In vitro activity of Camellia sinensis (green tea) against trophozoites and cysts of Acanthamoeba castellanii

© 2020 The Author(s) The effect of Camellia sinensis (green tea) on the growth of Acanthamoeba castellanii trophozoites was examined using a microplate based-Sulforhodamine B (SRB) assay. C. sinensis hot and cold brews at 75% and 100% concentrations significantly inhibited the growth of trophozoites. We also examined the structural alterations in C. sinensis-treated trophozoites using transmission electron microscopy (TEM) and scanning electron microscopy (SEM). This analysis showed that C. sinensis compromised the cell membrane integrity and caused progressive destruction of trophozoites. C. sinensis also significantly inhibited the parasite's ability to form cysts in a dose-dependent manner and reduced the rate of excystation from cysts to trophozoites. C. sinensis exhibited low cytotoxic effects on primary corneal stromal cells. However, cytotoxicity was more pronounced in SV40-immortalized corneal epithelial cells. Chromatographic analysis showed that both hot and cold C. sinensis brews contained the same number and type of chemical compounds. This work demonstrated that C. sinensis has anti-acanthamoebic activity against trophozoite and cystic forms of A. castellanii. Further studies are warranted to identify the exact substances in C. sinensis that have the most potent anti-acanthamoebic effect

PERGA: A Paired-End Read Guided De Novo Assembler for Extending Contigs Using SVM and Look Ahead Approach

Since the read lengths of high throughput sequencing (HTS) technologies are short, de novo assembly which plays significant roles in many applications remains a great challenge. Most of the state-of-the-art approaches base on de Bruijn graph strategy and overlap-layout strategy. However, these approaches which depend on k-mers or read overlaps do not fully utilize information of paired-end and single-end reads when resolving branches. Since they treat all single-end reads with overlapped length larger than a fix threshold equally, they fail to use the more confident long overlapped reads for assembling and mix up with the relative short overlapped reads. Moreover, these approaches have not been special designed for handling tandem repeats (repeats occur adjacently in the genome) and they usually break down the contigs near the tandem repeats. We present PERGA (Paired-End Reads Guided Assembler), a novel sequence-reads-guided de novo assembly approach, which adopts greedy-like prediction strategy for assembling reads to contigs and scaffolds using paired-end reads and different read overlap size ranging from Omax to Omin to resolve the gaps and branches. By constructing a decision model using machine learning approach based on branch features, PERGA can determine the correct extension in 99.7% of cases. When the correct extension cannot be determined, PERGA will try to extend the contig by all feasible extensions and determine the correct extension by using look-ahead approach. Many difficult-resolved branches are due to tandem repeats which are close in the genome. PERGA detects such different copies of the repeats to resolve the branches to make the extension much longer and more accurate. We evaluated PERGA on both Illumina real and simulated datasets ranging from small bacterial genomes to large human chromosome, and it constructed longer and more accurate contigs and scaffolds than other state-of-the-art assemblers. PERGA can be freely downloaded at https://github.com/hitbio/PERGA.published_or_final_versio

Molecular characterization of a Toxocara variant from cats in Kuala Lumpur, Malaysia

The ascaridoid nematode of cats from Kuala Lumpur, Malaysia, previously identified morphologically as Toxocara canis, was characterized using a molecular approach. The nuclear ribosomal DNA (rDNA) region spanning the first internal transcribed spacer (ITS-1), the 5.8S gene and the second internal transcribed spacer (ITS-2) was amplified and sequenced. The sequences for the parasite from Malaysian cats were compared with those for T. canis and T. cati. The sequence data showed that this taxon was genetically more similar to T. cati than to T. canis in the ITS-1, 5.8S and ITS-2. Differences in the ITS-1 and ITS-2 sequences between the taxa (9.4-26.1%) were markedly higher than variation between samples within T. canis and T. cati (0-2.9%). The sequence data demonstrate that the parasite from Malaysian cats is neither T. canis nor T. cati and indicate that it is a distinct species. Based on these data, PCR-linked restriction fragment length polymorphism (RFLP) and single-strand conformation polymorphism (SSCP) methods were employed for the unequivocal differentiation of the Toxocara variant from T. canis and T. cati. These methods should provide valuable tools for studying the life-cycle, transmission pattern(s) and zoonotic potential of this parasite

Quality evaluation for measurements of wind field and turbulent fluxes from a UAV-based eddy covariance system

Instrumentation packages for eddy covariance (EC) measurements have been developed for unoccupied aerial vehicles (UAVs) to measure the turbulent fluxes of latent heat (LE), sensible heat (H), and CO2 (Fc) in the atmospheric boundary layer. This study aims to evaluate the performance of this UAV-based EC system. First, the measurement precision (1σ) of georeferenced wind was estimated to be 0.07 m s−1. Then, the effect of the calibration parameter and aerodynamic characteristics of the UAV on wind measurement was examined by conducting a set of calibration flights. The results showed that the calibration improved the quality of the measured wind field, and the influence of upwash and the leverage effect can be ignored in wind measurement by the UAV. Third, for the measurements of turbulent fluxes, the error caused by instrumental noise was estimated to be 0.03 µmolm-2s-1 for Fc, 0.02 W m−2 for H, and 0.08 W m−2 for LE. Fourth, data from the standard operational flights were used to assess the influence of resonance on the measurements and to test the sensitivity of the measurement under the variation (±30 %) in the calibration parameters around their optimum value. The results showed that the effect of resonance mainly affected the measurement of CO2 (∼5 %). The pitch offset angle (εθ) significantly affected the measurement of vertical wind (∼30 %) and turbulent fluxes (∼15 %). The heading offset angle (εψ) mainly affected the measurement of horizontal wind (∼15 %), and other calibration parameters had no significant effect on the measurements. The results lend confidence to the use of the UAV-based EC system and suggest future improvements for the optimization of the next-generation system.</p

H11-induced immunoprotection is predominantly linked to N-glycan moieties during Haemonchus contortus infection

Nematodes are one of the largest groups of animals on the planet. Many of them are major pathogens of humans, animals and plants, and cause destructive diseases and socioeconomic losses worldwide. Despite their adverse impacts on human health and agriculture, nematodes can be challenging to control, because anthelmintic treatments do not prevent re-infection, and excessive treatment has led to widespread drug resistance in nematode populations. Indeed, many nematode species of livestock animals have become resistant to almost all classes of anthelmintics used. Most efforts to develop commercial anti-nematode vaccines (native or recombinant) for use in animals and humans have not succeeded, although one effective (dead) vaccine (Barbervax) has been developed to protect animals against one of the most pathogenic parasites of livestock animals – Haemonchus contortus (the barber’s pole worm). This vaccine contains native molecules, called H11 and H-Gal-GP, derived from the intestine of this blood-feeding worm. In its native form, H11 alone consistently induces high levels (75-95%) of immunoprotection in animals against disease (haemonchosis), but recombinant forms thereof do not. Here, to test the hypothesis that post-translational modification (glycosylation) of H11 plays a crucial role in achieving such high immunoprotection, we explored the N-glycoproteome and N-glycome of H11 using the high-resolution mass spectrometry and assessed the roles of N-glycosylation in protective immunity against H. contortus. Our results showed conclusively that N-glycan moieties on H11 are the dominant immunogens, which induce high IgG serum antibody levels in immunised animals, and that anti-H11 IgG antibodies can confer specific, passive immunity in naïve animals. This work provides the first detailed account of the relevance and role of protein glycosylation in protective immunity against a parasitic nematode, with important implications for the design of vaccines against metazoan parasites.Peer Reviewe

Immunostimulatory efficacy and protective potential of putative TgERK7 protein in mice experimentally infected by Toxoplasma gondii

© 2020 The Author(s) The extracellular signal-regulated kinases (ERKs) serve as important determinants of cellular signal transduction pathways, and hence may play important roles during infections. Previous work suggested that putative ERK7 of Toxoplasma gondii is required for efficient intracellular replication of the parasite. However, the antigenic and immunostimulatory properties of TgERK7 protein remain unknown. The objective of this study was to produce a recombinant TgERK7 protein in vitro and to evaluate its effect on the induction of humoral and T cell-mediated immune responses against T. gondii infection in BALB/c mice. Immunization using TgERK7 mixed with Freund's adjuvants significantly increased the ratio of CD3e+CD4+ T/CD3e+CD8a+ T lymphocytes in spleen and elevated serum cytokines (IFN-γ, IL-2, IL-4, IL-10, IL-12p70, IL-23, MCP-1, and TNF-α) in immunized mice compared to control mice. On the contrary, immunization did not induce high levels of serum IgG antibodies. Five predicted peptides of TgERK7 were synthesized and conjugated with KLH and used to analyze the antibody specificity in the sera of immunized mice. We detected a progressive increase in the antibody level only against TgERK7 peptide A (DEVDKHVLRKYD). Antibody raised against this peptide significantly decreased intracellular proliferation of T. gondii in vitro, suggesting that peptide A can potentially induce a protective antibody response. We also showed that immunization improved the survival rate of mice challenged with a virulent strain and significantly reduced the parasite cyst burden within the brains of chronically infected mice. Our data show that TgERK7-based immunization induced TgERK7 peptide A-specific immune responses that can impart protective immunity against T. gondii infection. The therapeutic potential of targeting ERK7 signaling pathway for future toxoplasmosis treatment is warranted

Concurrence Vectors for Entanglement of High-dimensional Systems

The concurrence vectors are proposed by employing the fundamental representation of $A_n$ Lie algebra, which provides a clear criterion to evaluate the entanglement of bipartite system of arbitrary dimension for both pure and mixed states. Accordingly, a state is separable if the norm of its concurrence vector vanishes. The state vectors related to SU(3) states and SO(3) states are discussed in detail. The sign situation of nonzero components of concurrence vectors of entangled bases presents a simple criterion to judge whether the whole Hilbert subspace spanned by those bases is entangled, or there exists entanglement edge. This is illustrated in terms of the concurrence surfaces of several concrete examples.Comment: Revtex4, 7 pages, 3 figures; extended with 3 more page

Multiparticle correlations and higher order harmonics in pPb collisions at √s_(NN) = 8.16 TeV

The elliptic and higher-order azimuthal anisotropy Fourier harmonics (vn) are obtained for pPb collisions at √s_(NN) = 8.16 TeV over a wide range of event multiplicities based on multiparticle correlations. The data were collected by the CMS experiment during the 2016 LHC run. A sample of peripheral PbPb collisions at √s_(NN) = 5.02 TeV covering a similar range of event multiplicities to the pPb results is also analyzed for comparison. The ratios of different harmonic moments are obtained for both v_2 and v_3 with high precision, which allows a direct comparison to theoretical predictions assuming a hydrodynamic evolution of the created medium with initial-state density fluctuations, particularly probing the non-Gaussian nature of initial-state fluctuations in small collision systems. The presented results provide crucial insights into the origin of collective long-range correlations observed in small collision systems

A Hybrid Spam Detection Method Based on Unstructured Datasets

This document is the accepted manuscript version of the following article: Shao, Y., Trovati, M., Shi, Q. et al. Soft Comput (2017) 21: 233. The final publication is available at Springer via http://dx.doi.org/10.1007/s00500-015-1959-z. © Springer-Verlag Berlin Heidelberg 2015.The identification of non-genuine or malicious messages poses a variety of challenges due to the continuous changes in the techniques utilised by cyber-criminals. In this article, we propose a hybrid detection method based on a combination of image and text spam recognition techniques. In particular, the former is based on sparse representation-based classification, which focuses on the global and local image features, and a dictionary learning technique to achieve a spam and a ham sub-dictionary. On the other hand, the textual analysis is based on semantic properties of documents to assess the level of maliciousness. More specifically, we are able to distinguish between meta-spam and real spam. Experimental results show the accuracy and potential of our approach.Peer reviewedFinal Accepted Versio

Fermions tunnelling from the charged dilatonic black holes

Kerner and Mann's recent work shows that, for an uncharged and non-rotating black hole, its Hawking temperature can be exactly derived by fermions tunnelling from its horizons. In this paper, our main work is to improve the analysis to deal with charged fermion tunnelling from the general dilatonic black holes, specifically including the charged, spherically symmetric dilatonic black hole, the rotating Einstein-Maxwell-Dilaton-Axion (EMDA) black hole and the rotating Kaluza-Klein (KK) black hole. As a result, the correct Hawking temperatures are well recovered by charged fermions tunnelling from these black holes.Comment: 16 pages, revised version to appear in Class. Quant. Gra