skip to main content
DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Winter hardiness of Miscanthus (III): Genome‐wide association and genomic prediction for overwintering ability in Miscanthus sinensis

Authors:
ORCiD logo [1]; ORCiD logo [1];  [1];  [2];  [3];  [4];  [5];  [6];  [7]; ORCiD logo [8];  [9];  [5];  [5];  [10]; ORCiD logo [1];  [1]
  1. Department of Crop Sciences University of Illinois at Urbana‐Champaign Urbana Illinois
  2. Department of Soil and Crop Sciences Colorado State University Fort Collins Colorado
  3. Department of Biochemistry University of Nebraska Lincoln Nebraska
  4. Bio Architecture Lab Berkeley California
  5. Department of Applied Plant Sciences Kangwon National University Chuncheon Gangwon South Korea
  6. Department of Agronomy Zhejiang University Hangzhou Zhejiang China
  7. Huazhi Biotech Co., Ltd Changsha Hunan China
  8. Field Science Center for Northern Biosphere Hokkaido University Sapporo Hokkaido Japan
  9. Department of Applied Bioscience Konkuk University Seoul South Korea
  10. College of Plant Science and Technology Huazhong Agricultural University Wuhan Hubei China
Publication Date:
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1507161
Alternate Identifier(s):
OSTI ID: 1507162
Grant/Contract Number:  
SC0006634; SC0018420
Resource Type:
Published Article
Journal Name:
Global Change Biology. Bioenergy
Additional Journal Information:
Journal Name: Global Change Biology. Bioenergy; Journal ID: ISSN 1757-1693
Publisher:
Wiley-Blackwell
Country of Publication:
United Kingdom
Language:
English

Citation Formats

Dong, Hongxu, Clark, Lindsay V., Lipka, Alexander E., Brummer, Joe E., Głowacka, Katarzyna, Hall, Megan C., Heo, Kweon, Jin, Xiaoli, Peng, Junhua, Yamada, Toshihiko, Ghimire, Bimal Kumar, Yoo, Ji Hye, Yu, Chang Yeon, Zhao, Hua, Long, Stephen P., and Sacks, Erik J. Winter hardiness of Miscanthus (III): Genome‐wide association and genomic prediction for overwintering ability in Miscanthus sinensis. United Kingdom: N. p., 2019. Web. doi:10.1111/gcbb.12615.
Dong, Hongxu, Clark, Lindsay V., Lipka, Alexander E., Brummer, Joe E., Głowacka, Katarzyna, Hall, Megan C., Heo, Kweon, Jin, Xiaoli, Peng, Junhua, Yamada, Toshihiko, Ghimire, Bimal Kumar, Yoo, Ji Hye, Yu, Chang Yeon, Zhao, Hua, Long, Stephen P., & Sacks, Erik J. Winter hardiness of Miscanthus (III): Genome‐wide association and genomic prediction for overwintering ability in Miscanthus sinensis. United Kingdom. doi:10.1111/gcbb.12615.
Dong, Hongxu, Clark, Lindsay V., Lipka, Alexander E., Brummer, Joe E., Głowacka, Katarzyna, Hall, Megan C., Heo, Kweon, Jin, Xiaoli, Peng, Junhua, Yamada, Toshihiko, Ghimire, Bimal Kumar, Yoo, Ji Hye, Yu, Chang Yeon, Zhao, Hua, Long, Stephen P., and Sacks, Erik J. Sun . "Winter hardiness of Miscanthus (III): Genome‐wide association and genomic prediction for overwintering ability in Miscanthus sinensis". United Kingdom. doi:10.1111/gcbb.12615.
@article{osti_1507161,
title = {Winter hardiness of Miscanthus (III): Genome‐wide association and genomic prediction for overwintering ability in Miscanthus sinensis},
author = {Dong, Hongxu and Clark, Lindsay V. and Lipka, Alexander E. and Brummer, Joe E. and Głowacka, Katarzyna and Hall, Megan C. and Heo, Kweon and Jin, Xiaoli and Peng, Junhua and Yamada, Toshihiko and Ghimire, Bimal Kumar and Yoo, Ji Hye and Yu, Chang Yeon and Zhao, Hua and Long, Stephen P. and Sacks, Erik J.},
abstractNote = {},
doi = {10.1111/gcbb.12615},
journal = {Global Change Biology. Bioenergy},
number = ,
volume = ,
place = {United Kingdom},
year = {2019},
month = {4}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: 10.1111/gcbb.12615

Save / Share:

Works referenced in this record:

Miscanthus biomass production for energy in Europe and its potential contribution to decreasing fossil fuel carbon emissions
journal, April 2004


The Sorghum bicolor genome and the diversification of grasses
journal, January 2009

  • Paterson, Andrew H.; Bowers, John E.; Bruggmann, Rémy
  • Nature, Vol. 457, Issue 7229
  • DOI: 10.1038/nature07723

Androgenesis in the Bioenergy Plant : From Calli Induction to Plant Regeneration
journal, January 2012


Feedstocks for Lignocellulosic Biofuels
journal, August 2010

  • Somerville, Cris; Youngs, Heather; Taylor, Caroline
  • Science, Vol. 329, Issue 5993, p. 790-792
  • DOI: 10.1126/science.1189268

Pleiotropic Roles of Cold Shock Domain Proteins in Plants
journal, January 2012


Regulating biological activity in plants with carboxylesterases
journal, December 2007


Relatedness and Genotype × Environment Interaction Affect Prediction Accuracies in Genomic Selection: A Study in Cassava
journal, January 2013


Mapping and analysis of quantitative trait loci in experimental populations
journal, January 2002

  • Doerge, Rebecca W.
  • Nature Reviews Genetics, Vol. 3, Issue 1
  • DOI: 10.1038/nrg703

Overexpression of Multiple Dehydrin Genes Enhances Tolerance to Freezing Stress in Arabidopsis
journal, March 2004


Cytogenetic Analysis of Miscanthus‘Giganteus’, an Interspecific Hybrid
journal, December 1993


Genetic architecture of complex traits in plants
journal, April 2007


An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations
journal, June 2012

  • Segura, Vincent; Vilhjálmsson, Bjarni J.; Platt, Alexander
  • Nature Genetics, Vol. 44, Issue 7
  • DOI: 10.1038/ng.2314

Plant morphology, genome size, and SSR markers differentiate five distinct taxonomic groups among accessions in the genus Miscanthus
journal, January 2014

  • Chae, Won Byoung; Hong, Sae Jin; Gifford, Justin M.
  • GCB Bioenergy, Vol. 6, Issue 6
  • DOI: 10.1111/gcbb.12101

A framework genetic map for Miscanthus sinensis from RNAseq-based markers shows recent tetraploidy
journal, January 2012


Conservation of the Cold Shock Domain Protein Family in Plants
journal, January 2003

  • Karlson, Dale; Imai, Ryozo
  • Plant Physiology, Vol. 131, Issue 1
  • DOI: 10.1104/pp.014472

Winter hardiness of Miscanthus (I): Overwintering ability and yield of new Miscanthus × giganteus genotypes in Illinois and Arkansas
journal, January 2019

  • Dong, Hongxu; Green, Steven V.; Nishiwaki, Aya
  • GCB Bioenergy, Vol. 11, Issue 5
  • DOI: 10.1111/gcbb.12588

Miscanthus × giganteus productivity: the effects of management in different environments
journal, December 2011


Circadian regulation of abiotic stress tolerance in plants
journal, August 2015

  • Grundy, Jack; Stoker, Claire; Carré, Isabelle A.
  • Frontiers in Plant Science, Vol. 6
  • DOI: 10.3389/fpls.2015.00648

Establishment, Development and Yield Quality of Fifteen Miscanthus Genotypes over Three Years in Denmark
journal, December 2003

  • Jørgensen, Uffe; Mortensen, Jørgen; Kjeldsen, Jens Bonderup
  • Acta Agriculturae Scandinavica, Section B - Soil & Plant Science, Vol. 53, Issue 4
  • DOI: 10.1080/09064710310017605

Comparative analysis of QTLs affecting plant height and flowering among closely-related diploid and polyploid genomes
journal, October 2002

  • Ming, Ray; Del Monte, Terrye A.; Hernandez, Eduardo
  • Genome, Vol. 45, Issue 5
  • DOI: 10.1139/g02-042

Switchgrass Genomic Diversity, Ploidy, and Evolution: Novel Insights from a Network-Based SNP Discovery Protocol
journal, January 2013


A footprint of past climate change on the diversity and population structure of Miscanthus sinensis
journal, June 2014

  • Clark, Lindsay V.; Brummer, Joe E.; Głowacka, Katarzyna
  • Annals of Botany, Vol. 114, Issue 1
  • DOI: 10.1093/aob/mcu084

Miscanthus: European experience with a novel energy crop
journal, October 2000


Plant Breeding with Genomic Selection: Gain per Unit Time and Cost
journal, January 2010


Genomic Selection for Crop Improvement
journal, January 2009


The weediness of wild plants: molecular analysis of genes influencing dispersal and persistence of johnsongrass, Sorghum halepense (L.) Pers.
journal, June 1995

  • Paterson, A. H.; Schertz, K. F.; Lin, Y. R.
  • Proceedings of the National Academy of Sciences, Vol. 92, Issue 13
  • DOI: 10.1073/pnas.92.13.6127

A superfamily of proteins that contain the cold-shock domain
journal, August 1998


Ridge Regression and Other Kernels for Genomic Selection with R Package rrBLUP
journal, January 2011


Genome-wide characterization of JASMONATE-ZIM DOMAIN transcription repressors in wheat (Triticum aestivum L.)
journal, February 2017


Meeting US biofuel goals with less land: the potential of Miscanthus
journal, September 2008


Genetic mapping of biomass yield in three interconnected Miscanthus populations
journal, August 2017

  • Dong, Hongxu; Liu, Siyao; Clark, Lindsay V.
  • GCB Bioenergy, Vol. 10, Issue 3
  • DOI: 10.1111/gcbb.12472

Very high resolution interpolated climate surfaces for global land areas
journal, January 2005

  • Hijmans, Robert J.; Cameron, Susan E.; Parra, Juan L.
  • International Journal of Climatology, Vol. 25, Issue 15
  • DOI: 10.1002/joc.1276

Genetic association mapping and genome organization of maize
journal, April 2006


Genomic Prediction in Animals and Plants: Simulation of Data, Validation, Reporting, and Benchmarking
journal, December 2012


WRKY: its structure, evolutionary relationship, DNA-binding selectivity, role in stress tolerance and development of plants
journal, November 2010

  • Agarwal, Parinita; Reddy, M. P.; Chikara, Jitendra
  • Molecular Biology Reports, Vol. 38, Issue 6
  • DOI: 10.1007/s11033-010-0504-5

Accelerating the Switchgrass (Panicum virgatum L.) Breeding Cycle Using Genomic Selection Approaches
journal, November 2014


Genomic selection in plant breeding: from theory to practice
journal, February 2010

  • Jannink, J. -L.; Lorenz, A. J.; Iwata, H.
  • Briefings in Functional Genomics, Vol. 9, Issue 2
  • DOI: 10.1093/bfgp/elq001

Genomic Selection Accuracy using Multifamily Prediction Models in a Wheat Breeding Program
journal, January 2011


From association to prediction: statistical methods for the dissection and selection of complex traits in plants
journal, April 2015

  • Lipka, Alexander E.; Kandianis, Catherine B.; Hudson, Matthew E.
  • Current Opinion in Plant Biology, Vol. 24
  • DOI: 10.1016/j.pbi.2015.02.010

Nomenclature of Miscanthus xgiganteus (Poaceae)
journal, January 2001

  • Hodkinson, Trevor R.; Renvoize, Steve
  • Kew Bulletin, Vol. 56, Issue 3
  • DOI: 10.2307/4117709

Strategy for applying genome-wide selection in dairy cattle
journal, August 2006


Identification of genes associated with cold acclimation in perennial ryegrass
journal, September 2009


Dehydrins (LTI29, LTI30, COR47) from Arabidopsis thaliana expressed in Escherichia coli protect Thylakoid membrane during freezing
journal, January 2013

  • Bozovic, Vladan; Svensson, Jan; Schmitt, Jürgen
  • Journal of the Serbian Chemical Society, Vol. 78, Issue 8
  • DOI: 10.2298/JSC121127017B

Genomic prediction accuracy for switchgrass traits related to bioenergy within differentiated populations
journal, July 2018

  • Fiedler, Jason D.; Lanzatella, Christina; Edmé, Serge J.
  • BMC Plant Biology, Vol. 18, Issue 1
  • DOI: 10.1186/s12870-018-1360-z

Genome Size of Three Miscanthus Species
journal, October 2008

  • Rayburn, A. Lane; Crawford, Joseph; Rayburn, Charlotte M.
  • Plant Molecular Biology Reporter, Vol. 27, Issue 2
  • DOI: 10.1007/s11105-008-0070-3

Genetic variation in Miscanthus × giganteus and the importance of estimating genetic distance thresholds for differentiating clones
journal, June 2014

  • Głowacka, Katarzyna; Clark, Lindsay V.; Adhikari, Shivani
  • GCB Bioenergy, Vol. 7, Issue 2
  • DOI: 10.1111/gcbb.12166

Mapping the genome of Miscanthus sinensis for QTL associated with biomass productivity
journal, June 2014

  • Gifford, Justin M.; Chae, Won Byoung; Swaminathan, Kankshita
  • GCB Bioenergy, Vol. 7, Issue 4
  • DOI: 10.1111/gcbb.12201

Linear versus logistic regression when the dependent variable is a dichotomy
journal, February 2007


Dry matter partitioning and quality of Miscanthus, Panicum, and Saccharum genotypes in Arkansas, USA
journal, April 2009


Transcriptional regulatory networks in Arabidopsis thaliana during single and combined stresses
journal, December 2015

  • Barah, Pankaj; B. N., Mahantesha Naika; Jayavelu, Naresh Doni
  • Nucleic Acids Research, Vol. 44, Issue 7
  • DOI: 10.1093/nar/gkv1463

Performance of 15 Genotypes at Five Sites in Europe
journal, January 2001


Fast gapped-read alignment with Bowtie 2
journal, March 2012

  • Langmead, Ben; Salzberg, Steven L.
  • Nature Methods, Vol. 9, Issue 4
  • DOI: 10.1038/nmeth.1923

Biomass yield in a genetically diverse Miscanthus sinensis germplasm panel evaluated at five locations revealed individuals with exceptional potential
journal, March 2019

  • Clark, Lindsay V.; Dwiyanti, Maria S.; Anzoua, Kossonou G.
  • GCB Bioenergy, Vol. 11, Issue 10
  • DOI: 10.1111/gcbb.12606

Genomic index selection provides a pragmatic framework for setting and refining multi-objective breeding targets in Miscanthus
journal, October 2018

  • Slavov, Gancho T.; Davey, Christopher L.; Bosch, Maurice
  • Annals of Botany, Vol. 124, Issue 4
  • DOI: 10.1093/aob/mcy187

Sub-zero cold tolerance of Spartina pectinata (prairie cordgrass) and Miscanthus × giganteus : candidate bioenergy crops for cool temperate climates
journal, April 2015

  • Friesen, Patrick C.; Peixoto, Murilo de Melo; Lee, D. K.
  • Journal of Experimental Botany, Vol. 66, Issue 14
  • DOI: 10.1093/jxb/erv085

Convergent Domestication of Cereal Crops by Independent Mutations at Corresponding Genetic Loci
journal, September 1995


Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two-Enzyme Genotyping-by-Sequencing Approach
journal, February 2012


Autumnal leaf senescence in Miscanthus × giganteus and leaf [N] differ by stand age
journal, April 2015

  • Boersma, Nicholas N.; Dohleman, Frank G.; Miguez, Fernando E.
  • Journal of Experimental Botany, Vol. 66, Issue 14
  • DOI: 10.1093/jxb/erv129

Genetic structure of Miscanthus sinensis and Miscanthus sacchariflorus in Japan indicates a gradient of bidirectional but asymmetric introgression
journal, January 2015

  • Clark, Lindsay V.; Stewart, J. Ryan; Nishiwaki, Aya
  • Journal of Experimental Botany, Vol. 66, Issue 14
  • DOI: 10.1093/jxb/eru511

Genomic and metabolic prediction of complex heterotic traits in hybrid maize
journal, January 2012

  • Riedelsheimer, Christian; Czedik-Eysenberg, Angelika; Grieder, Christoph
  • Nature Genetics, Vol. 44, Issue 2
  • DOI: 10.1038/ng.1033

Transcriptomic Insights into Phenological Development and Cold Tolerance of Wheat Grown in the Field
journal, December 2017

  • Li, Qiang; Byrns, Brook; Badawi, Mohamed A.
  • Plant Physiology, Vol. 176, Issue 3
  • DOI: 10.1104/pp.17.01311

Ecological characteristics and in situ genetic associations for yield-component traits of wild Miscanthus from eastern Russia
journal, July 2016

  • Clark, Lindsay V.; Dzyubenko, Elena; Dzyubenko, Nikolay
  • Annals of Botany, Vol. 118, Issue 5
  • DOI: 10.1093/aob/mcw137

Variation in chilling tolerance for photosynthesis and leaf extension growth among genotypes related to the C4 grass Miscanthus ×giganteus
journal, July 2014

  • Głowacka, Katarzyna; Adhikari, Shivani; Peng, Junhua
  • Journal of Experimental Botany, Vol. 65, Issue 18
  • DOI: 10.1093/jxb/eru287

Genomic Predictability of Interconnected Biparental Maize Populations
journal, March 2013


Convergent evolution of perenniality in rice and sorghum
journal, March 2003

  • Hu, F. Y.; Tao, D. Y.; Sacks, E.
  • Proceedings of the National Academy of Sciences, Vol. 100, Issue 7
  • DOI: 10.1073/pnas.0630531100

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations
journal, January 2010

  • Jombart, Thibaut; Devillard, Sébastien; Balloux, François
  • BMC Genetics, Vol. 11, Issue 1
  • DOI: 10.1186/1471-2156-11-94