Large-scale evolutionary surveillance of the 2009 H1N1 influenza A virus using resequencing arrays

In April 2009, a new influenza A (H1N1 2009) virus emerged that rapidly spread around the world. While current variants of this virus have caused widespread disease, particularly in vulnerable groups, there remains the possibility that future variants may cause increased virulence, drug resistance or vaccine escape. Early detection of these virus variants may offer the chance for increased containment and potentially prevention of the virus spread. We have developed and field-tested a resequencing kit that is capable of interrogating all eight segments of the 2009 influenza A(H1N1) virus genome and its variants, with added focus on critical regions such as drug-binding sites, structural components and mutation hotspots. The accompanying base-calling software (EvolSTAR) introduces novel methods that utilize neighbourhood hybridization intensity profiles and substitution bias of probes on the microarray for mutation confirmation and recovery of ambiguous base queries. Our results demonstrate that EvolSTAR is highly accurate and has a much improved call rate. The high throughput and short turn-around time from sample to sequence and analysis results (30 h for 24 samples) makes this kit an efficient large-scale evolutionary biosurveillance tool.     

Recent Progress in Polyhydroxyalkanoates‐Based Copolymers for Biomedical Applications

In recent years, naturally biodegradable polyhydroxyalkanoate (PHA) monopolymers have become focus of public attentions due to their good biocompatibility. However, due to its poor mechanical properties, high production costs, and limited functionality, its applications in materials, energy, and biomedical applications are greatly limited. In recent years, researchers have found that PHA copolymers have better thermal properties, mechanical processability, and physicochemical properties relative to their homopolymers. This review summarizes the synthesis of PHA copolymers by the latest biosynthetic and chemical modification methods. The modified PHA copolymer could greatly reduce the production cost with elevated mechanical or physicochemical properties, which can further meet the practical needs of various fields. This review further summarizes the broad applications of modified PHA copolymers in biomedical applications, which might shred lights on their commercial applications.     

New records of the Japanese seahorse Hippocampus mohnikei in Southeast Asia lead to updates in range,habitat and threats

New records of the Japanese seahorse Hippocampus mohnikei from Cambodia, Malaysia, Thailand and Vietnam, along with recently published studies from India and Singapore, have greatly expanded the known range of H. mohnikei within Southeast Asia. These new records reveal novel habitat preferences and threats to H. mohnikei in the region. Although the global conservation status of H. mohnikei is classified as Data Deficient according to the IUCN Red List of Threatened Species, new sightings indicate that this species is found in similar habitats and faces similar threats as other Hippocampus species that are considered Vulnerable.     

Differential expression of asialo GM1 on alloreactive cytotoxic T lymphocytes and lymphokine-activated killer cells

The present study was undertaken to examine the differential expression of asialo GM1 (AsGM1) on the responding cells and effectors of alloreactive cytotoxic T lymphocytes (CTL) and lymphokine-induced activated killers (LAK). It was found that AsGM1 was expressed on the 3-day-cultured LAK effectors. Its expression gradually disappeared to the extent that AsGM1 became undetectable after 5 to 6 days of culturing. In contrast, AsGM1 was detected on 3-day CTL generated in mixed-lymphocyte cultures (bulk cultures); however, the levels of AsGM1 expression remained the same for at least 7 days. When examining the expression of AsGM1 on the responding cells, the reciprocal results were obtained. AsGM1 was expressed the LAK responders, but we were unable to demonstrate AsGM1 on CTL responders. Depletion of AsGM1+ cells from the responding population reduced subsequent CTL responses; however, CTL responses could be restored by adding conditioned media containing both interleukin 2 (IL-2) and other helper-T-cell factors and could not be restored by purified IL-2 alone adding at comparable doses. Reconstituting the AsGM1-depleted responders with Lyt-2-depleted splenocytes also restored the CTL response. Furthermore, depletion of AsGM1 cells from the responding population did not reduce the precursor frequency of allo-CTL, whereas the precursor frequency of LAK cells was reduced 42-fold. These findings show that the reduction of CTL responses after depletion of AsGM1+ cells was not due to the removal of precursors; instead, the defect appeared to be in the helper population. We further found that the helper defect was not due to impaired IL-2 production, because the endogenous production of IL-2 AsGM1-depleted responders was not reduced. Therefore, AsGM1+ cells may play a role in the helper pathway other than IL-2 production.     

Two-coat systems for encapsulation of spathoglottis plicata (Orchidaceae) seeds and protocorms

Complex coacervation of alginate-chitosan and alginate-gelatin were used to develop two-coat systems for the encapsulation of Spathoglottis plicata seeds and protocorms (top-shaped structures formed after seed germination of orchids). Both the seeds and the protocorms could withstand the encapsulation treatments with high viability. About 54% of seeds and 40% of large protocorms (1.6-2.0 mm) were able to tolerate a 6-h desiccation treatment. However, viability of the small protocorms (0.7-0.9 mm) was greatly reduced if they were desiccated before encapsulation. Encapsulation after desiccation significantly increased the percentage viability of seeds and protocorms. Treatment with abscisic acid (ABA, 10(-5) M) before desiccation and encapsulation resulted in high percentage viability in seeds and large protocorms whereas the small protocorms were found to be less tolerant to the treatments. Copyright 1998 John Wiley & Sons, Inc.     

Production of polyclonal antiserum specific to the 27.5 kDa envelope protein of white spot syndrome virus

A truncated version of the white spot syndrome virus (WSSV) 27.5 kDa envelope protein was expressed as a histidine tag fusion protein in Escherichia coli. The bacterial expression system allowed the production of up to 10 mg of purified recombinant protein per liter of bacterial culture. Antiserum from a rabbit immunized with the recombinant protein recognized the 27.5 kDa viral envelope protein of WSSV isolated from different geographic regions. The antiserum did not recognize any of the other known WSSV structural proteins. A sensitive immunodot assay for WSSV was developed using the specific rabbit polyclonal antiserum.     

Homology cloning of aspartic proteases from an endocrine cell line using the polymerase chain reaction

Oligonucleotides directed towards the active site regions of aspartic proteases were used as primers for the polymerase chain reaction to identify a unique sequence (asppcr1) from the AtT-20 anterior pituitary corticotrope cell line. Asppcr1 showed the greatest similarity (85% identity) to human cathepsin E [(1989) J. Biol. Chem. 264, 16748-16753]. Northern blot analysis of AtT-20 RNA revealed a single 1.9 kB message. Nuclease protection experiments indicated that asppcr1 mRNA was present in pancreas, spleen, testis and liver at low levels and undetectable in heart and brain. This contrasted with the lysosomal aspartic protease, cathepsin D whose mRNA showed a broader tissue distribution. The restricted message distribution of asppcr1 supports a more specific role for this aspartic protease in aspect(s) of cellular physiology.     

Fast Principal-Component Analysis Reveals Convergent Evolution of ADH1B in Europe and East Asia

Searching for genetic variants with unusual differentiation between subpopulations is an established approach for identifying signals of natural selection. However, existing methods generally require discrete subpopulations. We introduce a method that infers selection using principal components (PCs) by identifying variants whose differentiation along top PCs is significantly greater than the null distribution of genetic drift. To enable the application of this method to large datasets, we developed the FastPCA software, which employs recent advances in random matrix theory to accurately approximate top PCs while reducing time and memory cost from quadratic to linear in the number of individuals, a computational improvement of many orders of magnitude. We apply FastPCA to a cohort of 54,734 European Americans, identifying 5 distinct subpopulations spanning the top 4 PCs. Using the PC-based test for natural selection, we replicate previously known selected loci and identify three new genome-wide significant signals of selection, including selection in Europeans at ADH1B. The coding variant rs1229984^∗T has previously been associated to a decreased risk of alcoholism and shown to be under selection in East Asians; we show that it is a rare example of independent evolution on two continents. We also detect selection signals at IGFBP3 and IGH, which have also previously been associated to human disease.     

Temperature over tumors in hairless mice

The question of whether tumors are warmer or colder than surrounding tissue is considered in these experiments which use a highly suitable animal model, the hairless mouse. Temperatures of skin over induced growing subdermal tumors in these mice were monitored by AGA 680 Color Thermovision. The skin over the tumors does not cool over time but on the contrary becomes warmer. This is probably due to an increase in vascularization rather than increased metabolic rate.