Detection of a QTL for accumulating Cd in rice that enables efficient Cd phytoextraction from soil

Abe, Tadashi; Taguchi-Shiobara, Fumio; Kojima, Yoichiro; Ebitani, Takeshi; Kuramata, Masato; Yamamoto, Tetsuro; Yano, Masahiro; Ishikawa, Shinya

doi:10.1270/jsbbs.61.43

Cited by 35 publications

(16 citation statements)

References 18 publications

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“…A world rice core collection (WRC) comprising 69 accessions, which covers the genetic diversity of almost 32,000 accessions of Asian cultivated rice ( Oryza sativa L.), has been developed to explore the genetic diversity of various traits (Kojima et al2005). Using the WRC, we found a large genotypic variation in grain Cd concentration (Uraguchi et al2009) and succeeded in identifying the quantitative trait loci (QTLs) controlling Cd accumulation in rice (Abe et al2011). Therefore, the WRC is a powerful tool for evaluating the genetic diversity in total As and As speciation in rice grains, and for further genetic analysis.…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity of arsenic accumulation in rice and QTL analysis of methylated arsenic in rice grains

Kuramata

Abe

Kawasaki

et al. 2013

Rice

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BackgroundRice is a major source of dietary intake of arsenic (As) for the populations that consume rice as a staple food. Therefore, it is necessary to reduce the As concentration in rice to avoid the potential risk to human health. In this study, the genetic diversity in As accumulation and As speciation in rice grains was investigated using a world rice core collection (WRC) comprising 69 accessions grown over a 3-year period. Moreover, quantitative trait locus (QTL) analysis was conducted to identify QTLs controlling the dimethylarsinic acid (DMA) content of rice grains.ResultsThere was a 3-fold difference in the grain As concentration of WRC. Concentrations of total-As, inorganic As, and DMA were significantly affected by genotype, year, and genotype-year interaction effects. Among the WRC accessions, Local Basmati and Tima (indica type) were identified as cultivars with the lowest stable total-As and inorganic As concentrations. Using an F2 population derived from Padi Perak (a high-DMA accession) and Koshihikari (a low-DMA cultivar), we identified two QTLs on chromosome 6 (qDMAs6.1 and qDMAs6.2) and one QTL on chromosome 8 (qDMAs8) that were responsible for variations in the grain DMA concentration. Approximately 73% of total phenotypic variance in DMA was explained by the three QTLs.ConclusionsBased on the results provided, one strategy for developing rice cultivars with a low level of toxic As would be to change the proportion of organic As on the basis of a low level of total As content.Electronic supplementary materialThe online version of this article (doi:10.1186/1939-8433-6-3) contains supplementary material, which is available to authorized users.

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Section: Introductionmentioning

confidence: 99%

Genetic diversity of arsenic accumulation in rice and QTL analysis of methylated arsenic in rice grains

Kuramata

Abe

Kawasaki

et al. 2013

Rice

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“…BIL48 was used as a high-Cd accumulator, because it possesses a major quantitative trait locus (QTL) responsible for high Cd accumulation derived from Jarjan with the Koshihikari genetic background [27], and it shows synchronous panicle headings with Koshihikari by the short-day treatment. The FOV focused on the panicle (Figure 4a), and serial images of Cd movement into the panicle were monitored for 36 h (Figure 4b).…”

Section: Resultsmentioning

confidence: 99%

“…Koshihikari and a BIL derived from Koshihikari and Jarjan (BIL48) were used for the experiments conducted at the grain-filling stage. BIL48 possesses a major QTL responsible for high Cd accumulation in shoots [27]. The seeds were soaked in deionized water for 2 days at 32°C and transferred to a nylon mesh floating on 20 L of a 1/2 strength Kimura B solution.…”

Section: Methodsmentioning

confidence: 99%

Real-time imaging and analysis of differences in cadmium dynamics in rice cultivars (Oryza sativa) using positron-emitting107Cd tracer

et al. 2011

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BackgroundRice is a major source of dietary intake of cadmium (Cd) for populations that consume rice as a staple food. Understanding how Cd is transported into grains through the whole plant body is necessary for reducing rice Cd concentrations to the lowest levels possible, to reduce the associated health risks. In this study, we have visualized and quantitatively analysed the real-time Cd dynamics from roots to grains in typical rice cultivars that differed in grain Cd concentrations. We used positron-emitting107Cd tracer and an innovative imaging technique, the positron-emitting tracer imaging system (PETIS). In particular, a new method for direct and real-time visualization of the Cd uptake by the roots in the culture was first realized in this work.ResultsImaging and quantitative analyses revealed the different patterns in time-varying curves of Cd amounts in the roots of rice cultivars tested. Three low-Cd accumulating cultivars (japonica type) showed rapid saturation curves, whereas three high-Cd accumulating cultivars (indica type) were characterized by curves with a peak within 30 min after107Cd supplementation, and a subsequent steep decrease resulting in maintenance of lower Cd concentrations in their roots. This difference in Cd dynamics may be attributable to OsHMA3 transporter protein, which was recently shown to be involved in Cd storage in root vacuoles and not functional in the high-Cd accumulating cultivars. Moreover, the PETIS analyses revealed that the high-Cd accumulating cultivars were characterized by rapid and abundant Cd transfer to the shoots from the roots, a faster transport velocity of Cd to the panicles, and Cd accumulation at high levels in their panicles, passing through the nodal portions of the stems where the highest Cd intensities were observed.ConclusionsThis is the first successful visualization and quantification of the differences in whole-body Cd transport from the roots to the grains of intact plants within rice cultivars that differ in grain Cd concentrations, by using PETIS, a real-time imaging method.

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“…An F 1 plant was crossed with Koshihikari to obtain BC 1 F 1 , and then backcrossed with Koshihikari to obtain To detect the QTL for flag leaf width on chromosome 8, 95 backcrossed inbred lines (BILs) originating from the cross between Jarjan (WRC 28) and Koshihikari (Abe et al 2011;Taguchi-Shiobara et al 2011; http://www.rgrc.dna.affrc.go.jp/ineJKKBIL95.html) were planted in 2010. To develop CSSLs with a Jarjan fragment in the Koshihikari background, Jarjan was crossed with Koshihikari to obtain F 1 seeds, and an F 1 plant was backcrossed with Koshihikari to obtain BC 1 F 1 seeds.…”

Section: Plant Materialsmentioning

confidence: 99%

Natural Variation in the Flag Leaf Morphology of Rice Due to a Mutation of the NARROW LEAF 1 Gene in Oryza sativa L.

et al. 2015

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We investigated the natural variations in the flag leaf morphology of rice. We conducted a principal component analysis based on nine flag leaf morphology traits using 103 accessions from the National Institute of Agrobiological Sciences Core Collection. The first component explained 39% of total variance, and the variable with highest loading was the width of the flag leaf (WFL). A genomewide association analysis of 102 diverse Japanese accessions revealed that marker RM6992 on chromosome 4 was highly associated with WFL. In analyses of progenies derived from a cross between Takanari and Akenohoshi, the most significant quantitative trait locus (QTL) for WFL was in a 10.3-kb region containing the NARROW LEAF 1 (NAL1) gene, located 0.4 Mb downstream of RM6992. Analyses of chromosomal segment substitution lines indicated that a mutation (G1509A single-nucleotide mutation, causing an R233H amino acid substitution in NAL1) was present at the QTL. This explained 13 and 20% of total variability in WFL and the distance between small vascular bundles, respectively. The mutation apparently occurred during rice domestication and spread into japonica, tropical japonica, and indica subgroups. Notably, one accession, Phulba, had a NAL1 allele encoding only the N-terminal, or one-fourth, of the wild-type peptide. Given that the Phulba allele and the histidine-type allele showed essentially the same phenotype, the histidine-type allele was regarded as malfunctional. The phenotypes of transgenic plants varied depending on the ratio of histidine-type alleles to arginine-type alleles, raising the possibility that H 233 -type products function differently from and compete with R 233 -type products.KEYWORDS rice; flag leaf width; natural variation; Oryza sativa L.; NARROW LEAF 1 T HE leaf of grasses typically consists of a relatively narrow blade and sheath enclosing the stem, and venation is parallel in the blade and the sheath (Esau 1977). Because large leaves intercept more light, the leaf area of the blade strongly affects final yield in cereal crops (Watson 1952). To produce plants that intercept light efficiently, leaf angle has been a target in breeding programs because erect leaves can capture more sunlight (Sinclair and Sheehy 1999). It was demonstrated that a brassinosteroid-deficient mutant with erect leaves showed increased grain yield under dense planting conditions (Sakamoto et al. 2005). It is also essential to understand the mechanism of development and the natural variations in morphology of the flag leaf since photosynthesis in the top three leaf blades of the plant, especially flag leaf, makes the largest contribution to the grain yield of rice (Tanaka 1958;Yoshida 1972). The developmental processes of the flag leaf are the same as those of other leaves. In rice, the longitudinal strands in the leaf comprise the midrib, large vascular bundles, and small vascular bundles (Hoshikawa 1989). According to Inosaka (1962) and Itoh et al. (2005), the midrib and large vascular bundles initiate at the base of the...

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Detection of a QTL for accumulating Cd in rice that enables efficient Cd phytoextraction from soil

Cited by 35 publications

References 18 publications

Genetic diversity of arsenic accumulation in rice and QTL analysis of methylated arsenic in rice grains

Genetic diversity of arsenic accumulation in rice and QTL analysis of methylated arsenic in rice grains

Real-time imaging and analysis of differences in cadmium dynamics in rice cultivars (Oryza sativa) using positron-emitting107Cd tracer

Natural Variation in the Flag Leaf Morphology of Rice Due to a Mutation of the NARROW LEAF 1 Gene in Oryza sativa L.

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