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Cancer is one of the leading causes of death worldwide and it has the trend of increase incidence. However, in the past decades, as quickly developed new technologies and modified old techniques for cancer screening, diagnosis, and treatment, the cancer-caused mortality rates dropped quickly, and the survival times of cancer patients are enhanced. However, the current death rate is still about 50% and the survival patients always suffer from the side effect of current cancer treatments. Recently developed Nobel Prize–winning CRISPR/Cas technology provides new hope on cancer screening, early diagnosis, and clinic treatment as well as new drug development. Currently, four major CRISPR/Cas9-derived genome editors, CRISPR/Cas9 nucleotide sequence editor, CRISPR/Cas base editor (BE), CRISPR prime editor (PE), and CRISPR interference (CRISPRi) (including both CRISPRa and CRISPRr), were well developed and used to various research and applications, including cancer biology study and cancer screening, diagnosis, and treatment. Additionally, CRISPR/Cas12 and CRISPR/Cas13 genome editors were also widely used in cancer-related basic and applied research as well as treatment. Cancer-associated SNPs and genetic mutations as well as both oncogenes and tumor suppressor genes are perfect targets for CRISPR/Cas-based gene therapy for cancer treatment. CRISPR/Cas is also employed to modify and generate new Chimeric antigen receptor (CAR) T-cells for improving its safety, efficiency, and longer-time last for treating various cancers. Currently, there are many clinic trails of CRISPR-based gene therapy for cancer treatments. Although all CRISPR/Cas-derived genome and epigenome tools are promising methods for cancer biology study and treatment, the efficiency and long term-safety are still the major concerns for CRISPR-based gene therapy. Developing new CRISPR/Cas delivery methods and reducing the potential side effects, including off-target impacts, will enhance CRISPR/Cas application in cancer-related research, diagnosis, and therapeutical treatment. [ABSTRACT FROM AUTHOR]

From here, we clearly see that the majority of currently sequenced plant genomes are economically important plant species (human related) and their wild species, such as domesticated (135), cultivated (127), and natural commodity (120) plant species (Marks et al. [17]). Plant genetic information was stored in the DNA sequences, which ultimately control plant traits, including response to different environmental stresses genetically or epigenetically (Han et al. [7]). These plant species belong to 146 families, in which 80 species were sequenced and assembled in Brassicaceae, followed by Poaceae and Fabaceae that have 76 and 54 species fully sequenced, respectively. To consider the species population of both wild and domesticated species (in which only less than 0.5% of species are domesticated species and more than 99.5% of species are wild species), currently genome sequencing is more preferred to the domesticated plants and their wild relatives. [Extracted from the article]

The aim of this paper is to understand microstructural evolution and their key effects on mechanical properties of rolled molybdenum (Mo) from as-received sintered sheet. A batch of pure Mo sheets with various thickness reductions have been characterized in detail. The results reveal that the microstructure evolves by three stages including grain refinement, dynamic recrystallization (DRX) and grain elongation. For the rolled Mo, the fractions of low angle grain boundaries (LAGBs) are much higher than that of as-sintered Mo but do not increase monotonically with increasing thickness reductions. The occurrence of DRX results in the decrease of LAGBs at the intermediate stage while a larger rolling reduction results in grain boundaries bursting with high angle characters at the later stage. All rolled sheets are textured with dominant orientation locating at γ-fiber and θ-fiber line. Room-temperature tensile tests demonstrate that all rolled Mo sheets are much stronger and more ductile (ultimate tensile strength, UTS = ∼650–1000 MPa and total elongation, TE = ∼10–35%) than as-sintered Mo (UTS = ∼400 MPa and TE = 0), but a larger thickness reduction unexpectedly results in the deteriorated ductility which can be attributed to the increased number of HAGBs. The elongated microstructure with refined grains and the high fraction of LAGBs induced by rolling are considered to be the dominant parameters responsible to the improved mechanical properties of Mo. We suggest that rolling parameters should be optimized carefully to avoid the detrimental effect of crack initiation from the increase in high angle grain boundaries (HAGBs). • Microstructural evolution of Mo during whole rolling process is elucidated. • Key microstructural effects on mechanical properties in rolled Mo are discussed. • Grain refinement and LAGBs are dominant parameters for improved mechanical properties. • Severely accumulated strain results in more HAGBs that deteriorate the ductility. [ABSTRACT FROM AUTHOR]

Clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR‐associated enzyme (Cas) is a naturally occurring genome editing tool adopted from the prokaryotic adaptive immune defense system. Currently, CRISPR/Cas9‐based genome editing has been becoming one of the most promising tools for treating human genetic diseases, including cardiovascular diseases, neuro‐disorders, and cancers. As the quick modification of the CRISPR/Cas9 system, including delivery system, CRISPR/Cas9‐based gene therapy has been extensively studied in preclinic and clinic treatments. CRISPR/Cas genome editing is also a robust tool to create animal genetic models for studying and treating human genetic disorders, particularly diseases associated with point mutations. However, significant challenges also remain before CRISPR/Cas technology can be routinely employed in the clinic for treating different genetic diseases, which include toxicity and immune response of treated cells to CRISPR/Cas component, highly throughput delivery method, and potential off‐target impact. The off‐target effect is one of the major concerns for CRISPR/Cas9 gene therapy, more research should be focused on limiting this impact by designing high specific gRNAs and using high specificity of Cas enzymes. Modifying the CRISPR/Cas9 delivery method not only targets a specific tissue/cell but also potentially limits the off‐target impact. [ABSTRACT FROM AUTHOR]

CRISPR/Cas9 is a versatile tool for plant gene function studies and crop improvement. However, traditional CRISPR/Cas9-mediated genome editing requires plant tissue culture that is both time-consuming and genotype-dependent. Ma et al. recently reported a novel virus-based method for delivering CRISPR/Cas9 into plant cells, and this should further expand the application of CRISPR/Cas9-mediated genome editing. [ABSTRACT FROM AUTHOR]

How the plant cell wall expands and forms shapes is a long-standing mystery. Traditional thought is that turgor pressure drives these processes. However, a recent study by Haas and colleagues shows for the first time that the expansion of pectin homogalacturonan nanofilaments drives morphogenesis without turgor pressure in plant epidermal cells. [ABSTRACT FROM AUTHOR]

Amorphous materials with a high number of unsaturated coordinated dangling bonds exhibits macroscopic homogeneity and isotropy, making it easily modifiable to improve the catalytic properties. At present, several feasible modification strategies for amorphous materials have been proposed and applied to multiple catalytic fields. This review aims to provide a comprehensive overview of recent research advancements in the modification of amorphous materials for catalysis. First, the general strategies for modifying amorphous materials are summarized. Subsequently, the potential applications of modified amorphous materials in electrocatalysis and photocatalysis are highlighted. Additionally, the positive effects of various modification tools on the catalytic properties of amorphous materials are elucidated. Finally, a summary of the challenges and offer a critical perspective on the further development of modified amorphous materials are presented. The primary goal of this review is to offer a systematic understanding of how to enhance catalytic performance and to stimulate further research on amorphous catalysts in the future. [ABSTRACT FROM AUTHOR]

Estrogen (E2) confers cardioprotection in premenopausal women and in models of menopause and its effects, mostly studied in female reproductive organs, vary on a circadian rhythm basis in relation to the circadian clock genes. However, it remains unknown if a similar circadian pattern exists in the female heart in a manner that explains, at least partly, the cardioprotective effect of E2. The aim of the present investigation was to determine if upregulation of the circadian clock Per2 and its regulated heart-specific miRNAs, and redox enzymes contribute to the E2-mediated cardioprotection in ovariectomized rats. Rats were subjected to ovariectomy (OVX) 2-weeks prior to a 2-week E2 treatment. On the last treatment day, hearts were collected every 4 h. for ex-vivo biochemical measurements. In parallel studies, telemetric mean arterial pressure (MAP) was obtained at the tissue collection times. OVX + E2 rats exhibited lower body weight during daytime and MAP during day and night times, and their hearts exhibited: (1) higher Per2 protein abundance, cardioprotective miRNAs (miRNA1, miRNA133a, miRNA208a, miRNA499), mALDH2, and catalase; (2) lower reactive oxygen species, cardio-detrimental miRNA652, carbonyl, MDA and HO-1 levels. The reciprocal Per2/HO-1 relationship was more evident during the daytime and correlated with the upregulated cardioprotective miRNAs in OVX + E2 rats. Finally, cardiac Per2, heart-specific miRNAs and reactive oxygen species levels and redox enzymes activities were similar in normal female and OVX + E2 rats. Enhancement of cardiac Per2, redox enzymes and heart-specific miRNAs likely contribute to E2-mediated mitigation of cardiac oxidative stress in OVX rats. [Display omitted] [ABSTRACT FROM AUTHOR]

Arabidopsis and rice are major models for C3 plants, but we still lack a model for C4 plants. Recently, Yang and coworkers developed foxtail millet as a C4 plant model; with the rapid development of clustered regularly interspaced short palindromic repeats (CRISPR)/Cas technology, this will open a new era for plant functional studies and crop improvement. [ABSTRACT FROM AUTHOR]

Due to protospacer adjacent motif (PAM) requirements, CRISPR/Cas9 cannot access many genetic loci. A recent study by Walton et al. structurally engineered Streptococcus pyogenes Cas9 (SpCas9) to near-PAMless SpRY that can target most DNA sequences with high editing efficiency and flexibility. This newly engineered SpRY will potentially expand genome-editing capabilities for basic and applied research. [ABSTRACT FROM AUTHOR]

MicroRNAs (miRNAs) lie at the center of gene regulation and, as such, have become novel targets for crop improvement including the enhancement of crop quality and yields as well as responses to environmental stresses. There are several major issues related to miRNA technology including the functional analysis of miRNAs and their nomenclature. In this critical and speculative review, we recommend several directions for future plant miRNA research and perspectives. Research on miRNA needs to be extended from merely descriptive studies to functional studies. More genetic tools, such as genome editing, should be developed for miRNA functional study. Obtaining transgenic plants is a bottleneck for plant miRNA functional studies and, hence, more reliable transformation methods need to be developed. We also propose a new terminology approach for miRNA nomenclature. The current miRNA nomenclature is confusing and has mislead much research. Here we suggest to name a miRNA as miR#-5p or -3p, and to name their opposite strand as miR#*-3p or -5p. The advantages of the new nomenclature is that it covers information on the history, relationship, family, and location of an individual miRNA. It recognizes both traditional and new discovery. [ABSTRACT FROM AUTHOR]

Abstracts Amyloid formation and deposition of immunoglobulin light-chain proteins in systemic amyloidosis (AL) cause major organ failures. While the κ light-chain is dominant (λ/κ = 1:2) in healthy individuals, λ is highly overrepresented (λ/κ = 3:1) in AL patients. The structural basis of the amyloid formation and the sequence preference are unknown. We examined the correlation between sequence and structural stability of dimeric variable domains of immunoglobulin light chains using molecular dynamics simulations of 24 representative dimer interfaces, followed by energy evaluation of conformational ensembles for 20 AL patients' light chain sequences. We identified a stable interface with displaced N-terminal residues, provides the structural basis for AL protein fibrils formation. Proline isomerization may cause the N-terminus to adopt amyloid-prone conformations. We found that λ light-chains prefer misfolded dimer conformation, while κ chain structures are stabilized by a natively folded dimer. Our study may facilitate structure-based small molecule and antibody design to inhibit AL. This article is part of a Special Issue entitled: Accelerating Precision Medicine through Genetic and Genomic Big Data Analysis edited by Yudong Cai & Tao Huang. [ABSTRACT FROM AUTHOR]

A bacterial artificial chromosome (BAC) library for G. mustelinum Miers ex G. Watt (AD4) was constructed. Intact nuclei from G. mustelinum (AD4) were used to isolate high molecular weight DNA, which was partially cleaved with Hind III and cloned into pSMART BAC (Hind III) vectors. The BAC library consisted of 208,182 clones arrayed in 542 384-microtiter plates, with an average insert size of 121.72 kb ranging from 100 to 150 kb. About 2% of the clones did not contain inserts. Based on an estimated genome size of 2372 Mb for G. mustelinum, the BAC library was estimated to have a total coverage of 10.50 × genome equivalents. The high capacity library of G. mustelinum will serve as a giant gene resource for map-based cloning of quantitative trait loci or genes associated with important agronomic traits or resistance to Verticillium wilt, physical mapping and comparative genome analysis. [ABSTRACT FROM AUTHOR]

CRISPR/Cas9 is a newly developed and naturally occurred genome editing tool, which is originally used by bacteria for immune defence. In the past years, it has been quickly employed and modified to precisely edit genome sequences in both plants and animals. Compared with the well-developed zinc finger nucleases (ZFNs) and transcription activator-like effector nucleases (TALENs), CRISPR/Cas9 has lots of advantages, including easier to design and implement, higher targeting efficiency, and less expensive. Thus, it is becoming one of the most powerful tools for knockout of an individual gene as well as insertion of one gene and/or control of gene transcription. Studies have shown that CRISPR/Cas9 is a great tool to edit many genes in a variety of plant species, including the model plant species as well as agriculturally important crops, such as cotton, maize, wheat, and rice. CRISPR/Cas9-based genome editing can be used for plant functional studies and plant improvement to yield, quality, and tolerance to environmental stress. [ABSTRACT FROM AUTHOR]

Non-coding RNAs such as microRNAs (miRNAs) are very tiny ribonucleotides having an essential role in gene regulation at both post-transcriptional and translational levels. They are very conserved and expressed in worms, flies, plants, and mammals in a sequence-specific manner. Furthermore, it is now possible to clone miRNAs using the new genome editing tool CRISPR/cas9, which shows benefit in control of untargeted effect. In this special issue, we tried to cover researches associated with functional roles of miRNAs accross model and complex organisms. [ABSTRACT FROM AUTHOR]

Designing and optimizing electrode materials for supercapacitors (SCs) is generally considered to be an effective way to enhance their electrochemical performance. It is an attractive approach to obtaining high capacity electrodes by engineering the nanostructure and oxygen vacancies of electrodes. Herein, we developed an efficient and green strategy to facilitate one-dimensional (1D) Co 3 O 4 nanorods with abundant oxygen vacancies via Co nanorods oxidation by H 2 O 2 treatment, significantly promoting the electrochemical energy storage. The unique Co 3 O 4 NRs due to 1D nanostructure and oxygen vacancy, exhibit a high specific capacity of 627.4 mF cm−2 at a current density of 0.5 mA cm−2 and excellent rate capacity (57.8% capacitance retention at 10 mA cm−2). Furthermore, an asymmetric supercapacitor (ASC) constructed with the Co 3 O 4 nanorods as electrode materials shows a high energy density of 0.187 mWh cm−2 at a power density of 1.261 mW cm−2. This nanostructure and vacancy engineering strategy put forward in this work is an inspiring example for the design of the next generation of SCs. • This research provides a simple and green way for achieving Co 3 O 4 nanorods with abundant oxygen vacancies. • The oxygen vacancies can improve the electrical conductivity and the electrochemical stability of SCs. • This nanostructure and vacancy engineering strategy Proposed is an inspiring example for the next generation of SCs. [ABSTRACT FROM AUTHOR]

To face the quick development and also challenges in this field, I Functional & Integrative Genomics i will continuously serve the genome research and education community by providing a reliable platform for advancing and exchanging the scientific research in all fields of genome from a single gene functional study to metagenome and multi-omics studies and from structure genome to advanced genome editing. Graph Parwinder Kaur Graph Baohong Zhang Tremendous advances have been made in the field of genomics, including next generation DNA sequencing (Goodwin et al. [2]), transgenics, and current genome editing (Li et al. [3]); however, this is just the beginning. However, the majority of genome region is non-coding sequences, usually called dark matter, dark sequence, or junk sequence of the genome (Sedlazeck et al. [4]). [Extracted from the article]

In the long evolutionary history, plant has evolved elaborate regulatory network to control functional gene expression for surviving and thriving, such as transcription factor-regulated transcriptional programming. However, plenty of evidences from the past decade studies demonstrate that the 21-24 nucleotides small RNA molecules, majorly microRNAs (miRNAs) play dominant roles in post-transcriptional gene regulation through base pairing with their complementary mRNA targets, especially prefer to target transcription factors in plants. Here, we review current progresses on miRNA-controlled plant development, from miRNA biogenesis dysregulation-caused pleiotropic developmental defects to specific developmental processes, such as SAM regulation, leaf and root system regulation, and plant floral transition. We also summarize some miRNAs that are experimentally proved to greatly affect crop plant productivity and quality. In addition, recent reports show that a single miRNA usually displays multiple regulatory roles, such as organ development, phase transition, and stresses responses. Thus, we infer that miRNA may act as a node molecule to coordinate the balance between plant development and environmental clues, which may shed the light on finding key regulator or regulatory pathway for uncovering the mysterious molecular network. J. Cell. Physiol. 231: 303-313, 2016. © 2015 Wiley Periodicals, Inc. [ABSTRACT FROM AUTHOR]

Al/Fe bimetals prepared by a compound casting method, combining the excellent properties of both the Al alloy and the ductile cast iron, exhibit great potential for application in achieving engine weight reduction. However, the problem of insufficient interfacial bonding ability because of the difference in thermophysical properties of Al and Fe is particularly prominent. Therefore, in this work, the electrodeposited Cu coating on the surface of the Fe matrix was used as the interlayer of Al/Fe bimetal fabricated by coupling hot-dipping with compound casting to solve the above problem. The effect of Cu interlayer thickness on the interfacial microstructure and shear strength of bimetal was investigated. The experimental results showed that the shear strength up to 77.65 MPa in regard to Al/Fe bimetal with a 5 μm Cu interlayer was obtained. No Cu element was detected at the interface of bimetal regardless of the thickness of the Cu interlayer. The diffusion behavior of the Cu atom at the interface and the influence of the Cu layer at the atomic scale on diffusion reaction and the Al/Fe interface were further revealed by combining first-principle and molecular dynamics calculations. The simulation results revealed that the Cu layer gradually dissolved into an Al alloy at 750 °C, thereby promoting the diffusion reaction of the Al/Fe interface. Meanwhile, the protective role of the Cu layer against oxidation on the surface of the Fe matrix was confirmed. As a result, the interfacial bonding performance was enhanced when the Cu interlayer was introduced. [ABSTRACT FROM AUTHOR]

Cotton ( Gossypium hirsutum L.), the most important fibre plant in the world, is a tetraploid species, originating from the reunion of two ancestral cotton species ~1-2 million years ago. It has been reported that a great number of genes were quickly erased or preferentially remained after whole-genome duplication, ultimately leading to morphogenesis evolution. However, micro RNAs (mi RNAs), a new class of gene regulators, have not been well studied in polyploidization. Here, we systematically investigated mi RNA evolution amongst cultivated upland cotton G. hirsutum ( AADD) and its two ancestors, G. arboreum ( AA) and G. raimondii ( DD). Our results show that certain highly conserved mi RNAs were likely to be lost, whereas certain were remained after genome polyploidization. Cotton-specific mi RNAs might undergo remarkably expansion, resulting in overall mi RNA increase in upland cotton. Based on the sequenced genomes of G. arboreum and G. raimondii, we are capable for the first time to categorize the origin of mi RNAs and coding genes in upland cotton. Different genome-derived mi RNAs and mi RNA*s displayed asymmetric expression pattern, implicating their diverse functions in upland cotton. No mi RNA targeting preference was observed between different genome-derived mi RNAs. The origin of mi RNAs and coding genes has no impact on becoming mi RNAs and their targets, despite some mi RNAs and their targets are extremely conserved in the three cotton species. GO- and KEGG-based analysis of conserved mi RNAs show that conserved mi RNAs and their targets participate in a series of important biological processes and metabolism pathways. Additionally, A-derived mi RNAs might be more responsible for ovule and fibre development. [ABSTRACT FROM AUTHOR]

Petroleum-based fuels are nonrenewable and unsustainable. Renewable sources of energy, such as lignocellulosic biofuels and plant metabolite-based drop-in fuels, can offset fossil fuel use and reverse environmental degradation through carbon sequestration. Despite these benefits, the lignocellulosic biofuels industry still faces many challenges, including the availability of economically viable crop plants. Cell wall recalcitrance is a major economic barrier for lignocellulosic biofuels production from biomass crops. Sustainability and biomass yield are two additional, yet interrelated, foci for biomass crop improvement. Many scientists are searching for solutions to these problems within biomass crop genomes. Micro RNAs (mi RNAs) are involved in almost all biological and metabolic process in plants including plant development, cell wall biosynthesis and plant stress responses. Because of the broad functions of their targets (e.g. auxin response factors), the alteration of plant mi RNA expression often results in pleiotropic effects. A specific mi RNA usually regulates a biologically relevant bioenergy trait. For example, relatively low miR156 overexpression leads to a transgenic feedstock with enhanced biomass and decreased recalcitrance. mi RNAs have been overexpressed in dedicated bioenergy feedstocks such as poplar and switchgrass yielding promising results for lignin reduction, increased plant biomass, the timing of flowering and response to harsh environments. In this review, we present the status of mi RNA-related research in several major biofuel crops and relevant model plants. We critically assess published research and suggest next steps for mi RNA manipulation in feedstocks for increased biomass and sustainability for biofuels and bioproducts. [ABSTRACT FROM AUTHOR]

MicroRNAs (miRNAs) are an extensive class of newly discovered endogenous small RNAs, which negatively regulate gene expression at the post-transcription levels. As the application of next-generation deep sequencing and advanced bioinformatics, the miRNA-related study has been expended to non-model plant species and the number of identified miRNAs has dramatically increased in the past years. miRNAs play a critical role in almost all biological and metabolic processes, and provide a unique strategy for plant improvement. Here, we first briefly review the discovery, history, and biogenesis of miRNAs, then focus more on the application of miRNAs on plant breeding and the future directions. Increased plant biomass through controlling plant development and phase change has been one achievement for miRNA-based biotechnology; plant tolerance to abiotic and biotic stress was also significantly enhanced by regulating the expression of an individual miRNA. Both endogenous and artificial miRNAs may serve as important tools for plant improvement. J. Cell. Physiol. 229: 1-15, 2014. © 2014 Wiley Periodicals, Inc. [ABSTRACT FROM AUTHOR]

Although many genes may serve as reference genes, they may cause different expression patterns by selecting different reference genes because no single gene is expressed consistently in all tested tissues of an organism under all environmental and developmental conditions. Thus, it is becoming increasingly important and necessary to identify suitable reference genes before performing gene expression analysis. Currently, there are several computational tools available for evaluating the stability of candidate reference genes. These tools are based on different statistical algorithms and may produce different rankings in stability within the same reference gene study. To date, the RefFinder is the only web-based tool available for comparing and evaluating housekeeping genes as candidates to be reference genes. In this tool, we integrated the four currently available computational programs (geNorm, NormFinder, BestKeeper, and the comparative ΔCt method) into a web-based tool for evaluating the stability and reliability of reference genes. According to the gene stability rankings derived from the four programs, we assigned an appropriate weight to each gene and calculated the geometric mean of weights for the final rankings. Aside from the overall ranking, a single program or combination of the four programs can be selected for evaluating the ranking of candidate reference genes. This tool has been widely used and validated by many research laboratories around the world. You may use this tool at or . You can also download this algorithm program from and setup on your own computer. RefFinder is developed by PHP. Users can deploy it to a Php-based server (Apache + PHP) and run it. [ABSTRACT FROM AUTHOR]

Objective To analyze the funding status of National Natural Science Foundation (NSFC) on the osteoporotic research since 2006. Methods The data regarding the NSFC allocated to osteoporotic research from 2006 to 2013 were collected. Total expense and number of the majority of programs, subject distribution, and the research directions were provided. Results From 2006 to 2013, there were 787 applicants, and 177 projects were supported. Projects are mainly distributed in three areas, including the field of endocrine system, motor system, and Chinese medicine. Research directions mainly focused on the pathogenesis of osteoporosis (50.8%) and treatment (19.8%), while few projects were supported in epidemiological field. Researches in the field had interdisciplinary characteristics. Conclusion The continuous support of NSFC on osteoporotic research has led to substantial achievements, resulting in great progress in the prevention and treatment of osteoporosis and the regulation of bone metabolism. And the support in epidemiological research should be strengthened. [ABSTRACT FROM AUTHOR]

Rational: More research has recently been focused on multigenerational toxicogenomics impacts. Such studies rely on behavioral as well as genetic and epigenetic analyses using various biotechniques. Of these technologies, quantitative reverse transcriptase PCR is considered as a mature discovery and validation tool. Nevertheless, the interpretation of the resulting gene expression necessitates the establishment of reliable internal controls for normalization. No study has been performed to identify reliable reference genes in multigenerational settings. Objectives: The primary aim was to evaluate the stability of 16 reference gene candidates in Caenorhabditis elegans exposed to nicotine and their two subsequent generations for determining the most reliable reference genes for multigenerational study. Methods: We exposed C. elegans to nicotine in the F0 generation and investigated the relative stabilities of 16 housekeeping genes in L4 larvae across three generations (F0, F1, and F2) using five statistical approaches (geNorm, ∆Ct method, NormFinder, BestKeeper, and RefFinder). Results: geNorm shows that CDC-42 and Y45F10D.4 were the most stable reference genes. Based on NormFinder, TBA-1, EIF3.C, ARP-6, CDC-42, and MDH2 may serve as the top reliable reference genes. Comparative ∆Ct method ranked TBA-1, CDC-42, EIF3.C, ARP-6, and Y45F10D.4 as the most stable reference genes. BestKeeper shows that Y45F10D.4, F35G12.2, TBA-1, CDC-42, and CSQ-1were better reference genes. Overall, TBA-1, CDC-42, EIF3.C, ARP-6, and Y45F10D.4 were the most reliable reference genes for mutigenerational nicotine-exposed study. Conclusions: Of the 16 tested gene candidates, TBA-1 and CDC-42 were the two most stable reference genes for performing reliable gene expression normalization in the multigenerational impact of nicotine exposure. [ABSTRACT FROM AUTHOR]

Roll forming can improve the material utilization rate and production efficiency of cups with a curved rotary profile, but there is no basis for the determination of forming limit. The DEFORM-3D software was used to simulate the roll forming of cups. The influence of the billet wall thickness and bottom thickness, coefficient of friction, radius of roller, and the fillet radius of the punch on the forming limit was studied, and the damage value and velocity vector were analyzed. The results showed that the forming limit of the billet's wall thickness in roll forming for a cup is about 62%. With the increase of the ratio of the formed cup's wall thickness to the billet's bottom thickness, the forming limit of wall thickness will be slightly reduced. A larger radius of roller, fillet radius of punch, and friction coefficient between punch and billet and a smaller friction coefficient between roller and billet are good for decreasing the damage value and improving the roll-forming limit. According to the numerical simulation results, the roll-forming limit diagram of cups is established, and the accuracy of the forming limit diagram is verified by experiments. [ABSTRACT FROM AUTHOR]

Phoebe bournei is a rare and endangered plant endemic to China with higher-value uses in essential oil and structural wood production. Its seedlings are prone to death because of its undeveloped system. Paclobutrazol (PBZ) can improve root growth and development in certain plants, but its concentration effect and molecular mechanism remain unclear. Here, we studied the physiological and molecular mechanisms by which PBZ regulates root growth under different treatments. We found that, with moderate concentration treatment (MT), PBZ significantly increased the total root length (69.90%), root surface area (56.35%), and lateral root number (47.17%). IAA content was the highest at MT and was 3.83, 1.86, and 2.47 times greater than the control, low, and high-concentration treatments. In comparison, ABA content was the lowest and reduced by 63.89%, 30.84%, and 44.79%, respectively. The number of upregulated differentially expressed genes (DEGs) induced at MT was more than that of down-regulated DEGs, which enriched 8022 DEGs in response to PBZ treatments. WGCNA showed that PBZ-responsive genes were significantly correlated with plant hormone content and involved in plant hormone signal transduction and MAPK signal pathway-plant pathways, which controls root growth. The hub genes are observably associated with auxin, abscisic acid syntheses, and signaling pathways, such as PINs, ABCBs, TARs, ARFs, LBDs, and PYLs. We constructed a model which showed PBZ treatments mediated the antagonism interaction of IAA and ABA to regulate the root growth in P. bournei. Our result provides new insights and molecular strategies for solving rare plants' root growth problems. [ABSTRACT FROM AUTHOR]

The pathogenesis of pulmonary fibrosis is not fully understood. Previous work has demonstrated the important role of circular RNA (circRNA) in pulmonary fibrosis development. This study aims to analyse the role of circ_0035796 in pulmonary fibrosis and the underlying mechanism. Human foetal lung fibroblast 1 (HFL1) cells were treated with transforming growth factor-β1 (TGF-β1) to mimic a pulmonary fibrosis cell model. The expression of circ_0035796, microRNA-150-5p (miR-150-5p) and L1 cell adhesion molecule (L1CAM) was determined by quantitative real-time polymerase chain reaction (qRT-PCR). The protein expression of L1CAM, collagen I and fibronectin was detected by Western blot. Cell viability was analysed by CCK-8 assay. Cell proliferation, invasion and migration were investigated by 5-Ethynyl-2'-deoxyuridine (EdU) assay, transwell invasion assay and wound-healing assay, respectively. The secretion of interleukin-6 (IL-6) and tumour necrosis factor-α (TNF-α) was analysed by Enzyme-linked immunosorbent assay (ELISA). Oxidative stress was assessed by detecting Superoxide Dismutase (SOD) activity and Malondialdehyde (MDA) level using commercial kits. The association of miR-150-5p with circ_0035796 and L1CAM was identified by dual-luciferase reporter assay, RNA pull-down assay and RNA immunoprecipitation (RIP) assay. Circ_0035796 and L1CAM expression were dramatically upregulated, while miR-150-5p expression was downregulated in TGF-β1-treated HFL1 cells. TGF-β1 treatment induced cell proliferation, migration, invasion, IL-6 and TNF-α secretion, and oxidative stress, whereas circ_0035796 depletion relieved these effects. In addition, circ_0035796 acted as a sponge of miR-150-5p and miR-150-5p combined with L1CAM. Moreover, miR-150-5p depletion attenuated circ_0035796 knockdown-mediated effects in TGF-β1-exposed HFL1 cells. The regulation of miR-150-5p on TGF-β1-induced fibroblast activation involved the downregulation of L1CAM. Further, circ_0035796 modulated L1CAM expression by interacting with miR-150-5p in TGF-β1-exposed HFL1 cells. Circ_0035796 knockdown ameliorates TGF-β1-induced pulmonary fibrosis through the miR-150-5p/L1CAM axis in vitro. [ABSTRACT FROM AUTHOR]

n YRY-4 type borehole strainmeter at Guza station on the southwest end of the Longmenshan fault zone recorded anomalous changes from time to time since about one year before the Wenchuan earthquake. The anomaly is characterized by steps and/or asymmetrical pulses of short-periods (minutes-hours). Among about one hundred stations over the mainland of China, only Guza, the nearest one to the seismic area, observed such changes. A self-check function of the strainmeter helps confirm the credibility of the observation. The anomalous signals do not correspond to seasonal changes. The consistency in the sense of strain among long-term, anomalous interfering and coseismic changes suggests that they all resulted from the background tectonic movement. Results of an Overrun Rate Analysis further illustrate a close temporal relevance of the anomaly to the Wenchuan earthquake: its increase before, and decrease after the biggest changes during the main shock. The abnormal changes are attributed to local small-scale fractures with an evidential clue that the only M4.5 foreshock near Guza station on February 27, 2008 produced the biggest anomalous change. By means of Wavelet Decomposition, it is revealed that longer period portion of the anomaly took place later before the main shock, consistent with the idea that scales of small fractures increase during earthquake preparation process. The anomalous strain changes are analogous to the stress changes observed before the 1976 Tangshan earthquake. [ABSTRACT FROM AUTHOR]

Abstract: The effect of TNT (2,4,6-trinitrotoluene) and its metabolites, 2,4-dinitrotoluene (2,4-DNT), 2-amino-4,6-dinitrotoluene (2A-DNT), and 4-amino-2,6-dinitrotoluene (4A-DNT) on cricket (Acheta domesticus) reproduction was evaluated. We previously used crickets to assess the toxicity of a nitramine explosive (RDX) and its metabolites. It is common to find that while much information on the environmental impact of the parent compound is available in the literature, such is often not the case for the degradation metabolites of the parent compound. In some instances, these metabolites are as toxic (or more so) as the parent compound and we hypothesized that this might be the case for TNT. The presence of TNT and its metabolites in sand (10 µg/g) did not adversely affect cricket egg production, but adversely affected hatching of cricket eggs as compared to controls. However, there were no differences in hatching success among TNT and metabolite treatment groups. Hatching success of cricket eggs in soil or following topical exposure decreased as concentrations of TNT and its metabolites increased. The relative toxicity of TNT and its metabolites in soil generally followed the trend of TNT<2A-DNT<4A-DNT<2,4-DNT. In addition, toxicity appeared to be higher in sand than in sandy loam soil or in the topical exposure test. After 45 days of exposure in sandy loam soil, the EC20 (20% effect concentration), EC50 (50% effect concentration), and EC95 (95% effect concentration) were 14, 116, and 10,837 µg/g for TNT: 1.7, 32, and 16,711 µg/g for 2A-DNT: 1.9, 9, and 296 µg/g for 4A-DNT: and 0.4, 5.7, and 1437 µg/g for 2,4-DNT. Overall, results suggest that parent TNT and metabolites are toxic to cricket eggs at relatively high concentrations and these toxic effects are manifested as a decrease in hatching success. [Copyright &y& Elsevier]

Abstract: Although great progress has been made in identifying microRNAs (miRNAs) and their functions, their essential functional features remain largely unknown. In this study, we systemically investigated the nucleotide and thermodynamic folding distribution characteristics of 3853 miRNAs currently reported for metazoans. We determined that uracil is the dominant nucleotide in both mature and precursor sequences, and that it is particularly enriched at three sites in mature miRNAs: the first, ninth, and the five terminal 3′ nucleotides. The location of these enriched uracil nucleotides is particularly interesting because positions one and nine are the edges of the “seed region”, which is responsible for targeting mRNAs for gene regulation. The prevalence of U residues at these sites may contribute to the mechanism whereby miRNAs target and bind to their corresponding mRNAs. A comparison of the overall lengths of metazoan pre-miRNAs revealed that they ranged from 53 to 215 nt in length with an average of 88.10±14.14 nt, significantly higher than previously reported. Comparisons of miRNA diversity at different taxonomic levels revealed that the 12 features investigated in this study varied significantly among miRNAs represented by different phyla, with particularly high levels of divergence in platyhelminths relative to nematodes, arthropods or vertebrates. By comparison, lower levels of diversity were observed at lower taxonomic levels such that there was a direct relationship between divergence in miRNA features and taxonomic level. We conclude that large-scale genome analysis shows that miRNAs have many more unique features than previously reported. In particular, the distribution of nucleotides suggests an important role for uracil at the boundaries of the ‘seed’ region and at their termini. These results will facilitate the design of new computational programs for identifying novel miRNAs and investigating the mechanism of miRNA-mediated gene regulation. [Copyright &y& Elsevier]

Uptake and accumulation kinetics of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) and its two major N-nitroso metabolites, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX) and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX), in earthworms was investigated. Results indicated that RDX and its N-nitroso metabolites were rapidly absorbed into earthworms (Eisenia fetida), reaching the highest concentrations within a few days. Accumulation of RDX was greater than its N-nitroso metabolites, as evidenced by a higher bioconcentration factor (BCF); BCFs were 1.86, 0.39, and 0.05 for RDX, MNX, and TNX, respectively. RDX and its N-nitroso metabolites were also rapidly eliminated from the earthworm and/or transformed to other metabolites, as evidenced by the rapid decrease of test compounds in earthworms after reaching their highest concentrations. The uptake of MNX and TNX increased as exposure concentration increased. Although these earthworms might (anaerobically) degrade RDX to MNX and MNX to TNX, it is hypothesized that this process would be slow. Other biotransformation pathways may be involved in biodegradation of RDX and its N-nitroso metabolites due to the fact that concentrations of tested compounds decreased in both soil and earthworms. It is hoped that these data can be used to refine environmental management strategies for RDX and for performing specific risk assessments of RDX and its N-nitroso metabolites. [Copyright &y& Elsevier]

BACKGROUND: Although microRNAs (miRNAs) have been found to play an important role in many biological and metabolic processes, their functions in animal response to environmental toxicant exposure are largely unknown. OBJECTIVES: We used hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX), a common environmental contaminant, as a toxicant stressor to investigate toxicant-induced changes in miRNA expression in B6C3F1 mice and the potential mechanism of RDX-induced toxic action. METHODS: B6C3F1 mice were fed diets with or without 5 mg/kg RDX for 28 days. After the feeding trials, we isolated RNAs from both brain and liver tissues and analyzed the expression profiles of 567 known mouse miRNAs using microarray and quantitative real-time polymerase chain reaction technologies. RESULTS: RDX exposure induced significant changes in miRNA expression profiles. A total of 113 miRNAs, belonging to 75 families, showed significantly altered expression patterns after RDX exposure. Of the 113 miRNAs, 10 were significantly up-regulated and 3 were significantly down-regulated (p < 0.01) in both mouse brain and liver. Many miRNAs had tissue-specific responses to RDX exposure. Specifically, expression of seven miRNAs was up-regulated in the brain but down-regulated in the liver or up-regulated in the liver but down-regulated in the brain (p < 0.01). Many aberrantly expressed miRNAs were related to various cancers, toxicant-metabolizing enzymes, and neurotoxicity. We found a significant up-regulation of oncogenic miRNAs and a significant down-regulation of tumor-suppressing miRNAs, which included let-7, miR-17-92, miR-10b, miR-15, miR-16, miR-26, and miR-181. CONCLUSIONS: Environmental toxicant exposure alters the expression of a suite of miRNAs. [ABSTRACT FROM AUTHOR]

Abstract: A reliable, sensitive, and reproducible method was developed for quantitative determination of nine new generation pesticides currently used in cotton agriculture. Injector temperature significantly affected analyte response as indicated by electron capture detector (ECD) chromatograms. A majority of the analytes had an enhanced response at injector temperatures between 240 and 260°C, especially analytes such as acephate that overall had a poor response on the ECD. The method detection limits (MDLs) were 0.13, 0.05, 0.29, 0.35, 0.08, 0.10, 0.32, 0.05, and 0.59ng/mL for acephate, trifuralin, malathion, thiamethozam, pendimethalin, DEF6, acetamiprid, brifenthrin, and λ-cyhalothrin. This study provides a precision (0.17–13.1%), accuracy (recoveries=88–107%) and good reproducible method for the analytes of interest. At relatively high concentrations, only λ-cyhalothrin was unstable at room temperature (20–25°C) and 4°C over 10 days. At relatively low concentrations, acephate and acetamiprid were also unstable regardless of temperature. After 10 days storage at room temperature, 30–40% degradation of λ-cyhalothrin was observed. It is recommended that acephate, acetamiprid, and λ-cyhalothrin be stored at −20°C or analyzed immediately after extraction. [Copyright &y& Elsevier]

Abstract: No study has been performed on identifying microRNAs (miRNAs) and their targets in cotton although cotton is one of the most important fiber and economic crops around the world. In this study, we found 30 potential cotton miRNAs using a comparative genomic approach based on genomic survey sequence analysis and miRNA secondary structure. These cotton miRNAs belong to 22 miRNA families. Expressed sequence tag (EST) analysis indicated that the predicted miRNAs were expressed in cotton plants. Based on the characteristic that miRNAs exhibit perfect or nearly perfect complementarity with their targeted mRNA sequences, a total of 139 potential miRNA targets were identified in cotton genome. A majority of these targets belong to transcriptional factors which regulate cotton growth and development, including leaf, root, stem, flower, and even fiber development. Those miRNAs may also be involved in other cellular and metabolic processes, such as stress response, signal transduction, and secondary wall synthesis and deposition. Some of the newly identified miRNA targets may be unique to cotton species. In this study, we found that at least 3 miRNA families (miR 396, 414, and 782) target callous synthase, fiber protein Fb23, and fiber quinone-oxidoreductase, suggesting that miRNAs play an important role in cotton fiber differentiation and development. [Copyright &y& Elsevier]

Abstract: This paper describes an efficient and sensitive method for determining five energetic compounds at trace levels (ng/mL) in blood by gas chromatography with electron capture detection (GC/ECD). For seven test concentrations (1–1250ng/mL), the average recoveries (%) were 104±16, 108±22, 105±14, 100±22 and 108±16 for hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX), hexahydro-1,3-dinitroso-5-nitro-1,3,5-triazine (DNX), hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX), hexahydro-1,3,5-trinitro-1,3,5-triazacyclohexane (RDX) and 2,4,6-trinitrotoluene (TNT) (n =84), respectively. Analysis of DNX and RDX produced lower precision than other energetic compounds. Acetonitrile extracts of blood samples should be analyzed immediately as the test compounds can transform into unknown compounds, which lowered the recovery by 0–45% within 10 days at room temperature (∼20°C). Maintaining sample extracts at 4°C decreased loss of test compounds. The method described herein was validated by different analysis teams on different days. Two-way ANOVA indicated that there was no significant difference between analysis teams or days of analysis. The method was successfully employed in the analysis of blood samples from a mouse dosing study involving TNX and RDX. [Copyright &y& Elsevier]

Given the potent carcinogenic effects of most N-nitroso compounds, the reductive transformation of the common explosive hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) to a group of N-nitroso derivatives, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX), hexahydro-1,3-dinitroso-5-nitro-1,3,5-triazine (DNX), and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX) in the environment have caused concerns among the general public. Questions are arising about whether the same transformations also occur in mammals, and if true, to what extent. This study investigated the N-nitroso derivatives production in the deer mouse GI tract following RDX administration. Findings verified that such transformations do occur in the mammalian GI tract at notable levels: the average MNX concentrations in deer mice stomach were 85μg/kg and 1318μg/kg for exposure to 10mg/kg and 100mg/kg diet, respectively. DNX in stomach were 217μg/kg for the 10mg/kg dose group and 498μg/kg for the 100mg/kg dose group. Changes in other toxic endpoints including body weight gain, food consumption, organ weight, and behavior were also reported. [Copyright &y& Elsevier]

microRNAs (miRNAs) are an abundant class of newly identified endogenous non-protein-coding small RNAs. They exist in animals, plants, and viruses, and play an important role in gene silencing. Translational repression, mRNA cleavage, and mRNA decay initiated by miRNA-directed deadenylation of targeted mRNAs are three mechanisms of miRNA-guided gene regulation at the post-transcriptional levels. Many miRNAs are highly conserved in animals and plants, suggesting that they play an essential function in plants and animals. Lots of investigations indicate that miRNAs are involved in multiple biological processes, including stem cell differentiation, organ development, phase change, signaling, disease, cancer, and response to biotic and abiotic environmental stresses. This review provides a general background and current advance on the discovery, history, biogenesis, genomics, mechanisms, and functions of miRNAs. J. Cell. Physiol. 210: 279–289, 2007. © 2006 Wiley-Liss, Inc. [ABSTRACT FROM AUTHOR]

Abstract: microRNAs (miRNAs) are a new class of non-protein-coding, endogenous, small RNAs. They are important regulatory molecules in animals and plants. miRNA regulates gene expression by translational repression, mRNA cleavage, and mRNA decay initiated by miRNA-guided rapid deadenylation. Recent studies show that some miRNAs regulate cell proliferation and apoptosis processes that are important in cancer formation. By using multiple molecular techniques, which include Northern blot analysis, real-time PCR, miRNA microarray, up- or down-expression of specific miRNAs, it was found that several miRNAs were directly involved in human cancers, including lung, breast, brain, liver, colon cancer, and leukemia. In addition, some miRNAs may function as oncogenes or tumor suppressors. More than 50% of miRNA genes are located in cancer-associated genomic regions or in fragile sites, suggesting that miRNAs may play a more important role in the pathogenesis of a limited range of human cancers than previously thought. Overexpressed miRNAs in cancers, such as mir-17–92, may function as oncogenes and promote cancer development by negatively regulating tumor suppressor genes and/or genes that control cell differentiation or apoptosis. Underexpressed miRNAs in cancers, such as let-7, function as tumor suppressor genes and may inhibit cancers by regulating oncogenes and/or genes that control cell differentiation or apoptosis. miRNA expression profiles may become useful biomarkers for cancer diagnostics. In addition, miRNA therapy could be a powerful tool for cancer prevention and therapeutics. [Copyright &y& Elsevier]

Abstract: MicroRNAs (miRNAs) are one class of newly identified riboregulators of gene expression in many eukaryotic organisms. They play important roles in multiple biological and metabolic processes, including developmental timing, signal transduction, cell maintenance and differentiation, diseases and cancers. miRNAs regulate gene expression at the posttranscriptional level by directly cleaving targeted mRNAs or repressing translation. Although the founding members of miRNAs were discovered by genetic screening approaches, experimental approaches were limited by their low efficiency, time consuming, and high cost. As an alternative, computational approaches were developed. Computational approaches for identifying miRNAs are based on the following major characteristics of miRNAs: hairpin-shaped secondary structures, high conservation for some miRNAs, and high minimal folding free energy index (MFEI). Computational approaches also play an important role in identifying miRNA targets. A majority of known miRNAs and their targets were identified by computational approaches. Several web-based or non-web-based computer software programs are publicly available for predicting miRNAs and their targets. [Copyright &y& Elsevier]

Abstract: MicroRNAs (miRNAs) represent a newly identified class of non-protein-coding ∼20nt small RNAs which play important roles in multiple biological processes by degrading targeted mRNAs or repressing mRNA translation. After searching a genomic survey sequence database using homologs and secondary structures, we found 188 maize miRNAs belonging to 29 miRNA families. Of the 188 maize miRNA genes, 28 (15%) were found in at least one EST. A total of 115 potential targets were identified for 26 of the miRNA families based on the fact that miRNAs exhibit perfect or nearly perfect complementarity with their target sequences. A majority of the targets are transcription factors which play important roles in maize development, including leaf, shoot, and root development. Additionally, these maize miRNAs are also involved in other cellular processes, such as signal transduction, stress response, sucrose and cellulose synthesis, and ubiquitin protein degradation pathway. Some of the newly identified miRNA targets may be unique to maize. [Copyright &y& Elsevier]

Abstract: Toxicity of hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX) and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX) to earthworm was evaluated. Both MNX and TNX had lethal and sublethal effects on earthworms. Exposure to MNX- or TNX-contaminated soil caused a significant concentration-dependent decrease in earthworm survival and growth. The lowest observed lethal concentration (LOLC) for both MNX and TNX was 100 and 200mgkg−1 soil dry weight in the sandy loam soil and in the silt loam soil, respectively. No earthworms survived for 14 days in MNX- or TNX-spiked soil at 500mgkg−1 soil dry weight. After 7 days exposure, the lowest observed effect concentration (LOEC) for earthworm growth was 50mgkg−1 soil dry weight for TNX and 100mgkg−1 soil dry weight for MNX in both soil types. The LC20 and LC50 for MNX in sandy loam soil were 114 and 262mgkg−1 and for TNX, they were 114 and 254mgkg−1 soil dry weight, respectively. The corresponding values for MNX and TNX in silt loam soil were 234 and 390mgkg−1 soil dry weight, respectively, and 200 and 362mgkg−1 soil dry weight, respectively. After 35 days exposure, earthworm growth was reduced 8–39% by TNX in sandy loam soil, whereas TNX only inhibited earthworm growth 5–18% at the same concentration range in silt loam soil. LC20 and LC50 for TNX were slightly lower than for MNX; this indicates that TNX was more toxic than MNX. No significant morphological or developmental abnormalities were observed in earthworms surviving exposure. [Copyright &y& Elsevier]

Abstract: To aid in the evaluation of the potential toxicity of N-nitroso derivatives of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX), we describe a pressurized liquid extraction (PLE) followed by liquid chromatography-electrospray ionization-mass spectrometry (LC–ESI-MS) method for determination of RDX and its N-nitroso derivatives: hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX), hexahydro-1,3-dinitroso-5-nitro-1,3,5-triazine (DNX), and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX) in soils. Sandy loam soil was spiked with RDX and its N-nitroso derivatives (MNX, DNX, and TNX). Acetonitrile was used as the PLE extraction solvent at 100°C and 1500psi for 15min. Florisil was used to cleanup extracts following PLE. Instrumental analysis employed LC–ESI-MS, in which 1mM acetic acid was added to the mobile phase to facilitate formation of acetate adduct ions [M+CH3COO]−. The method detection limits (MDLs) for RDX, MNX, DNX, and TNX were 1.46, 1.46, 1.69, and 1.93ng/g, respectively. High recovery (91.1–108.3%), good precision (RSD: 3.2–12.4%), and reproducibility were achieved. This method proved effective and was applied to monitor the reductive biotransformation of MNX in soils with the presence of earthworms (Eisenia fetida). [Copyright &y& Elsevier]

Abstract: The uptake kinetics of two major RDX (hexahydro-1,3,5-trinitro-1,3,5-triazacyclohexane) metabolites, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX) and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX), into passive sampling devices (PSDs), and the ability of PSDs to serve as surrogates for evaluating bioavailability of MNX and TNX were investigated in laboratory sand and two soil types. The results indicate that MNX and TNX absorption into PSDs was best fitted with a polynomial curve model: y = ax 2 + bx + c (y: amount of MNX or TNX absorbed into PSD; x: incubation time of PSDs in soil), with an excellent correlation coefficient (>0.95) for each type of soil amended with 10mg/kg MNX or TNX. TNX was more readily absorbed by PSDs than MNX. Soil conditions, especially organic matter content, affected MNX and TNX uptake into PSDs. A relatively good correlation between MNX and TNX uptake into PSDs and uptake into earthworms was obtained in two types of natural soils (a silt loam soil from Nebraska and a sandy loam soil from Texas) and laboratory sand. A linear relationship between PSD uptake and earthworm uptake was observed. The correlation coefficients (r 2) were ≥0.82 for all test soils spiked with MNX or TNX. Organic matter content is one soil factor that affected the ratio of MNX or TNX uptake into earthworms versus uptake into PSDs. These data indicate that C18 PSDs may be used as a surrogate for soil organisms such as earthworms and provide a simple and easy chemical test for assessing the bioavailability of contaminants in soils. [Copyright &y& Elsevier]

Abstract: MicroRNAs (miRNAs) are an abundant new class of non-coding ∼20–24 nt small RNAs. To date, 872 miRNAs, belonging to 42 families, have been identified in 71 plant species by genetic screening, direct cloning after isolation of small RNAs, computational strategy, and expressed sequence tag (EST) analysis. Many plant miRNAs are evolutionarily conserved from species to species, some from angiosperms to mosses. miRNAs may originate from inverted duplications of target gene sequences in plants. Although miRNA precursors display high variability, their mature sequences display extensive sequence complementarity to their target mRNA sequences. miRNAs play important roles in plant post-transcriptional gene regulation by targeting mRNAs for cleavage or repressing translation. miRNAs are involved in plant development, signal transduction, protein degradation, response to environmental stress and pathogen invasion, and regulate their own biogenesis. miRNAs regulate the expression of many important genes; a majority of these genes are transcriptional factors. [Copyright &y& Elsevier]

Abstract: An efficient extraction and cleanup technique, and an instrumental detection method suitable for determination of trace amounts of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) and its nitroso-metabolites in animal liver tissue were developed and validated in this paper. The method includes the extraction of explosives from liver tissue samples using accelerated solvent extraction (ASE) followed by cleanup using florisil and styrene-divinyl benzene (SDB) cartridges to remove interfering naturally endogenous compounds. The instrumental analysis was conducted using a capillary column gas chromatograph coupled with an electron capture detector (GC–ECD). High recoveries (58.9–106.8%) of RDX, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX), hexahydro-1,3-dinitroso-5-nitro-1,3,5-triazine (DNX), and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX) were achieved at all concentrations studied. RDX, MNX, and TNX gave higher recoveries than DNX at all three tested concentrations (50, 250, 1250ng/g). Overall recoveries of RDX, MNX, DNX, and TNX from 1g beef liver samples containing 50, 250, and 1250ng/g were 80.1, 82.8, 68.9, and 80.4%, respectively. The optimal injection port temperature range was 160–170°C for analysis of RDX and its nitroso-metabolites. Higher or lower temperatures than 160–170°C decreased signal amplitudes. RDX was unstable in the liver extraction matrix; as much as 50% of RDX was degraded 10 days after extraction if keeping the liver sample extracts at room temperature. Degradation of RDX to MNX, DNX, or TNX was not detected during the sample storage, extraction, or instrument analysis processes. Other optimized extraction and GC conditions are also discussed. [Copyright &y& Elsevier]

Abstract: A rapid, sensitive, and reproducible method was developed for quantitative determination of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) and its biodegradation intermediates, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX), hexahydro-1,3-dinitroso-5-nitro-1,3,5-triazine (DNX), and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX) in soils. RDX, MNX, DNX, or TNX was extracted from soil by pressurized liquid extraction (PLE), followed by cleanup using florisil. Instrumental analysis was performed using gas chromatography with electron capture detection (GC–ECD), which was highly sensitive to the parent explosive and its metabolites. The method detection limits (MDLs) were 0.243, 0.095, 0.138, and 0.057ng/g for RDX, MNX, DNX, and TNX, respectively. The method gave high recovery (98–102%), good precision (0.22–5.14%), and reproducibility, and proved to be suitable for real world sample analysis. [Copyright &y& Elsevier]

Vascular calcification is an ectopic calcification that commonly occurs in atherosclerosis. Because taurine was previously shown to protect against cardiovascular diseases, the effect of taurine on vascular calcification was evaluated in calcified vascular smooth muscle cells (VSMCs) of rat in vitro in the present study. Osteoblastic differentiation, calcification, and proliferation in VSMCs were detected in the presence and absence of taurine. Alkaline phosphatase (ALP), cellular calcium content, and 45Ca accumulation were measured as the indicators of osteoblastic differentiation and calcification. Incubation of VSMCs with Β-glycerophosphate for 10 days induced an osteoblast-like morphological change. The activity of ALP was enhanced. Calcium content and 45Ca uptake were increased in these cells. Calcification of these VSMCs was demonstrated with Β-glycerophosphate treatment. In association with these alterations, cell proliferation, detected by cell counting, [3H]thymidine ([3H]TdR), and [3H]leucine ([3H]Leu) incorporation, was also increased in these calcified VSMCs. Taurine at 20 mmol/l decreased calcium content, 45Ca2+ uptake, and ALP activity both after early and late treatment, in which a reduction of the cell count, [3H″]TdR, and [3H]Leu incorporation of calcified VSMCs was also noted. Compared with the calcified group, morphological changes in the VSMCs of the early-treated group were deferred. These results demonstrated that calcification of VSMCs could be alleviated by taurine. Taurine treatment appeared to be more beneficial when the treatment was started earlier. [ABSTRACT FROM AUTHOR]

The aim of the present study was to investigate the change in heme oxygenase (HO)-carbon monoxide (CO)-cyclic guanosine monophosphate (cGMP) pathway in vascular calcification. Vascular calcification model was established in rats by using vitamin D3 and nicotine. Vascular calcium content, alkaline phosphatase (ALP) activity, HO activity, HbCO formation and content of cGMP in vessels were measured. Immunochemistry (IH) for HO 1 expression and in situ hybridization (ISH) for HO 1 mRNA were observed. Compared to those of control rats, the aortic calcium content and vascular ALP activity in rats of the calcified group (VDN group) were obviously increased, but HO 1 activity, CO concentration and cGMP content in vessels of rats in VDN group were markedly decreased. Expressions of HO-1 protein and mRNA were significantly decreased compared to control rats. Vascular calcification might induce a down regulation in vascular HO-CO-cGMP pathway. [Copyright &y& Elsevier]

Auxin response factors (ARFs) are a family of transcription factors that play an important role of auxin regulation through their binding with auxin response elements. ARF genes are represented by a large multigene family in plants; however, to our knowledge, the ARF gene family has not been well studied and characterized in sweet potatoes. In this study, a total of 25 ARF genes were identified in Ipomea trifida. The identified ItrARF genes' conserved motifs, chromosomal locations, phylogenetic relationships, and their protein characteristics were systemically investigated using different bioinformatics tools. The expression patterns of ItfARF genes were analyzed within the storage roots and normal roots at an early stage of development. ItfARF16b and ItfARF16c were both highly expressed in the storage root, with minimal to no expression in the normal root. ItfARF6a and ItfARF10a exhibited higher expression in the normal root but not in the storage root. Subsequently, ItfARF1a, ItfARF2b, ItfARF3a, ItfARF6b, ItfARF8a, ItfARF8b, and ItfARF10b were expressed in both root types with moderate to high expression for each. All ten of these ARF genes and their prominent expression signify their importance within the development of each respective root type. This study provides comprehensive information regarding the ARF family in sweet potatoes, which will be useful for future research to discover further functional verification of these ItfARF genes. [ABSTRACT FROM AUTHOR]