiological traits related to salinity tolerance based on evaluating some important genetic parameters besides salinity tolerance indices under stress experiment compared to the control treatment within two seasons. Data evaluated of expected genetic advance (GA) based on 5% selection proved that all values calculated during the two seasons under both treatments appeared low for all studied traits in this regard. However, it reflects the success of breeding for salinity tolerance in wheat using mutations but in relative terms. Molecular marker analysis profile using the six ISSR primers exhibited a total of 173 markers, 12 of them were monomorphic, while that 161 bands appeared polymorphic included 56 unique bands or positive markers and 7 negative markers with 93.06 % (polymorphism).ConclusionThe original wheat variety (Sakha 8) and its six M5 derived mutants exhibited high tolerance of salinity stress in all studied traits based on all genetic parameters and salinity tolerance indices calculated for both seasons under salinity treatment compared to the normal conditions. DNA fingerprinting analysis as well for the six wheat mutants besides the local variety proved that these genotypes were recorded highly genetic differences among them.

Mapping QTLs for enhancing early biomass derived from Aegilops tauschii in synthetic hexaploid wheat

Strong early vigour plays a crucial role in wheat yield improvement by enhancing resource utilization efficiency. Synthetic hexaploid wheat (SHW) combines the elite genes of tetraploid wheat with Aegilops tauschii and has been widely used in wheat genetic improvement for its abundant genetic variation. The two SHWs Syn79 and Syn80 were derived from the crossing of the same tetraploid wheat DOY1 with two different Ae. tauschii accessions, AT333 and AT428, respectively. The Syn80 possessed better early vigour traits than Syn79, theretically caused by their D genome from Ae. tauschii. To dissect their genetic basis in a hexaploid background, 203 recombinant inbred lines (RILs) derived from the cross of Syn79 x Syn80 were developed to detect quantitative trait loci (QTL) for four early biomass related traits: plant height (PH), tiller number (TN), shoot fresh weight (SFW) and shoot dry weight (SDW) per plant, under five different environmental conditions. Determined from the data of SNP markers, two genome regions on 1DS and 7D were stably associated with the four early biomass related traits showing pleiotropic effects. Four stable QTLs QPh.saas-1DS, QTn.saas-1DS, QSfw.saas-1DS and QSdw.saas-1DS explaining 7.92, 15.34, 9.64 and 10.15% of the phenotypic variation, respectively, were clustered in the region of 1DS from AX-94812958 to AX-110910133. Meanwhile, QPh.saas-7D, QTn.saas-7D, QSfw.saas-7D and QSdw.saas-7D were flanked by AX-109917900 and AX-110605376 on 7D, explaining 16.12, 24.35, 15.25 and 13.37% of the phenotypic variation on average, respectively. Moreover, these genomic QTLs on 1DS and 7D enhancing biomass in the parent Syn80 were from Ae. tauschii AT428. These findings suggest that these two QTLs from Ae. tauschii can be expressed stably in a hexaploid background at the jointing stage and be used for wheat improvement.

Preferential Subgenome Elimination and Chromosomal Structural Changes Occurring in Newly Formed Tetraploid Wheat—Aegilops ventricosa Amphiploid (AABBDvDvNvNv)

Artificial allopolyploids derived from the genera Triticum and Aegilops have been used as genetic resources for wheat improvement and are a classic example of evolution via allopolyploidization. In this study, we investigated chromosomes and subgenome transmission behavior in the newly formed allopolyploid of wheat group via multicolor Fluorescence in situ hybridization (mc-FISH), using pSc119.2, pTa535, and (GAA)7 as probe combinations, to enabled us to precisely identify individual chromosomes in 381 S3 and S4 generations plants derived from reciprocal crosses between Ae. ventricosa (DvDvNvNv) and T. turgidum (AABB). A higher rate of aneuploidy, constituting 66.04–86.41% individuals, was observed in these two early generations. Of the four constituent subgenomes, Dv showed the highest frequency of elimination, followed by Nv and B, while A was the most stable. In addition, structural chromosomal changes occurred ubiquitously in the selfed progenies of allopolyploids. Among the constituent subgenomes, B showed the highest number of aberrations. In terms of chromosomal dynamics, there was no significant association between the chromosomal behavior model and the cytoplasm, with the exception of chromosomal loss in the Dv subgenome. The chromosome loss frequency in the Dv subgenome was significantly higher in the T. turgidum × Ae. ventricosa cross than in the Ae. ventricosa × T. turgidum cross. This result indicates that, although the D subgenome showed great instability, allopolyploids containing D subgenome could probably be maintained after a certain hybridization in which the D subgenome donor was used as the maternal parent at its onset stage. Our findings provide valuable information pertaining to the behavior patterns of subgenomes during allopolyploidization. Moreover, the allopolyploids developed here could be used as potential resources for the genetic improvement of wheat.

Molecular cytogenetic characterization of a novel wheat\u2013Psathyrostachys huashanica Keng T3DS-5NsL\u20225NsS and T5DL-3DS\u20223DL dual translocation line with powdery mildew resistance

BackgroundPsathyrostachys huashanica Keng (2n = 2x = 14, NsNs) carries many outstanding agronomic traits, therefore is a valuable resource for wheat genetic improvement. Wheat–P. huashanica translocation lines are important intermediate materials for wheat breeding and studying the functions of alien chromosomes. However, powdery mildew resistance in these translocation lines has not been reported previously.ResultsThis study developed a novel wheat–P. huashanica translocation line TR77 by selecting a F7 progeny from the cross between heptaploid hybrid H8911 (2n = 7x = 49, AABBDDNs) and durum wheat line Trs-372. Chromosome karyotype of 2n = 42 = 21II was observed in both mitotic and meiotic stages of TR77. Genomic in situ hybridization analysis identified two translocated chromosomes that paired normally at meiosis stage in TR77. Molecular marker analysis showed that part of chromosome 5D was replaced by part of alien chromosome fragment 5Ns. It meant replacement made part 5DL and part 5NsL·5NsS existed in wheat background, and then translocation happened between these chromosomes and wheat 3D chromosome. Fluorescence in situ hybridization demonstrated that TR77 carries dual translocations: T3DS-5NsL·5NsS and T5DL-3DS·3DL. Analysis using a 15 K-wheat-SNP chip confirmed that SNP genotypes on the 5D chromosome of TR77 matched well with these of P. huashanica, but poorly with common wheat line 7182. The translocation was physically located between 202.3 and 213.1 Mb in 5D. TR77 showed longer spikes, more kernels per spike, and much better powdery mildew resistance than its wheat parents: common wheat line 7182 and durum wheat line Trs-372.ConclusionsTR77 is a novel stable wheat–P. huashanica T3DS-5NsL·5NsS and T5DL-3DS·3DL dual translocation line and showed significant improved spike traits and resistance to powdery mildew compared to its parents, thus, it can be an useful germplasm for breeding disease resistance and studying the genetic mechanism of dual translocations.

A 1BL/1RS translocation contributing to kernel length increase in three wheat recombinant inbred line populations

The 1BL/1RS wheat-rye translocation has been widely utilized in wheat genetic improvement and breeding programs. Our understanding on the effects of the 1BL/1RS translocation on wheat kernel size (e.g. length and width) is limited despite of numerous studies reporting about the effects on kernel weight. Here, we identified a wheat 1BL/1RS translocation line 88-1643 with higher kernel length (KL) using fluorescence in situ hybridization (FISH), genomic in situ hybridization (GISH) and molecular markers. To detect the possible role of the 1BL/1RS translocation in KL, kernel width (KW), and thousand-kernel weight (TKW), three recombinant inbred line (RIL) populations were constructed by crossing 88-1643 and three other wheat lines. As expected, the results showed that the values of KL in lines carrying 1RS were significantly higher than those carrying 1BS in three RIL populations at multiple environments, indicating that a major and stably expressed allele or gene responsible for increasing KL is most likely located on 1RS from 88-1643. Additionally, in one RIL population, the increased KL contributed significantly to the increase in TKW. Collectively, the 1BL/1RS translocation reported here is of interest to reveal molecular mechanism of the gene controlling KL and will be useful for improving wheat yield.

Development and characterization of Triticum turgidum - Aegilops comosa and T. turgidum - Ae. markgrafii amphidiploids.

Aegilops comosa and Ae. markgrafii are diploid progenitors of polyploidy species of Aegilops sharing M and C genomes, respectively. Transferring valuable genes/traits from Aegilops into wheat is an alternative strategy for wheat genetic improvement. The amphidiploids between diploid species of Aegilops and tetraploid wheat can act as bridges to overcome obstacles from direct hybridization and can be developed by the union of unreduced gametes. In this study, we developed seven Triticum turgidum - Ae. comosa and two T. turgidum - Ae. markgrafii amphidiploids. The unreduced gametes mechanisms, including first-division restitution (FDR) and single-division meiosis (SDM), were observed in triploid F1 hybrids of T. turgidum - Ae. comosa (STM) and T. turgidum - Ae. markgrafii (STC). Only FDR was observed in STC hybrids, whereas FDR or both FDR and SDM were detected in the STM hybrids. All seven pairs of M chromosomes of Ae. comosa and C chromosomes of Ae. markgrafii were distinguished by fluorescent in situ hybridization (FISH) probes pSc119.2 and pTa71 combinations with pTa-535 and (CTT)12/(ACT)7, respectively. Meanwhile, the chromosomes of tetraploid wheat and diploid Aegilops parents were distinguished by the same FISH probes. The amphidiploids possessed specific valuable traits such as multiple tillers, large seed size related traits, and stripe rust resistance that could be utilized in the genetic improvement of wheat.

The Wheat 660K SNP array demonstrates great potential for marker‐assisted selection in polyploid wheat

The rapid development and application of molecular marker assays have facilitated genomic selection and genome‐wide linkage and association studies in wheat breeding. Although PCR‐based markers (e.g. simple sequence repeats and functional markers) and genotyping by sequencing have contributed greatly to gene discovery and marker‐assisted selection, the release of a more accurate and complete bread wheat reference genome has resulted in the design of single‐nucleotide polymorphism (SNP) arrays based on different densities or application targets. Here, we evaluated seven types of wheat SNP arrays in terms of their SNP number, distribution, density, associated genes, heterozygosity and application. The results suggested that the Wheat 660K SNP array contained the highest percentage (99.05%) of genome‐specific SNPs with reliable physical positions. SNP density analysis indicated that the SNPs were almost evenly distributed across the whole genome. In addition, 229 266 SNPs in the Wheat 660K SNP array were located in 66 834 annotated gene or promoter intervals. The annotated genes revealed by the Wheat 660K SNP array almost covered all genes revealed by the Wheat 35K (97.44%), 55K (99.73%), 90K (86.9%) and 820K (85.3%) SNP arrays. Therefore, the Wheat 660K SNP array could act as a substitute for other 6 arrays and shows promise for a wide range of possible applications. In summary, the Wheat 660K SNP array is reliable and cost‐effective and may be the best choice for targeted genotyping and marker‐assisted selection in wheat genetic improvement.

Cloning, characterization of TaGS3 and identification of allelic variation associated with kernel traits in wheat (Triticum aestivum L.)

BackgroundGrain weight is an important yield component. Selection of advanced lines with heavy grains show high grain sink potentials and strong sink activity, which is an increasingly important objective in wheat breeding programs. Rice OsGS3 has been identified as a major quantitative trait locus for both grain weight and grain size. However, allelic variation of GS3 has not been characterized previously in hexaploid wheat.ResultsWe cloned 2445, 2393, and 2409 bp sequences of the homologs TaGS3-4A, TaGS3-7A, and TaGS3-7D in wheat ‘Changzhi 6406’, a cultivar that shows high grain weight. The TaGS3 genes each contained five exons and four introns, and encoded a deduced protein of 170, 169, and 169 amino acids, respectively. Phylogenetic analysis of plant GS3 protein sequences revealed GS3 to be a monocotyledon-specific gene and the GS3 proteins were resolved into three classes. The length of the atypical Gγ domain and the cysteine-rich region was conserved within each class and not conserved between classes. A single-nucleotide polymorphism in the fifth exon (at position 1907) of TaGS3-7A leads to an amino acid change (ALA/THR) and showed different frequencies in two pools of Chinese wheat accessions representing extremes in grain weight. Association analysis indicated that the TaGS3-7A-A allele was associated with higher grain weight in the natural population. The TaGS3-7A-A allele was favoured in global modern wheat cultivars but the allelic frequency varied among different wheat-production regions of China, which indicated that this allele is of potential utility to improve wheat grain weight in certain wheat-production areas of China.ConclusionsThe novel molecular information on wheat GS3 homologs and the KASP functional marker designed in this study may be useful in marker-assisted breeding for genetic improvement of wheat.

Uncovering Genomic Regions Associated With 36 Agro-Morphological Traits in Indian Spring Wheat Using GWAS.

Wheat genetic improvement by integration of advanced genomic technologies is one way of improving productivity. To facilitate the breeding of economically important traits in wheat, SNP loci and underlying candidate genes associated with the 36 agro-morphological traits were studied in a diverse panel of 404 genotypes. By using Breeders’ 35K Axiom array in a comprehensive genome-wide association study covering 4364.79 cM of the wheat genome and applying a compressed mixed linear model, a total of 146 SNPs (-log10 P ≥ 4) were found associated with 23 traits out of 36 traits studied explaining 3.7–47.0% of phenotypic variance. To reveal this a subset of 260 genotypes was characterized phenotypically for six quantitative traits [days to heading (DTH), days to maturity (DTM), plant height (PH), spike length (SL), awn length (Awn_L), and leaf length (Leaf_L)] under five environments. Gene annotations mined ∼38 putative candidate genes which were confirmed using tissue and stage specific gene expression data from RNA Seq. We observed strong co-localized loci for four traits (glume pubescence, SL, PH, and awn color) on chromosome 1B (24.64 cM) annotated five putative candidate genes. This study led to the discovery of hitherto unreported loci for some less explored traits (such as leaf sheath wax, awn attitude, and glume pubescence) besides the refined chromosomal regions of known loci associated with the traits. This study provides valuable information of the genetic loci and their potential genes underlying the traits such as awn characters which are being considered as important contributors toward yield enhancement.