Genetic dissection of ozone tolerance in rice (Oryza sativa L.) by a genome-wide association study

Abstract

Highlight:A genome-wide association study with rice revealed a wide range of natural variation to ozone stress and identified candidate loci affecting nine traits of physiological and agronomical importance.

Loci, genes, and mechanisms associated with tolerance to ferrous iron toxicity in rice (Oryza sativa L.)

“…In the association mapping, we followed an approach based on the analysis of LD blocks surrounding significant SNPs, as previously adopted in an association study on tropospheric ozone stress (Ueda et al 2015). The resolution of association mapping typically depends on the LD: fast LD decay leads to high resolution of mapping, but requires a large number of markers to take advantage of many recombination events (Han and Huang 2013;Huang and Han 2014).…”

A Novel Gene, OZONE-RESPONSIVE APOPLASTIC PROTEIN1, Enhances Cell Death in Ozone Stress in Rice

“…Therefore, identification of the genetic factors underlying the formation of visible symptoms would potentially have a large effect on crop production in the future. Although no or only weak correlations between symptom formation and yield were seen when rice cultivars with very heterogeneous genetic backgrounds were tested (Sawada and Kohno, 2009;Ueda et al, 2015), the implications for yield became more apparent when genetically similar lines differing in symptom formation were compared (Frei et al, 2012;Wang et al, 2014). In this study, we characterized OsORAP1, which emerged as a candidate gene for ozone stress tolerance (i.e.…”

“…A number of previous studies have determined genetic factors associated with ozone tolerance in rice, suggesting that this trait is controlled by multiple medium-effect loci rather than a single large-effect locus (Frei, 2015;Ueda et al, 2015). In a study by Frei et al (2008), several ozone-related quantitative trait loci (QTLs) were identified using a mapping population derived from the contrasting cultivars Nipponbare (susceptible) and Kasalath (tolerant).…”

Breeding of ozone resistant rice: Relevance, approaches and challenges

“…Disadvantages of this method can be the extreme morphological and phenological heterogeneity of very diverse population, which can complicate phenotyping experiments, or biased genetic population structures, which can lead to false positive or false negative statistical associations between genotype and phenotype. Ueda et al (2014) conducted the first GWAS for ozone tolerance in any crop species using a population of 328 rice accessions representing the entire genetic diversity and all subgroups (temperate japonica, tropical japonica, indica and aus) of Asian rice (Oryza sativa L.). In a chamber experiment, plants were exposed to ozone (60 ppb, 7 h per day) throughout the season, and three additional acute ozone shocks of 150 ppb for one day, respectively, to simulate episodes of acute ozone stress.…”