Transcriptome comparison analyses in UV-B induced AsA accumulation of Lactuca sativa L.

BACKGROUND: Lettuce (Lactuca sativa L.) cultivated in facilities display low vitamin C (L-ascorbic acid (AsA)) contents which require augmentation. Although UV-B irradiation increases the accumulation of AsA in crops, processes underlying the biosynthesis as well as metabolism of AsA induced by UV-B in lettuce remain unclear. RESULTS: UV-B treatment increased the AsA content in lettuce, compared with that in the untreated control. UV-B treatment significantly increased AsA accumulation in a dose-dependent manner up until a certain dose.. Based on optimization experiments, three UV-B dose treatments, no UV-B (C), medium dose 7.2 KJ·m- 2·d- 1 (U1), and high dose 12.96 KJ·m- 2·d- 1 (U2), were selected for transcriptome sequencing (RNA-Seq) in this study. The results showed that C and U1 clustered in one category while U2 clustered in another, suggesting that the effect exerted on AsA by UV-B was dose dependent. MIOX gene in the myo-inositol pathway and APX gene in the recycling pathway in U2 were significantly different from the other two treatments, which was consistent with AsA changes seen in the three treatments, indicating that AsA accumulation caused by UV-B may be associated with these two genes in lettuce. UVR8 and HY5 were not significantly different expressed under UV-B irradiation, however, the genes involved in plant growth hormones and defence hormones significantly decreased and increased in U2, respectively, suggesting that high UV-B dose may regulate photomorphogenesis and response to stress via hormone regulatory pathways, although such regulation was independent of the UVR8 pathway. CONCLUSIONS: Our results demonstrated that studying the application of UV-B irradiation may enhance our understanding of the response of plant growth and AsA metabolism-related genes to UV-B stress, with particular reference to lettuce.

SERS- and absorbance-based catalytic assay for determination of isocarbophos using aptamer-modified FeMOF nanozyme and in situ generated silver nanoparticles.

A new Fe metal-organic framework-loaded liquid crystal 4-octoxybenzoic acid (FeMOF@OCTB) nanosol was synthesized using 1,3,5-phthalic acid, ferrous sulfate, and OCTB as precursors. The FeMOF@OCTB exhibits good stability and strong catalytic effect for the polyethylene glycol 400-Ag (I) indicator reaction, which was evaluated rapidly by the slope procedure. The generated silver nanoparticles have a strong surface-enhanced Raman scattering (SERS) effect and a surface plasmon resonance absorption (Abs) peak at 420 nm. This new bimodal nanosilver indicator reaction was coupled with the isocarbophos (IPS)-aptamer (Apt) reaction. A FeMOF@OCTB nanocatalytic amplified-SERS/Abs bimodal Apt assay for IPS was established. The SERS assay can detect IPS in the concentration range 0.02-1.2 nM, with a detection limit of 0.010 nM. It has been applied to the determination of IPS in rice samples. The relative standard deviation was 4.4-5.8%, and the recovery was 97.7-104%. An Ag nanosol plasmon SERS/Abs dimode aptamer assay was fabricated for trace isocarbophos, based on highly catalysis MOF@OCTB nanoenzyme.

A new gold nanoflower sol SERS method for trace iodine ion based on catalytic amplification.

As one of the essential trace elements in metabolism, iodine is crucial to maintain the normal physiological functions. Therefore, based on health and environmental protection, it is very important to realize sensitive detection of iodide ion. Herein, we developed a simple, rapid and sensitive method for the determination of iodide ion. Trypsin was used as an ideal template for the synthesis of gold nanoflower sol (AuNFs) with anisotropic surface structure and good stability. It exhibits highly active surface enhanced Raman scattering (SERS) effect and can be used as facile SERS sol substrate. The TMBox generated by the catalytic oxidation reaction of TMB-chloramine T-iodide ion is used as the SERS probe. The enhanced SERS signal intensity is linearly related to the iodide ion with high sensitivity. In addition, TMB has fluorescence effect, and the colored TMBox can produce RRS signal due to polymerization. Based on this, a quad-mode detection method of SERS, RRS, fluorescence and colorimetry for quantitative detection of trace iodide ions was established, and this method can be applied to the detection of iodide ions in natural water and drinking water.

Characterization and phylogenetic analysis of the complete chloroplast genome of Actinidia latifolia (Actinidiaceae).

The complete chloroplast (cp) genome of Actinidia latifolia was sequenced and assembled using Illumina pair-end sequencing data. The cp genome is 157,021 bp in length and comprises a large single copy (LSC) region of 88,557 bp and a small single copy (SSC) region of 21,562 bp separated by two inverted repeat (IR) regions of 23,451 bp. A total of 113 unique genes were identified, including 79 protein-coding genes, 30 tRNA genes, and four rRNA genes. Phylogenetic analysis based on cp genomes of 20 Actinidiaceae species revealed that A. latifolia was evolutionarily close to A. eriantha, A. styracifolia, and A. fulvicoma.

Conductive cellulose nanofibrils-reinforced hydrogels with synergetic strength, toughness, self-adhesion, flexibility and adjustable strain responsiveness.

The development of biomass-based hydrogel conductive devices is a promising but challenging subject. Here, cellulose was used to develop a strong, tough, and self-adhesive conductive hydrogel by constructing a synergistic covalent cross-link network and multiple physical interactions. Tannic acid-coated cellulose nanofibrils (TA@CNFs), poly(acrylamide), and ferric ions (Fe3+) were introduced in a composite network by coordination and hydrogen bonds. The strategy of interpenetrating network endowed this hydrogel with high mechanical strength (storage modulus over 14 K Pa), and strong toughness and tensile strength (fracture stress up to 108 K Pa). Chelated Fe3+ by metal coordination as inorganic conductive phase leads to good electrical conductivity (conductivity up to 3.12 S m-1). The obtained hydrogel also exhibited fine flexibility, extensive self-adhesion, and adjustable strain responsiveness for monitoring human joint movements. This work provided a new approach to design conductive hydrogels, and also can expand the application of cellulose-reinforced materials in the sensor field.

Biomass Fractionation and Lignin Fractionation towards Lignin Valorization.

Lignin, as the most abundant aromatic biopolymer in nature, has attracted great attention due to the complexity and richness of its functional groups for value-added applications. The yield of production of lignin and the reactivity of prepared lignin are very important to guarantee the study and development of lignin-based chemicals and materials. Various fractionation techniques have been developed to obtain high yield and relatively high-purity lignin as well as carbohydrates (hemicelluloses and celluloses) and to reduce the condensed and degraded nature of conventional biorefinery lignin. Herein, novel and efficient biomass fractionation and lignin fractionation towards lignin valorization are summarized and discussed.

Electromagnetic time-harmonic and static field polygonal rotator with homogeneous materials.

We propose a scheme of designing polygonal rotator with homogenous materials by using linear coordinate transformation. Our strategy is available for both time-harmonic electromagnetic field case and static field case. In particular, we found that only one anisotropic material is needed in static field case, and the density of field in the central region can be altered to be denser or sparser, or stay the same. The magnetostatic field rotator can be realized by multilayered structure composed of ferromagnetic materials and superconductor, and the direct current rotator can be realized by metals with different conductivity. Numerical results verify the effectiveness of our strategy in both time-harmonic field case and static field case.

New insight into the phylogeographic pattern of Liriodendron chinense (Magnoliaceae) revealed by chloroplast DNA: east-west lineage split and genetic mixture within western subtropical China.

BACKGROUND: Subtropical China is a global center of biodiversity and one of the most important refugia worldwide. Mountains play an important role in conserving the genetic resources of species. Liriodendron chinense is a Tertiary relict tree largely endemic to subtropical China. In this study, we aimed to achieve a better understanding of the phylogeographical pattern of L. chinense and to explore the role of mountains in the conservation of L. chinense genetic resources. METHODS: Three chloroplast regions (psbJ-petA, rpl32-ndhF, and trnK5'-matK) were sequenced in 40 populations of L. chinense for phylogeographical analyses. Relationships among chloroplast DNA (cpDNA) haplotypes were determined using median-joining networks, and genetic structure was examined by spatial analysis of molecular variance (SAMOVA). The ancestral area of the species was reconstructed using the Bayesian binary Markov Chain Monte Carlo (BBM) method according to its geographic distribution and a maximum parsimony (MP) tree based on Bayesian methods. RESULTS: Obvious phylogeographic structure was found in L. chinense. SAMOVA revealed seven groups matching the major landscape features of the L. chinense distribution area. The haplotype network showed three clades distributed in the eastern, southwestern, and northwestern regions. Separate northern and southern refugia were found in the Wu Mountains and Yungui Plateau, with genetic admixture in the Dalou Mountains and Wuling Mountains. BBM revealed a more ancient origin of L. chinense in the eastern region, with a west-east split most likely having occurred during the Mindel glacial stage. DISCUSSION: The clear geographical distributions of haplotypes suggested multiple mountainous refugia of L. chinense. The east-west lineage split was most likely a process of gradual genetic isolation and allopatric lineage divergence when the Nanling corridor was frequently occupied by evergreen or coniferous forest during Late Quaternary oscillations. Hotspots of haplotype diversity in the Dalou Mountains and Wuling Mountains likely benefited from gene flow from the Wu Mountains and Yungui Plateau. Collectively, these results indicate that mountain regions should be the main units for conserving and collecting genetic resources of L. chinense and other similar species in subtropical China.

The complete chloroplast genome sequence of Actinidia styracifolia C. F. Liang.

The complete chloroplast (cp) genome sequence of Actinidia styracifolia C. F. Liang was assembled using Illumina pair-end sequencing data in this study. The assembled plastome was 156,845 bp in length, including a large single copy (LSC) region of 88,624 bp and a small single copy (SSC) region of 20,535bp, which were separated by two inverted repeat (IR) regions of 23,843 bp. The plastome contains 113 different genes, consisting of 79 unique protein-coding genes, 30 tRNA genes, and 4 rRNA genes. Phylogenetic analysis based on chloroplast genomes revealed that A. styracifolia has a close genetic relationship with A. eriantha.

Restoration with pioneer plants changes soil properties and remodels the diversity and structure of bacterial communities in rhizosphere and bulk soil of copper mine tailings in Jiangxi Province, China.

To unravel the ecological function played by pioneer plants in the practical restoration of mine tailings, it is vital to explore changes of soil characteristics and microbial communities in rhizosphere and bulk soil following the adaptation and survival of plants. In the present study, the diversity and structure of rhizospheric bacterial communities of three pioneer plants in copper mine tailings were investigated by Illumina MiSeq sequencing, and the effects of pioneer plants on soil properties were also evaluated. Significant soil improvement was detected in rhizospheric samples, and Alnus cremastogyne showed higher total organic matter, total nitrogen, and available phosphorus than two other herbaceous plants. Microbial diversity indices in rhizosphere and bulk soil of reclaimed tailings were significantly higher than bare tailings, even the soil properties of bulk soil in reclaimed tailings were not significantly different from those of bare tailings. A detailed taxonomic composition analysis demonstrated that Alphaproteobacteria and Deltaproteobacteria, Chloroflexi, Acidobacteria, and Gemmatimonadetes showed significantly higher relative abundance in rhizosphere and bulk soil. In contrast, Gammaproteobacteria and Firmicutes were abundant in bare tailings, in which Bacillus, Pseudomonas, and Lactococcus made up the majority of the bacterial community (63.04%). Many species within known heavy metal resistance and nutrient regulatory microorganism were identified in reclaimed tailings, and were more abundant among rhizospheric microbes. Hierarchical clustering and principal coordinate analysis (PCoA) analysis demonstrated that the bacterial profiles in the rhizosphere clustered strictly together according to plant types, and were distinguishable from bulk soil. However, we also identified a large shared OTUs that occurred repeatedly and was unaffected by highly diverse soil properties in rhizosphere and bulk samples. Redundancy analysis indicated that water content and Cu and As concentrations were the main environmental regulators of microbial composition. These results suggest that the interactive effect of pioneer plants and harsh soil environmental conditions remodel the specific bacterial communities in rhizosphere and bulk soil in mine tailings. And A. cremastogyne might be approximate candidate for phytoremediation of mine tailings for better soil amelioration effect and relative higher diversity of bacterial community in rhizosphere.

A 11 mW 2.4 GHz 0.18 µm CMOS Transceivers for Wireless Sensor Networks.

In this paper, a low power transceiver for wireless sensor networks (WSN) is proposed. The system is designed with fully functional blocks including a receiver, a fractional-N frequency synthesizer, and a class-E transmitter, and it is optimized with a good balance among output power, sensitivity, power consumption, and silicon area. A transmitter and receiver (TX-RX) shared input-output matching network is used so that only one off-chip inductor is needed in the system. The power and area efficiency-oriented, fully-integrated frequency synthesizer is able to provide programmable output frequencies in the 2.4 GHz range while occupying a small silicon area. Implemented in a standard 0.18 µm RF Complementary Metal Oxide Semiconductor (CMOS) technology, the whole transceiver occupies a chip area of 0.5 mm² (1.2 mm² including bonding pads for a QFN package). Measurement results suggest that the design is able to work at amplitude shift keying (ASK)/on-off-keying (OOK) and FSK modes with up to 500 kbps data rate. With an input sensitivity of -60 dBm and an output power of 3 dBm, the receiver, transmitter and frequency synthesizer consumes 2.3 mW, 4.8 mW, and 3.9 mW from a 1.8 V supply voltage, respectively.

A metasurface carpet cloak for electromagnetic, acoustic and water waves.

We propose a single low-profile skin metasurface carpet cloak to hide objects with arbitrary shape and size under three different waves, i.e., electromagnetic (EM) waves, acoustic waves and water waves. We first present a metasurface which can control the local reflection phase of these three waves. By taking advantage of this metasurface, we then design a metasurface carpet cloak which provides an additional phase to compensate the phase distortion introduced by a bump, thus restoring the reflection waves as if the incident waves impinge onto a flat mirror. The finite element simulation results demonstrate that an object can be hidden under these three kinds of waves with a single metasurface cloak.

Broadband surface-wave transformation cloak.

Guiding surface electromagnetic waves around disorder without disturbing the wave amplitude or phase is in great demand for modern photonic and plasmonic devices, but is fundamentally difficult to realize because light momentum must be conserved in a scattering event. A partial realization has been achieved by exploiting topological electromagnetic surface states, but this approach is limited to narrow-band light transmission and subject to phase disturbances in the presence of disorder. Recent advances in transformation optics apply principles of general relativity to curve the space for light, allowing one to match the momentum and phase of light around any disorder as if that disorder were not there. This feature has been exploited in the development of invisibility cloaks. An ideal invisibility cloak, however, would require the phase velocity of light being guided around the cloaked object to exceed the vacuum speed of light--a feat potentially achievable only over an extremely narrow band. In this work, we theoretically and experimentally show that the bottlenecks encountered in previous studies can be overcome. We introduce a class of cloaks capable of remarkable broadband surface electromagnetic waves guidance around ultrasharp corners and bumps with no perceptible changes in amplitude and phase. These cloaks consist of specifically designed nonmagnetic metamaterials and achieve nearly ideal transmission efficiency over a broadband frequency range from 0(+) to 6 GHz. This work provides strong support for the application of transformation optics to plasmonic circuits and could pave the way toward high-performance, large-scale integrated photonic circuits.

A meta-substrate to enhance the bandwidth of metamaterials.

We propose the concept of a meta-substrate to broaden the bandwidth of left-handed metamaterials. The meta-substrate, which behaves like an inhomogeneous magnetic substrate, is composed of another kind of magnetic metamaterials like metallic closed rings. When conventional metamaterial rings are printed on this kind of meta-substrate in a proper way, the interaction of the metamaterials units can be greatly enhanced, yielding an increased bandwidth of negative permeability. An equivalent circuit analytical model is used to quantitatively characterize this phenomenon. Both numerical and experimental demonstrations are carried out, showing good agreement with theoretical predictions.

Transcriptome analysis of differentially expressed genes relevant to variegation in peach flowers.

BACKGROUND: Variegation in flower color is commonly observed in many plant species and also occurs on ornamental peaches (Prunus persica f. versicolor [Sieb.] Voss). Variegated plants are highly valuable in the floricultural market. To gain a global perspective on genes differentially expressed in variegated peach flowers, we performed large-scale transcriptome sequencing of white and red petals separately collected from a variegated peach tree. RESULTS: A total of 1,556,597 high-quality reads were obtained, with an average read length of 445 bp. The ESTs were assembled into 16,530 contigs and 42,050 singletons. The resulting unigenes covered about 60% of total predicted genes in the peach genome. These unigenes were further subjected to functional annotation and biochemical pathway analysis. Digital expression analysis identified a total of 514 genes differentially expressed between red and white flower petals. Since peach flower coloration is determined by the expression and regulation of structural genes relevant to flavonoid biosynthesis, a detailed examination detected four key structural genes, including C4H, CHS, CHI and F3H, expressed at a significantly higher level in red than in white petal. Except for the structural genes, we also detected 11 differentially expressed regulatory genes relating to flavonoid biosynthesis. Using the differentially expressed structural genes as the test objects, we validated the digital expression results by using quantitative real-time PCR, and the differential expression of C4H, CHS and F3H were confirmed. CONCLUSION: In this study, we generated a large EST collection from flower petals of a variegated peach. By digital expression analysis, we identified an informative list of candidate genes associated with variegation in peach flowers, which offered a unique opportunity to uncover the genetic mechanisms underlying flower color variegation.

Identification and characterization of nucleotide variations in the genome of Ziziphus jujuba (Rhamnaceae) by next generation sequencing.

In this study, single-nucleotide polymorphisms (SNPs) and insertions/deletions (InDels) in the genome of Ziziphus jujuba were identified using sequences generated by the Roche 454 GS-FLX sequencer. A total of, 573,141 reads were produced with an average read length of 360 bp. After quality control, 258,754 of the filtered reads were assembled into 23,864 contigs, and 293,458 remained as singletons. Using the contig assemblies as a reference, 17,160 SNPs and 478 InDels were identified. Among the SNPs, transitions occurred three times more frequently than transversions. In transitions, the number of C/T and G/A transitions was similar. Among the transversions, A/T was the most abundant, and C/G was much rarer than any of the other types of transversions, accounting for only about half the numbers of A/C, A/T and G/T transversions. For the InDels, mononucleotide changes amounted to 64.4% of the total number of InDels. In general, the frequency of detected InDels decreased as the length of the InDels increased. This study provides valuable marker resources for future genetic studies of Ziziphus spp.

Experimental demonstration of a free-space cylindrical cloak without superluminal propagation.

We experimentally demonstrated an alternative approach of invisibility cloaking that can combine technical advantages of all current major cloaking strategies in a unified manner and thus can solve bottlenecks of individual strategies. A broadband cylindrical invisibility cloak in free space is designed based on scattering cancellation (the approach of previous plasmonic cloaking), and implemented with anisotropic metamaterials (a fundamental property of singular-transformation cloaks). Particularly, nonsuperluminal propagation of electromagnetic waves, a superior advantage of non-Euclidian-transformation cloaks constructed with complex branch cuts, is inherited in this design, and thus is the reason of its relatively broad bandwidth. This demonstration provides the possibility for future practical implementation of cloaking devices at large scales in free space.