Publications

Wheat plants were grown hydroponically and fed with two sulphate sources differing in stable isotope composition, one having a δ 34 S of 13·7‰ and the other 4·1‰. Plant sulphur (S) isotope ratios were determined using an on‐line continuous flow‐isotope ratio mass spectrometer. This method greatly simplified the procedure for the measurement of S isotope ratios, and was found to be precise for samples containing > 1 mg S g –1 dry weight. The δ 34 S values of plant shoots, which had been grown on a single sulphate source, were very close to the source values, suggesting little isotope fractionation during sulphate uptake and transport from roots to shoots. By changing the sulphate sources at different growth stages, it was possible to estimate S accumulation and redistribution within different plant parts. At maturity, wheat grain derived 14, 30, 6 and 50% of its S from the accumulation during the following successive growth stages: between emergence and early stem extension, between stem extension and flag leaf emergence, between flag leaf emergence and anthesis, and after anthesis, respectively. It was estimated that 39, 32 and 52% of the S present in the flag leaves, older leaves and stems, respectively, at anthesis, was exported during the postanthesis period. These results demonstrate considerable cycling of S within wheat plants, and highlight the importance of S uptake after anthesis to the accumulation of S in grain under the experimental conditions employed.

No abstract is provided for this article.

Applications of manure and chemical fertilizers can significantly modulate the bacterial communities in soil, but the effects on the soil antibiotic resistome and the underlying mechanisms remain largely unclear. In the present study, antibiotic resistance genes (ARGs) and bacterial communities were characterized using high-throughput quantitative PCR and Illumina HiSeq sequencing, respectively, in soils from a long-term (25 years) field experiment. Treatments included no fertilizers (control), chemical fertilizers (NPK), NPK with straw return (NPKS), pig manure (M), and M with chemical fertilizers (NPKM). Both NPK and NPKS decreased soil pH and induced a substantial shift in the bacterial communities, but had only moderate effect on the ARG diversity and abundance. The effect of straw return was hindered by the dominant influence of NPK. In comparison, additions of pig manure (M and NPKM) maintained the diversity of bacterial community and significantly influenced the ARG profiles by introducing extra ARGs from pig manure and boosting the soil indigenous ARG members. Manured soils harboured clusters of ARGs and transposase genes which were relatively independent of bacterial phylogenetic lineages, suggesting a strong co-occurrence of ARGs in soil bacteria which may result from horizontal gene transfers (HGT). Our results indicate the importance of HGT in the maintenance of ARG composition in agricultural soils, especially those receiving long-term manure applications.

Rapid industrialization in China during the last three decades has resulted in widespread contamination of Cd in agricultural soils. A considerable proportion of the rice grain grown in some areas of southern China has Cd concentrations exceeding the Chinese food limit, raising widespread concern regarding food safety. In this review, we summarize rice grain Cd concentrations in national Chinese markets and in field surveys from contaminated areas, and analyze the potential health risk associated with increased dietary Cd intake. For subsistence rice farmers living in some contaminated areas of southern China who mainly consume locally-produced Cd-contaminated rice, their estimated dietary Cd intake is now comparable to that for the population in the region of Japan where the Itai-Itai disease was first reported. Interventions must be taken urgently to reduce Cd intake for these farmers. We also analyze i) the main reasons causing elevated grain Cd concentrations in southern China, ii) the dominant biogeochemical processes controlling the solubility of Cd in paddy soils, and iii) molecular mechanisms for the uptake and translocation of Cd in rice plants. Based on these analyses, we propose a number of countermeasures to address soil Cd contamination, including i) mitigation of Cd transfer from paddy soils to rice grain, and ii) intervention in those farmers who consume home-grown Cd-contaminated rice. Liming to increase soil pH to 6.5 and gene editing biotechnology are effective strategies to decrease Cd accumulation in rice grain. For these local farmers with high-Cd exposure risk, local governments should monitor the Cd concentration in their home-grown rice and exchange those high-Cd rice with low-Cd rice in order to reduce their dietary Cd intake.

Analysis of naturally occurring isotopic variations is a promising tool for investigating Zn transport and cycling in geological and biological settings. Here, we present the recently installed double-spike (DS) technique at the MAGIC laboratories at Imperial College London. The procedure improves on previous published DS methods in terms of ease of measurement and precisions obtained. The analytical method involves addition of a (64)Zn-(67)Zn double-spike to the samples prior to digestion, separation of Zn from the sample matrix by ion exchange chromatography, and isotopic analysis by multiple-collector inductively coupled plasma mass spectrometry. The accuracy and reproducibility of the method were validated by analyses of several in-house and international elemental reference materials. Multiple analyses of pure Zn standard solutions consistently yielded a reproducibility of about ±0.05‰ (2 SD) for δ(66)Zn, and comparable precisions were obtained for analyses of geological and biological materials. Highly fractionated Zn standards analyzed by DS and standard sample bracketing yield slightly varying results, which probably originate from repetitive fractionation events during manufacture of the standards. However, the δ(66)Zn values (all reported relative to JMC Lyon Zn) for two less fractionated in-house Zn standard solutions, Imperial Zn (0.10 ± 0.08‰: 2 SD) and London Zn (0.08 ± 0.04‰), are within uncertainties to data reported with different mass spectrometric techniques and instruments. Two standard reference materials, blend ore BCR 027 and ryegrass BCR 281, were also measured, and the δ(66)Zn were found to be 0.25 ± 0.06‰ (2 SD) and 0.40 ± 0.09‰, respectively. Taken together, these standard measurements ascertain that the double-spike methodology is suitable for accurate and precise Zn isotope analyses of a wide range of natural samples. The newly installed technique was consequently applied to soil samples and soil leachates to investigate the isotopic signature of plant available Zn. We find that the isotopic composition is heavier than the residual, indicating the presence of loosely bound Zn deposited by atmospheric pollution, which is readily available to plants.

Summary Soil contamination with arsenic (As) can cause phytotoxicity and reduce crop yield. The mechanisms of As toxicity and tolerance are not fully understood. In this study, we used a forward genetics approach to isolate a rice mutant, ahs1 , that exhibits hypersensitivity to both arsenate and arsenite. Through genomic resequencing and complementation tests, we identified OsLPD1 as the causal gene, which encodes a putative lipoamide dehydrogenase. OsLPD1 was expressed in the outer cell layer of roots, root meristem cells, and in the mesophyll and vascular tissues of leaves. Subcellular localization and immunoblot analysis demonstrated that OsLPD1 is localized in the stroma of plastids. In vitro assays showed that OsLPD1 exhibited lipoamide dehydrogenase (LPD) activity, which was strongly inhibited by arsenite, but not by arsenate. The ahs1 and OsLPD1 knockout mutants exhibited significantly reduced NADH/NAD + and GSH/GSSG ratios, along with increased levels of reactive oxygen species and greater oxidative stress in the roots compared with wild‐type (WT) plants under As treatment. Additionally, loss‐of‐function of OsLPD1 also resulted in decreased fatty acid concentrations in rice grain. Taken together, our finding reveals that OsLPD1 plays an important role for maintaining redox homeostasis, conferring tolerance to arsenic stress, and regulating fatty acid biosynthesis in rice.

BACKGROUND:Sorbitol-aldose reductase (polyol) pathway genes have been strongly linked to diabetic retinopathy. Polymorphisms in these genes may affect their functions and influence the risk of retinopathy. In this work, we investigated the influence of the rs759853 polymorphism of ALR2 gene and rs2055858 and rs3759890 polymorphisms of SDH gene on risk of diabetic retinopathy among Han Chinese. MATERIAL AND METHODS:We included 3,000 subjects in our study, of which 1,500 were patients with diabetic retinopathy and 1,500 were controls without the said condition. Among the cases, 750 had the non-proliferative diabetic retinopathy (NPDR) and 750 had proliferative diabetic retinopathy (PDR). The polymorphisms were genotyped using established methods and logistic regression analysis was used to determine whether the polymorphisms were associated with risk of diabetic retinopathy. RESULTS:We found that variants of ALR2 rs759853 polymorphism were significantly associated with an increased risk of diabetic retinopathy, whereas variants of SDH rs2055858 polymorphism were significantly associated with a lower risk. For the former, an odds ratio (OR) of 1.46 were noted for the heterozygous genotype (95% CI=1.25–1.70, P<0.01) and the homozygous variant genotype (OR=1.90, 95% CI=1.40–2.60, P<0.01). For SDH rs2055858 polymorphism, an OR of 0.51 (95% CI=0.43–0.61, P<0.01) and 0.34 (95% CI=0.28–0.42, P<0.01) was observed for heterozygous and homozygous variant genotype respectively. Subgroup analysis based on NPDR and PDR showed a similar finding as the combined results. CONCLUSIONS:ALR2 rs759853 and SDH rs2055858 polymorphisms were respectively associated with a higher and lower risk of diabetic retinopathy.

Tea is a strong accumulator of both aluminium (Al) and fluoride (F). We tested the hypothesis that Al helps detoxify F in tea plants by forming Al-F comple

The mineral concentrations in cereals are important for human health, especially for individuals who consume a cereal subsistence diet. A number of elements, such as zinc, are required within the diet, while some elements are toxic to humans, for example arsenic. In this study we carry out genome-wide association (GWA) mapping of grain concentrations of arsenic, copper, molybdenum and zinc in brown rice using an established rice diversity panel of ∼300 accessions and 36.9 k single nucleotide polymorphisms (SNPs). The study was performed across five environments: one field site in Bangladesh, one in China and two in the US, with one of the US sites repeated over two years. GWA mapping on the whole dataset and on separate subpopulations of rice revealed a large number of loci significantly associated with variation in grain arsenic, copper, molybdenum and zinc. Seventeen of these loci were detected in data obtained from grain cultivated in more than one field location, and six co-localise with previously identified quantitative trait loci. Additionally, a number of candidate genes for the uptake or transport of these elements were located near significantly associated SNPs (within 200 kb, the estimated global linkage disequilibrium previously employed in this rice panel). This analysis highlights a number of genomic regions and candidate genes for further analysis as well as the challenges faced when mapping environmentally-variable traits in a highly genetically structured diversity panel.

Compost-based organic fertilizers often contain high levels of antibiotic resistance genes (ARGs) and mobile genetic elements (MGEs). Previous studies focused on quantification of total ARGs and MGEs. For a more accurate risk assessment of the dissemination risk of antibiotic resistance, it is necessary to quantify the intracellular and extracellular distribution of ARGs and MGEs. In the present study, extracellular ARGs and MGEs (eARGs and eMGEs) and intracellular ARGs and MGEs (iARGs and iMGEs) were separately analyzed in 51 commercial composts derived from different raw materials by quantitative polymerase chain reaction (qPCR) and metagenomic sequencing. Results showed that eARGs and eMGEs accounted for 11–56 % and 4–45 % of the total absolute abundance of ARGs and MGEs, respectively. Comparable diversity, host composition and association with MGEs were observed between eARGs and iARGs. Contents of high-risk ARGs were similar between eARGs and iARGs, with high-risk ARGs in the two forms accounting for 6.7 % and 8.2 % of the total abundances, respectively. Twenty-four percent of the overall ARGs were present in plasmids, while 56.7 % of potentially mobile ARGs were found to be associated with plasmids. Variation partitioning analysis, null model and neutral community model indicated that the compositions of both eARGs and iARGs were largely driven by deterministic mechanisms. These results provide important insights into the cellular distribution of ARGs in manure composts that should be paid with specific attention in risk assessment and management.