메뉴 건너뛰기




Volumn 88, Issue 2, 2016, Pages 219-227

Metabolomic prediction of yield in hybrid rice

Author keywords

genomic prediction; hybrid breeding; metabolites; rice; transcripts

Indexed keywords

BIOMOLECULES; FOOD SUPPLY; GENES; LEAST SQUARES APPROXIMATIONS; METABOLITES; PLANTS (BOTANY); RADIAL BASIS FUNCTION NETWORKS; STOCHASTIC SYSTEMS;

EID: 84991676908     PISSN: 09607412     EISSN: 1365313X     Source Type: Journal    
DOI: 10.1111/tpj.13242     Document Type: Article
Times cited : (107)

References (44)
  • 1
    • 0028141065 scopus 로고
    • Prediction of maize single-cross performance using RFLPs and information from related hybrids
    • Bernardo, R. (1994) Prediction of maize single-cross performance using RFLPs and information from related hybrids. Crop Sci. 34, 20–25.
    • (1994) Crop Sci. , vol.34 , pp. 20-25
    • Bernardo, R.1
  • 2
    • 22144454660 scopus 로고    scopus 로고
    • Genetical genomics analysis of a yeast segregant population for transcription network inference
    • Bing, N. and Hoeschele, I. (2005) Genetical genomics analysis of a yeast segregant population for transcription network inference. Genetics, 170, 533–542.
    • (2005) Genetics , vol.170 , pp. 533-542
    • Bing, N.1    Hoeschele, I.2
  • 3
    • 4444309760 scopus 로고    scopus 로고
    • Potential of metabolomics as a functional genomics tool
    • Bino, R.J., Hall, R.D., Fiehn, O. et al. (2004) Potential of metabolomics as a functional genomics tool. Trends Plant Sci. 9, 418–425.
    • (2004) Trends Plant Sci. , vol.9 , pp. 418-425
    • Bino, R.J.1    Hall, R.D.2    Fiehn, O.3
  • 4
    • 84871699802 scopus 로고    scopus 로고
    • Genetic analysis of metabolome–phenotype interactions: from model to crop species
    • Carreno-Quintero, N., Bouwmeester, H.J. and Keurentjes, J.J.B. (2013) Genetic analysis of metabolome–phenotype interactions: from model to crop species. Trends Genet. 29, 41–50.
    • (2013) Trends Genet. , vol.29 , pp. 41-50
    • Carreno-Quintero, N.1    Bouwmeester, H.J.2    Keurentjes, J.J.B.3
  • 5
    • 84903595019 scopus 로고    scopus 로고
    • Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism
    • Chen, W., Gao, Y., Xie, W. et al. (2014) Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Nat. Genet. 46, 714–721.
    • (2014) Nat. Genet. , vol.46 , pp. 714-721
    • Chen, W.1    Gao, Y.2    Xie, W.3
  • 6
    • 16244402990 scopus 로고    scopus 로고
    • Metabolomics: current analytical platforms and methodologies
    • Dunn, W.B. and Ellis, D.I. (2005) Metabolomics: current analytical platforms and methodologies. Trends Analyt. Chem. 24, 285–294.
    • (2005) Trends Analyt. Chem. , vol.24 , pp. 285-294
    • Dunn, W.B.1    Ellis, D.I.2
  • 8
    • 84896908852 scopus 로고    scopus 로고
    • Deducing hybrid performance from parental metabolic profiles of young primary roots of maize by using a multivariate diallel approach
    • Feher, K., Lisec, J., Römisch-Margl, L., Selbig, J., Gierl, A., Piepho, H.-P., Nikoloski, Z. and 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    Römisch-Margl, L.3    Selbig, J.4    Gierl, A.5    Piepho, H.-P.6    Nikoloski, Z.7    Willmitzer, L.8
  • 9
    • 77950537175 scopus 로고    scopus 로고
    • Regularization paths for generalized linear models via coordinate descent
    • Friedman, J., Hastie, T. and Tibshirani, R. (2010) Regularization paths for generalized linear models via coordinate descent. J. Stat. Softw. 33, 1–22.
    • (2010) J. Stat. Softw. , vol.33 , pp. 1-22
    • Friedman, J.1    Hastie, T.2    Tibshirani, R.3
  • 10
    • 75849163891 scopus 로고    scopus 로고
    • Transcriptome-based distance measures for grouping of germplasm and prediction of hybrid performance in maize
    • Frisch, M., Thiemann, A., Fu, J., Schrag, T.A., Scholten, S. and Melchinger, A.E. (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
  • 11
    • 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
    • Fu, J., Falke, K.C., Thiemann, A., Schrag, T.A., Melchinger, A.E., Scholten, S. and 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
  • 13
    • 11144325691 scopus 로고
    • Partial least-squares regression: a tutorial
    • Gelandi, P. and Kowalski, B.R. (1986) Partial least-squares regression: a tutorial. Anal. Chim. Acta, 185, 1–17.
    • (1986) Anal. Chim. Acta , vol.185 , pp. 1-17
    • Gelandi, P.1    Kowalski, B.R.2
  • 14
    • 84893179575 scopus 로고
    • Variable selection via Gibbs sampling
    • George, E.I. and McCulloch, R.E. (1993) Variable selection via Gibbs sampling. J. Am. Stat. Assoc. 88, 881–889.
    • (1993) J. Am. Stat. Assoc. , vol.88 , pp. 881-889
    • George, E.I.1    McCulloch, R.E.2
  • 16
    • 0016704147 scopus 로고
    • Best linear unbiased estimation and prediction under a selection model
    • Henderson, C.R. (1975) Best linear unbiased estimation and prediction under a selection model. Biometrics, 31, 423–447.
    • (1975) Biometrics , vol.31 , pp. 423-447
    • Henderson, C.R.1
  • 18
    • 0036963688 scopus 로고    scopus 로고
    • Genetic dissection of an elite rice hybrid revealed that heterozygotes are not always advantageous for performance
    • Hua, J.P., Xing, Y.Z., Xu, C.G., Sun, X.L., Yu, S.B. and Zhang, Q. (2002) Genetic dissection of an elite rice hybrid revealed that heterozygotes are not always advantageous for performance. Genetics, 162, 1885–1895.
    • (2002) Genetics , vol.162 , pp. 1885-1895
    • Hua, J.P.1    Xing, Y.Z.2    Xu, C.G.3    Sun, X.L.4    Yu, S.B.5    Zhang, Q.6
  • 19
    • 0037418206 scopus 로고    scopus 로고
    • Single-locus heterotic effects and dominance by dominance interactions can adequately explain the genetic basis of heterosis in an elite rice hybrid
    • Hua, J., Xing, Y., Wu, W., Xu, C., Sun, X., Yu, S. and Zhang, Q. (2003) Single-locus heterotic effects and dominance by dominance interactions can adequately explain the genetic basis of heterosis in an elite rice hybrid. Proc. Natl Acad. Sci. USA, 100, 2574–2579.
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 2574-2579
    • Hua, J.1    Xing, Y.2    Wu, W.3    Xu, C.4    Sun, X.5    Yu, S.6    Zhang, Q.7
  • 21
    • 62349101060 scopus 로고    scopus 로고
    • Genetical metabolomics: closing in on phenotypes
    • Keurentjes, J.J.B. (2009) Genetical metabolomics: closing in on phenotypes. Curr. Opin. Plant Biol. 12, 223–230.
    • (2009) Curr. Opin. Plant Biol. , vol.12 , pp. 223-230
    • Keurentjes, J.J.B.1
  • 25
    • 0035045051 scopus 로고    scopus 로고
    • Prediction of total genetic value using genome-wide dense marker maps
    • Meuwissen, T.H.E., Hayes, B.J. and Goddard, M.E. (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.E.1    Hayes, B.J.2    Goddard, M.E.3
  • 26
    • 33846829987 scopus 로고    scopus 로고
    • The pls package: principal component and partial least squares regression in R
    • Mevik, B.-H. and Wehrens, R. (2007) The pls package: principal component and partial least squares regression in R. J. Stat. Softw. 18, 1–24.
    • (2007) J. Stat. Softw. , vol.18 , pp. 1-24
    • Mevik, B.-H.1    Wehrens, R.2
  • 27
    • 34248377833 scopus 로고    scopus 로고
    • The metabolic signature related to high plant growth rate in Arabidopsis thaliana
    • Meyer, R.C., Steinfath, M., Lisec, J. et al. (2007) The metabolic signature related to high plant growth rate in Arabidopsis thaliana. Proc. Nat. Acad. Sci. USA, 104, 4759–4764.
    • (2007) Proc. Nat. Acad. Sci. USA , vol.104 , pp. 4759-4764
    • Meyer, R.C.1    Steinfath, M.2    Lisec, J.3
  • 28
    • 84907997062 scopus 로고    scopus 로고
    • Genome-wide regression and prediction with the BGLR statistical package
    • Perez, P. and de los Campos, G. (2014) Genome-wide regression and prediction with the BGLR statistical package. Genetics, 198, 483–495.
    • (2014) Genetics , vol.198 , pp. 483-495
    • Perez, P.1    de los Campos, G.2
  • 30
    • 33750204290 scopus 로고    scopus 로고
    • Genetics of global gene expression
    • Rockman, M.V. and Kruglyak, L. (2006) Genetics of global gene expression. Nat. Rev. Genet. 7, 862–872.
    • (2006) Nat. Rev. Genet. , vol.7 , pp. 862-872
    • Rockman, M.V.1    Kruglyak, L.2
  • 31
    • 54149090305 scopus 로고    scopus 로고
    • Biochemical networks and epistasis shape the Arabidopsis thaliana metabolome
    • Rowe, H.C., Hansen, B.G., Halkier, B.A. and Kliebenstein, D.J. (2008) Biochemical networks and epistasis shape the Arabidopsis thaliana metabolome. Plant Cell, 20, 1199–1216.
    • (2008) Plant Cell , vol.20 , pp. 1199-1216
    • Rowe, H.C.1    Hansen, B.G.2    Halkier, B.A.3    Kliebenstein, D.J.4
  • 32
    • 33947307759 scopus 로고    scopus 로고
    • Plant metabolomics: towards biological function and mechanism
    • Schauer, N. and Fernie, A.R. (2006) Plant metabolomics: towards biological function and mechanism. Trends Plant Sci. 11, 508–516.
    • (2006) Trends Plant Sci. , vol.11 , pp. 508-516
    • Schauer, N.1    Fernie, A.R.2
  • 33
    • 77956429710 scopus 로고    scopus 로고
    • Discovering plant metabolic biomarkers for phenotype prediction using an untargeted approach
    • Steinfath, M., Strehmel, N., Peters, R. et al. (2010) Discovering plant metabolic biomarkers for phenotype prediction using an untargeted approach. Plant Biotechnol. J. 8, 900–911.
    • (2010) Plant Biotechnol. J. , vol.8 , pp. 900-911
    • Steinfath, M.1    Strehmel, N.2    Peters, R.3
  • 35
    • 55849133422 scopus 로고    scopus 로고
    • Efficient methods to compute genomic predictions
    • VanRaden, P.M. (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
  • 36
    • 84903368705 scopus 로고    scopus 로고
    • An expression quantitative trait loci-guided co-expression analysis for constructing regulatory network using a rice recombinant inbred line population
    • Wang, J., Yu, H., Weng, X., Xie, W., Xu, C., Li, X., Xiao, J. and Zhang, Q. (2014) An expression quantitative trait loci-guided co-expression analysis for constructing regulatory network using a rice recombinant inbred line population. J. Exp. Bot. 65, 1069–1079.
    • (2014) J. Exp. Bot. , vol.65 , pp. 1069-1079
    • Wang, J.1    Yu, H.2    Weng, X.3    Xie, W.4    Xu, C.5    Li, X.6    Xiao, J.7    Zhang, Q.8
  • 37
    • 34249055193 scopus 로고    scopus 로고
    • Global eQTL mapping reveals the complex genetic architecture of transcript-level variation in Arabidopsis
    • West, M.A.L., Kim, K., Kliebenstein, D.J., van Leeuwen, H., Michelmore, R.W., Doerge, R.W. and St Clair, D.A. (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.L.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
  • 38
    • 84888783675 scopus 로고    scopus 로고
    • Proteomic profiling of rice roots from a super hybrid rice cultivar and its parental lines
    • Xiang, X., Ning, S. and Wei, D. (2013) Proteomic profiling of rice roots from a super hybrid rice cultivar and its parental lines. Plant Omics J. 6, 318–324.
    • (2013) Plant Omics J. , vol.6 , pp. 318-324
    • Xiang, X.1    Ning, S.2    Wei, D.3
  • 39
    • 0036937858 scopus 로고    scopus 로고
    • Characterization of the main effects, epistatic effects and their environmental interactions of QTLs on the genetic basis of yield traits in rice
    • Xing, Y., Tan, F., Hua, J., Sun, L., Xu, G. and Zhang, Q. (2002) Characterization of the main effects, epistatic effects and their environmental interactions of QTLs on the genetic basis of yield traits in rice. Theor. Appl. Genet. 105, 248–257.
    • (2002) Theor. Appl. Genet. , vol.105 , pp. 248-257
    • Xing, Y.1    Tan, F.2    Hua, J.3    Sun, L.4    Xu, G.5    Zhang, Q.6
  • 40
    • 84888988128 scopus 로고    scopus 로고
    • Mapping quantitative trait loci by controlling polygenic background effects
    • 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
  • 41
    • 84906663723 scopus 로고    scopus 로고
    • Predicting hybrid performance in rice using genomic best linear unbiased prediction
    • Xu, S., Zhu, D. and Zhang, Q. (2014) Predicting hybrid performance in rice using genomic best linear unbiased prediction. Proc. Nat. Acad. Sci. USA, 111, 12456–12461.
    • (2014) Proc. Nat. Acad. Sci. USA , vol.111 , pp. 12456-12461
    • Xu, S.1    Zhu, D.2    Zhang, Q.3
  • 42
    • 79952299301 scopus 로고    scopus 로고
    • Gains in QTL detection using an ultra-high density SNP map based on population sequencing relative to traditional RFLP/SSR markers
    • 17510.11371/journal.pone.0017595.
    • Yu, H., Xie, W., Wang, J., Xing, Y., Xu, C., Li, X., Xiao, J. and Zhang, Q. (2011) Gains in QTL detection using an ultra-high density SNP map based on population sequencing relative to traditional RFLP/SSR markers. PLoS ONE, 6, e17595. doi:17510.11371/journal.pone.0017595.
    • (2011) PLoS ONE , vol.6
    • Yu, H.1    Xie, W.2    Wang, J.3    Xing, Y.4    Xu, C.5    Li, X.6    Xiao, J.7    Zhang, Q.8
  • 43
    • 84913529851 scopus 로고    scopus 로고
    • Small RNAs as important regulators for the hybrid vigour of super-hybrid rice
    • Zhang, L., Peng, Y., Wei, X., Dai, Y., Yuan, D., Lu, Y., Pan, Y. and Zhu, Z. (2014) Small RNAs as important regulators for the hybrid vigour of super-hybrid rice. J. Exp. Bot. 65, 5989–6002.
    • (2014) J. Exp. Bot. , vol.65 , pp. 5989-6002
    • Zhang, L.1    Peng, Y.2    Wei, X.3    Dai, Y.4    Yuan, D.5    Lu, Y.6    Pan, Y.7    Zhu, Z.8


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.