Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction

Clark, Lindsay V.; Dwiyanti, Maria Stefanie; Anzoua, Kossonou G.; Brummer, Joe E.; Ghimire, Bimal Kumar; Głowacka, Katarzyna; Hall, Megan; Heo, Kweon; Jin, Xiaoli; Lipka, Alexander E.; Peng, Junhua; Yamada, Toshihiko; Yoo, Ji Hye; Yu, Chang Yeon; Zhao, Hua; Long, Stephen P.; Sacks, Erik J.

doi:10.13012/B2IDB-0790815_V3

Title: Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction

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Abstract

This dataset contains genotypic and phenotypic data, R scripts, and the results of analysis pertaining to a multi-location field trial of Miscanthus sinensis. Genome-wide association and genomic prediction were performed for biomass yield and 14 yield-component traits across six field trial locations in Asia and North America, using 46,177 single-nucleotide polymorphism (SNP) markers mined from restriction site-associated DNA sequencing (RAD-seq) and 568 M. sinensis accessions. Genomic regions and candidate genes were identified that can be used for breeding improved varieties of M. sinensis, which in turn will be used to generate new M. xgiganteus clones for biomass.

Authors:

;

; Anzoua, Kossonou G.; Brummer, Joe E.; Ghimire, Bimal Kumar; Głowacka, Katarzyna; Hall, Megan;

; Jin, Xiaoli;

; Peng, Junhua;

; Yoo, Ji Hye; Yu, Chang Yeon; Zhao, Hua; Long, Stephen P.; Sacks, Erik J.

Publication Date:: Mon Dec 31 19:00:00 EST 2018

DOE Contract Number:: SC0006634

Research Org.:: University of Illinois at Urbana-Champaign

Sponsoring Org.:: U.S. Department of Energy (DOE); U.S. Department of Energy (DOE)

Collaborations:: U.S. Department Of Energy (DOE); U.S. Department Of Energy (DOE)

Subject:: genome-wide association studies (GWAS); genomic selection; genotyping-by-sequencing (GBS); miscanthus

OSTI Identifier:: 3009865

DOI:: https://doi.org/10.13012/B2IDB-0790815_V3

Citation Formats


                    Clark, Lindsay V., Dwiyanti, Maria Stefanie, Anzoua, Kossonou G., Brummer, Joe E., Ghimire, Bimal Kumar, Głowacka, Katarzyna, Hall, Megan, Heo, Kweon, Jin, Xiaoli, Lipka, Alexander E., Peng, Junhua, Yamada, Toshihiko, Yoo, Ji Hye, Yu, Chang Yeon, Zhao, Hua, Long, Stephen P., and Sacks, Erik J. Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction.  United States: N. p., 2018. 
        Web.  doi:10.13012/B2IDB-0790815_V3.

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                    Clark, Lindsay V., Dwiyanti, Maria Stefanie, Anzoua, Kossonou G., Brummer, Joe E., Ghimire, Bimal Kumar, Głowacka, Katarzyna, Hall, Megan, Heo, Kweon, Jin, Xiaoli, Lipka, Alexander E., Peng, Junhua, Yamada, Toshihiko, Yoo, Ji Hye, Yu, Chang Yeon, Zhao, Hua, Long, Stephen P., & Sacks, Erik J. Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction.  United States.  doi:https://doi.org/10.13012/B2IDB-0790815_V3

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                    Clark, Lindsay V., Dwiyanti, Maria Stefanie, Anzoua, Kossonou G., Brummer, Joe E., Ghimire, Bimal Kumar, Głowacka, Katarzyna, Hall, Megan, Heo, Kweon, Jin, Xiaoli, Lipka, Alexander E., Peng, Junhua, Yamada, Toshihiko, Yoo, Ji Hye, Yu, Chang Yeon, Zhao, Hua, Long, Stephen P., and Sacks, Erik J. 2018.  
"Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction".  United States.  doi:https://doi.org/10.13012/B2IDB-0790815_V3.  https://www.osti.gov/servlets/purl/3009865. Pub date:Mon Dec 31 19:00:00 EST 2018

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@article{osti_3009865,

  title        = {Miscanthus sinensis multi-location trial: phenotypic analysis, genome-wide association, and genomic prediction},

  author       = {Clark, Lindsay V. and Dwiyanti, Maria Stefanie and Anzoua, Kossonou G. and Brummer, Joe E. and Ghimire, Bimal Kumar and Głowacka, Katarzyna and Hall, Megan and Heo, Kweon and Jin, Xiaoli and Lipka, Alexander E. and Peng, Junhua and Yamada, Toshihiko and Yoo, Ji Hye and Yu, Chang Yeon and Zhao, Hua and Long, Stephen P. and Sacks, Erik J.},

  abstractNote = {This dataset contains genotypic and phenotypic data, R scripts, and the results of analysis pertaining to a multi-location field trial of Miscanthus sinensis. Genome-wide association and genomic prediction were performed for biomass yield and 14 yield-component traits across six field trial locations in Asia and North America, using 46,177 single-nucleotide polymorphism (SNP) markers mined from restriction site-associated DNA sequencing (RAD-seq) and 568 M. sinensis accessions. Genomic regions and candidate genes were identified that can be used for breeding improved varieties of M. sinensis, which in turn will be used to generate new M. xgiganteus clones for biomass.},

  doi          = {10.13012/B2IDB-0790815_V3},

  journal      = {},

  number       = ,

  volume       = ,

  place        = {United States},

  year         = {Mon Dec 31 19:00:00 EST 2018},

  month        = {Mon Dec 31 19:00:00 EST 2018}

}

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DOI: https://doi.org/10.13012/B2IDB-0790815_V3

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Data from: Genome-wide association and genomic prediction for biomass yield in Miscanthus sinensis phenotyped in Asia and North America

Dataset Clark, Lindsay V. ; Dwiyanti, Maria S. ; Anzoua, Kossonou G. ; ...

This dataset contains genotypic and phenotypic data, R scripts, and the results of analysis pertaining to a multi-location field trial of Miscanthus sinensis. Genome-wide association and genomic prediction were performed for biomass yield and 14 yield-component traits across six field trial locations in Asia and North America, using 46,177 single-nucleotide polymorphism (SNP) markers mined from restriction site-associated DNA sequencing (RAD-seq) and 568 M. sinensis accessions. Genomic regions and candidate genes were identified that can be used for breeding improved varieties of M. sinensis, which in turn will be used to generate new M. xgiganteus clones for biomass.
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