메뉴 건너뛰기




Volumn 129, Issue 12, 2016, Pages 2413-2427

Evaluation of the utility of gene expression and metabolic information for genomic prediction in maize

Author keywords

[No Author keywords available]

Indexed keywords

BIOMOLECULES; FORECASTING; INFORMATION USE; METABOLISM; METABOLITES;

EID: 84984794038     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-016-2780-5     Document Type: Article
Times cited : (65)

References (56)
  • 2
    • 34548176501 scopus 로고    scopus 로고
    • Prospects for genomewide selection for quantitative traits in maize
    • Bernardo R, Yu J (2007) Prospects for genomewide selection for quantitative traits in maize. Crop Sci 47:1082–1090
    • (2007) Crop Sci , vol.47 , pp. 1082-1090
    • Bernardo, R.1    Yu, J.2
  • 3
    • 0037177625 scopus 로고    scopus 로고
    • Genetic dissection of transcriptional regulation in budding yeast
    • COI: 1:CAS:528:DC%2BD38XjtlOnt70%3D, PID: 11923494
    • Brem RB, Yvert G, Clinton R, Kruglyak L (2002) Genetic dissection of transcriptional regulation in budding yeast. Science 296:752–755
    • (2002) Science , vol.296 , pp. 752-755
    • Brem, R.B.1    Yvert, G.2    Clinton, R.3    Kruglyak, L.4
  • 4
    • 80052338881 scopus 로고    scopus 로고
    • Combining genome-wide association mapping and transcriptional networks to identify novel genes controlling glucosinolates in Arabidopsis thaliana
    • COI: 1:CAS:528:DC%2BC3MXhtFKmsLnJ, PID: 21857804
    • Chan EKF, Rowe HC, Corwin JA, Joseph B, Kliebenstein DJ (2011) Combining genome-wide association mapping and transcriptional networks to identify novel genes controlling glucosinolates in Arabidopsis thaliana. Plos Biol 9(8):e1001125
    • (2011) Plos Biol , vol.9 , Issue.8
    • Chan, E.K.F.1    Rowe, H.C.2    Corwin, J.A.3    Joseph, B.4    Kliebenstein, D.J.5
  • 7
    • 84859911467 scopus 로고    scopus 로고
    • Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants
    • COI: 1:CAS:528:DC%2BC38XlvVyhu7o%3D, PID: 22265229
    • Cubillos FA, Coustham V, Loudet O (2012) Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants. Curr Opin Plant Biol 15:192–198
    • (2012) Curr Opin Plant Biol , vol.15 , pp. 192-198
    • Cubillos, F.A.1    Coustham, V.2    Loudet, O.3
  • 8
    • 84876390765 scopus 로고    scopus 로고
    • Whole-genome regression and prediction methods applied to plant and animal breeding
    • de Los Campos G, Hickey JM, Pong-Wong R, Daetwyler HD, Calus MP (2013) Whole-genome regression and prediction methods applied to plant and animal breeding. Genetics 193:327–345
    • (2013) Genetics , vol.193 , pp. 327-345
    • de Los, C.G.1    Hickey, J.M.2    Pong-Wong, R.3    Daetwyler, H.D.4    Calus, M.P.5
  • 11
    • 84896908852 scopus 로고    scopus 로고
    • Deducing hybrid performance from parental metabolic profiles of young primary roots of maize by using a multivariate diallel approach
    • PID: 24409329
    • Feher K, Lisec J, Romisch-Margl L, Selbig J, Gierl A, Piepho HP, Nikoloski Z, Willmitzer L (2014) Deducing hybrid performance from parental metabolic profiles of young primary roots of maize by using a multivariate diallel approach. PLoS One 9:e85435
    • (2014) PLoS One , vol.9
    • Feher, K.1    Lisec, J.2    Romisch-Margl, L.3    Selbig, J.4    Gierl, A.5    Piepho, H.P.6    Nikoloski, Z.7    Willmitzer, L.8
  • 12
    • 58149330201 scopus 로고    scopus 로고
    • Metabolomics-assisted breeding: a viable option for crop improvement?
    • COI: 1:CAS:528:DC%2BD1MXosVSktQ%3D%3D, PID: 19027981
    • Fernie AR, Schauer N (2009) Metabolomics-assisted breeding: a viable option for crop improvement? Trends Genet 25:39–48
    • (2009) Trends Genet , vol.25 , pp. 39-48
    • Fernie, A.R.1    Schauer, N.2
  • 13
    • 75849163891 scopus 로고    scopus 로고
    • Transcriptome-based distance measures for grouping of germplasm and prediction of hybrid performance in maize
    • COI: 1:CAS:528:DC%2BD1MXhsFOhtr7O, PID: 19911157
    • Frisch M, Thiemann A, Fu J, Schrag TA, Scholten S, Melchinger AE (2010) Transcriptome-based distance measures for grouping of germplasm and prediction of hybrid performance in maize. Theor Appl Genet 120:441–450
    • (2010) Theor Appl Genet , vol.120 , pp. 441-450
    • Frisch, M.1    Thiemann, A.2    Fu, J.3    Schrag, T.A.4    Scholten, S.5    Melchinger, A.E.6
  • 14
    • 84862277013 scopus 로고    scopus 로고
    • Partial least squares regression, support vector machine regression, and transcriptome-based distances for prediction of maize hybrid performance with gene expression data
    • COI: 1:CAS:528:DC%2BC38XivFKqs7k%3D, PID: 22101908
    • Fu J, Falke KC, Thiemann A, Schrag TA, Melchinger AE, Scholten S, Frisch M (2012) Partial least squares regression, support vector machine regression, and transcriptome-based distances for prediction of maize hybrid performance with gene expression data. Theor Appl Genet 124:825–833
    • (2012) Theor Appl Genet , vol.124 , pp. 825-833
    • Fu, J.1    Falke, K.C.2    Thiemann, A.3    Schrag, T.A.4    Melchinger, A.E.5    Scholten, S.6    Frisch, M.7
  • 17
    • 84860346263 scopus 로고    scopus 로고
    • Evaluation of genome-wide selection efficiency in maize nested association mapping populations
    • PID: 21938474
    • Guo Z, Tucker DM, Lu J, Kishore V, Gay G (2012) Evaluation of genome-wide selection efficiency in maize nested association mapping populations. Theor Appl Genet 124:261–275
    • (2012) Theor Appl Genet , vol.124 , pp. 261-275
    • Guo, Z.1    Tucker, D.M.2    Lu, J.3    Kishore, V.4    Gay, G.5
  • 19
    • 84879774670 scopus 로고    scopus 로고
    • Genomic BLUP decoded: a look into the black box of genomic prediction
    • COI: 1:CAS:528:DC%2BC3sXht1ChsrnO, PID: 23640517
    • Habier D, Fernando RL, Garrick DJ (2013) Genomic BLUP decoded: a look into the black box of genomic prediction. Genetics 194:597–607
    • (2013) Genetics , vol.194 , pp. 597-607
    • Habier, D.1    Fernando, R.L.2    Garrick, D.J.3
  • 20
    • 80053633450 scopus 로고    scopus 로고
    • Genomic selection accuracy for grain quality traits in biparental wheat populations
    • Heffner EL, Jannink J-L, Iwata H, Souza E, Sorrells ME (2011) Genomic selection accuracy for grain quality traits in biparental wheat populations. Crop Sci 51:2597–2606
    • (2011) Crop Sci , vol.51 , pp. 2597-2606
    • Heffner, E.L.1    Jannink, J.-L.2    Iwata, H.3    Souza, E.4    Sorrells, M.E.5
  • 21
    • 52849140005 scopus 로고
    • Applications of linear models in animal breeding
    • Guelph, Canada
    • Henderson CR (1984) Applications of linear models in animal breeding. University of Guelph Press, Guelph, Canada
    • (1984) University of Guelph Press
    • Henderson, C.R.1
  • 22
    • 0000116382 scopus 로고
    • Best linear unbiased prediction of nonadditive genetic merits in noninbred populations
    • Henderson CR (1985) Best linear unbiased prediction of nonadditive genetic merits in noninbred populations. J Anim Sci 60:111–117
    • (1985) J Anim Sci , vol.60 , pp. 111-117
    • Henderson, C.R.1
  • 23
    • 0037734547 scopus 로고    scopus 로고
    • Estimating and interpreting heritability for plant breeding: an update
    • Holland JB, Nyquist WE, Cervantes-Martinez CT (2003) Estimating and interpreting heritability for plant breeding: an update. Plant Breed Rev 22:9–112
    • (2003) Plant Breed Rev , vol.22 , pp. 9-112
    • Holland, J.B.1    Nyquist, W.E.2    Cervantes-Martinez, C.T.3
  • 24
    • 79959675162 scopus 로고    scopus 로고
    • Genome-wide expression quantitative trait loci (eQTL) analysis in maize
    • Holloway B, Luck S, Beatty M, Rafalski JA, Li B (2011) Genome-wide expression quantitative trait loci (eQTL) analysis in maize. BMC Genom 12:336
    • (2011) BMC Genom , vol.12 , pp. 336
    • Holloway, B.1    Luck, S.2    Beatty, M.3    Rafalski, J.A.4    Li, B.5
  • 25
    • 84902603065 scopus 로고    scopus 로고
    • Parametric and nonparametric statistical methods for genomic selection of traits with additive and epistatic genetic architectures. G3-genes genomes
    • Howard R, Carriquiry AL, Beavis WD (2014) Parametric and nonparametric statistical methods for genomic selection of traits with additive and epistatic genetic architectures. G3-genes genomes. Genetics 4:1027–1046
    • (2014) Genetics , vol.4 , pp. 1027-1046
    • Howard, R.1    Carriquiry, A.L.2    Beavis, W.D.3
  • 26
    • 84943636563 scopus 로고    scopus 로고
    • Prediction of plant height in Arabidopsis thaliana using DNA methylation data
    • COI: 1:CAS:528:DC%2BC28Xls1ykurw%3D, PID: 26253546
    • Hu Y, Morota G, Rosa GJ, Gianola D (2015) Prediction of plant height in Arabidopsis thaliana using DNA methylation data. Genetics 201:779–793
    • (2015) Genetics , vol.201 , pp. 779-793
    • Hu, Y.1    Morota, G.2    Rosa, G.J.3    Gianola, D.4
  • 28
    • 84943608265 scopus 로고    scopus 로고
    • Modeling epistasis in genomic selection
    • COI: 1:CAS:528:DC%2BC28Xls1yktbg%3D, PID: 26219298
    • Jiang Y, Reif JC (2015) Modeling epistasis in genomic selection. Genetics 201:759–768
    • (2015) Genetics , vol.201 , pp. 759-768
    • Jiang, Y.1    Reif, J.C.2
  • 30
    • 84936817876 scopus 로고    scopus 로고
    • Marker-based estimation of heritability in immortal populations
    • Kruijer W, Boer MP, Malosetti M, Flood PJ, Engel B (2015) Marker-based estimation of heritability in immortal populations. Genet 199:379–398
    • (2015) Genet , vol.199 , pp. 379-398
    • Kruijer, W.1    Boer, M.P.2    Malosetti, M.3    Flood, P.J.4    Engel, B.5
  • 31
    • 84941253567 scopus 로고    scopus 로고
    • Assessment of genetic heterogeneity in structured plant populations using multivariate whole-genome regression models
    • COI: 1:CAS:528:DC%2BC28XhtVSmtrbI, PID: 26122758
    • Lehermeier C, Schoen C-C, de los Campos G (2015) Assessment of genetic heterogeneity in structured plant populations using multivariate whole-genome regression models. Genet 201:323–337. doi:10.1534/genetics.115.177394
    • (2015) Genetics , vol.201 , pp. 323-337
    • Lehermeier, C.1    Schoen, C.-C.2    de los Campos, G.3
  • 34
    • 84872203377 scopus 로고    scopus 로고
    • Genomewide selection versus marker-assisted recurrent selection to improve grain yield and stover-quality traits for cellulosic ethanol in maize
    • COI: 1:CAS:528:DC%2BC3sXnsVOlt7c%3D
    • Massman JM, Jung H-JG, Bernardo R (2013) Genomewide selection versus marker-assisted recurrent selection to improve grain yield and stover-quality traits for cellulosic ethanol in maize. Crop Sci 53:58–66
    • (2013) Crop Sci , vol.53 , pp. 58-66
    • Massman, J.M.1    Jung, H.-J.G.2    Bernardo, R.3
  • 35
    • 84867395248 scopus 로고    scopus 로고
    • Genome-wide analysis and expression profiling of half-size ABC protein subgroup G in rice in response to abiotic stress and phytohormone treatments
    • COI: 1:CAS:528:DC%2BC38XhsVSntrnE
    • Matsuda S, Funabiki A, Furukawa K, Komori N, Koike M, Tokuji Y, Takamure I, Kato K (2012) Genome-wide analysis and expression profiling of half-size ABC protein subgroup G in rice in response to abiotic stress and phytohormone treatments. Mol Genet Genom 287:819–835
    • (2012) Mol Genet Genom , vol.287 , pp. 819-835
    • Matsuda, S.1    Funabiki, A.2    Furukawa, K.3    Komori, N.4    Koike, M.5    Tokuji, Y.6    Takamure, I.7    Kato, K.8
  • 36
    • 0035045051 scopus 로고    scopus 로고
    • Prediction of total genetic value using genome-wide dense marker maps
    • COI: 1:CAS:528:DC%2BD3MXjsFemtbY%3D, PID: 11290733
    • Meuwissen TH, Hayes BJ, Goddard ME (2001) Prediction of total genetic value using genome-wide dense marker maps. Genetics 157:1819–1829
    • (2001) Genetics , vol.157 , pp. 1819-1829
    • Meuwissen, T.H.1    Hayes, B.J.2    Goddard, M.E.3
  • 38
    • 84885639459 scopus 로고    scopus 로고
    • Expression quantitative trait loci: present and future
    • PID: 23650636
    • Nica AC, Dermitzakis ET (2013) Expression quantitative trait loci: present and future. Philos Trans R Soc Lond B Biol Sci 368:20120362
    • (2013) Philos Trans R Soc Lond B Biol Sci , vol.368 , pp. 20120362
    • Nica, A.C.1    Dermitzakis, E.T.2
  • 40
    • 34548182518 scopus 로고    scopus 로고
    • Genomic selection for marker-assisted improvement in line crosses
    • COI: 1:CAS:528:DC%2BD2sXpsFWqsb8%3D, PID: 17673971
    • Piyasatian N, Fernando RL, Dekkers JCM (2007) Genomic selection for marker-assisted improvement in line crosses. Theor Appl Genet 115:665–674
    • (2007) Theor Appl Genet , vol.115 , pp. 665-674
    • Piyasatian, N.1    Fernando, R.L.2    Dekkers, J.C.M.3
  • 41
    • 33746512512 scopus 로고    scopus 로고
    • Principal component analysis corrects for stratification in genome-wide association studies
    • COI: 1:CAS:528:DC%2BD28XnsVCgsrg%3D, PID: 16862161
    • Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D (2006) Principal component analysis corrects for stratification in genome-wide association studies. Nat Genet 38:904–909
    • (2006) Nat Genet , vol.38 , pp. 904-909
    • Price, A.L.1    Patterson, N.J.2    Plenge, R.M.3    Weinblatt, M.E.4    Shadick, N.A.5    Reich, D.6
  • 43
    • 84883146893 scopus 로고    scopus 로고
    • Genomic prediction of northern corn leaf blight resistance in maize with combined or separated training sets for heterotic groups
    • Technow F, Buerger A, Melchinger AE (2013) Genomic prediction of northern corn leaf blight resistance in maize with combined or separated training sets for heterotic groups. G3-Genes Genomes Genet 3:197–203
    • (2013) G3-Genes Genomes Genet , vol.3 , pp. 197-203
    • Technow, F.1    Buerger, A.2    Melchinger, A.E.3
  • 45
    • 55849133422 scopus 로고    scopus 로고
    • Efficient methods to compute genomic predictions
    • COI: 1:CAS:528:DC%2BD1cXhtlajtLzO, PID: 18946147
    • VanRaden PM (2008) Efficient methods to compute genomic predictions. J Dairy Sci 91:4414–4423
    • (2008) J Dairy Sci , vol.91 , pp. 4414-4423
    • VanRaden, P.M.1
  • 46
    • 78650197952 scopus 로고    scopus 로고
    • A commentary on ‘Common SNPs Explain a Large Proportion of the Heritability for Human Height’ by Yang et al. (2010)
    • PID: 21142928
    • Visscher PM, Yang J, Goddard MEA et al (2010) A commentary on ‘Common SNPs Explain a Large Proportion of the Heritability for Human Height’ by Yang et al. (2010). Twin Res Hum Genet 13:517–524
    • (2010) Twin Res Hum Genet , vol.13 , pp. 517-524
    • Visscher, P.M.1    Yang, J.2    Goddard, M.E.A.3
  • 47
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: a revolutionary tool for transcriptomics
    • COI: 1:CAS:528:DC%2BD1cXhsFWis7bL, PID: 19015660
    • Wang Z, Gerstein M, Snyder M (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10:57–63
    • (2009) Nat Rev Genet , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 49
    • 84896507396 scopus 로고    scopus 로고
    • Metabolome-based genome-wide association study of maize kernel leads to novel biochemical insights
    • PID: 24633423
    • Wen W, Li D, Li X, Gao Y, Li W, Li H, Liu J, Liu H, Chen W, Luo J, Yan J (2014) Metabolome-based genome-wide association study of maize kernel leads to novel biochemical insights. Nat Commun 5:3438
    • (2014) Nat Commun , vol.5 , pp. 3438
    • Wen, W.1    Li, D.2    Li, X.3    Gao, Y.4    Li, W.5    Li, H.6    Liu, J.7    Liu, H.8    Chen, W.9    Luo, J.10    Yan, J.11
  • 50
    • 34249055193 scopus 로고    scopus 로고
    • Global eQTL mapping reveals the complex genetic architecture of transcript-level variation in Arabidopsis
    • COI: 1:CAS:528:DC%2BD2sXltFKhsLs%3D, PID: 17179097
    • West MA, Kim K, Kliebenstein DJ, van Leeuwen H, Michelmore RW, Doerge RW, St Clair DA (2007) Global eQTL mapping reveals the complex genetic architecture of transcript-level variation in Arabidopsis. Genetics 175:1441–1450
    • (2007) Genetics , vol.175 , pp. 1441-1450
    • West, M.A.1    Kim, K.2    Kliebenstein, D.J.3    van Leeuwen, H.4    Michelmore, R.W.5    Doerge, R.W.6    St Clair, D.A.7
  • 53
    • 84888988128 scopus 로고    scopus 로고
    • Mapping quantitative trait loci by controlling polygenic background effects
    • COI: 1:CAS:528:DC%2BC2cXhtlGjsL8%3D, PID: 24077303
    • Xu S (2013) Mapping quantitative trait loci by controlling polygenic background effects. Genetics 195:1209–1222
    • (2013) Genetics , vol.195 , pp. 1209-1222
    • Xu, S.1
  • 54
    • 84907578015 scopus 로고    scopus 로고
    • Genome wide association studies using a new nonparametric model reveal the genetic architecture of 17 agronomic traits in an enlarged maize association panel
    • PID: 25211220
    • Yang N, Lu Y, Yang X, Huang J, Zhou Y, Ali F, Wen W, Liu J, Li J, Yan J (2014) Genome wide association studies using a new nonparametric model reveal the genetic architecture of 17 agronomic traits in an enlarged maize association panel. PLoS Genet 10:e1004573
    • (2014) PLoS Genet , vol.10
    • Yang, N.1    Lu, Y.2    Yang, X.3    Huang, J.4    Zhou, Y.5    Ali, F.6    Wen, W.7    Liu, J.8    Li, J.9    Yan, J.10
  • 56
    • 67849114172 scopus 로고    scopus 로고
    • Factors affecting accuracy from genomic selection in populations derived from multiple inbred lines: a Barley case study
    • COI: 1:CAS:528:DC%2BD1MXlvFCmtL4%3D, PID: 19299342
    • Zhong S, Dekkers JC, Fernando RL, Jannink JL (2009) Factors affecting accuracy from genomic selection in populations derived from multiple inbred lines: a Barley case study. Genetics 182:355–364
    • (2009) Genetics , vol.182 , pp. 355-364
    • Zhong, S.1    Dekkers, J.C.2    Fernando, R.L.3    Jannink, J.L.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.