scholarly journals Upgrading a maize breeding program via two‐cycle genomewide selection: Same cost, same or less time, and larger gains

Crop Science ◽  
2021 ◽  
Author(s):  
Rex Bernardo
Keyword(s):  
Breeding Program ◽  
Maize Breeding ◽  
Genomewide Selection

scholarly journals Phenotypic and molecular characterization of a set of tropical maize inbred lines from a public breeding program in Brazil

BMC Genomics ◽  
2022 ◽  
Vol 23 (1) ◽  
Author(s):  
Sirlene Viana de Faria ◽  
Leandro Tonello Zuffo ◽  
Wemerson Mendonça Rezende ◽  
Diego Gonçalves Caixeta ◽  
Hélcio Duarte Pereira ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Inbred Lines ◽  
Breeding Program ◽  
Tropical Maize ◽  
Maize Breeding ◽  
Breeding Programs ◽  
The Public ◽  
Maize Inbred Lines

Abstract Background The characterization of genetic diversity and population differentiation for maize inbred lines from breeding programs is of great value in assisting breeders in maintaining and potentially increasing the rate of genetic gain. In our study, we characterized a set of 187 tropical maize inbred lines from the public breeding program of the Universidade Federal de Viçosa (UFV) in Brazil based on 18 agronomic traits and 3,083 single nucleotide polymorphisms (SNP) markers to evaluate whether this set of inbred lines represents a panel of tropical maize inbred lines for association mapping analysis and investigate the population structure and patterns of relationships among the inbred lines from UFV for better exploitation in our maize breeding program. Results Our results showed that there was large phenotypic and genotypic variation in the set of tropical maize inbred lines from the UFV maize breeding program. We also found high genetic diversity (GD = 0.34) and low pairwise kinship coefficients among the maize inbred lines (only approximately 4.00 % of the pairwise relative kinship was above 0.50) in the set of inbred lines. The LD decay distance over all ten chromosomes in the entire set of maize lines with r2 = 0.1 was 276,237 kb. Concerning the population structure, our results from the model-based STRUCTURE and principal component analysis methods distinguished the inbred lines into three subpopulations, with high consistency maintained between both results. Additionally, the clustering analysis based on phenotypic and molecular data grouped the inbred lines into 14 and 22 genetic divergence clusters, respectively. Conclusions Our results indicate that the set of tropical maize inbred lines from UFV maize breeding programs can comprise a panel of tropical maize inbred lines suitable for a genome-wide association study to dissect the variation of complex quantitative traits in maize, mainly in tropical environments. In addition, our results will be very useful for assisting us in the assignment of heterotic groups and the selection of the best parental combinations for new breeding crosses, mapping populations, mapping synthetic populations, guiding crosses that target highly heterotic and yielding hybrids, and predicting untested hybrids in the public breeding program UFV.

scholarly journals Maximizing efficiency of genomic selection in CIMMYT’s tropical maize breeding program

2020 ◽  
Author(s):  
Sikiru Adeniyi Atanda ◽  
Michael Olsen ◽  
Juan Burgueño ◽  
Jose Crossa ◽  
Daniel Dzidzienyo ◽  
...  
Keyword(s):  
Genomic Selection ◽  
Prediction Accuracy ◽  
Large Scale ◽  
Primary Objective ◽  
Breeding Program ◽  
Breeding Cycle ◽  
Training Set ◽  
Maize Breeding ◽  
Phenotypic Data ◽  
Breeding Programs

Abstract Key message Historical data from breeding programs can be efficiently used to improve genomic selection accuracy, especially when the training set is optimized to subset individuals most informative of the target testing set. Abstract The current strategy for large-scale implementation of genomic selection (GS) at the International Maize and Wheat Improvement Center (CIMMYT) global maize breeding program has been to train models using information from full-sibs in a “test-half-predict-half approach.” Although effective, this approach has limitations, as it requires large full-sib populations and limits the ability to shorten variety testing and breeding cycle times. The primary objective of this study was to identify optimal experimental and training set designs to maximize prediction accuracy of GS in CIMMYT’s maize breeding programs. Training set (TS) design strategies were evaluated to determine the most efficient use of phenotypic data collected on relatives for genomic prediction (GP) using datasets containing 849 (DS1) and 1389 (DS2) DH-lines evaluated as testcrosses in 2017 and 2018, respectively. Our results show there is merit in the use of multiple bi-parental populations as TS when selected using algorithms to maximize relatedness between the training and prediction sets. In a breeding program where relevant past breeding information is not readily available, the phenotyping expenditure can be spread across connected bi-parental populations by phenotyping only a small number of lines from each population. This significantly improves prediction accuracy compared to within-population prediction, especially when the TS for within full-sib prediction is small. Finally, we demonstrate that prediction accuracy in either sparse testing or “test-half-predict-half” can further be improved by optimizing which lines are planted for phenotyping and which lines are to be only genotyped for advancement based on GP.

scholarly journals Population structure and genetic diversity in a commercial maize breeding program assessed with SSR and SNP markers

2010 ◽  
Vol 120 (7) ◽  
pp. 1289-1299 ◽  
Author(s):  
Delphine Van Inghelandt ◽  
Albrecht E. Melchinger ◽  
Claude Lebreton ◽  
Benjamin Stich
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Snp Markers ◽  
Breeding Program ◽  
Maize Breeding ◽  
Ssr And Snp Markers

Genomic prediction and GWAS of Gibberella ear rot resistance traits in dent and flint lines of a public maize breeding program

Euphytica ◽  
2017 ◽  
Vol 214 (1) ◽  
Author(s):  
Sen Han ◽  
Thomas Miedaner ◽  
H. Friedrich Utz ◽  
Wolfgang Schipprack ◽  
Tobias A. Schrag ◽  
...  
Keyword(s):  
Genomic Prediction ◽  
Breeding Program ◽  
Ear Rot ◽  
Maize Breeding ◽  
Gibberella Ear Rot ◽  
Resistance Traits

scholarly journals Improving Breeding Efficiency of a Hybrid Maize Breeding Program Using a Three Heterotic-Group Classification

2018 ◽  
Vol 110 (4) ◽  
pp. 1209-1216 ◽  
Author(s):  
XingMing Fan ◽  
Yaqi Bi ◽  
Yudong Zhang ◽  
Daniel Jeffers ◽  
XingFu Yin ◽  
...  
Keyword(s):  
Group Classification ◽  
Breeding Program ◽  
Heterotic Group ◽  
Maize Breeding ◽  
Breeding Efficiency ◽  
Hybrid Maize

scholarly journals Varietal evaluation of promising maize genotypes in mid hills of Nepal

2020 ◽  
Vol 3 (2) ◽  
pp. 127-139
Author(s):  
Bipin Neupane ◽  
Ankur Poudel ◽  
Pradeep Wagle
Keyword(s):  
Grain Yield ◽  
Phenotypic Variability ◽  
Block Design ◽  
Significant Negative Correlation ◽  
Breeding Program ◽  
Maize Breeding ◽  
Maize Genotypes ◽  
Superior Genotypes ◽  
Positive Correlations ◽  
Hybrid Maize

The varietal evaluation of hybrid maize (Zea mays L.) genotypes with desired performance is one of the main objectives of maize breeding program. Fourteen hybrid maize genotypes were evaluated for 17 quantitative and nine qualitative traits in randomized complete block design with three replications at Sundarbazar, Lamjung, Nepal during May to September, 2019. The major objective was to identify superior genotypes based on genotypic and phenotypic variability, heritability, genetic advance, and correlation between grain yield and yield associated traits. We observed significant differences for 17 quantitative traits among the tested genotypes. Large variation was observed for grain yield among genotypes. Genotype RL-24-0/ RL-111 had the lowest yield (5.53 mt/ha) and Pioneer had the highest yield (11.98 mt/ha) whereas check variety Rampur Hybrid-10 yielded of 8.23 mt/ha. Grain yield showed highly significant positive correlations with stem girth (r= 0.67) and number of ears (r=0.6), but significant negative correlation with anthesis-silking interval (r= -0.55). The dendrogram grouped 14 genotypes into four clusters. Cluster I incorporated the highest number (five) of genotypes, which also had highest cluster mean (average yield of ~10 mt/ha) for grain yield. Traits namely test weight, ear aspect, anthesis-silking interval, number of ears, and tassel branching had high genotypic and phenotypic coefficient of variations, and heritability along with high genetic advances, indicating that these traits can be considered for maize breeding program.

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