Winter hardiness of Miscanthus (III): Genome‐wide association and genomic prediction for overwintering ability in Miscanthus sinensis
Abstract
Abstract Overwintering ability is an important selection criterion for Miscanthus breeding in temperate regions. Insufficient overwintering ability of the currently leading Miscanthus biomass cultivar, M . × giganteus (M×g) ‘1993–1780', in regions where average annual minimum temperatures are −26.1°C (USDA hardiness zone 5) or lower poses a pressing need to develop new cultivars with superior cold tolerance. To facilitate breeding of Miscanthus , this study characterized phenotypic and genetic variation of overwintering ability in an M. sinensis germplasm panel consisting of 564 accessions, evaluated in field trials at three locations in North America and two in Asia. Genome‐wide association (GWA) and genomic prediction analyses were performed. The Korea/N China M. sinensis genetic group is a valuable gene pool for cold tolerance. The Yangtze‐Qinling, Southern Japan, and Northern Japan genetic groups were also potential sources of cold tolerance. A total of 73 marker–trait associations were detected for overwintering ability. Estimated breeding value for overwintering ability based on these 73 markers could explain 55% of the variation for first winter overwintering ability among M. sinensis . Average genomic prediction ability for overwintering ability across 50 fivefold cross‐validations was high (~0.73) after accounting for population structure. Common genomic regions for overwintering ability weremore »
- Authors:
-
[1];
[1];
[8];
[1];
- Department of Crop Sciences University of Illinois at Urbana‐Champaign Urbana Illinois
- Department of Soil and Crop Sciences Colorado State University Fort Collins Colorado
- Department of Biochemistry University of Nebraska Lincoln Nebraska
- Bio Architecture Lab Berkeley California
- Department of Applied Plant Sciences Kangwon National University Chuncheon Gangwon South Korea
- Department of Agronomy Zhejiang University Hangzhou Zhejiang China
- Huazhi Biotech Co., Ltd Changsha Hunan China
- Field Science Center for Northern Biosphere Hokkaido University Sapporo Hokkaido Japan
- Department of Applied Bioscience Konkuk University Seoul South Korea
- College of Plant Science and Technology Huazhong Agricultural University Wuhan Hubei China
- Publication Date:
- Research Org.:
- Center for Advanced Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1507161
- Alternate Identifier(s):
- OSTI ID: 1507162; OSTI ID: 1991858
- Grant/Contract Number:
- SC0018420; SC0006634
- Resource Type:
- Published Article
- Journal Name:
- Global Change Biology. Bioenergy
- Additional Journal Information:
- Journal Name: Global Change Biology. Bioenergy Journal Volume: 11 Journal Issue: 8; Journal ID: ISSN 1757-1693
- Publisher:
- Wiley-Blackwell
- Country of Publication:
- United Kingdom
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES
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. https://doi.org/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. https://doi.org/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 = {Abstract Overwintering ability is an important selection criterion for Miscanthus breeding in temperate regions. Insufficient overwintering ability of the currently leading Miscanthus biomass cultivar, M . × giganteus (M×g) ‘1993–1780', in regions where average annual minimum temperatures are −26.1°C (USDA hardiness zone 5) or lower poses a pressing need to develop new cultivars with superior cold tolerance. To facilitate breeding of Miscanthus , this study characterized phenotypic and genetic variation of overwintering ability in an M. sinensis germplasm panel consisting of 564 accessions, evaluated in field trials at three locations in North America and two in Asia. Genome‐wide association (GWA) and genomic prediction analyses were performed. The Korea/N China M. sinensis genetic group is a valuable gene pool for cold tolerance. The Yangtze‐Qinling, Southern Japan, and Northern Japan genetic groups were also potential sources of cold tolerance. A total of 73 marker–trait associations were detected for overwintering ability. Estimated breeding value for overwintering ability based on these 73 markers could explain 55% of the variation for first winter overwintering ability among M. sinensis . Average genomic prediction ability for overwintering ability across 50 fivefold cross‐validations was high (~0.73) after accounting for population structure. Common genomic regions for overwintering ability were detected by GWA analyses and a previous parallel QTL mapping study using three interconnected biparental F 1 populations. One QTL on Miscanthus LG 8 encompassed five GWA hits and a known cold‐responsive gene, COR47 . The other overwintering ability QTL on Miscanthus LG 11 contained two GWA hits and three known cold stress‐related genes, carboxylesterase 13 ( CEX13 ), WRKY2 transcription factor, and cold shock domain ( CSDP1 ). Miscanthus accessions collected from high latitude locations with cold winters had higher rates of overwintering, and more alleles for overwintering, than accessions collected from southern locations with mild winters.},
doi = {10.1111/gcbb.12615},
journal = {Global Change Biology. Bioenergy},
number = 8,
volume = 11,
place = {United Kingdom},
year = {Sun Apr 14 00:00:00 EDT 2019},
month = {Sun Apr 14 00:00:00 EDT 2019}
}
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