Backgroundm6A is a ubiquitous RNA modification in eukaryotes. Transcriptome-wide m6A patterns in Arabidopsis have been assayed recently. However, differential m6A patterns between organs have not been well characterized.ResultsOver two-third of the transcripts in Arabidopsis are modified by m6A. In contrast to a recent observation of m6A enrichment in 5′ mRNA, we find that m6A is distributed predominantly near stop codons. Interestingly, 85 % of the modified transcripts show high m6A methylation extent compared to their transcript level. The 290 highly methylated transcripts are mainly associated with transporters, stress responses, redox, regulation factors, and some non-coding RNAs. On average, the proportion of transcripts showing differential methylation between two plant organs is higher than that showing differential transcript levels. The transcripts with extensively higher m6A methylation in an organ are associated with the unique biological processes of this organ, suggesting that m6A may be another important contributor to organ differentiation in Arabidopsis. Highly expressed genes are relatively less methylated and vice versa, and different RNAs have distinct m6A patterns, which hint at mRNA fate. Intriguingly, most of the transposable element transcripts maintained a fragmented form with a relatively low transcript level and high m6A methylation in the cells.ConclusionsThis is the first study to comprehensively analyze m6A patterns in a variety of RNAs, the relationship between transcript level and m6A methylation extent, and differential m6A patterns across organs in Arabidopsis.Electronic supplementary materialThe online version of this article (doi:10.1186/s13059-015-0839-2) contains supplementary material, which is available to authorized users.

lithography process, using the increase in the T g of the photoresist particles caused by UV-induced crosslinking. Subsequent deposition of silica through the patterned-colloidal mask yielded ordered domains of nanoscale-hole arrays on a micrometer length scale. The present technique produces a spatially organized mask with multiple length scales for colloidal lithography. As such, various functional materials can be deposited through these multiscale colloidal masks, fabricating nanopatterned substrates, which are of practical significance in a wide range of applications from biosensors to optoelectronic devices. ExperimentalSynthesis of Photoresist Particles: MMA (Aldrich, > 99 %) and GMA (Aldrich, > 95 %) were used as supplied. Potassium persulfate (KPS) was used as an initiator for emulsion polymerization. A 100 mL two-necked round-bottom flask was filled with KPS dissolved in 50 mL of distilled water, and a monomer mixture of MMA and GMA. The content of KPS was fixed at 1 wt.-%. The content of GMA was varied in the range 5-30 wt.-% of the total monomer content, which was fixed at 10 wt.-%. The system was kept under a nitrogen atmosphere and the reaction mixture was stirred magnetically at 300 rpm. When the KPS was dissolved completely, the mixture was heated to 75°C using an oil bath. After 12 h, the mixture was separated by centrifugation and was purified with distilled water several times. The size of the particles, measured by SEM, ranged from 360 to 420 nm. Later, the cationic photoinitiator, Irgacure 250, was introduced to the photoresist particles by spin-coating.Measurement of T g : The glass-transition temperatures of the UV-exposed and UV-screened poly(MMA-co-GMA) particles were determined using a differential scanning calorimeter (DSC, TA Instruments, Q1000) under a nitrogen atmosphere at a heating rate of 10°C min -1 . To measure the T g of UV-exposed particles, the particles were fully baked at 150°C for 2 h after UV exposure, because the crosslinking reaction could proceed during the DSC measurement. Therefore, the measured T g could be higher than the T g of the UV-exposed particles in the patterning. Meanwhile, T g of the UV-screened particles was compared with that estimated using the rule-of-mixtures theory where T g = 115°C for polyMMA and T g = 75°C for polyGMA [19].Deposition of Silica: Silica was deposited in a batch reactor under atmospheric pressure at room temperature. The sample was sequentially exposed to water vapor for 30 min, dried in argon gas for purging the reactor, and then SiCl 4 vapor for 20 min. The reactant vapors were carried by argon gas under atmospheric pressure. The concentration of SiCl 4 was 0.05 vol.-% in moisture-free argon gas and the relative humidity of water vapor was 50 %. (Caution: silicon tetrachloride is a very corrosive liquid. Use it only with adequate ventilation, and wear protective clothing and safety goggles.) The thickness of the silica layer was controlled by the exposure time to the precursor vapor and around 50 nm for 30 min exposure was obtained.

Atmospheric nitrogen (N) deposition, an important component in the global N cycle, has increased sharply in recent decades in China. Here, we constructed national-scale inorganic N wet deposition (Ndep) patterns in China based on data from 280 observational sites and analysed the effects of anthropogenic sources and precipitation on Ndep. Our results showed that the mean Ndep over China increased approximately 25%, from 11.11 kg ha−1 a−1 in the 1990s to 13.87 in the 2000s. Ndep was highest over southern China and exhibited a decreasing gradient from southern to western and northern China. The decadal difference in Ndep between the 1990s and 2000s was primarily caused by increases in energy consumption and N fertiliser use. Our findings conformed that anthropogenic activities were the main reason for the Ndep increase and provide a scientific background for studies on ecological effects of N deposition in China.

Bacteria cellulose (BC) nanofibers are used as robust biotemplates for the facile fabrication of novel gold nanoparticle (NP)–bacteria cellulose nanofiber (Au–BC) nanocomposites via a one‐step method. The BC nanofibers are uniformly coated with Au NPs in aqueous suspension using poly(ethyleneimine) (PEI) as the reducing and linking agent. With the addition of different halides, Au–BC nanocomposites with different Au shell thicknesses are formed, and a possible formation mechanism is proposed by taking into account the special role played by PEI. A novel H2O2 biosensor is constructed using the obtained Au–BC nanocomposites as excellent support for horseradish peroxidase (HRP) immobilization, which allows the detection of H2O2 with a detection limit lower than 1 µM. The Au–BC nanocomposites could be further used for the immobilization of many other enzymes, and thus, may find potential applications in bioelectroanalysis and bioelectrocatalysis.