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Alternate wetting and drying (AWD) irrigation was reported to increase rice root activity and element bioavailability, which results in enhanced heavy metal (HM) absorption and this HM ends up in rice grains. HM uptake was also affected by the levels of phosphorus (P) fertilizer application. HMs enter food chain via consumption of rice grains and cause health problems. In this study, we compared the differences in grain yield, grain quality, water use efficiency (WUE), partial factor productivity of applied P (PFPp), HM contents in different tissues and transfer coefficient (TC) of HMs under a combination of treatments involving two irrigation regimes (continuous flooding (CF) and AWD irrigation) and three P fertilizer application levels (0.4 g P2O5/kg soil, HP; 0.2 g P2O5/kg soil, MP; 0 g P2O5/kg soil, LP). Compared to CF, AWD irrigation increased grain yield (without reducing grain quality), decreased irrigation water use and the number of irrigation events needed and improved WUE and PFPp at all three P fertilizer application levels, while the accumulation of HMs in grains increased when more P was applied. This accumulation of HMs in grains thus requires immediate attention to the level of P fertilizer application and its optimization in water-saving AWD irrigation to minimize grain HM content.

Alternate wetting and drying (AWD) irrigation has been widely used to replace continuous flooding (CF), which does not result in yield loss while improving water productivity. However, it is still unexplored as to how this agricultural practice would affect gene expression to control plant physiology. In this study, we found that photosynthetic rate (Pn), stomatal conductance (Gs), transpiration rate (Tr), chlorophyll (Chl) content, and leaf water potential (Lwp) significantly decreased while abscisic acid (ABA) content and water use efficiency (WUE) increased when soil water potential reached to −15 kPa in the AWD irrigation regime. We then analyzed the differences between AWD and CF irrigation practices in transcriptomic profiles for flag leaves. Genes were found to be differentially expressed in photosynthesis related pathways namely, Chl biosynthesis, photosynthesis‐antenna proteins pathway, photosynthesis process, and ABA signal transduction pathway. The study provides important information on the morphological adaptations observed in the flag leaves in response to AWD irrigation, which will act as a basic framework to conduct molecular studies for improving rice cultivation.

As one of the most widely promoted water-saving irrigation strategies for rice, alternate wetting and drying irrigation (AWD) can not only save water but also increase mineral nutrient use efficiency. In this study, we compared the growth conditions of four rice varieties (two lowland and two upland varieties) under three irrigation regimes: continuously flooded (CF), alternate wetting and moderate soil drying (AWD15) and alternate wetting and severe soil drying (AWD30). AWD15 and AWD30 enabled the plants to receive fewer irrigation events and less irrigation water than CF, thereby saving both water resources and labor. AWD15 reduced redundant vegetative growth, promoted root growth, and increased the root-shoot ratio and harvest index. AWD15 increased the grain yield, water use efficiency (WUE) and phosphorus use efficiency (PUE) of upland rice and maintained the grain yield while increasing the WUE and PUE of lowland rice. More developed root systems under AWD helped upland rice to maintain a higher water status than lowland rice when plants were subjected to soil drying, which resulted in superior performance in grain yield in upland rice. AWD30 could not reconcile the demands of higher yield and the desire to reduce irrigation water use because it decreased grain yield. The results indicate that AWD15 irrigation of rice can not only increase rice yield and WUE but also enhance PUE, which can potentially reduce the use of phosphorus fertilizers. The results provide theoretical and technical support for improving rice cultivation.

Pre-harvest sprouting (PHS) is a primary cause of decreases in quality and economic value in rice seeds. This study examined the inhibitory effects of four combinations of maleic hydrazide, eugenol and uniconazole on rice PHS and seed quality. After the four treatments, delayed grain germination was observed compared with the control, mean germination time was prolonged by 17.5 % and germination index was decreased by an average of 18.2 %. Activity of α-amylase was significantly reduced, by 26.7–83.5 %, during grain germination and early seedling growth. We then used qRT-PCR to further analyze the mRNA expression levels of four genes involved in α-amylase biosynthesis. The expression of OsAMY3B and OsAMY3E was significantly down-regulated by the four combinations of chemicals. In field trials, each of the four combinations resulted in a significantly lower sprouting rate and sprouting index compared with the control. In addition, freshly harvested rice seeds showed no significant differences in the mean germination time or germination index between the four combination treatments and the control. After 1 month of storage, there was still no significant difference between the four combination treatments and the control with regard to the mean germination time and germination index. These results suggest that the selected combinations strongly inhibited the seed germination speed and PHS of rice in the field. However, these combinations had no inhibitory effects on the final germination percentage and showed no negative effect on seed quality after short-term storage. The combinations of inhibitors used in this study can be applied to decrease the PHS damage caused by high temperatures and moist weather during the production of hybrid rice.

Post-transcriptional mechanisms, including alternative splicing (AS) and alternative translation initiation (ATI), have been used to explain the protein diversity involved in plant developmental processes and stress responses. Rice germination under hypoxia conditions is a classical model system for the study of low oxygen stress. It is known that there is transcriptional regulation during rice hypoxic germination, but the potential roles of AS and ATI in this process are not well understood. In this study, a proteogenomic approach was used to integrate the data from RNA sequencing, qualitative and quantitative proteomics to discover new players or pathways in the response to hypoxia stress. The improved analytical pipeline of proteogenomics led to the identification of 10,253 intron-containing genes, 1,729 of which were not present in the current annotation. Approximately 1,741 differentially expressed AS (DAS) events from 811 genes were identified in hypoxia-treated seeds in comparison to controls. Over 95% of these were not present in the list of differentially expressed genes (DEG). In particular, regulatory pathways such as spliceosome, ribosome, ER protein processing and export, proteasome, phagosome, oxidative phosphorylation and mRNA surveillance showed substantial AS changes under hypoxia, suggesting that AS responses are largely independent of traditional transcriptional regulation. Massive AS changes were identified, including the preference usage of certain non-conventional splice sites and enrichment of splicing factors in the DAS datasets. In addition, using self-constructed protein libraries by 6-frame translation, thousands of novel proteins/peptides contributed by ATI were identified. In summary, these results provide deeper insights towards understanding the underlying mechanisms of AS and ATI during rice hypoxic germination.

BACKGROUND During the production of early hybrid rice seed, the seeds dehydrated slowly and retained high moisture levels when rainy weather lasted for a couple of days, and the rice seeds easily occurred pre-harvest sprouting (PHS) along with high temperature. Therefore it is necessary to harvest the seeds before the PHS occurred. RESULTS The seeds of hybrid rice (Oryza sativa L. subsp. indica) cv. Qianyou No1 that harvests from 19 to 28 days after pollination (DAP) all had high seed vigour. The seed moisture content at 10 DAP was 36.1%, and declined to 28.6% at 19 DAP; the contents of soluble sugar and total starch increased significantly with the development of seeds. The soluble protein content, the level of abscisic acid (ABA) and gibberellin (GA3), and ascorbate peroxidase (APX) activity continued to decrease from 10 DAP to 19 DAP. The seeds at 19 DAP had the highest peroxidase (POD) activity and lowest catalase (CAT) activity while the superoxide dismutase (SOD) activity had no significant difference among the different developing periods. The relative expressions of genes 64S Hsp18.0 and Os03g0267200 transcripts increased significantly from 10 to 19 DAP, and then decreased. However, no significant change was recorded in soluble protein, sugar and GA3 after 16 DAP, and they all significantly correlated with seed viability and vigour during the process of seed maturity. CONCLUSION The seeds of hybrid rice Qianyou No1 had a higher viability and vigour when harvested from 19 DAP to 28 DAP, the transcription levels of 64S Hsp18.0 and Os03g0267200 increased significantly from 10 DAP to 19 DAP and the highest value was recorded at 19 DAP. The seeds could be harvested as early as 19 DAP without negative influence on seed vigour and viability. © 2015 Society of Chemical Industry

Rice (Oryza sativa L.) has two ecotypes, upland and lowland rice, that have been observed to show different tolerance levels under flooding stress. In this study, two rice cultivars, upland (Up221, flooding-intolerant) and lowland (Low88, flooding-tolerant), were initially used to study their molecular mechanisms in response to flooding germination. We observed that variations in the OsCBL10 promoter sequences in these two cultivars might contribute to this divergence in flooding tolerance. Further analysis using another eight rice cultivars revealed that the OsCBL10 promoter could be classified as either a flooding-tolerant type (T-type) or a flooding-intolerant type (I-type). The OsCBL10 T-type promoter only existed in japonica lowland cultivars, whereas the OsCBL10 I-type promoter existed in japonica upland, indica upland and indica lowland cultivars. Flooding-tolerant rice cultivars containing the OsCBL10 T-type promoter have shown lower Ca2+ flow and higher α-amylase activities in comparison to those in flooding-intolerant cultivars. Furthermore, the OsCBL10 overexpression lines were sensitive to both flooding and hypoxic treatments during rice germination with enhanced Ca2+ flow in comparison to wild-type. Subsequent findings also indicate that OsCBL10 may affect OsCIPK15 protein abundance and its downstream pathways. In summary, our results suggest that the adaptation to flooding stress during rice germination is associated with two different OsCBL10 promoters, which in turn affect OsCBL10 expression in different cultivars and negatively affect OsCIPK15 protein accumulation and its downstream cascade.

Effects of soaking treatments on sweet corn seedling characteristics. (PDF 92 kb)

Effects of soaking treatments on hormones metabolic-related genes expressions in seed embryos. (PDF 84 kb)

Core collection is an ideal resource for genome-wide association studies (GWAS). A subcore collection is a subset of a core collection. A strategy was proposed for finding the optimal sampling percentage on plant subcore collection based on Monte Carlo simulation. A cotton germplasm group of 168 accessions with 20 quantitative traits was used to construct subcore collections. Mixed linear model approach was used to eliminate environment effect and GE (genotype × environment) effect. Least distance stepwise sampling (LDSS) method combining 6 commonly used genetic distances and unweighted pair-group average (UPGMA) cluster method was adopted to construct subcore collections. Homogeneous population assessing method was adopted to assess the validity of 7 evaluating parameters of subcore collection. Monte Carlo simulation was conducted on the sampling percentage, the number of traits, and the evaluating parameters. A new method for “distilling free-form natural laws from experimental data” was adopted to find the best formula to determine the optimal sampling percentages. The results showed that coincidence rate of range (CR) was the most valid evaluating parameter and was suitable to serve as a threshold to find the optimal sampling percentage. The principal component analysis showed that subcore collections constructed by the optimal sampling percentages calculated by present strategy were well representative.

As one of the most widely promoted effective irrigation strategies for rice, alternate wetting and drying (AWD) irrigation can not only reduce water use but also increase mineral nutrient use efficiency. In this research, we compared the differences in grain yield, grain quality, phosphorus use efficiency (PUE), and growth states of roots and shoots of lowland and upland rice cultivars that were subjected to different irrigation and phosphorus (P) fertilizer application treatments in a field study for two years. The irrigation treatments consisted of two irrigation regimes: continuously flooded (CF) and AWD irrigation and the P fertilizer treatments included three P rates, i.e., 0, 45, and 90 kg ha−1 (P0, P45, and P90, respectively). The results revealed that AWD irrigation led to an increase in grain yield and improved PUE of both rice varieties at P45. The roots were longer and deeper under AWD irrigation, which contributed to the higher grain yield and higher resource use efficiency obtained with this treatment. At the lower P rates, both rice types translocated more P from vegetative tissues to grains, which led to a better PUE. Molecular analysis show that plant hormones (IAA, gibberellins, cytokinins and ABA) and members of the OsPht1 family are also involved in the regulation of P homeostasis under AWD irrigation. Our results demonstrate that AWD irrigation can also enhance PUE for the rice in the field.

The present study was carried out to investigate the beneficial impact of seed priming with polyethylene glycol (PEG) under different concentrations of zinc oxide nanoparticles (nano-ZnO), i.e., 0, 250, 500, and 750 mg L(-1) in two cultivars of Oryza sativa (Zhu Liang You 06 and Qian You No. 1). Physiological parameters were improved by priming with 30 % PEG in both cultivars under stress treatments. Seed priming with 30 % PEG improved α-amylase activities and total soluble sugar contents of both cultivars under nano-ZnO stress. In addition, glutathione reductase (GR) activity, reactive oxygen species (ROS) accumulation, and proline contents decreased after the priming treatment in both cultivars under different nano-ZnO concentrations. Expression of GR1, GR2, Amy2A, and Amy3A genes in shoots and roots of both cultivars increased and had higher transcription levels under the nano-ZnO stress condition. Fourier transform infrared spectroscopy (FTIR) analysis did not show any significant effects of the priming treatment on the band observed at 3400, 900, 1600, and 1000 cm(-1) corresponding to alkenyl stretch (C = C), carboxyl acid (O-H), nitrile (C = N), and aromatic (C-H), respectively, in both cultivars under nano-ZnO stress.

Background The low seed vigor and poor field emergence are main factors that restricting the extension of sweet corn in China. Spermidine (Spd) plays an important role in plant growth and development, but little is known about the effect of Spd on sweet corn seed germination. Therefore the effect of exogenous Spd on seed germination and physiological and biochemical changes during seed imbibition of Xiantian No.5 were investigated in this study. Results Spd soaking treatment not only improved seed germination percentage but also significantly enhanced seed vigor which was indicated by higher germination index, vigor index, shoot heights and dry weights of shoot and root compared with the control; while exogenous CHA, the biosynthesis inhibitor of Spd, significantly inhibited seed germination and declined seed vigor. Spd application significantly increased endogenous Spd, gibberellins and ethylene contents and simultaneously reduced ABA concentration in embryos during seed imbibition. In addition, the effects of exogenous Spd on H2O2 and MDA productions were also analyzed. Enhanced H2O2 concentration was observed in Spd-treated seed embryo, while no significant difference of MDA level in seed embryo was observed between Spd treatment and control. However, the lower H2O2 and significantly higher MDA contents than control were detected in CHA-treated seed embryos. Conclusions The results suggested that Spd contributing to fast seed germination and high seed vigor of sweet corn might be closely related with the metabolism of hormones including gibberellins, ABA and ethylene, and with the increase of H2O2 in the radical produced partly from Spd oxidation. In addition, Spd might play an important role in cell membrane integrity maintaining. Electronic supplementary material The online version of this article (doi:10.1186/s12870-016-0951-9) contains supplementary material, which is available to authorized users.