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

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.

doi:10.1111/gcbb.12615

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

Journal Article · Sun Apr 14 00:00:00 EDT 2019 · Global Change Biology. Bioenergy

DOI:https://doi.org/10.1111/gcbb.12615· OSTI ID:1507161

^[1];

^[1]; Lipka, Alexander E. ^[1]; Brummer, Joe E. ^[2]; Głowacka, Katarzyna ^[3]; Hall, Megan C. ^[4]; Heo, Kweon ^[5]; Jin, Xiaoli ^[6]; Peng, Junhua ^[7];

^[8]; Ghimire, Bimal Kumar ^[9]; Yoo, Ji Hye ^[5]; Yu, Chang Yeon ^[5]; Zhao, Hua ^[10];

^[1]; Sacks, Erik J. ^[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

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.

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Research Organization:: Center for Advanced Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: SC0018420; SC0006634

OSTI ID:: 1507161

Alternate ID(s):: OSTI ID: 1507162; OSTI ID: 1991858

Journal Information:: Global Change Biology. Bioenergy, Journal Name: Global Change Biology. Bioenergy Vol. 11 Journal Issue: 8; ISSN 1757-1693

Publisher:: Wiley-BlackwellCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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Cited by: 5 works

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