Association Study Reveals Genetic Loci Responsible for Arsenic, Cadmium and Lead Accumulation in Rice Grain in Contaminated Farmlands

Liu, Xiu-Yan; Chen, Sunlu; Chen, Mingxue; Zheng, Guangyong; Peng, Yi; Shi, Xiaoliang; Qin, Pinquan; Xu, Xiangyang; Teng, Sheng

doi:10.3389/fpls.2019.00061

Cited by 37 publications

(27 citation statements)

References 70 publications

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“…Together, it is plausible that GCC7 has a capacity to interact with qGCd7.1 regulating the Cd uptake. Using genome-wide association studies, Liu et al [61] reported 17 QTLs associated with grain Cd concentration. Among them, a novel candidate gene encoding OsARM1, a MYB transcription factor, previously known as responsible for freezing tolerance [62][63][64], was predicted to respond to Cd stress.…”

Section: Current Trends In Breeding Programsmentioning

confidence: 99%

Reducing Cadmium Accumulation in Plants: Structure–Function Relations and Tissue-Specific Operation of Transporters in the Spotlight

Huang

Duan

et al. 2020

Plants

101

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Cadmium (Cd) is present in many soils and, when entering the food chain, represents a major health threat to humans. Reducing Cd accumulation in plants is complicated by the fact that most known Cd transporters also operate in the transport of essential nutrients such as Zn, Fe, Mn, or Cu. This work summarizes the current knowledge of mechanisms mediating Cd uptake, radial transport, and translocation within the plant. It is concluded that real progress in the field may be only achieved if the transport of Cd and the above beneficial micronutrients is uncoupled, and we discuss the possible ways of achieving this goal. Accordingly, we suggest that the major focus of research in the field should be on the structure–function relations of various transporter isoforms and the functional assessment of their tissue-specific operation. Of specific importance are two tissues. The first one is a xylem parenchyma in plant roots; a major “controller” of Cd loading into the xylem and its transport to the shoot. The second one is a phloem tissue that operates in the last step of a metal transport. Another promising and currently underexplored avenue is to understand the role of non-selective cation channels in Cd uptake and reveal mechanisms of their regulation.

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Section: Current Trends In Breeding Programsmentioning

confidence: 99%

Reducing Cadmium Accumulation in Plants: Structure–Function Relations and Tissue-Specific Operation of Transporters in the Spotlight

Huang

Duan

et al. 2020

Plants

101

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“…Genome-wide association study (GWAS) can overcome these two limitations and is a powerful tool to identify genome regions associating with complex traits 27 , 28 . Through a GWAS of 276 diverse accessions, 60 QTLs were detected for accumulation of arsenic, cadmium, and lead in rice 29 . Zhao et al 30 identified 14 QTLs associated with Cd accumulation in rice by GWAS and predicted OsNRAMP2 as the candidate gene of qCd3–2 .…”

Section: Introductionmentioning

confidence: 99%

QTL mapping and candidate gene analysis of cadmium accumulation in polished rice by genome-wide association study

Pan

Liu

et al. 2020

Sci Rep

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cadmium (cd) accumulation in rice is a serious threat to food safety and human health. Breeding rice varieties with low Cd accumulation is one of the most effective approaches to reducing health risks from Cd-polluted rice. However, the genetic basis of Cd accumulation in grains, especially in indica rice varieties, has not been fully elucidated. The evaluation of Cd-accumulation capacity was conducted among 338 diverse rice accessions grown in Cd-contaminated soils with different Cd contents. Thirteen rice lines with relatively low Cd accumulation, including six indica rice lines, were identified. Then, 35 QTLs significantly associated with Cd accumulation were identified through sequencing-based SNP discovery and a genome-wide association study (GWAS) in the two experimental years, and only qCd8-1 was detected in both years. Among of them, nine QTLs were co-localized with identified genes or QTLs. A novel QTL, qCd1-3, with the lowest P value was selected for further LD decay analysis and candidate gene prediction. We found differential expression of OsABCB24 between high-Cd-accumulative and low-Cd-accumulative accessions, suggesting it may be a candidate gene for qCd1-3 associated with low Cd accumulation. These results may be helpful for further exploiting novel functional genes related to cd accumulation and developing rice variety with low cd accumulation through marker-assisted breeding. Rice (Oryza sativa L.) is one of the world's staple food crops. Due to rapid industrialization and urbanization in recent years, heavy metal contamination in arable soils has become an increasingly severe problem in China. Among the heavy metals, cadmium (Cd) is the most serious contaminant. Reportedly, average Cd concentrations in paddy fields of China reached 0.23 mg/kg, and the highest concentration of 0.73 mg/kg was recorded from Hunan province 1. Recently, Cd-polluted rice from Hunan, the largest rice-producing province in China, has become a particular concern in food safety. It has been reported that rice tends to accumulate more Cd than other cereals 2. Moreover, the acidification of paddy soil caused by frequent applications of nitrogen fertilizer increases Cd solubility and results in more Cd absorption by rice plants 3. In rice, Cd inhibits growth and development by causing misfolding of functional proteins and interfering the homeostasis of other essential metal ions 4. For people, excessive accumulation of Cd may result in diseases such as cancer, anemia, heart failure, hypertension, as well as other chronic disorders 5,6. A range of measures have been adopted to reduce Cd bioaccumulation, including soil remediation, Cd immobilization and transgenic techniques. The most promising strategy is to screen and breed rice varieties with low Cd accumulation, especially crops grown on slightly to moderately Cd-contaminated soils 2. Genetic variation naturally occurs among rice varieties in their abilities to accumulate Cd. Thus, extensive screening has been carried out to identify rice genetic resources with low Cd acc...

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“…Previous research has also demonstrated that HvCBT1 (CaM binding transporter) in barley, AtCNGC1 (cyclic nucleotide-gated ion channel) in Arabidopsis and NtCBP4 in tobacco, as one of the nonselective entry pathways used by Pb [28][29][30][31]. For further exploring genetic factors responding to Pb stress, Genome-wide association study (GWAS), a powerful tool to detect the genetic architecture of complex traits, has been widely used in rice, maize and grasses [12,[32][33][34][35][36][37][38][39]. GWAS has also been used to study HMs concentration, tolerance to Cd and other abiotic stress related quantitative trait loci (QTLs), but not the molecular mechanism of Pb tolerance in B. napus [23,[40][41][42][43].…”

Section: Introductionmentioning

confidence: 99%

Genome-wide association study (GWAS) reveals genetic loci of lead (Pb) tolerance during seedling establishment in rapeseed (Brassica napus L.)

Zhang

Xiao

et al. 2020

BMC Genomics

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Background: Lead (Pb) pollution in soil has become one of the major environmental threats to plant growth and human health. Safe utilization of Pb contaminated soil by phytoremediation require Pb-tolerant rapeseed (Brassica napus L.) accessions. However, breeding of new B. napus cultivars tolerance to Pb stress has been restricted by limited knowledge on molecular mechanisms involved in Pb tolerance. This work was carried out to identify genetic loci related to Pb tolerance during seedling establishment in rapeseed. Results: Pb tolerance, which was assessed by quantifying radicle length (RL) under 0 or 100 mg/L Pb stress condition, shown an extensive variation in 472 worldwide-collected rapeseed accessions. Based on the criterion of relative RL > 80%, six Pb-tolerant genotypes were selected. Four quantitative trait loci (QTLs) associated with Pb tolerance were identified by Genome-wide association study. The expression level of nine promising candidate genes, including GSTUs, BCATs, UBP13, TBR and HIPP01, located in these four QTL regions, were significantly higher or induced by Pb in Pb-tolerant accessions in comparison to Pb-sensitive accessions.Conclusion: To our knowledge, this is the first study on Pb-tolerant germplasms and genomic loci in B. napus. The findings can provide valuable genetic resources for the breeding of Pb-tolerant B. napus cultivars and understanding of Pb tolerance mechanism in Brassica species.

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Association Study Reveals Genetic Loci Responsible for Arsenic, Cadmium and Lead Accumulation in Rice Grain in Contaminated Farmlands

Cited by 37 publications

References 70 publications

Reducing Cadmium Accumulation in Plants: Structure–Function Relations and Tissue-Specific Operation of Transporters in the Spotlight

Reducing Cadmium Accumulation in Plants: Structure–Function Relations and Tissue-Specific Operation of Transporters in the Spotlight

QTL mapping and candidate gene analysis of cadmium accumulation in polished rice by genome-wide association study

Genome-wide association study (GWAS) reveals genetic loci of lead (Pb) tolerance during seedling establishment in rapeseed (Brassica napus L.)

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