Browse publications by year: 2015

  1. Reuter SE, Upton RN, Evans AM, Navaratnam V, Olliaro PL
    J Antimicrob Chemother, 2015 Mar;70(3):868-76.
    PMID: 25377567 DOI: 10.1093/jac/dku430
    BACKGROUND: The determination of dosing regimens for the treatment of malaria is largely empirical and thus a better understanding of the pharmacokinetic/pharmacodynamic properties of antimalarial agents is required to assess the adequacy of current treatment regimens and identify sources of suboptimal dosing that could select for drug-resistant parasites. Mefloquine is a widely used antimalarial, commonly given in combination with artesunate.

    PATIENTS AND METHODS: Mefloquine pharmacokinetics was assessed in 24 healthy adults and 43 patients with Plasmodium falciparum malaria administered mefloquine in combination with artesunate. Population pharmacokinetic modelling was conducted using NONMEM.

    RESULTS: A two-compartment model with a single transit compartment and first-order elimination from the central compartment most adequately described mefloquine concentration-time data. The model incorporated population parameter variability for clearance (CL/F), central volume of distribution (VC/F) and absorption rate constant (KA) and identified, in addition to body weight, malaria infection as a covariate for VC/F (but not CL/F). Monte Carlo simulations predict that falciparum malaria infection is associated with a shorter elimination half-life (407 versus 566 h) and T>MIC (766 versus 893 h).

    CONCLUSIONS: This is the first known population pharmacokinetic study to show falciparum malaria to influence mefloquine disposition. Protein binding, anaemia and other factors may contribute to differences between healthy individuals and patients. As VC/F is related to the earlier portion of the concentration-time profiles, which occurs during acute malaria, and CL/F is more related to the terminal phase during convalescence after treatment, this may explain why malaria was found to be a covariate for VC/F but not CL/F.

    MeSH terms: Administration, Oral; Adolescent; Adult; Antimalarials/administration & dosage*; Antimalarials/pharmacokinetics*; Female; Humans; Male; Middle Aged; Monte Carlo Method; Plasma/chemistry; Mefloquine/administration & dosage*; Mefloquine/pharmacokinetics*; Malaria, Falciparum/drug therapy*; Cross-Over Studies; Artemisinins/administration & dosage; Young Adult; Healthy Volunteers
  2. Looi LJ, Aris AZ, Yusoff FM, Hashim Z
    Environ Monit Assess, 2015 Jan;187(1):4099.
    PMID: 25380712 DOI: 10.1007/s10661-014-4099-5
    Sediment is a great indicator for assessing coastal mercury contamination. This work profiled the magnitude of mercury pollution in the tropical estuaries and coastal sediments of the Strait of Malacca. Mercury was extracted through the ultrasound-assisted mercury extraction method and analyzed using the flow injection mercury system. The mean concentration of mercury in the sediment samples was 61.43 ± 23.25 μg/kg, ranging from 16.55 ± 0.61 to 114.02 ± 1.54 μg/kg. Geoaccumulation index revealed that a total of 13% of sampling sites were moderately enriched with mercury. The northern part of the Strait of Malacca had the highest mean mercury (Hg) concentration (76.36 ± 27.25 μg/kg), followed by the southern (64.59 ± 16.09 μg/kg) and central (39.33 ± 12.91 μg/kg) parts. Sediment mercury concentration in the current study was lower than other regions like Japan, China, Indian, east Mediterranean, and Taiwan. When compared to the Canadian interim marine and freshwater sediment, China's soil interim environmental guidelines, mercury contamination in the Strait of Malacca was found to be below these permissible limits. Sediment organic matter content was found to have significant correlation with sediment mercury concentration. This study could provide the latest benchmark of mercury pollution and prove beneficial to future pollution studies in relation to monitoring works in tropical estuaries and coastal sediments.
    MeSH terms: Environmental Monitoring*; Malaysia; Mercury/analysis*; Soil/chemistry; Water Pollutants, Chemical/analysis*; Geologic Sediments/chemistry*; Estuaries*
  3. Nisar H, Malik AS, Ullah R, Shim SO, Bawakid A, Khan MB, et al.
    Adv Exp Med Biol, 2015;823:159-74.
    PMID: 25381107 DOI: 10.1007/978-3-319-10984-8_9
    The fundamental step in brain research deals with recording electroencephalogram (EEG) signals and then investigating the recorded signals quantitatively. Topographic EEG (visual spatial representation of EEG signal) is commonly referred to as brain topomaps or brain EEG maps. In this chapter, full search full search block motion estimation algorithm has been employed to track the brain activity in brain topomaps to understand the mechanism of brain wiring. The behavior of EEG topomaps is examined throughout a particular brain activation with respect to time. Motion vectors are used to track the brain activation over the scalp during the activation period. Using motion estimation it is possible to track the path from the starting point of activation to the final point of activation. Thus it is possible to track the path of a signal across various lobes.
    MeSH terms: Algorithms*; Brain/physiology*; Brain Mapping; Electroencephalography/methods*; Humans; Models, Neurological*; Motion
  4. Khan MB, Lee XY, Nisar H, Ng CA, Yeap KH, Malik AS
    Adv Exp Med Biol, 2015;823:227-48.
    PMID: 25381111 DOI: 10.1007/978-3-319-10984-8_13
    Activated sludge system is generally used in wastewater treatment plants for processing domestic influent. Conventionally the activated sludge wastewater treatment is monitored by measuring physico-chemical parameters like total suspended solids (TSSol), sludge volume index (SVI) and chemical oxygen demand (COD) etc. For the measurement, tests are conducted in the laboratory, which take many hours to give the final measurement. Digital image processing and analysis offers a better alternative not only to monitor and characterize the current state of activated sludge but also to predict the future state. The characterization by image processing and analysis is done by correlating the time evolution of parameters extracted by image analysis of floc and filaments with the physico-chemical parameters. This chapter briefly reviews the activated sludge wastewater treatment; and, procedures of image acquisition, preprocessing, segmentation and analysis in the specific context of activated sludge wastewater treatment. In the latter part additional procedures like z-stacking, image stitching are introduced for wastewater image preprocessing, which are not previously used in the context of activated sludge. Different preprocessing and segmentation techniques are proposed, along with the survey of imaging procedures reported in the literature. Finally the image analysis based morphological parameters and correlation of the parameters with regard to monitoring and prediction of activated sludge are discussed. Hence it is observed that image analysis can play a very useful role in the monitoring of activated sludge wastewater treatment plants.
    MeSH terms: Algorithms*; Image Processing, Computer-Assisted/methods*; Models, Theoretical; Sewage/analysis*; Sewage/chemistry; Waste Disposal, Fluid/methods*; Reproducibility of Results
  5. Biglari S, Alfizah H, Ramliza R, Rahman MM
    J Med Microbiol, 2015 Jan;64(Pt 1):53-8.
    PMID: 25381148 DOI: 10.1099/jmm.0.082263-0
    Antimicrobial resistance in Acinetobacter baumannii is a growing public health concern and an important pathogen in nosocomial infections. We investigated the genes involved in resistance to carbapenems and cephalosporins in clinical A. baumannii isolates from a tertiary medical centre in Malaysia. A. baumannii was isolated from 167 clinical specimens and identified by sequencing of the 16S rRNA and rpoB genes. The MIC for imipenem, meropenem, ceftazidime and cefepime were determined by the E-test method. The presence of carbapenemase and cephalosporinase genes was investigated by PCR. The isolates were predominantly nonsusceptible to carbapenems and cephalosporins (>70 %) with high MIC values. ISAba1 was detected in all carbapenem-nonsusceptible A. baumannii harbouring the blaOXA-23-like gene. The presence of blaOXA-51-like and ISAba1 upstream of blaOXA-51 was not associated with nonsusceptibility to carbapenems. A. baumannii isolates harbouring ISAba1-blaADC (85.8 %) were significantly associated with nonsusceptibility to cephalosporins (P<0.0001). However, ISAba1-blaADC was not detected in a minority (<10 %) of the isolates which were nonsusceptible to cephalosporins. The acquired OXA-23 enzymes were responsible for nonsusceptibility to carbapenems in our clinical A. baumannii isolates and warrant continuous surveillance to prevent further dissemination of this antibiotic resistance gene. The presence of ISAba1 upstream of the blaADC was a determinant for cephalosporin resistance. However, the absence of this ISAba1-blaADC in some of the isolates may suggest other resistance mechanisms and need further investigation.
    MeSH terms: Acinetobacter Infections/microbiology*; Adolescent; Adult; Aged; Aged, 80 and over; Bacterial Proteins/genetics*; beta-Lactamases/genetics*; Cephalosporinase/genetics*; Cephalosporins/pharmacology; Child; Child, Preschool; DNA, Bacterial/genetics; DNA, Bacterial/chemistry; DNA, Ribosomal/genetics; DNA, Ribosomal/chemistry; Female; Humans; Infant; Infant, Newborn; Malaysia; Male; Microbial Sensitivity Tests; Middle Aged; DNA-Directed RNA Polymerases/genetics; RNA, Ribosomal, 16S/genetics; Carbapenems/pharmacology; Sequence Analysis, DNA; Acinetobacter baumannii/enzymology*; Acinetobacter baumannii/genetics; Acinetobacter baumannii/isolation & purification; Young Adult; Tertiary Care Centers
  6. Liau KF, Shoji T, Ong YH, Chua AS, Yeoh HK, Ho PY
    Bioprocess Biosyst Eng, 2015 Apr;38(4):729-37.
    PMID: 25381606 DOI: 10.1007/s00449-014-1313-3
    A recently reported stable and efficient EBPR system at high temperatures around 30 °C has led to characterization of kinetic and stoichiometric parameters of the Activated Sludge Model no. 2d (ASM2d). Firstly, suitable model parameters were selected by identifiability analysis. Next, the model was calibrated and validated. ASM2d was found to represent the processes well at 28 and 32 °C except in polyhyroxyalkanoate (PHA) accumulation of the latter. The values of the kinetic parameters for PHA storage (q PHA), polyphosphate storage (q PP) and growth (μ PAO) of polyphosphate-accumulating organisms (PAOs) at 28 and 32 °C were found to be much higher than those reported by previous studies. Besides, the value of the stoichiometric parameter for the requirement of polyphosphate for PHA storage (Y PO4) was found to decrease as temperature rose from 28 to 32 °C. Values of two other stoichiometric parameters, i.e. the growth yield of heterotrophic organisms (Y H) and PAOs (Y PAO), were high at both temperatures. These calibrated parameters imply that the extremely active PAOs of the study were able to store PHA, store polyphosphate and even utilize PHA for cell growth. Besides, the parameters do not follow the Arrhenius correlation due to the previously reported unique microbial clade at 28 and 32 °C, which actively performs EBPR at high temperatures.
    MeSH terms: Calibration; Glycogen/chemistry; Industrial Microbiology*; Kinetics; Phosphates/chemistry; Phosphorus/chemistry*; Polyphosphates/chemistry; Sewage; Temperature; Tropical Climate; Waste Disposal, Fluid; Water Purification/methods*; Bioreactors*; Biological Oxygen Demand Analysis; Waste Water
  7. Loft MH, Loo JM
    J Gambl Stud, 2015 Dec;31(4):1273-86.
    PMID: 25381635 DOI: 10.1007/s10899-014-9514-x
    Problem gambling and sleep difficulty threaten health. Using the basis of self-regulatory theory, potential mechanisms for these problems were investigated. Fifty-nine treatment-seeking gamblers completed the Pittsburgh Sleep Quality Index (sleep difficulty), the Sleep Hygiene Index (negative sleep habits), the Problem Gambling Severity Index and measures of self-regulatory capacity and arousability with data entered into regression analyses. Results supported the relationship between problem gambling and greater sleep difficulty (β = .18, t = 3.22, p < .01). Self-regulatory capacity mediated the relationship between problem gambling and sleep difficulty (R (2) change = .15, F(2, 57) = 12.14, β = -.45, t = -3.45, p < .001) as well as between problem gambling and negative sleep habits; R (2) change = .17, F(2, 57) = 13.57, β = -.28, t = -3.76, p < .001. Arousability predicted sleep difficulty (β = .15, t = 3.07, p < .01) and negative sleep habits (β = .40, t = 5.40, p < .01) but showed no relationship with problem gambling (r = .09, ns). Self-regulatory capacity represents an important mediator of the relationship between problem gambling and sleep-related behaviour and if targeted could reduce behavioural threats to health.
    MeSH terms: Adult; Female; Gambling/epidemiology; Gambling/psychology*; Health Status; Humans; Sleep Initiation and Maintenance Disorders/diagnosis*; Sleep Initiation and Maintenance Disorders/epidemiology; Sleep Initiation and Maintenance Disorders/psychology*; Internal-External Control*; Malaysia; Male; Middle Aged; Risk-Taking; Severity of Illness Index*; Health Behavior
  8. Yap PS, Krishnan T, Chan KG, Lim SH
    J Microbiol Biotechnol, 2015 Aug;25(8):1299-306.
    PMID: 25381741 DOI: 10.4014/jmb.1407.07054
    This study aimed to investigate the mechanism of action of the cinnamon bark essential oil (CB), when used singly and also in combination with piperacillin, for its antimicrobial and synergistic activity against beta-lactamase TEM-1 plasmid-conferred Escherichia coli J53 R1. Viable count of this combination showed a complete killing profile at 20 h and further confirmed its synergistic effect by reducing the bacteria cell numbers. Analysis on the stability of treated cultures for cell membrane permeability by CB when tested against sodium dodecyl sulfate revealed that the bacterial cell membrane was disrupted by the essential oils. Scanning electron microscopy observation and bacterial surface charge measurement also revealed that CB causes irreversible membrane damage and reduces the bacterial surface charge. In addition, bioluminescence expression of Escherichia coli [pSB1075] and E. coli [pSB401] by CB showed reduction, indicating the possibility of the presence of quorum sensing (QS) inhibitors. Gas-chromatography and mass spectrometry of the essential oil of Cinnamomum verum showed that trans-cinnamaldehyde (72.81%), benzyl alcohol (12.5%), and eugenol (6.57%) were the major components in the essential oil. From this study, CB has the potential to reverse E. coli J53 R1 resistance to piperacillin through two pathways; modification in the permeability of the outer membrane or bacterial QS inhibition.
    MeSH terms: Anti-Bacterial Agents/analysis; Anti-Bacterial Agents/isolation & purification; Anti-Bacterial Agents/pharmacology*; beta-Lactamases/genetics; beta-Lactamases/secretion; Cell Membrane/drug effects; Cell Membrane/ultrastructure; Cinnamomum zeylanicum/chemistry*; Drug Synergism*; Escherichia coli/drug effects*; Escherichia coli/enzymology; Escherichia coli/genetics; Escherichia coli/ultrastructure; Gas Chromatography-Mass Spectrometry; Microscopy, Electron, Scanning; Oils, Volatile/isolation & purification; Oils, Volatile/pharmacology*; Oils, Volatile/chemistry; Piperacillin/pharmacology*; Plasmids; Colony Count, Microbial; Plant Bark/chemistry; Drug Resistance, Multiple, Bacterial*; Microbial Viability/drug effects; Quorum Sensing/drug effects
  9. Lee SW, Chaiyakunapruk N, Chong HY, Liong ML
    BJU Int, 2015 Aug;116(2):252-64.
    PMID: 25381743 DOI: 10.1111/bju.12983
    To compare the effectiveness of various treatments used for lower pole renal calculi.
    MeSH terms: Adult; Female; Humans; Kidney Calculi/surgery*; Male; Middle Aged; Treatment Outcome; Young Adult
  10. Tan VP, Macdonald HM, McKay HA
    J. Bone Miner. Res., 2015 Mar;30(3):585-6.
    PMID: 25381875 DOI: 10.1002/jbmr.2399
    MeSH terms: Bone and Bones/physiology*; Female; Humans; Male; Motor Activity/physiology*
  11. Yap IK, Kho MT, Lim SH, Ismail NH, Yam WK, Chong CW
    Mol Biosyst, 2015 Jan;11(1):297-306.
    PMID: 25382376 DOI: 10.1039/c4mb00463a
    Understanding the basal gut bacterial community structure and the host metabolic composition is pivotal for the interpretation of laboratory treatments designed to answer questions pertinent to host-microbe interactions. In this study, we report for the first time the underlying gut microbiota and systemic metabolic composition in BALB/c mice during the acclimatisation period. Our results showed that stress levels were reduced in the first three days of the study when the animals were subjected to repetitive handling daily but the stress levels were increased when handling was carried out at lower frequencies (weekly). We also observed a strong influence of stress on the host metabolism and commensal compositional variability. In addition, temporal biological compartmental variations in the responses were observed. Based on these results, we suggest that consistency in the frequency and duration of laboratory handling is crucial in murine models to minimise the impact of stress levels on the commensal and host metabolism dynamics. Furthermore, caution is advised in consideration of the temporal delay effect when integrating metagenomics and metabonomics data across different biological matrices (i.e. faeces and urine).
    MeSH terms: Acclimatization*; Gastrointestinal Microbiome*; Animals; Corticosterone/metabolism; Feces/microbiology; Feces/chemistry; Female; Male; RNA, Ribosomal, 16S/genetics; Stress, Physiological*; Gastrointestinal Tract/metabolism*; Gastrointestinal Tract/microbiology*; Mice; Metagenome; Metabolomics/methods
  12. Razak IS, Latif MT, Jaafar SA, Khan MF, Mushrifah I
    Environ Sci Pollut Res Int, 2015 Apr;22(8):6024-33.
    PMID: 25382497 DOI: 10.1007/s11356-014-3781-z
    This study was conducted to determine the composition of surfactants in atmospheric aerosols and rainwater in the vicinity of Lake Chini, Malaysia. Samples of atmospheric aerosol and rainwater were collected between March and September 2011 using a high volume air sampler (HVAS) and glass bottles equipped with funnel. Colorimetric analysis was undertaken to determine the concentration of anionic surfactants as methylene blue active substances (MBAS) and cationic surfactants as disulphine blue active substances (DBAS). The water-soluble ionic compositions were determined using inductively coupled plasma mass spectrometry for cations (Na, K, Mg and Ca) and ion chromatography equipped with a conductivity detector for anions (F(-), Cl(-), NO3(-), and SO4(2-)) and the Nessler Method was used to obtain the NH4(+) concentrations. The source apportionment of MBAS and DBAS in atmospheric aerosols was identified using a combination of principal component analysis (PCA) and multiple linear regression (MLR). The results revealed that the concentrations of surfactants in atmospheric aerosols and rainwater were dominated by anionic surfactants as MBAS. The concentration of surfactants as MBAS and DBAS was dominated in fine mode compared to coarse mode aerosols. Using PCA/MLR analysis, two major sources of atmospheric surfactants to Lake Chini were identified as soil dust (75 to 93%) and biomass burning (2 to 22%).
    MeSH terms: Aerosols; Dust/analysis; Coloring Agents/chemistry; Environmental Monitoring; Malaysia; Methylene Blue/chemistry; Rain; Rosaniline Dyes/chemistry; Surface-Active Agents/analysis*; Ecosystem; Principal Component Analysis; Lakes
  13. Weller JM, Bergua A, Mardin CY
    Retin Cases Brief Rep, 2015;9(1):72-7.
    PMID: 25383851 DOI: 10.1097/ICB.0000000000000087
    To describe the clinical findings, diagnostics, and differential diagnosis in a patient with retinopathy in acute systemic Epstein-Barr virus (EBV) infection.
    MeSH terms: Acute Disease; Adult; Diagnosis, Differential; Follow-Up Studies; Humans; Male; Retinal Diseases/virology*; Eye Infections, Viral/complications*; Epstein-Barr Virus Infections/complications*; Tomography, Optical Coherence/methods
  14. Suthandiram S, Gan GG, Mohd Zain S, Bee PC, Lian LH, Chang KM, et al.
    Tumour Biol., 2015 Mar;36(3):1819-34.
    PMID: 25384508 DOI: 10.1007/s13277-014-2785-0
    Corroborating evidence related to the role of aberrations on one-carbon metabolism (OCM) genes has been inconsistent. We evaluated the association between polymorphisms in 12 single nucleotide polymorphisms (SNPs) in 8 OCM genes (CBS, FPGS, FTHFD, MTRR, SHMT1, SLC19A1, TCN1, and TYMS), and non-Hodgkin lymphoma (NHL) risk in a multi-ethnic population which includes Malay, Chinese and Indian ethnic subgroups. Cases (N = 372) and controls (N = 722) were genotyped using the Sequenom MassARRAY platform. Our results of the pooled subjects showed a significantly enhanced NHL risk for CBS Ex9 + 33C > T (T versus C: OR 1.55, 95% CI 1.22-1.96, P = 0.0003), CBS Ex18-319G > A (A versus G: OR 1.15, 95% CI 1.14-1.83; P = 0.002), SHMT1 Ex12 + 236 T > C (T versus C: OR 1.44, 95% CI 1.15-1.81, P = 0.002), and TYMS Ex8 + 157C > T (T versus C: OR 1.29, 95% CI 1.06-1.57, P = 0.01). Haplotype analysis for CBS SNPs showed a significantly decreased risk of NHL in subjects with haplotype CG (OR 0.69, 95% CI 0.56-0.86, P = <0.001). The GG haplotype for the FTHFD SNPs showed a significant increased risk of NHL (OR 1.40, 95% CI 1.12-1.76, P = 0.002). For the TYMS gene, haplotype CAT at TYMS (OR 0.67, 95% CI 0.49-0.90, P = 0.007) was associated with decreased risk of NHL, while haplotype TAC (OR 1.29, 95% CI 1.05-1.58, P = 0.01) was found to confer increased risk of NHL. Our study suggests that variation in several OCM genes (CBS, FTHFD, SHMT1, TCN1, and TYMS) may influence susceptibility to NHL.
    MeSH terms: Carbon/metabolism*; Female; Haplotypes; Humans; Lymphoma, Non-Hodgkin/genetics*; Lymphoma, Non-Hodgkin/metabolism*; Male; Middle Aged; Risk Factors; Signal Transduction; Case-Control Studies; Genetic Predisposition to Disease; Polymorphism, Single Nucleotide
  15. Ulum MF, Nasution AK, Yusop AH, Arafat A, Kadir MR, Juniantito V, et al.
    J Biomed Mater Res B Appl Biomater, 2015 Oct;103(7):1354-65.
    PMID: 25385691 DOI: 10.1002/jbm.b.33315
    Iron-bioceramic composites have been developed as biodegradable implant materials with tailored degradation behavior and bioactive features. In the current work, in vivo bioactivity of the composites was comprehensively studied by using sheep animal model. Five groups of specimens (Fe-HA, Fe-TCP, Fe-BCP composites, and pure-Fe and SS316L as controls) were surgically implanted into medio proximal region of the radial bones. Real-time ultrasound analysis showed a decreased echo pattern at the peri-implant biodegradation site of the composites indicating minimal tissue response during the wound healing process. Peripheral whole blood biomarkers monitoring showed a normal dynamic change of blood cellular responses and no stress effect was observed. Meanwhile, the released Fe ion concentration was increasing along the implantation period. Histological analysis showed that the composites corresponded with a lower inflammatory giant cell count than that of SS316L. Analysis of the retrieved implants showed a thicker degradation layer on the composites compared with pure-Fe. It can be concluded that the iron-bioceramic composites are bioactive and induce a preferable wound healing process.
    MeSH terms: Animals; Male; Materials Testing*; Sheep
  16. Lau YL, Lai MY, Anthony CN, Chang PY, Palaeya V, Fong MY, et al.
    Am J Trop Med Hyg, 2015 Jan;92(1):28-33.
    PMID: 25385862 DOI: 10.4269/ajtmh.14-0309
    In this study, three molecular assays (real-time multiplex polymerase chain reaction [PCR], merozoite surface antigen gene [MSP]-multiplex PCR, and the PlasmoNex Multiplex PCR Kit) have been developed for diagnosis of Plasmodium species. In total, 52 microscopy-positive and 20 malaria-negative samples were used in this study. We found that real-time multiplex PCR was the most sensitive for detecting P. falciparum and P. knowlesi. The MSP-multiplex PCR assay and the PlasmoNex Multiplex PCR Kit were equally sensitive for diagnosing P. knowlesi infection, whereas the PlasmoNex Multiplex PCR Kit and real-time multiplex PCR showed similar sensitivity for detecting P. vivax. The three molecular assays displayed 100% specificity for detecting malaria samples. We observed no significant differences between MSP-multiplex PCR and the PlasmoNex multiplex PCR kit (McNemar's test: P = 0.1489). However, significant differences were observed comparing real-time multiplex PCR with the PlasmoNex Multiplex PCR Kit (McNemar's test: P = 0.0044) or real-time multiplex PCR with MSP-multiplex PCR (McNemar's test: P = 0.0012).
    MeSH terms: Animals; Base Sequence; Humans; Plasmodium/classification*; Plasmodium/genetics; Sensitivity and Specificity; DNA Primers; Multiplex Polymerase Chain Reaction; Real-Time Polymerase Chain Reaction
  17. Muehlenbein MP, Pacheco MA, Taylor JE, Prall SP, Ambu L, Nathan S, et al.
    Mol Biol Evol, 2015 Feb;32(2):422-39.
    PMID: 25389206 DOI: 10.1093/molbev/msu310
    Although parasitic organisms are found worldwide, the relative importance of host specificity and geographic isolation for parasite speciation has been explored in only a few systems. Here, we study Plasmodium parasites known to infect Asian nonhuman primates, a monophyletic group that includes the lineage leading to the human parasite Plasmodium vivax and several species used as laboratory models in malaria research. We analyze the available data together with new samples from three sympatric primate species from Borneo: The Bornean orangutan and the long-tailed and the pig-tailed macaques. We find several species of malaria parasites, including three putatively new species in this biodiversity hotspot. Among those newly discovered lineages, we report two sympatric parasites in orangutans. We find no differences in the sets of malaria species infecting each macaque species indicating that these species show no host specificity. Finally, phylogenetic analysis of these data suggests that the malaria parasites infecting Southeast Asian macaques and their relatives are speciating three to four times more rapidly than those with other mammalian hosts such as lemurs and African apes. We estimate that these events took place in approximately a 3-4-Ma period. Based on the genetic and phenotypic diversity of the macaque malarias, we hypothesize that the diversification of this group of parasites has been facilitated by the diversity, geographic distributions, and demographic histories of their primate hosts.
    MeSH terms: Animals; Macaca/parasitology; Malaria/parasitology*; Phylogeny; Plasmodium/classification; Plasmodium/genetics*; Plasmodium/parasitology; Plasmodium/pathogenicity*; Plasmodium vivax/classification; Plasmodium vivax/genetics; Plasmodium vivax/pathogenicity; Primates/parasitology*; Pongo
  18. Yunus MA, Lin X, Bailey D, Karakasiliotis I, Chaudhry Y, Vashist S, et al.
    J Virol, 2015 Jan 15;89(2):1218-29.
    PMID: 25392209 DOI: 10.1128/JVI.02432-14
    All members of the Caliciviridae family of viruses produce a subgenomic RNA during infection. The subgenomic RNA typically encodes only the major and minor capsid proteins, but in murine norovirus (MNV), the subgenomic RNA also encodes the VF1 protein, which functions to suppress host innate immune responses. To date, the mechanism of norovirus subgenomic RNA synthesis has not been characterized. We have previously described the presence of an evolutionarily conserved RNA stem-loop structure on the negative-sense RNA, the complementary sequence of which codes for the viral RNA-dependent RNA polymerase (NS7). The conserved stem-loop is positioned 6 nucleotides 3' of the start site of the subgenomic RNA in all caliciviruses. We demonstrate that the conserved stem-loop is essential for MNV viability. Mutant MNV RNAs with substitutions in the stem-loop replicated poorly until they accumulated mutations that revert to restore the stem-loop sequence and/or structure. The stem-loop sequence functions in a noncoding context, as it was possible to restore the replication of an MNV mutant by introducing an additional copy of the stem-loop between the NS7- and VP1-coding regions. Finally, in vitro biochemical data suggest that the stem-loop sequence is sufficient for the initiation of viral RNA synthesis by the recombinant MNV RNA-dependent RNA polymerase, confirming that the stem-loop forms the core of the norovirus subgenomic promoter.

    IMPORTANCE: Noroviruses are a significant cause of viral gastroenteritis, and it is important to understand the mechanism of norovirus RNA synthesis. Here we describe the identification of an RNA stem-loop structure that functions as the core of the norovirus subgenomic RNA promoter in cells and in vitro. This work provides new insights into the molecular mechanisms of norovirus RNA synthesis and the sequences that determine the recognition of viral RNA by the RNA-dependent RNA polymerase.

    MeSH terms: Animals; Cell Line; Macrophages/virology; Nucleic Acid Conformation*; Promoter Regions, Genetic*; RNA Replicase/metabolism; RNA, Viral/biosynthesis*; RNA, Viral/chemistry*; Virus Replication*; Norovirus/genetics*; Norovirus/physiology*; Microbial Viability; Mice
  19. Misson M, Zhang H, Jin B
    J R Soc Interface, 2015 Jan 06;12(102):20140891.
    PMID: 25392397 DOI: 10.1098/rsif.2014.0891
    The nanobiocatalyst (NBC) is an emerging innovation that synergistically integrates advanced nanotechnology with biotechnology and promises exciting advantages for improving enzyme activity, stability, capability and engineering performances in bioprocessing applications. NBCs are fabricated by immobilizing enzymes with functional nanomaterials as enzyme carriers or containers. In this paper, we review the recent developments of novel nanocarriers/nanocontainers with advanced hierarchical porous structures for retaining enzymes, such as nanofibres (NFs), mesoporous nanocarriers and nanocages. Strategies for immobilizing enzymes onto nanocarriers made from polymers, silicas, carbons and metals by physical adsorption, covalent binding, cross-linking or specific ligand spacers are discussed. The resulting NBCs are critically evaluated in terms of their bioprocessing performances. Excellent performances are demonstrated through enhanced NBC catalytic activity and stability due to conformational changes upon immobilization and localized nanoenvironments, and NBC reutilization by assembling magnetic nanoparticles into NBCs to defray the high operational costs associated with enzyme production and nanocarrier synthesis. We also highlight several challenges associated with the NBC-driven bioprocess applications, including the maturation of large-scale nanocarrier synthesis, design and development of bioreactors to accommodate NBCs, and long-term operations of NBCs. We suggest these challenges are to be addressed through joint collaboration of chemists, engineers and material scientists. Finally, we have demonstrated the great potential of NBCs in manufacturing bioprocesses in the near future through successful laboratory trials of NBCs in carbohydrate hydrolysis, biofuel production and biotransformation.
    MeSH terms: Adsorption; beta-Glucosidase/chemistry; Biocompatible Materials; Biotechnology/methods*; Catalysis; Enzymes, Immobilized/chemistry; Hydrogen-Ion Concentration; Ligands; Magnetics*; Materials Testing; Microscopy, Electron, Scanning; Polymers/chemistry*; Silicon Dioxide/chemistry*; Biosensing Techniques; Nanotechnology/methods; Nanostructures; Nanoparticles/chemistry; Metal Nanoparticles/chemistry*; Biofuels; Nanofibers/chemistry*
  20. Allotey P, Reidpath DD
    BJOG, 2015 Jan;122(2):152-5.
    PMID: 25394350 DOI: 10.1111/1471-0528.13177
    MeSH terms: Female; Goals; Humans; Human Rights*; Global Health*; Vulnerable Populations; Reproductive Health*
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