Gene discovery for the carcinogenic human liver fluke, Opisthorchis viverrini

Background: Cholangiocarcinoma (CCA) - cancer of the bile ducts - is associated with chronic infection with the liver fluke, Opisthorchis viverrini. Despite being the only eukaryote that is designated as a 'class I carcinogen' by the International Agency for Research on Cancer, little is known about its genome.\ud \ud Results: Approximately 5,000 randomly selected cDNAs from the adult stage of O. viverrini were characterized and accounted for 1,932 contigs, representing ~14% of the entire transcriptome, and, presently, the largest sequence dataset for any species of liver fluke. Twenty percent of contigs were assigned GO classifications. Abundantly represented protein families included those involved in physiological functions that are essential to parasitism, such as anaerobic respiration, reproduction, detoxification, surface maintenance and feeding. GO assignments were well conserved in relation to other parasitic flukes, however, some categories were over-represented in O. viverrini, such as structural and motor proteins. An assessment of evolutionary relationships showed that O. viverrini was more similar to other parasitic (Clonorchis sinensis and Schistosoma japonicum) than to free-living (Schmidtea mediterranea) flatworms, and 105 sequences had close homologues in both parasitic species but not in S. mediterranea. A total of 164 O. viverrini contigs contained ORFs with signal sequences, many of which were platyhelminth-specific. Examples of convergent evolution between host and parasite secreted/membrane proteins were identified as were homologues of vaccine antigens from other helminths. Finally, ORFs representing secreted proteins with known roles in tumorigenesis were identified, and these might play roles in the pathogenesis of O. viverrini-induced CCA.\ud \ud Conclusion: This gene discovery effort for O. viverrini should expedite molecular studies of cholangiocarcinogenesis and accelerate research focused on developing new interventions, drugs and vaccines, to control O. viverrini and related flukes

Identification, phylogenetic analysis and expression profile of an anionic insect defensin gene, with antibacterial activity, from bacterial-challenged cotton leafworm, Spodoptera littoralis

<p>Abstract</p> <p>Background</p> <p>Defensins are a well known family of cationic antibacterial peptides (AMPs) isolated from fungi, plants, insects, mussels, birds, and various mammals. They are predominantly active against gram (+) bacteria, and a few of them are also active against gram (-) bacteria and fungi. All insect defensins belonging to the invertebrate class have a consensus motif, C-X_5-16-C-X₃-C-X_9-10-C-X_4-7-CX₁-C. Only seven AMPs have already been found in different lepidopteran species. No report was published on the isolation of defensin from the Egyptian cotton leafworm, <it>Spodoptera littoralis</it>.</p> <p>Results</p> <p>An anionic defensin, termed <it>Spli</it>Def, was isolated from the haemolymph of the cotton leafworm, <it>S. littoralis</it>, after bacterial challenge using differential display technique. Based on sequence analyses of the data, specific primers for full length and mature peptide of defensin were designed and successfully amplified 471 and 150 bp amplicons. The integration of the results revealed that the 471 bp-PCR product has one open reading frame (<it>orf</it>) of 303 bp long, including both start codon (AUG) and stop codon (UGA). The deduced peptide consists of a 23-residues signal peptide, a 27-residues propeptide and a 50-residues mature peptide with the conserved six-cysteine motif of insect defensins. Both haemolymph and expressed protein exhibited antibacterial activities comparable to positive control. The RT-qPCR indicated that it was more than 41-folds up-regulated at 48 h p.i.</p> <p>Conclusion</p> <p>Our results highlight an important immune role of the defensin gene in <it>Spodoptera littoralis </it>by cooperating with other AMPs to control bacterial infection.</p

Two genes, dig-1 and mig-10, involved in nervous system development in C. elegans

We are using genetic and molecular techniques to study a simple model organism, C. elegans, to determine the cues involved in the formation of the nervous system. Two molecules currently being studied in the laboratory play roles in the formation of the IL2 neurons, a class of sensory neurons in C. elegans. The first gene, dig-1, influences the sensory process or dendrite and is involved in adhesion as well as potentially providing directional information during development. The second gene, mig-10, influences the axon and may be involved in a cell signal cascade. Genetic screens of C. elegans using Ethyl methyl sulfonate (EMS) as a mutagen resulted in the isolation of mutants with defects in the IL2 sensory map; sensory processes followed aberrant paths, appearing to be defasciculated. Complementation tests showed that the mutations failed to complement n1321, a known allele of dig-1; thus, these new mutations were alleles of dig-1 (Ryder unpub. results). Several of these new alleles of dig-1, including nu336 and n1480, have been further studied to elucidate the role of this gene in sensory map formation. A dig-1 candidate gene was identified that encodes a protein that is a member of the immunoglobulin super-family (IgSF). The candidate gene is predicted to be a large gene, with a transcript of approximately 45Kb. The encoded protein contains three distinct regions and is similar to the hyalectan family of proteoglycans. N terminal region 1 contains immunoglobulin and fibronectin-like domains. Central region 2 is an area that is highly repeated with a potential to have GAGs attached. C-terminal region 3 contains domains associated with adhesion. Polymerase chain reaction (PCR) products from alleles nu336 and n1480 were amplified and sequenced from the candidate gene. The DNA lesion present in the candidate gene from both alleles fit the method for how that mutation was generated. The point mutation in allele nu336 removes a potential glycosylation site. The large re-arrangement in allele n1480 truncates the transcript, suggesting that the protein is also truncated. The sequencing results along with rescuing data (R. Proenca, personal communication) showed that the candidate gene for dig-1 was the gene of interest. Each of the alleles was further studied to determine how severe that allele was by looking at the neuronal process aspect and the brood size as well as displacement of the gonad. In general, alleles with severe defects in the nervous system also had severe gonad displacement, suggesting the gene functions similarly in the two tissues. To determine if the gene was expressed at the RNA level, reverse transcriptase polymerase chain reaction (RT-PCR) was used. Most of the RT-PCRs amplified a cDNA of the appropriate size that showed dig-1 was expressed at the RNA level. RT-PCR further suggested that all three regions were in one transcript as well as confirming part of the predicted exon structure to be correct. In addition, northern analysis showed the presence of a large transcript in wildtype worms as well as a smaller truncated transcript from allele n1480. To investigate developmental differences mixed stage of RNA and embryonic RNA from wildtype animals were compared using gene specific primers. The initial RT-PCR showed potential alternative splicing occurring at the 5? end of the gene during development. To examine expression at the protein level, two recombinant proteins from dig-1 were successfully made by cloning cDNA products from the 5?and 3? end of dig-1. The constructs were sequenced and shown to be in frame. The recombinant proteins (Ant1Con1 and Ant3Con3) were mass produced and sent to a commercial source for injection into pre-screened rabbits. Western analysis showed the presence of an antibody in the serum from two of the rabbits. These antibodies should prove useful in future determination of correctness of our models of DIG-1 function. IgSF members have been shown to have many roles in nervous system development. DIG-1 could act in either an attractive or a repellent role to position sensory processes during development. DIG-1 might also change its function over time; early in development DIG-1 could be adhesive and later become repellant as more sugars are added. The gene mig-10 is involved in sensory map formation. To localize MIG-10 expression, several transgenic animals were generated by injection of two constructs that should recombine in the worm to create a MIG-10::GFP fusion protein. Ten transgenic lines were generated and screened by PCR for the presence of the correct recombinant construct. If this construct makes functional, rescuing protein, the GFP expression should reflect the expression pattern of the MIG-10 protein

Computational Design and Preliminary Serological Analysis of a Novel Multi-Epitope Vaccine Candidate Against Onchocerciasis and Related Filarial Diseases

Onchocerciasis is a skin and eye disease that exerts a heavy socio-economic burden, particularly in sub-Saharan Africa, a region which harbours greater than 96% of either infected or at-risk populations. The elimination plan for the disease is currently challenged by many factors including amongst others; the potential emergence of resistance to the main chemotherapeutic agent, ivermectin (IVM). Novel tools, including preventative and therapeutic vaccines, could provide additional impetus to the disease elimination tool portfolio. Several observations in both humans and animals have provided evidence for the development of both natural and artificial acquired immunity. In this study, immuno-informatics tools were applied to design a filarial-conserved multi-epitope subunit vaccine candidate, (designated Ov-DKR-2) consisting of B-and T-lymphocyte epitopes of eight immunogenic antigens previously assessed in pre-clinical studies. The high-percentage conservation of the selected proteins and epitopes predicted in related nematode parasitic species hints that the generated chimera may be instrumental for cross-protection. Bioinformatics analyses were employed for the prediction, refinement, and validation of the 3D structure of the Ov-DKR-2 chimera. In-silico immune simulation projected significantly high levels of IgG1, T-helper, T-cytotoxic cells, INF-γ, and IL-2 responses. Preliminary immunological analyses revealed that the multi-epitope vaccine candidate reacted with antibodies in sera from both onchocerciasis-infected individuals, endemic normals as well as loiasis-infected persons but not with the control sera from European individuals. These results support the premise for further characterisation of the engineered protein as a vaccine candidate for onchocerciasis

Chemical mutagenesis screen identifies AMDHD2 as a critical regulator of the hexosamine biosynthetic pathway

Aging is associated with a variety of common disorders such as cancer, diabetes, neurodegenerative, or cardiovascular diseases. Consequently, the steady expansion of the older population raises a dramatic global concern regarding health issues. The aging process is accompanied by multiple metabolic changes which contribute to the physiological decline and manipulation of relevant pathways is sufficient to extend lifespan. Therefore, it is critical to further elucidate how nutrient signaling is interconnected to the metabolic regulation of aging and thereby identify novel druggable targets. The hexosamine biosynthetic pathway (HBP) is a nutrient-sensing pathway that consumes fructose, glutamine, acetyl CoA, and UTP to generate UDP-GlcNAc, an essential precursor for post-translational protein glycosylation. Thus, the HBP is optimally positioned to integrate signals from diverse metabolic pathways and its manipulation is likely to influence the overall metabolic state. The HBP is controlled by its rate-limiting enzyme glutamine fructose 6 phosphate amidotransferase (GFAT) that is feedback inhibited by UDP-GlcNAc. While HBP regulation by GFAT is well-studied, other HBP regulators remain obscure. Elevated UDP GlcNAc levels can counteract toxicity induced by tunicamycin (TM), a potent glycosylation inhibitor. Therefore, TM resistance is a suitable proxy for elevated UDP-GlcNAc levels and thus, HBP activity. In order to identify novel regulators of the HBP, we performed an unbiased TM resistance screen in haploid mouse embryonic stem cells (mESCs) using random chemical mutagenesis. We identified multiple loss-of-function mutations in the enzyme N acetylglucosamine deacetylase (AMDHD2) that catalyzes a reverse reaction in the HBP. By solving the crystal structure of human AMDHD2, we found that loss of function is caused by impaired protein stability and catalytic activity. Finally, we showed that AN3-12 mESCs express AMDHD2 together with GFAT2 instead of the more common GFAT1. GFAT2 is less susceptible to UDP GlcNAc inhibition compared to GFAT1, explaining how loss of AMDHD2 elevates HBP flux. This specialized HBP configuration, characterized by co expression of AMDHD2 and GFAT2, was also observed in other mESCs. Consistently, we confirmed a decreased GFAT2:GFAT1 ratio upon differentiation of mouse and human ESCs. The relevance of this specific HBP regulation for ESC fate decisions was reinforced by embryonic lethality of homozygous AMDHD2 K.O. mice. Together, this work reveals a critical function of AMDHD2 in balancing UDP GlcNAc levels in cells that use GFAT2 for metabolite entry into the HBP, which potentially serves as a metabolic adaptation for distinct nutrient requirements. Overall, the crucial role for AMDHD2 in HBP regulation offers novel approaches for the development of therapeutic agents to tackle age-related diseases

Pathogenesis of Encephalitis

Many infectious agents, such as viruses, bacteria, and parasites, can cause inflammation of the central nervous system (CNS). Encephalitis is an inflammation of the brain parenchyma, which may result in a more advanced and serious disease meningoencephalitis. To establish accurate diagnosis and develop effective vaccines and drugs to overcome this disease, it is important to understand and elucidate the mechanism of its pathogenesis. This book, which is divided into four sections, provides comprehensive commentaries on encephalitis. The first section (6 chapters) covers diagnosis and clinical symptoms of encephalitis with some neurological disorders. The second section (5 chapters) reviews some virus infections with the outlines of inflammatory and chemokine responses. The third section (7 chapters) deals with the non-viral causative agents of encephalitis. The last section (4 chapters) discusses the experimental model of encephalitis. The different chapters of this book provide valuable and important information not only to the researchers, but also to the physician and health care workers