Genome-wide association for β-glucan content, population structure, and linkage disequilibrium in elite oat germplasm adapted to subtropical environments

Cristiano M. Zimmer; Ian G. McNish; Kathy Esvelt Klos; Tatiana Oro; Klever M.A. Arruda; Luiz C. Gutkoski; Marcelo T. Pacheco; Kevin P. Smith; Luiz C. Federizzi

doi:10.1007/s11032-020-01182-0

Genome-wide association for β-glucan content, population structure, and linkage disequilibrium in elite oat germplasm adapted to subtropical environments

Cristiano M. Zimmer, Ian G. McNish, Kathy Esvelt Klos, Tatiana Oro, Klever M.A. Arruda, Luiz C. Gutkoski, Marcelo T. Pacheco, Kevin P. Smith, Luiz C. Federizzi

Agronomy and Plant Genetics

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Abstract

High β-glucan content is one of the main goals of oat breeding programs worldwide. However, the genomic regions and genes controlling β-glucan content in oats are not fully understood. In this sense, the objectives of this study were as follows: (i) to characterize structure and linkage disequilibrium (LD) in a panel of oat germplasm adapted to subtropical environments; and (ii) to identify genomic regions associated with oat β-glucan content. An oat panel with 413 genotypes was evaluated for β-glucan content under subtropical conditions in different years and genotyped using genotyping-by-sequencing. Population structure, LD, and genome-wide association (GWA) analyses were carried out. GWA mapping was performed for each year separately and in a multi-environment model. The UFRGS Oat Panel showed weak population structure and has great potential to elucidate many agronomic traits in subtropical environments. Seven quantitative trait loci (QTL) associated with β-glucan content were identified. These QTL are located on Mrg02, Mrg06, Mrg11, Mrg12, Mrg19, and Mrg20. The QTL located on Mrg02, Mrg06, and Mrg11 seem to be genomic regions syntenic with barley. The use of these QTL may be useful to accelerate the genetic progress of oat β-glucan content in subtropical environments.

Original language	English (US)
Article number	103
Journal	Molecular Breeding
Volume	40
Issue number	11
DOIs	https://doi.org/10.1007/s11032-020-01182-0
State	Published - Nov 1 2020

Bibliographical note

Funding Information:
The authors are thankful to the PepsiCo Agro & Discovery Laboratory/University of Minnesota for supporting the genotyping-by-sequencing. A special thanks to professor Stephen Harrison (Louisiana State University), David Eickholt (PepsiCo), and Mandy Waters (PepsiCo) for collaborating with this research.

Funding Information:
This study was supported by the Coordination for the Improvement of Higher Education Personnel (CAPES), National Council for Scientific and Technological Development (CNPq), and Rio Grande do Sul State Research Support Foundation (PRONEX/FAPERGS; grant number 16/0484-6). The first author was recipient of CNPq (process number 140273/2016-6) and CAPES (process number 88881.187633/2018-01) PhD fellowships. Acknowledgments

Publisher Copyright:
© 2020, Springer Nature B.V.

Keywords

Avena sativa L
GWAS
Subtropical environments
β-Glucan content

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Zimmer, C. M., McNish, I. G., Klos, K. E., Oro, T., Arruda, K. M. A., Gutkoski, L. C., Pacheco, M. T., Smith, K. P., & Federizzi, L. C. (2020). Genome-wide association for β-glucan content, population structure, and linkage disequilibrium in elite oat germplasm adapted to subtropical environments. Molecular Breeding, 40(11), Article 103. https://doi.org/10.1007/s11032-020-01182-0

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abstract = "High β-glucan content is one of the main goals of oat breeding programs worldwide. However, the genomic regions and genes controlling β-glucan content in oats are not fully understood. In this sense, the objectives of this study were as follows: (i) to characterize structure and linkage disequilibrium (LD) in a panel of oat germplasm adapted to subtropical environments; and (ii) to identify genomic regions associated with oat β-glucan content. An oat panel with 413 genotypes was evaluated for β-glucan content under subtropical conditions in different years and genotyped using genotyping-by-sequencing. Population structure, LD, and genome-wide association (GWA) analyses were carried out. GWA mapping was performed for each year separately and in a multi-environment model. The UFRGS Oat Panel showed weak population structure and has great potential to elucidate many agronomic traits in subtropical environments. Seven quantitative trait loci (QTL) associated with β-glucan content were identified. These QTL are located on Mrg02, Mrg06, Mrg11, Mrg12, Mrg19, and Mrg20. The QTL located on Mrg02, Mrg06, and Mrg11 seem to be genomic regions syntenic with barley. The use of these QTL may be useful to accelerate the genetic progress of oat β-glucan content in subtropical environments.",

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note = "Funding Information: The authors are thankful to the PepsiCo Agro & Discovery Laboratory/University of Minnesota for supporting the genotyping-by-sequencing. A special thanks to professor Stephen Harrison (Louisiana State University), David Eickholt (PepsiCo), and Mandy Waters (PepsiCo) for collaborating with this research. Funding Information: This study was supported by the Coordination for the Improvement of Higher Education Personnel (CAPES), National Council for Scientific and Technological Development (CNPq), and Rio Grande do Sul State Research Support Foundation (PRONEX/FAPERGS; grant number 16/0484-6). The first author was recipient of CNPq (process number 140273/2016-6) and CAPES (process number 88881.187633/2018-01) PhD fellowships. Acknowledgments Publisher Copyright: {\textcopyright} 2020, Springer Nature B.V.",

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Genome-wide association for β-glucan content, population structure, and linkage disequilibrium in elite oat germplasm adapted to subtropical environments

Abstract

Bibliographical note

Keywords

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