Miscanthus sinensis Multi-Location Trial: Phenotypic Analysis, Genome-Wide Association, and Genomic Prediction

CABBI Theme: Feedstock Production

Keywords: Biomass Analytics, Genomics

Citation

Clark, L.V., Dwiyanti, M.S., Anzoua, K.G., Brummer, J.E., Ghimire, B.K., Głowacka, K., Hall, M., Heo, K., Jin, X., Lipka, A.E., Peng, J., Yamada, T., Yoo, J.H., Yu, C.Y., Zhao, H., Long, S.P., Sacks, E.J. March 25, 2019. “Miscanthus sinensis Multi-Location Trial: Phenotypic Analysis, Genome-Wide Association, and Genomic Prediction.” University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-0790815_V3

Locations of significantly associated SNPs and QTL from this study and others for biomass yield, compressed circumference, and culm length in Miscanthus with respect to the Sorghum biocolor reference genome.

Overview

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. sinensisaccessions. 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. x giganteus clones for biomass.

Data

Genotypic and Phenotypic Datasets and Code

Miscanthus Accession Information (1.1 MB)

Individual SNP Markers (7.3 MB)

Genetic Diversity Accession PRJNA207721

Related Publication

Clark, L.V., Dwiyanti, M.S., Anzoua, K.G., Brummer, J.E., Ghimire, B.K., Głowacka, K., Hall, M., Heo, K., Jin, X., Lipka, A.E., Peng, J., Yamada, T., Yoo, J.H., Yu, C.Y., Zhao, H., Long, S.P., Sacks, E.J. April 10, 2019. “Genome‐Wide Association and Genomic Prediction for Biomass Yield in a Genetically Diverse Miscanthus sinensis Germplasm Panel Phenotyped at Five Locations in Asia and North America.” GCB Bioenergy. DOI: 10.1111/gcbb.12620.