scholarly journals Genomic Regions Controlling Yield-related Traits in Spring Wheat: A Mini Review and a Case Study for Rainfed Environments in Australia and China

2021 ◽  
Author(s):  
Hui Liu ◽  
Daniel Mullan ◽  
Shancen Zhao ◽  
Yong Zhang ◽  
Jun Ye ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Spring Wheat ◽  
Genome Wide Association Study ◽  
Single Gene ◽  
Wheat Yield ◽  
Genotyping By Sequencing ◽  
Gene Clusters ◽  
High Yield ◽  
Wheat Varieties ◽  
Rainfed Farming

Abstract Breeding high-yield wheat varieties performing well in target environment is economically important. This study conducted a mini review of genome-wide association study (GWAS) outcomes on wheat yield-related traits reported in recent years, and performed GWAS in six individual environments to identify major alleles and their candidate genes responsible for wheat yield-related traits in Australia and North China where rainfed farming system is adopted. A panel of 228 spring wheat varieties were used. A double digest restriction-site associated DNA (ddRAD) genotyping-by-sequencing (GBS) protocol was performed to generate single nucleotide polymorphism (SNP) marker data. A total of 223 significant marker-trait association (MTAs) for yield traits, and 46 candidate genes for the major or consistent MTAs were identified. A phenomenon seldom reported in previous studies was that MTA clustered chromosome segments and gene clusters responsible for the trait were found across the genome, which suggested that marker-assisted selection (MAS) or transgenic method targeting a single gene might not be as effective as MAS targeting a much larger genomic region (GR) where all the genes or gene clusters underlying the GR play important roles.

scholarly journals Large-Scale Integration of Meta-QTL and Genome-Wide Association Study Discovers the Genomic Regions and Candidate Genes for Yield and Yield-related Traits in Bread Wheat

2021 ◽  
Author(s):  
Yang Yang ◽  
Amo Aduragbemi ◽  
Di Wei ◽  
Yongmao Chai ◽  
Jie Zheng ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Large Scale ◽  
Genome Wide Association Study ◽  
Expression Patterns ◽  
Wheat Yield ◽  
Natural Populations ◽  
Wheat Breeding ◽  
High Yield ◽  
Photoperiod Response ◽  
Genomic Regions

Abstract Improving yield and yield-related traits are key goals in wheat breeding program. The integration of accumulated wheat genetic resources provides an opportunity to uncover important genomic regions and candidate genes that affect wheat yield. Here, a comprehensive Meta-QTL analysis was conducted on 2230 QTLs of yield-related traits obtained from 119 QTL studies. These QTLs were refined into 145 Meta-QTLs (MQTLs), and 89 MQTLs were verified by GWAS with different natural populations. The average confidence interval (CI) of these MQTLs was 2.92 times less than that of the initial QTLs. Furthermore, 76 core MQTL regions with a physical distance less than 25 Mb were detected. Based on the homology analysis and expression patterns, 237 candidate genes in the MQTLs involved in photoperiod response, grain development, multiple plant growth regulator pathways, carbon and nitrogen metabolism, and spike and flower organ development were determined. A novel candidate gene TaKAO-4A was confirmed to be significantly associated with grain size, and a CAPS marker was developed based on its dominant haplotype. In summary, this study clarified a method based on the integration of Meta-QTL, GWAS and homology comparison to reveal the genomic regions and candidate genes that affect important yield-related traits in wheat. This work will help to lay a foundation for the identification, transfer and aggregation of these important QTLs or candidate genes in wheat high-yield breeding.

scholarly journals Spring wheat yield (Triticum aestivum L.) when applying selenium fertilizers in extreme growing conditions

2021 ◽  
Vol 843 (1) ◽  
pp. 012038
Author(s):  
I I Seregina ◽  
I G Makarskaya ◽  
A S Tsygutkin ◽  
I V Kirichkova
Keyword(s):  
Triticum Aestivum ◽  
Water Supply ◽  
Spring Wheat ◽  
Sodium Selenite ◽  
Wheat Yield ◽  
Triticum Aestivum L ◽  
Wheat Crop ◽  
Wheat Varieties ◽  
Negative Effect ◽  
Positive Effect

Abstract To study the effect of sodium Selenite application different methods on the yield of spring wheat varieties, depending on the conditions of water supply, a series of vegetation experiments in accordance with the methodology were carried out. The object of the study is spring wheat of the Zlata variety (Triticum aestivum L.). It was found that the effect of selenium on the yield of wheat of the Zlata variety depended on the method of its application and the conditions of water supply. With optimal water supply, the positive effect of selenium on the yield of spring wheat plants was revealed with both methods of applying sodium selenite. It was found that in conditions of drought, the positive effect of selenium was obtained with both methods of using sodium selenite. The greatest efficiency of selenium is obtained in foliar processing of plants. The increase in grain weight in this variant was 1.4 times. The increase in the share of the agronomic significant part of the wheat crop yield to 36% is shown, which indicates the decrease in the negative effect of drought on the formation of spring wheat yield when using foliar processing of plants.

scholarly journals GWAS Discovery Of Candidate Genes for Yield-Related Traits in Peanut and Support from Earlier QTL Mapping Studies

Genes ◽  
2019 ◽  
Vol 10 (10) ◽  
pp. 803 ◽  
Author(s):  
Wang ◽  
Yan ◽  
Li ◽  
Li ◽  
Zhao ◽  
...  
Keyword(s):  
Qtl Mapping ◽  
Candidate Genes ◽  
Genome Wide Association Study ◽  
Gene Annotation ◽  
Genotyping By Sequencing ◽  
Nucleotide Polymorphisms ◽  
Market Demand ◽  
Oil Crops ◽  
A Genome ◽  
Genomic Regions

Peanut (Arachis hypogaea L.) is one of the most important oil crops worldwide, and its yet increasing market demand may be met by genetic improvement of yield related traits, which may be facilitated by a good understanding of the underlying genetic base of these traits. Here, we have carried out a genome-wide association study (GWAS) with the aim to identify genomic regions and the candidate genes within these regions that may be involved in determining the phenotypic variation at seven yield-related traits in peanut. For the GWAS analyses, 195 peanut accessions were phenotyped and/or genotyped; the latter was done using a genotyping-by-sequencing approach, which produced a total of 13,435 high-quality single nucleotide polymorphisms (SNPs). Analyses of these SNPs show that the analyzed peanut accessions can be approximately grouped into two big groups that, to some extent, agree with the botanical classification of peanut at the subspecies level. By taking this genetic structure as well as the relationships between the analyzed accessions into consideration, our GWAS analyses have identified 93 non-overlapping peak SNPs that are significantly associated with four of the studied traits. Gene annotation of the genome regions surrounding these peak SNPs have found a total of 311 unique candidate genes. Among the 93 yield-related-trait-associated SNP peaks, 12 are found to be co-localized with the quantitative trait loci (QTLs) that were identified by earlier related QTL mapping studies, and these 12 SNP peaks are only related to three traits and are almost all located on chromosomes Arahy.05 and Arahy.16. Gene annotation of these 12 co-localized SNP peaks have found 36 candidates genes, and a close examination of these candidate genes found one very interesting gene (arahy.RI9HIF), the rice homolog of which produces a protein that has been shown to improve rice yield when over-expressed. Further tests of the arahy.RI9HIF gene, as well as other candidate genes especially those within the more confident co-localized genomic regions, may hold the potential for significantly improving peanut yield.

scholarly journals Wheat and Barley Susceptibility and Tolerance to Multiple Isolates of Wheat streak mosaic virus

Plant Disease ◽  
2015 ◽  
Vol 99 (10) ◽  
pp. 1383-1389 ◽  
Author(s):  
Erik Lehnhoff ◽  
Zachariah Miller ◽  
Fabian Menalled ◽  
Dai Ito ◽  
Mary Burrows
Keyword(s):  
Winter Wheat ◽  
Mosaic Virus ◽  
Great Plains ◽  
Spring Wheat ◽  
Virus Disease ◽  
Wheat Yield ◽  
Wheat Streak Mosaic Virus ◽  
Yield Losses ◽  
Wheat Varieties ◽  
Cultivar Screening

One of the greatest virus disease threats to wheat production in the Great Plains of the USA is Wheat streak mosaic virus (WSMV). Breeding programs have developed wheat varieties that are resistant or tolerant to WSMV infection, but these characteristics are climate dependent, and may also vary by WSMV isolate. We tested 10 spring and nine winter wheat (Triticum aestivum) varieties and two barley (Hordeum vulgare) varieties for resistance and tolerance to one WSMV isolate over four years. In spring wheat and barley, there were year by cultivar interactions in terms of resistance and tolerance. However, in winter wheat, yield losses due to WSMV were relatively consistent across years and varieties. Additionally, we tested the impacts of three WSMV isolates individually and in a mixture on twelve, two, and twelve varieties of spring wheat, barley, and winter wheat, respectively. Resistance and tolerance varied by isolate and cultivar, but there were no isolate by cultivar interactions. For spring wheat and barley, yield impacts were greater for two of the three single isolates than for the isolate mixture, whereas in winter wheat, the isolate mixture caused greater yield losses than the individual isolates. Overall, the results indicate that resistance and tolerance phenotypes were influenced by environmental conditions and by WSMV isolate or combination of isolates, suggesting that cultivar screening should be conducted over multiple years and with multiple virus isolates.

scholarly journals Detection of Genomic Regions Associated with Resistance to Stem Rust in Russian Spring Wheat Varieties and Breeding Germplasm

2020 ◽  
Vol 21 (13) ◽  
pp. 4706
Author(s):  
Irina N. Leonova ◽  
Ekaterina S. Skolotneva ◽  
Elena A. Orlova ◽  
Olga A. Orlovskaya ◽  
Elena A. Salina
Keyword(s):  
Common Wheat ◽  
Spring Wheat ◽  
Stem Rust ◽  
Fungal Pathogens ◽  
Genome Wide Association Study ◽  
Genetic Resistance ◽  
Snp Markers ◽  
Genome Wide Association ◽  
Wheat Varieties ◽  
Genome Wide

Stem rust caused by Puccinia graminis f. sp. tritici Eriks. is a dangerous disease of common wheat worldwide. Development and cultivation of the varieties with genetic resistance is one of the most effective and environmentally important ways for protection of wheat against fungal pathogens. Field phytopathological screening and genome-wide association study (GWAS) were used for assessment of the genetic diversity of a collection of spring wheat genotypes on stem rust resistance loci. The collection consisting of Russian varieties of spring wheat and introgression lines with alien genetic materials was evaluated over three seasons (2016, 2017 and 2018) for resistance to the native population of stem rust specific to the West Siberian region of Russia. The results indicate that most varieties displayed from moderate to high levels of susceptibility to P. graminis; 16% of genotypes had resistance or immune response. In total, 13,006 single-nucleotide polymorphism (SNP) markers obtained from the Infinium 15K array were used to perform genome-wide association analysis. GWAS detected 35 significant marker-trait associations (MTAs) with SNPs located on chromosomes 1A, 2A, 2B, 3B, 5A, 5B, 6A, 7A and 7B. The most significant associations were found on chromosomes 7A and 6A where known resistance genes Sr25 and Sr6Ai = 2 originated from Thinopyrum ssp. are located. Common wheat lines containing introgressed fragments from Triticum timopheevii and Triticum kiharae were found to carry Sr36 gene on 2B chromosome. It has been suggested that the quantitative trait loci (QTL) mapped to the chromosome 5BL may be new loci inherited from the T. timopheevii. It can be inferred that a number of Russian wheat varieties may contain the Sr17 gene, which does not currently provide effective protection against pathogen. This is the first report describing the results of analysis of the genetic factors conferring resistance of Russian spring wheat varieties to stem rust.

scholarly journals Elucidating the genetics of grain yield and stress-resilience in bread wheat using a large-scale genome-wide association mapping study with 55,568 lines

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Philomin Juliana ◽  
Ravi Prakash Singh ◽  
Jesse Poland ◽  
Sandesh Shrestha ◽  
Julio Huerta-Espino ◽  
...  
Keyword(s):  
Grain Yield ◽  
Large Scale ◽  
Genome Wide Association Study ◽  
Genotyping By Sequencing ◽  
Genome Wide Association ◽  
Severe Drought ◽  
Wheat Varieties ◽  
Stress Resilience ◽  
Genome Wide ◽  
Wheat Lines

AbstractWheat grain yield (GY) improvement using genomic tools is important for achieving yield breakthroughs. To dissect the genetic architecture of wheat GY potential and stress-resilience, we have designed this large-scale genome-wide association study using 100 datasets, comprising 105,000 GY observations from 55,568 wheat lines evaluated between 2003 and 2019 by the International Maize and Wheat Improvement Center and national partners. We report 801 GY-associated genotyping-by-sequencing markers significant in more than one dataset and the highest number of them were on chromosomes 2A, 6B, 6A, 5B, 1B and 7B. We then used the linkage disequilibrium (LD) between the consistently significant markers to designate 214 GY-associated LD-blocks and observed that 84.5% of the 58 GY-associated LD-blocks in severe-drought, 100% of the 48 GY-associated LD-blocks in early-heat and 85.9% of the 71 GY-associated LD-blocks in late-heat, overlapped with the GY-associated LD-blocks in the irrigated-bed planting environment, substantiating that simultaneous improvement for GY potential and stress-resilience is feasible. Furthermore, we generated the GY-associated marker profiles and analyzed the GY favorable allele frequencies for a large panel of 73,142 wheat lines, resulting in 44.5 million datapoints. Overall, the extensive resources presented in this study provide great opportunities to accelerate breeding for high-yielding and stress-resilient wheat varieties.

scholarly journals Different origin soft spring wheat varieties and lines comparative analysis

2021 ◽  
Vol 843 (1) ◽  
pp. 012002
Author(s):  
N V Davydova ◽  
E S Romanova ◽  
V A Nardid ◽  
A O Kazachenko ◽  
A V Shirokolava ◽  
...  
Keyword(s):  
Spring Wheat ◽  
Climatic Conditions ◽  
Yield Potential ◽  
High Yield ◽  
Wheat Varieties ◽  
High Productivity ◽  
Abiotic Stressors ◽  
High Level ◽  
Abiotic Environmental Factors ◽  
High Yield Potential

Abstract This work is devoted to the study of spring soft wheat samples collection material. Eighty collection specimens were evaluated, divided by their origin into four groups. The assessment was carried out according to the limiting characteristics for spring wheat: high productivity, stable over the years, resistance to biotic and abiotic environmental factors. A two-year field test made it possible to compare different groups in terms of yield, and to identify the most promising varieties and lines for the conditions of the Central Non-Black Earth Region. The evaluation of the collection samples of origin various groups showed that the varieties and lines of their own selection were the most adapted to the soil and climatic conditions of the Central Non-Chernozem region. The new lines of spring wheat, along with a high level of yield, showed resistance to biotic and abiotic stressors. Varieties of foreign selection are distinguished by a strong non-spreading stem, high density of the stem, as well as high resistance to the most harmful leaf diseases. Of particular interest are the varieties of the Belarusian selection Darya, Dalech, Viza, Rostan with a high yield potential at the level of 5.0-6.0 t/ha.

scholarly journals Novel Organ-Specific Genetic Factors for Quantitative Resistance to Late Blight in Potato

2019 ◽  
Author(s):  
Deissy Katherine Juyo Rojas ◽  
Johana Carolina Soto Sedano ◽  
Agim Ballvora ◽  
Jens Léon ◽  
Teresa Mosquera Vásquez
Keyword(s):  
Late Blight ◽  
Candidate Genes ◽  
Genome Wide Association Study ◽  
Quantitative Resistance ◽  
Genotyping By Sequencing ◽  
Phenotypic Variance ◽  
Resistance Response ◽  
Genome Wide ◽  
A Genome ◽  
Organ Specific

AbstractPotato, Solanum tuberosum, is one of the highest consumed food in the world, being the basis of the diet of millions of people. The main limiting and destructive disease of potato is late blight, caused by Phytophtora infestans. Here, we present a multi-environmental analysis of the response to P. infestans using an association panel of 150 accessions of S. tuberosum Group Phureja, evaluated in two localities in Colombia. Disease resistance data were merged with a genotyping matrix of 83,862 SNPs obtained by 2b-restriction site–associated DNA and Genotyping by sequencing approaches into a Genome-wide association study. We are reporting 16 organ-specific QTL conferring resistance to late blight. These QTL explain from 13.7% to 50.9% of the phenotypic variance. Six and ten QTL were detected for resistance response in leaves and stem, respectively. In silico analysis revealed 15 candidate genes for resistance to late blight. Four of them have no functional genome annotation, while eleven candidate genes code for diverse proteins, including one leucine-rich repeat kinase.

scholarly journals Targeted resurrection of chromosomal arm 1RS in two elite wheat lines with 1BL/1RS translocation for improved end-use quality

2021 ◽  
Author(s):  
Ramandeep Kaur ◽  
Guriqbal Singh Dhillon ◽  
Amandeep Kaur ◽  
Sarabjit Kaur ◽  
Puneetinder Kaur ◽  
...  
Keyword(s):  
Yellow Rust ◽  
Wheat Yield ◽  
Yield Potential ◽  
High Yield ◽  
Dough Strength ◽  
Wheat Varieties ◽  
Yield Trial ◽  
End Use ◽  
Wheat Lines ◽  
Inherent Quality

1BL/1RS translocation is widely used around the world to enhance wheat yield potential, resistance to various diseases, and adaptation. However, the translocation is combined with inherent quality problems associated with reduced dough strength and dough stickiness due to the presence of Sec-1 on proximal end and absence of GluB3/GliB1 on distal end. Two NILs, one carrying the distal (1RSRW) and the other carrying the proximal (1RSWR) fragment from 1BS, in background of Pavon were used for transferring these two loci in yellow rust resistant version of two elite wheat varieties PBW550+Yr5 and DBW17+Yr5. Foreground and background marker assisted selection was done for the Sec-1- and GluB3+ alongwith Lr26/Yr9/Sr31, Pm8 and 1RS loci in the advancing generation. BC2F5:6 NILs with absence of Secalin and presence of GluB3/GliB1 loci were evaluated for two years in replicated yield trial. A positive correlation of thousand grain weight (TGW), harvest index (HI), and tiller number per meter (TNpM) with yield (YD) with significant GxE effect was observed. Further multivariate analysis of these traits contributed maximum to the effective yield. Thirty promising NILs were identified with Sec-1-/GluB3+ alongwith with high yield contributing parameters.

Sign in / Sign up

Export Citation Format

Share Document