ArticleRice (New York, N.Y.)2019
Genetic loci regulating arsenic content in rice grains when grown flooded or under alternative wetting and drying irrigation.
Article in Rice (New York, N.Y.), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 39 citations in OpenAlex.
- Haplotype-based multi-locus genome-wide association study reveals genomic regions associated with reproductive stage high temperature stress tolerance in rice.Plant molecular biology · 2026Article
- Aus rice: a source of promising donor genotypes for low N tolerance under field conditions.Scientific reports · 2026Article
- Multi-Experiment and Multi-Locus Genome-Wide Association Mapping for Grain Arsenic in Rice Population.Plant direct · 2025Article
- Recent Advances in Transcriptome Analysis Within the Realm of Low Arsenic Rice Breeding.Plants (Basel, Switzerland) · 2025Review
- Review
- The Reaction of Rice Growth to the Arsenic Contamination under Various Irrigation Methods.Plants (Basel, Switzerland) · 2024Article
- Identification of genomic loci regulating grain iron content inFood and energy security · 2022Article
- Genome-Scale Profiling and High-Throughput Analyses Unravel the Genetic Basis of Arsenic Content Variation in Rice.Frontiers in plant science · 2022Article
- Distribution characteristics of selenium, cadmium and arsenic in rice grains and their genetic dissection by genome-wide association study.Frontiers in genetics · 2022Article
- Editorial: Natural Variations and Genetic Constraints on Plant Nutrition.Frontiers in genetics · 2022Article
- A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica.Scientific reports · 2021Article
- Cadmium uptake reduction in paddy rice with a combination of water management, soil application of calcium magnesium phosphate and foliar spraying of Si/Se.Environmental science and pollution research international · 2021Article
- Genetic loci regulating cadmium content in rice grains.Euphytica: Netherlands journal of plant breeding · 2021Article
- Identification of Promising Genotypes Through Systematic Evaluation for Arsenic Tolerance and Exclusion in Rice (Frontiers in plant science · 2021Article
- Relationships Among Arsenic-Related Traits, Including Rice Grain Arsenic Concentration and Straighthead Resistance, as Revealed by Genome-Wide Association.Frontiers in genetics · 2021Article
- Univariate and Multivariate QTL Analyses Reveal Covariance Among Mineral Elements in the Rice Ionome.Frontiers in genetics · 2021Article
- Grain Inorganic Arsenic Content in Rice Managed Through Targeted Introgressions and Irrigation Management.Frontiers in plant science · 2020Article
- Genome-Wide Association Mapping for Salt Tolerance of Rice Seedlings Grown in Hydroponic and Soil Systems Using the Bengal and Assam Aus Panel.Frontiers in plant science · 2020Article
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundRice is a global staple crop, being the main calorific component of many people living subsistence livelihoods. Rice can accumulate toxic elements such as arsenic, with the crop water management strongly affecting uptake. This study utilises the Bengal and Assam Aus Panel to conduct genome wide association (GWA) mapping for arsenic in shoots and grains of rice grown over 2 years under continually flooded (CF) and alternate wetting and drying (AWD). The aim was to assess genotype by water management interaction, identify quantitative trait loci (QTL) for arsenic accumulation, and propose candidate genes for lowering grain arsenic.
resultsAWD significantly reduced grain arsenic across all cultivars on average by 15.7 and 15.1% in year 1 and 2 respectively and shoot arsenic by 27.0% compared to the plants grown under CF. There was a weak cultivar by treatment interaction for grain for arsenic. All traits were strongly influenced by cultivar. GWA mapping identified a large number of 74 individual QTLs for arsenic, with six QTLs showing stability across years and/or water treatments. Three of the loci (one on chromosome 3, one on chromosome 4, and one on chromosome 5) were investigated in detail using an approach of clustering cultivars that had similar haplotypes for the QTL regions and then looking at the phenotypic values across the clusters. Two of the identified QTLs co-localised with known genes involved in arsenic accumulation, including Lsi2 which has not previously been reported to underlie a grain arsenic QTL.
conclusionsThis study has identified a number of novel QTLs for arsenic accumulation, as well as cultivars that consistently accumulate less arsenic over multiple field traits. The use of a haplotype clustering approach after GWA mapping has allowed for the effect, in terms of arsenic accumulation, to be determined for cultivars that share similar genomic sequence. Allocating nine high yielding Bangladeshi cultivars to these clusters has identified the potential of utilising these QTLs in breeding programmes; for example, incorporation of the QTL on chromosome 5 should decrease grain arsenic in elite high yielding Bangladeshi cultivars by 10% in all high yielding cultivars studied.
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