Evaluation of genome-wide selection efficiency in maize nested association mapping populations

Theoretical and Applied Genetics

Volumn 124, Issue 2, 2012, Pages 261-275

  Guo, Zhigang ^a   Tucker, Dominic M ^b   Lu, Jianwei ^a   Kishore, Venkata ^b   Gay, Gilles ^a  

^a SYNGENTA BIOTECHNOLOGY INC   (United States)

^b SYNGENTA CROP PROTECTION   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EFFICIENCY; GENES; GRAIN (AGRICULTURAL PRODUCT); LINEAR REGRESSION; MAPPING; PLANTS (BOTANY); POPULATION STATISTICS; SAMPLING;

ASSOCIATION MAPPING; BEST LINEAR UNBIASED PREDICTIONS; COMPOSITE INTERVAL MAPPING; CROSS VALIDATION; MARKER-ASSISTED SELECTION; MULTIPLE LINEAR REGRESSIONS; PREDICTION ACCURACY; QUANTITATIVE TRAIT LOCUS;

FORECASTING;

ZEA MAYS;

ARTICLE; BIOLOGICAL MODEL; BREEDING; FLOWER; GENETIC MARKER; GENETICS; GROWTH, DEVELOPMENT AND AGING; MAIZE; METHODOLOGY; PHYSIOLOGY; PLANT GENOME; QUANTITATIVE TRAIT LOCUS; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL MODEL;

BREEDING; FLOWERS; GENETIC MARKERS; GENOME, PLANT; LINEAR MODELS; MODELS, GENETIC; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT LOCI; ZEA MAYS;

EID: 84860346263     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-011-1702-9     Document Type: Article

References (23)

1. Beavis WD (1994) QTL analysis: power, precision and accuracy. In: Paterson AH (ed) Molecular dissection of complex traits. CRC Press, Boca Raton, pp 145-162
2. Bernardo R, Yu J (2007) Prospects for geno me wide selection for quantitative traits in maize. Crop Sci 47:1082-1090
3. Buckler ES, Holland JB, Bradbury PJ, Acharya CB, Brown PJ, Browne C, Ersoz E, Flint-Garcia S, Garcia A, Glaubitz JC (2009) The genetic architecture of maize flowering time. Science 325:714-718
4. Habier D, Fernando RL, Dekkers JCM (2007) The impact of genetic relationship information on genome-assisted breeding values. Genetics 177:2389-2397
5. Haley C, Knott S (1992) A simple regression method for mapping quantitative trait loci in line crosses using flanking markers. Heredity 69:315-324
6. Hayes B, Bowman P, Chamberlain A, Goddard M (2009) Invited review: genomic selection in dairy cattle: progress and challenges. J Dairy Sci 92:433-443
7. Heffner EL, Sorrells ME, Jannink JL (2009) Genomic selection for crop improvement. Crop Sci 49:1-12
8. Henderson CR (1984) Applications of linear models in animal breeding. University of Guelph, ON
9. Jannink JL, Lorenz AJ, Iwata H (2010) Genomic selection in plant breeding: from theory to practice. Brief Funct Genomics 9:166-177
10. Jansen RC (1993) Interval mapping of multiple quantitative trait loci. Genetics 135:205-211
11. Lande R, Thompson R (1990) Efficiency of marker-assisted selection in the improvement of quantitative traits. Genetics 124:743-756
12. Lee SH, van der Werf JHJ, Hayes BJ, Goddard ME, Visscher PM (2008) Predicting unobserved phenotypes for complex traits from whole-geome SNP data. PloS Genet 4:e1000231. doi:10.1371/journal.pgen.1000231
13. Legarra A, Robert-Granie C, Manfredi E, Elsen JM (2008) Performance of genomic selection in mice. Genetics 180:611-618
14. Lorenzana RE, Bernardo R (2009) Accuracy of genotypic value predictions for marker-based selection in biparental plant populations. Theor Appl Genet 120:151-161
15. Meuwissen TH, Hayes BJ, Goddard ME (2001) Prediction of total genetic value using genome-wide dense marker maps. Genetics 157:1819-1829
16. Meuwissen TH, Goddard ME (2010) Accurate prediction of genetic values for complex traits by whole genome re sequencing. Genetics 185:623-631
17. Meuwiseen TH, Solberg TR, Shepherd R, Woolliams JA (2009) A fast algorithm for BayesB type of prediction of genome-wide estimates of genetic value. Genet Sel Evol 41(1):2
18. Piyasatian N, Fernando R, Dekkers JCM (2007) Genomic selection for marker-assisted improvement in line crosses. Theor Appl Genet 115:665-674
19. Utz HF, Melchinger AE, Schön CC (2000) Bias and sampling error of the estimated proportion of genotypic variance explained by quantitative trait loci determined from experimental data in maize using cross validation and validation with independent samples. Genetics 154:1839-1849
20. Xu S (2003) Estimating polygenic effects using markers of the entire genome. Genetics 163:789-801
21. Xu S (2007) An empirical Bayes method for estimating epistatic effects of quantitative trait loci. Biometrics 63:513-521
22. Zeng ZB (1994) Precision mapping of quantitative trait loci. Genetics 136:1457-1468
23. Zeng ZB (1993) Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci. Proc Natl Acad Sci 90:10972-10976