Boosting predictabilities of agronomic traits in rice using bivariate genomic selection

2020 ◽  
Author(s):  
Shibo Wang ◽  
Yang Xu ◽  
Han Qu ◽  
Yanru Cui ◽  
Ruidong Li ◽  
...  
Keyword(s):  
Genomic Selection ◽  
Computational Efficiency ◽  
Cross Validation ◽  
Agronomic Traits ◽  
Tiller Number ◽  
Grain Weight ◽  
Grain Number ◽  
Individual Traits ◽  
Agronomically Important Traits ◽  
1000 Grain Weight

Abstract The multivariate genomic selection (GS) models have not been adequately studied and their potential remains unclear. In this study, we developed a highly efficient bivariate (2D) GS method and demonstrated its significant advantages over the univariate (1D) rival methods using a rice dataset, where four traditional traits (i.e. yield, 1000-grain weight, grain number and tiller number) as well as 1000 metabolomic traits were analyzed. The novelty of the method is the incorporation of the HAT methodology in the 2D BLUP GS model such that the computational efficiency has been dramatically increased by avoiding the conventional cross-validation. The results indicated that (1) the 2D BLUP-HAT GS analysis generally produces higher predictabilities for two traits than those achieved by the analysis of individual traits using 1D GS model, and (2) selected metabolites may be utilized as ancillary traits in the new 2D BLUP-HAT GS method to further boost the predictability of traditional traits, especially for agronomically important traits with low 1D predictabilities.

scholarly journals Canaryseed (Phalaris canariensis L.) accessions from nineteen countries show useful genetic variation for agronomic traits

2011 ◽  
Vol 91 (1) ◽  
pp. 37-48 ◽  
Author(s):  
M. Cogliatti ◽  
F. Bongiorno ◽  
H. Dalla Valle ◽  
W J Rogers
Keyword(s):  
Genetic Variation ◽  
Grain Yield ◽  
Harvest Index ◽  
Agronomic Traits ◽  
Grain Weight ◽  
Environment Interaction ◽  
Grain Number ◽  
Harvest Maturity ◽  
Phalaris Canariensis ◽  
Late Sowing

Fifty-seven accessions of canaryseed (47 populations and 10 cultivars) from 19 countries were evaluated for agronomic traits in four field trials sown over 3 yr in the province of Buenos Aires, Argentina. Genetic variation was found for all traits scored: grain yield and its components (grain weight, grain number per square meter, grain number per head and head number per square meter), harvest index, percent lodging, and phenological characters (emergence to heading, emergence to harvest maturity and heading to harvest maturity). Although genotype × environment interaction was observed for all traits, the additive differences between accessions were sufficient to enable promising breeding materials to be identified. Accessions superior in performance to the local Argentinean population, which in general gave values close to the overall mean of the accessions evaluated, were identified. For example, a population of Moroccan origin gave good yield associated with elevated values of the highly heritable character grain weight, rather than with the more commonly observed grain number per square meter. This population was also of relatively short stature and resistant to lodging, and, although it performed best when sown within the normal sowing date, tolerated late sowing fairly well. Other accessions were also observed with high grain weight, a useful characteristic in itself, since large grains are desirable from a quality point of view. Regarding phenology, the accessions showed a range of 160 degree days (8 calendar days in our conditions) in maturity, which, while not large in magnitude, may be of some utility in crop rotation management. Some accessions were well adapted to late sowing. Grain yield in general was strongly correlated with grain number per square meter. Principal components analysis (PCA) carried out for all characteristics provided indications of accessions combining useful characteristics and identified three components that explained approximately 70% of the phenotypic variation. Furthermore, a second PCA plus regression showed that approximately 60% of the variation in grain yield could be explained by a component associated with harvest index and grain number per square meter. Pointers were provided to possible future breeding targets.Key words: Phalaris canariensis, canaryseed, accessions, yield, phenology, genetics, breeding

scholarly journals  Influence of crop management upon the agronomic traits of spelt (Triticum spelta L.)    

2011 ◽  
Vol 57 (No. 9) ◽  
pp. 435-440 ◽  
Author(s):  
S. Pospisil A Pospisil M Svecnjak Z Matotan
Keyword(s):  
Grain Yield ◽  
Yield Components ◽  
Agronomic Traits ◽  
Seeding Rate ◽  
Grain Number ◽  
Triticum Spelta ◽  
Fungicide Treatment ◽  
Growing Seasons ◽  
1000 Grain Weight ◽  
Germinated Seeds

  Investigations were carried out at the experimental field of the Faculty of Agriculture in Zagreb in the growing seasons 2008/2009 and 2009/2010 with the aim to determine the influence of seeding rate and fungicide treatment upon the yield and yield components of spelt (Triticum spelta L.). The trial included two spelt cultivars: Nirvana and Ostro, three seeding rates: 200, 300, and 400 germinated seeds/m2, and a fungicide treatment (tebuconazole). Cultivar Nirvana produced a significantly higher grain yield in both trial years, higher number of spikelets per spike, higher grain number and mass per spike. Cultivar Ostro had a significantly higher grain crude proteins content, higher 1000 grain weight, and also a higher number of sterile spikelets per spike. No significant effect of seeding rate on grain yield was determined while the fungicide treatment had a significant effect on grain yield only in the warmer year 2008/2009.

scholarly journals Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

BMC Genetics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Huijun Guo ◽  
Hongchun Xiong ◽  
Yongdun Xie ◽  
Linshu Zhao ◽  
Jiayu Gu ◽  
...  
Keyword(s):  
Plant Height ◽  
Phenotypic Variation ◽  
Plant Architecture ◽  
Agronomic Traits ◽  
Tiller Number ◽  
Grain Weight ◽  
Leaf Angle ◽  
Cytokinin Oxidase ◽  
Thousand Grain Weight ◽  
Wheat Mutant

Abstract Background Wheat mutant resources with phenotypic variation have been developed in recent years. These mutants might carry favorable mutation alleles, which have the potential to be utilized in the breeding process. Plant architecture and yield-related features are important agronomic traits for wheat breeders and mining favorable alleles of these traits will improve wheat characteristics. Results Here we used 190 wheat phenotypic mutants as material and by analyzing their SNP variation and phenotypic data, mutation alleles for plant architecture and yield-related traits were identified, and the genetic effects of these alleles were evaluated. In total, 32 mutation alleles, including three pleiotropic alleles, significantly associated with agronomic traits were identified from the 190 wheat mutant lines. The SNPs were distributed on 12 chromosomes and were associated with plant height (PH), tiller number, flag leaf angle (FLA), thousand grain weight (TGW), and other yield-related traits. Further phenotypic analysis of multiple lines carrying the same mutant allele was performed to determine the effect of the allele on the traits of interest. PH-associated SNPs on chromosomes 2BL, 3BS, 3DL, and 5DL might show additive effects, reducing PH by 10.0 cm to 31.3 cm compared with wild type, which means that these alleles may be favorable for wheat improvement. Only unfavorable mutation alleles that reduced TGW and tiller number were identified. A region on chromosome 5DL with mutation alleles for PH and TGW contained several long ncRNAs, and their sequences shared more than 90% identity with cytokinin oxidase/dehydrogenase genes. Some of the mutation alleles we mined were colocalized with previously reported QTLs or genes while others were novel; these novel alleles could also result in phenotypic variation. Conclusion Our results demonstrate that favorable mutation alleles are present in mutant resources, and the region between 409.5 to 419.8 Mb on chromosome 5DL affects wheat plant height and thousand grain weight.

scholarly journals Sources for the breeding of soft spring wheat in the conditions of Novosibirsk region

2018 ◽  
Vol 22 (7) ◽  
pp. 784-794 ◽  
Author(s):  
V. V. Piskarev ◽  
E. V. Zuev ◽  
A. N. Brykova
Keyword(s):  
Spring Wheat ◽  
Agronomic Traits ◽  
Grain Weight ◽  
Average Score ◽  
Average Weight ◽  
Point System ◽  
Lodging Resistance ◽  
Wheat Varieties ◽  
Growing Period ◽  
1000 Grain Weight

The sources were identified among collection samples characterized by highly pronounced economic and valuable features, which allows new geographically remote source material to be taken to the regional breeding practices. This research aims to assess the agronomic traits (duration of the growing period, lodging resistance and plant height, 1000-grain weight, grain weight and yield) in soft spring wheat varieties of different ecological and geographical origin. Estimation was carried out by a 9-point system of expression of the trait during the study, which allows identifying samples with the greatest expression of the trait in the years of study with respect to the average experience. 5439 samples have been studied over 28 years, with 1106 of them, over two years or more. The study was carried out according to the methods of VIR on plots of 2 m2. It was shown that the samples mainly had no correlation between the yield and the duration of the growing period, while the average dependence (г = 0.6) was revealed between the yield and the height of the plants. Varieties forming the intermediate (4.5-5 points) and above average (6-7) yield in a short growing period (69-85 days) were identified (Lutescens 675, Irkut-skaya 49, Simbirca, Hybrid F3 S-141, Hybrid F4, Hybrid F3 S-289 and Hybrid F4 S-2300 and Pamyati Vavenko-va). A high average score (8.6-9) at 1000 grains weight was shown for 16 varieties with variation from 37 g (N43 and IAO-9) to 56 g (Hofed 1). A high average score (8-9) in the evaluation of grain weight was shown for Pamyati Leont'eva, Ekada 70, Simbirtsit, Don Jose, Yong-Liang 4 and Long-Mai 11, which formed ears with an average weight from 0.96 to 2.30 g. A consistently high score (9) reflecting the yield was in the varieties Condestavel, PF 843025, Prilenskaya 19, Pamyati Leont'eva, Omskaya Krasa.

scholarly journals Effects of Rht-B1b and Ddw1 Dwarfing Genes in Two Connecting Populations of Spring Triticale under Greenhouse Experiment Conditions

Agriculture ◽  
2019 ◽  
Vol 9 (6) ◽  
pp. 119
Author(s):  
Anastasiya Chernook ◽  
Pavel Kroupin ◽  
Gennady Karlov ◽  
Alexander Soloviev ◽  
Anastasiya Korshunova ◽  
...  
Keyword(s):  
Agronomic Traits ◽  
Greenhouse Experiment ◽  
Dwarfing Genes ◽  
Strong Decrease ◽  
Grain Number ◽  
Breeding Programs ◽  
Spring Triticale ◽  
Grain Number Per Spike ◽  
Negative Effect ◽  
1000 Grain Weight

Dwarfing genes not only reduce the height of triticale plants, but also have pleiotropic effects on important agronomic traits. An important task for breeding is to evaluate the effects of gibberellin responsive (GAR) and gibberellin-insensitive (GAI) dwarfing genes in one genotype. In the greenhouse experiment, we evaluated the effects of the GAI gene Rht-B1b of wheat and the GAR gene Ddw1 of rye on height and the main agronomic traits in two connecting populations derived from crossing Ddw1 donors (cv. ‘Mudrets’ and cv. ‘Valentin 90’) with a Rht-B1b donor (cv. ‘Dublet’). The results show a strong decrease in height under the influence of Ddw1 in both populations by more than 30%. In this case, Rht-B1b in the presence of Ddw1 does not lead to a significant decrease in the height of the spring triticale; thus, this is not likely to be included in breeding programs in order to further reduce the height in the presence of Ddw1 in the spring triticale germplasm. However, Ddw1 reduces the 1000 grain weight, while Rht-B1b increases the grain number per spike and grain number per spikelet. Thus, our studies have demonstrated the negative effect of Ddw1 on spring triticale productivity of the main spike in the greenhouse experiment, which can be partially compensated by Rht-B1b.

scholarly journals Effect of Dwarfing Gene Ddw1 on Height and Agronomic Traits in Spring Triticale in Greenhouse and Field Experiments in a Non-Black Earth Region of Russia

Plants ◽  
2019 ◽  
Vol 8 (5) ◽  
pp. 131 ◽  
Author(s):  
Pavel Kroupin ◽  
Anastasiya Chernook ◽  
Gennady Karlov ◽  
Alexander Soloviev ◽  
Mikhail Divashuk
Keyword(s):  
Field Experiments ◽  
Agronomic Traits ◽  
Grain Weight ◽  
Spike Density ◽  
Dwarfing Gene ◽  
Winter Triticale ◽  
Spring Triticale ◽  
1000 Grain Weight ◽  
New Crop

Triticale is a relatively new crop which still possesses serious drawbacks that can be significantly improved by breeding. The dwarfing genes proved to be very useful in the development of new lodging resistant and productive cultivars of winter triticale. The aim of our research was to assess the effect of the Ddw1 dwarfing gene from rye on the agronomic valuable traits in spring triticale. The Ddw1 effect was studied in the greenhouse experiment in segregating the F2:3 population and in the field of F3:4 and F4:5 families derived from crossing winter triticale ‘Hongor’ (Ddw1Ddw1) and spring triticale ‘Dublet’ (ddw1ddw1). As a result, in all three generations, a strong decrease in plant height was demonstrated that was accompanied by a decrease in grain weight per spike and 1000-grain weight. In field experiments, a decrease in spike length and increase in spike density and delay in flowering and heading were observed. As a result of decrease in culm vegetative weight due to Ddw1, the harvest index measured in F4:5 increased. The spike fertility and number of grains were not affected by Ddw1. The comparison of Ddw1 in rye, winter, and spring triticale, and the possible role of Ddw1 in improving spring triticale are discussed.

scholarly journals Effects of Sowing Time and Growing Density on Agronomic Traits, Grain Yield, and Grain Quality of Waxy Sorghum Cultivar Hongliangfeng 1

2019 ◽  
Vol 11 (6) ◽  
pp. 12
Author(s):  
Can Wang ◽  
Lingbo Zhou ◽  
Guobing Zhang ◽  
Yan Xu ◽  
Xu Gao ◽  
...  
Keyword(s):  
Grain Yield ◽  
Amylose Content ◽  
Starch Content ◽  
Grain Weight ◽  
Grain Number ◽  
Sowing Time ◽  
Grain Number Per Spike ◽  
Weight Protein ◽  
1000 Grain Weight

The aim of this study was to determine the effects of sowing time and growing density on the yield and quality of grain in waxy sorghum (Sorghum bicolor L. Moench). The main plots were two sowing time: early sowing (5 April) and late sowing (20 April), and the subplots were three growing densities: 0.8 × 105, 1.1 × 105, and 1.4 × 105 plants/ha. Results showed that sowing time and growing density had significant effects on grain yield and grain quality of waxy sorghum cultivar Hongliangfeng 1. Grain yield, plant height, spike length, culm diameter, grain number per spike, grain weight per plant, 1000-grain weight, protein content, starch content, and amylopectin content were reduced by a delay of sowing time, while the tannin content and amylose content were increased by a delay of sowing time. Grain yield, plant height, spike length, culm diameter, grain number per spike, grain weight per plant, 1000-grain weight, protein content, starch content, and amylopectin content increased and then decreased with the increase of growing density, while the tannin content and amylose content decreased and then increased with the increase of growing density. These results hinted that appropriate sowing time and growing density are key cultivation measures to ensure high yield and good quality in waxy sorghum production.

scholarly journals Effects of Septoria nodorum Berk. on yield and yield components of spring wheat

1983 ◽  
Vol 55 (4) ◽  
pp. 333-344
Author(s):  
Reijo Karjalainen ◽  
Aino Laitinen ◽  
Tapio Juuti
Keyword(s):  
Grain Yield ◽  
Spring Wheat ◽  
Yield Components ◽  
Grain Weight ◽  
Septoria Nodorum ◽  
Spore Concentration ◽  
Compensatory Mechanisms ◽  
Grain Number ◽  
Yield And Yield Components ◽  
1000 Grain Weight

Data from two experiments was analysed in order to determine the effects of Septoria nodorum Berk. on the yield of spring wheat. In the first experiment the cultivar Hankkija’s Taava was artificially inoculated with low spore concentration suspensions of S. nodorum. The resulting disease reduced grain yield by 10%, 1000-grain weight by 14%, and hectorlitre weight by 5.7 %. An examination of the ears from the main stems revealed that the pathogen induced a reduction in all yield components but especially in grain number/ear and grain weight. In the second experiment a total of 28 cultivars or lines were studied and the correlation between grain yield/ear and disease severity was found to be negative but low. No consistent trend among the correlations was seen and some susceptible cultivars suffered only slightly from the disease while other fairly resistant cultivars showed great losses. The results are discussed in relation to compensatory mechanisms and potential disease tolerance in wheat.

scholarly journals REGULATION OF TILLERING IN WHEAT AND ITS RELATIONSHIP WITH GRAIN YIELD 2. CONTRIBUTION PERCENTAGES OF THE MAIN STEM AND PRIMARY TILLERS IN THE NUMBER OF SPIKELET AND GRAIN NUMBER AND WEIGHT OF 1000 GRAINS.

2017 ◽  
Vol 48 (2) ◽  
Author(s):  
Mahmood & Al- Hassan
Keyword(s):  
Grain Yield ◽  
Grain Weight ◽  
Factorial Experiment ◽  
Main Stem ◽  
Seeding Rate ◽  
Grain Number ◽  
Total Contribution ◽  
Nitrogen Levels ◽  
Two Factors ◽  
1000 Grain Weight

A Factorial experiment were conducted at the experimental  farm of Field Crop College of Agriculture University of Baghdad Jadiria the winter Season of 2014-2015. This study was aimed to investigate the effect of seeding rates and nitrogen levels on Regulation of tillering in wheat and  its relationship with grain yield and it's components. Treatments were distributed in Factorial experiment within Randomized Complete Black Design (RCBD) with three replicates and with four seeding  rates (60,80,100 and 120 kg.ha-1) and fertilized with four nitrogen levels (50,100,150 and 200 kgN.ha-1). The results showed that there were significant differences between two factors of study and their interaction on the number of spiklet, grain number and 1000 grain weight during the growing season. Main stem produced the highest average of spiklet number 19.23 spiklet.spike-1, grain number 46.82 grain.spike-1 and 1000 grain weight 41.739 compared to other primary tillers (tiller1,tiller2,tiller3). Concerning the seeding rate 60 kg.ha-1 resulted in the highest average of spiklet number 16.24 spiklet.spike-1, grain number 32.95 grain.spike-1 and 1000 grain weight 27.52 compared to other seed rates. The N level 100 kg.ha-1 gave the highest average of spiklet number 16.49 spiklet.spike-1, grain number 32.95 grain.spike-1 and 1000 grain weight 27.52 compared to other N levels. The Main Stem and Primary Tillers contribution Differed in the Number of Spiklet, Grain Number and 1000 grain weight between the factors of study, where the percentage contribution of main stem 31.65, 38.26 and 37.28 % respectively compared to the tillers (tiller1, tiller2, tiller3) which amounted to 27.43, 24.79 and 16.14 % respectively in the spiklets number, 28.00, 23.36 and 10.38 % respectively in grains number and 31.80, 20.37 and 10.56 % respectively in 1000 grain weight. We conclude that the total contribution of the primary tillers percentages in the Number of Spiklet, Grain Number and 1000 grain weight Exceeds the contribution of main stem an increase of 53.69 and 38.03 and 40.56 % respectively within two factors of study.

scholarly journals Down-expression of TaPIN1s Increases the Tiller Number and Grain Yield in Wheat

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Fu Quan Yao ◽  
Xiao Hui Li ◽  
He Wang ◽  
Yu Ning Song ◽  
Zhong Qing Li ◽  
...  
Keyword(s):  
Plasma Membrane ◽  
Grain Yield ◽  
Transgenic Wheat ◽  
Tiller Number ◽  
Grain Number ◽  
Panicle Number ◽  
In The Wild ◽  
Wheat Lines ◽  
1000 Grain Weight ◽  
Grain Number Per Panicle

Abstract Background Tiller number is a factor determining panicle number and grain yield in wheat (Triticum aestivum). Auxin plays an important role in the regulation of branch production. PIN-FORMED 1 (PIN1), an auxin efflux carrier, plays a role in the regulation of tiller number in rice (Oryza sativa); however, little is known on the roles of PIN1 in wheat. Results Nine homologs of TaPIN1 genes were identified in wheat, of which TaPIN1-6 genes showed higher expression in the stem apex and young leaf in wheat, and the TaPIN1-6a protein was localized in the plasma membrane. The down-expression of TaPIN1s increased the tiller number in TaPIN1-RNA interference (TaPIN1-RNAi) transgenic wheat plants, indicating that auxin might mediate the axillary bud production. By contrast, the spikelet number, grain number per panicle, and the 1000-grain weight were decreased in the TaPIN1-RNAi transgenic wheat plants compared with those in the wild type. In summary, a reduction of TaPIN1s expression increased the tiller number and grain yield per plant of wheat. Conclusions Phylogenetic analysis and protein structure of nine TaPIN1 proteins were analyzed, and subcellular localization of TaPIN1-6a was located in the plasma membrane. Knock-down expression of TaPIN1 genes increased the tiller number of transgenic wheat lines. Our study suggests that TaPIN1s is required for the regulation of grain yield in wheat.

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