Genome‐wide association and genomic prediction for yield and component traits of Miscanthus sacchariflorus

Njuguna, Joyce N.; Clark, Lindsay V.; Lipka, Alexander E.; Anzoua, Kossonou G.; Bagmet, Larisa; Chebukin, Pavel; Dwiyanti, Maria S.; Dzyubenko, Elena; Dzyubenko, Nicolay; Ghimire, Bimal Kumar; Jin, Xiaoli; Johnson, Douglas A.; Nagano, Hironori; Peng, Junhua; Petersen, Karen Koefoed; Sabitov, Andrey; Seong, Eun Soo; Yamada, Toshihiko; Yoo, Ji Hye; Yu, Chang Yeon; Zhao, Hua; Long, Stephen P.; Sacks, Erik J.

doi:10.1111/gcbb.13097

Title: Genome‐wide association and genomic prediction for yield and component traits of Miscanthus sacchariflorus

Journal Article · 08 September 2023 · Global Change Biology. Bioenergy

DOI: https://doi.org/10.1111/gcbb.13097 · OSTI ID:1999273

^[1]; Clark, Lindsay V. ^[2];

^[1]; Anzoua, Kossonou G. ^[3]; Bagmet, Larisa ^[4]; Chebukin, Pavel ^[5]; Dwiyanti, Maria S. ^[3]; Dzyubenko, Elena ^[4]; Dzyubenko, Nicolay ^[4]; Ghimire, Bimal Kumar ^[6];

^[7]; Johnson, Douglas A. ^[8]; Nagano, Hironori ^[3]; Peng, Junhua ^[9]; Petersen, Karen Koefoed ^[10]; Sabitov, Andrey ^[4]; Seong, Eun Soo ^[11];

^[3]; Yoo, Ji Hye ^[12]; Yu, Chang Yeon ^[12] more »

Department of Crop Sciences University of Illinois, Urbana‐Champaign Urbana Illinois USA
Research Scientific Computing Seattle Children's Research Institute Seattle Washington USA
Field Science Center for Northern Biosphere Hokkaido University Sapporo Japan
Vavilov All‐Russian Institute of Plant Genetic Resources St. Petersburg Russian Federation
FSBSI “FSC of Agricultural Biotechnology of the Far East named after A.K. Chaiki” Ussuriisk Russian Federation
Department of Crop Science, College of Sanghuh Life Science Konkuk University Seoul Korea
Key Laboratory of Crop Germplasm Research of Zhejiang Province, Agronomy Department Zhejiang University Hangzhou China
USDA‐ARS Forage and Range Research Lab Utah State University Logan Utah USA
Spring Valley Agriscience Co. Ltd. Jinan Shandong China
Schroll Medical ApS Årslev Denmark
Division of Bioresource Sciences Kangwon National University Chuncheon Korea
Bioherb Research Institute Kangwon National University Chuncheon Korea
Key Laboratory of Horticultural Plant Biology of Ministry of Education Huazhong Agricultural University Wuhan People's Republic of China

Abstract Accelerating biomass improvement is a major goal of Miscanthus breeding. The development and implementation of genomic‐enabled breeding tools, like marker‐assisted selection (MAS) and genomic selection, has the potential to improve the efficiency of Miscanthus breeding. The present study conducted genome‐wide association (GWA) and genomic prediction of biomass yield and 14 yield‐components traits in Miscanthus sacchariflorus . We evaluated a diversity panel with 590 accessions of M. sacchariflorus grown across 4 years in one subtropical and three temperate locations and genotyped with 268,109 single‐nucleotide polymorphisms (SNPs). The GWA study identified a total of 835 significant SNPs and 674 candidate genes across all traits and locations. Of the significant SNPs identified, 280 were localized in mapped quantitative trait loci intervals and proximal to SNPs identified for similar traits in previously reported Miscanthus studies, providing additional support for the importance of these genomic regions for biomass yield. Our study gave insights into the genetic basis for yield‐component traits in M. sacchariflorus that may facilitate marker‐assisted breeding for biomass yield. Genomic prediction accuracy for the yield‐related traits ranged from 0.15 to 0.52 across all locations and genetic groups. Prediction accuracies within the six genetic groupings of M. sacchariflorus were limited due to low sample sizes. Nevertheless, the Korea/NE China/Russia ( N = 237) genetic group had the highest prediction accuracy of all genetic groups (ranging 0.26–0.71), suggesting that with adequate sample sizes, there is strong potential for genomic selection within the genetic groupings of M. sacchariflorus . This study indicated that MAS and genomic prediction will likely be beneficial for conducting population‐improvement of M. sacchariflorus .

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

Sponsoring Organization:: National Science Foundation (NSF); USDOE; USDOE Office of Science (SC), Basic Energy Sciences (BES); USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: SC0012379; SC0018420

OSTI ID:: 1999273

Journal Information:: Global Change Biology. Bioenergy, Journal Name: Global Change Biology. Bioenergy Journal Issue: 11 Vol. 15; ISSN 1757-1693

Publisher:: Wiley-BlackwellCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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