Association mapping identifies quantitative trait loci (QTL) for digestibility in rice straw.

Autor: Nguyen DT; Plant Biotechnology Division,, Field Crops Research Institute (FCRI), Hai Duong, Vietnam.; School of Agriculture and Environment, University of Western Australia (UWA), Crawley, WA Australia., Gomez LD; Centre for Novel Agricultural Products (CNAP), University of York (UoY), Wentworth Way, York, UK., Harper A; Centre for Novel Agricultural Products (CNAP), University of York (UoY), Wentworth Way, York, UK., Halpin C; Division of Plant Sciences, School of Life Sciences, University of Dundee (UoD), Dundee, UK., Waugh R; Division of Plant Sciences, School of Life Sciences, University of Dundee (UoD), Dundee, UK.; Cell, and Molecular Genetics, The James Hutton Institute (JHI), Invergowrie Dundee, UK.; School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Adelaide, SA Australia., Simister R; Centre for Novel Agricultural Products (CNAP), University of York (UoY), Wentworth Way, York, UK., Whitehead C; Centre for Novel Agricultural Products (CNAP), University of York (UoY), Wentworth Way, York, UK., Oakey H; Division of Plant Sciences, School of Life Sciences, University of Dundee (UoD), Dundee, UK.; School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Adelaide, SA Australia., Nguyen HT; Plant Biotechnology Division,, Field Crops Research Institute (FCRI), Hai Duong, Vietnam., Nguyen TV; Vietnam Academy of Agricultural Sciences, Hanoi, Vietnam., Duong TX; Plant Biotechnology Division,, Field Crops Research Institute (FCRI), Hai Duong, Vietnam., McQueen-Mason SJ; Centre for Novel Agricultural Products (CNAP), University of York (UoY), Wentworth Way, York, UK.
Jazyk: angličtina
Zdroj: Biotechnology for biofuels [Biotechnol Biofuels] 2020 Oct 08; Vol. 13, pp. 165. Date of Electronic Publication: 2020 Oct 08 (Print Publication: 2020).
DOI: 10.1186/s13068-020-01807-8
Abstrakt: Background: The conversion of lignocellulosic biomass from agricultural waste into biofuels and chemicals is considered a promising way to provide sustainable low carbon products without compromising food security. However, the use of lignocellulosic biomass for biofuel and chemical production is limited by the cost-effectiveness of the production process due to its recalcitrance to enzymatic hydrolysis and fermentable sugar release (i.e., saccharification). Rice straw is a particularly attractive feedstock because millions of tons are currently burned in the field each year for disposal. The aim of this study was to explore the underlying natural genetic variation that impacts the recalcitrance of rice ( Oryza sativa ) straw to enzymatic saccharification. Ultimately, we wanted to investigate whether we could identify genetic markers that could be used in rice breeding to improve commercial cultivars for this trait. Here, we describe the development and characterization of a Vietnamese rice genome-wide association panel, high-throughput analysis of rice straw saccharification and lignin content, and the results from preliminary genome-wide association studies (GWAS) of the combined data sets. We identify both QTL and plausible candidate genes that may have an impact on the saccharification of rice straw.
Results: We assembled a diversity panel comprising 151 rice genotypes ( Indica and Japonica types) from commercial, historical elite cultivars, and traditional landraces grown in Vietnam. The diversity panel was genotyped using genotype by sequencing (GBS) methods yielding a total of 328,915 single nucleotide polymorphisms (SNPs). We collected phenotypic data from stems of these 151 genotypes for biomass saccharification and lignin content. Using GWAS on the indica genotypes over 2 years we identified ten significant QTL for saccharification (digestibility) and seven significant QTL for lignin. One QTL on chromosome 11 occurred in both GWAS for digestibility and for lignin. Seven QTL for digestibility, on CH2, CH6, CH7, CH8, and CH11, were observed in both years of the study. The QTL regions for saccharification include three potential candidate genes that have been previously reported to influence digestibility: OsAT10 ; OsIRX9 ; and OsMYB58/63-L .
Conclusions: Despite the difficulties associated with multi-phasic analysis of complex traits in novel germplasm, a moderate resolution GWAS successfully identified genetic associations encompassing both known and/or novel genes involved in determining the saccharification potential and lignin content of rice straw. Plausible candidates within QTL regions, in particular those with roles in cell wall biosynthesis, were identified but will require validation to confirm their value for application in rice breeding.
Competing Interests: Competing interestsThe authors declare that they have no competing interests.
(© The Author(s) 2020.)
Databáze: MEDLINE
Externí odkaz:
Nepřihlášeným uživatelům se plný text nezobrazuje