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In silico vaccine

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https://www.readbyqxmd.com/read/28091882/identification-of-some-main-streptococcus-iniae-associated-proteins-relationship
#1
Fatima El Aamri, José Ángel Guillén, Daniel Padilla, Félix Acosta, Fernando Real
The surface-associated proteins play a key role in bacterial physiology and pathogenesis, and are the major targets in the development of new vaccines. These proteins contribute to the adaptation of bacteria to different hosts and environments. To study differences at the genomic level, we first sequenced the whole genome of Streptococcus iniae from fish (IUSA-1 strain) and compared it to Streptococcus iniae from human (9117 strain), revealing a high similitude between both strains. To gain further insights into host- and environment-specific differences, we then studied proteins in silico and by High Performance Liquid Chromatography...
January 14, 2017: Veterinary Research Communications
https://www.readbyqxmd.com/read/28089770/structural-pierce-into-molecular-mechanism-underlying-clostridium-perfringens-epsilon-toxin-function
#2
Saeed Khalili, Abolfazl Jahangiri, Zahra Sadat Hashemi, Bahman Khalesi, Meysam Mardsoltani, Jafar Amani
Epsilon toxin of the Clostridium perfringens garnered a lot of attention due to its potential for toxicity in humans, extreme potency for cytotoxicity in mice and lack of any approved therapeutics prescribed for human. However, the intricacies of the Epsilon toxin action mechanism are yet to be understood. In this regard, various in silico tools have been exploited to model and refine the 3D structure of the toxin and its two receptors. The receptor proteins were embedded into designed lipid membranes within an aqueous and ionized environment...
January 12, 2017: Toxicon: Official Journal of the International Society on Toxinology
https://www.readbyqxmd.com/read/28087198/cloning-characterization-and-transmission-blocking-potential-of-midgut-carboxypeptidase-a-in-anopheles-stephensi
#3
V VenkatRao, Surendra K Kumar, P Sridevi, Vijaykumar Yogesh Muley, R K Chaitanya
Transmission-blocking vaccines (TBV) interrupt malaria parasite transmission and hence form an important component for malaria eradication. Mosquito midgut exopeptidases such as aminopeptidase N & carboxypeptidase B have demonstrated TBV potential. In the present study, we cloned and characterized carboxypeptidase A (CPA) from the midgut of an important malarial vector, Anopheles stephensi. ClustalW amino acid alignment and in silico 3-dimensional structure analysis of CPA predicted the presence of active sites involved in zinc and substrate binding that are conserved among all the known mosquito species...
January 10, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28070829/functional-analysis-of-kif20a-a-potential-immunotherapeutic-target-for-glioma
#4
Katsuya Saito, Shigeki Ohta, Yutaka Kawakami, Kazunari Yoshida, Masahiro Toda
Kinesin family member 20A (KIF20A), an ideal cancer-testis antigen, was reported to be a promising immunotherapeutic target for pancreatic cancers. Clinical trials of KIF20A peptide vaccine immunotherapy have been conducted against pancreatic cancers. To demonstrate the efficacy of KIF20A as a candidate molecular target for gliomas, we analyzed the expression and function of KIF20A in gliomas. Western blot and quantitative PCR analyses showed that KIF20A expression in glioma cell lines and glioma tissues was high compared with that found in a normal brain...
January 9, 2017: Journal of Neuro-oncology
https://www.readbyqxmd.com/read/28043501/comparative-proteomic-analysis-of-sequential-isolates-of-mycobacterium-tuberculosis-sensitive-and-resistant-beijing-type-from-a-patient-with-pulmonary-tuberculosis
#5
Amit Singh, Anil Kumar Gupta, Krishnamoorthy Gopinath, Divakar Sharma, Prashant Sharma, Deepa Bisht, Pawan Sharma, Sarman Singh
AIM & OBJECTIVE: In India, tuberculosis (TB) is a foremost health problem, and the emergence of multidrug-resistant (MDR) and extensively drug resistant (XDR) strains of Mycobacterium tuberculosis (M. tuberculosis) has further complicated the situation. Although various mechanisms have been proposed to elucidate the emergence of resistance, our knowledge remains insufficient. The formation of a very complex network and drugs of proteins are countered by their efflux/modification or target over-expression/modification...
December 2016: International Journal of Mycobacteriology
https://www.readbyqxmd.com/read/28043417/in-silico-structure-analysis-and-epitope-prediction-of%C3%A2-e3-cr1-beta-protein-of-human-adenovirus-e%C3%A2-for%C3%A2-vaccine-design
#6
Noman Ibna Amin Patwary, Md Saiful Islam, Md Sohel, Ismot Ara, Mohd Omar Faruk Sikder, Shah Md Shahik
BACKGROUND: Human Adenoviruses are divided into 7 species of Human Adenovirus A to G based on DNA genome homology. The Human Adenovirus E (HAdVs-E) genome is a linear, double-stranded DNA containing 38 protein-coding genes. Wild-type adenoviruses type E, are linked to a number of slight illnesses. The most important part of HAdVs-E is E3 CR1-beta protein which controls the host immune response and viral attachment. METHOD: We use numerous bio-informatics and immuno-informatics implements comprising sequence and construction tools for construction of 3D model and epitope prediction for HAdVs-E...
December 2016: Biomedical Journal
https://www.readbyqxmd.com/read/28040777/genome-report-identification-and-validation-of-antigenic-proteins-from-pajaroellobacter-abortibovis-using-de-novo-genome-sequence-assembly-and-reverse-vaccinology
#7
Bryan T Welly, Michael R Miller, Jeffrey L Stott, Myra T Blanchard, Alma D Islas-Trejo, Sean M O Rourke, Amy E Young, Juan F Medrano, Alison L Van Eenennaam
Epizootic bovine abortion (EBA), or "foothill abortion", is the leading cause of beef cattle abortion in California and has also been reported in Nevada and Oregon. In the 1970's, the soft-shelled tick Ornithodoros coriaceus, or "pajaroello tick", was confirmed as the disease-transmitting vector. In 2005, a novel Deltaproteobacterium was discovered as the etiologic agent of EBA (aoEBA), recently named Pajaroellobacter abortibovis This organism cannot be grown in culture using traditional microbiological techniques; it can only be grown in experimentally-infected severe combined immunodeficient (SCID) mice...
December 30, 2016: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28027002/mathematical-modeling-based-on-ordinary-differential-equations-a-promising-approach-to-vaccinology
#8
Carla Rezende Barbosa Bonin, Guilherme Cortes Fernandes, Rodrigo Weber Dos Santos, Marcelo Lobosco
New contributions that aim to accelerate the development or to improve the efficacy and safety of vaccines arise from many different areas of research and technology. One of these areas is computational science, which traditionally participates in the initial steps, such as the pre-screening of active substances that have the potential to become a vaccine antigen. In this work, we present another promising way to use computational science in vaccinology: mathematical and computational models of important cell and protein dynamics of the immune system...
December 27, 2016: Human Vaccines & Immunotherapeutics
https://www.readbyqxmd.com/read/27989662/immunoinformatics-analysis-and-in-silico-designing-of-a-novel-multi-epitope-peptide-vaccine-against-staphylococcus-aureus
#9
Nasim Hajighahramani, Navid Nezafat, Mahboobeh Eslami, Manica Negahdaripour, Seyyed Soheil Rahmatabadi, Younes Ghasemi
Staphylococcus aureus is a pathogen that causes a variety of infections in humans. Methicillin-resistant S. aureus, which is an antibiotic-resistant form, is responsible for nosocomial staphylococcal infections, whose frequency is increasing in healthy people. Thereby, the development of novel techniques is required to overcome this bacterial infection. In this context, the use of vaccines to control infections is an appropriate alternative. In this study, immunoinformatics analysis is used on three antigenic determinants as vaccine candidates, and a novel multi-epitope vaccine is designed to induce cellular, humoral, and innate immune responses against S...
December 16, 2016: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/27975138/selection-of-epitopes-from-self-antigens-for-eliciting-th2-or-th1-activity-in-the-treatment-of-autoimmune-disease-or-cancer
#10
REVIEW
William C Watt, Denise L Cecil, Mary L Disis
Vaccines have been valuable tools in the prevention of infectious diseases, and the rapid development of new vectors against constantly mutating foreign antigens in viruses such as influenza has become a regular, seasonal exercise. Harnessing the immune response against self-antigens is not necessarily analogous or as achievable by iterative processes, and since the desired outcome includes leaving the targeted organism intact, requires some precision engineering. In vaccine-based treatment of autoimmunity and cancer, the proper selection of antigens and generation of the desired antigen-specific therapeutic immunity has been challenging...
December 14, 2016: Seminars in Immunopathology
https://www.readbyqxmd.com/read/27939703/tackling-bet-v-1-and-associated-food-allergies-with-a-single-hybrid-protein
#11
Heidi Hofer, Claudia Asam, Michael Hauser, Birgit Nagl, Josef Laimer, Martin Himly, Peter Briza, Christof Ebner, Roland Lang, Thomas Hawranek, Barbara Bohle, Peter Lackner, Fátima Ferreira, Michael Wallner
BACKGROUND: Allergy vaccines should be easily applicable, safe, and efficacious. For Bet v 1-mediated birch pollen and associated food allergies, a single wild-type allergen does not provide a complete solution. OBJECTIVE: We aimed to combine immunologically relevant epitopes of Bet v 1 and the 2 clinically most important related food allergens from apple and hazelnut to a single hybrid protein, termed MBC4. METHODS: After identification of T cell epitope-containing parts on each of the 3 parental allergens, the hybrid molecule was designed to cover relevant epitopes and evaluated in silico...
December 7, 2016: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/27928487/immunoreactivity-evaluation-of-a-new-recombinant-chimeric-protein-against-brucella-in-the-murine-model
#12
Abbas Abdollahi, Shahla Mansouri, Jafar Amani, Mahdi Fasihi-Ramandi, Mohammad Moradi
BACKGROUND AND OBJECTIVES: Brucellosis is an important health problem in developing countries and no vaccine is available for the prevention of infection in humans. Because of clinically infectious diseases and their economic consequences in human and animals, designing a proper vaccine against Brucella is desirable. In this study, we evaluated the immune responses induced by a designed recombinant chimera protein in murine model. MATERIALS AND METHODS: Three immunodominant antigens of Brucella have been characterized as potential immunogenic and protective antigens including: trigger factor (TF), Omp31 and Bp26 were fused together by EAAAK linkers to produce a chimera (structure were designed in silico), which was synthesized, cloned, and expressed in E...
June 2016: Iranian Journal of Microbiology
https://www.readbyqxmd.com/read/27875780/vp1-residues-around-the-five-fold-axis-of-enterovirus-a71-mediate-heparan-sulfate-interaction
#13
Chee Wah Tan, I-Ching Sam, Vannajan Sanghiran Lee, Hui Vern Wong, Yoke Fun Chan
Enterovirus A71 (EV-A71) is a neurotropic enterovirus that uses heparan sulfate as an attachment receptor. The molecular determinants of EV-A71-heparan sulfate interaction are unknown. With In silico heparin docking and mutagenesis of all possible lysine residues in VP1, we identified that K162, K242 and K244 are responsible for heparin interaction and inhibition. EV-A71 mutants with K242A and K244A rapidly acquired compensatory mutations, T100K or E98A, and Q145R-T237N respectively, which restored the heparin-binding phenotype...
January 15, 2017: Virology
https://www.readbyqxmd.com/read/27872794/in-silico-identification-of-potential-peptides-or-allergen-shot-candidates-against-aspergillus-fumigatus
#14
Raman Thakur, Jata Shankar
Aspergillus fumigatus is capable of causing invasive aspergillosis or acute bronchopulmonary aspergillosis, and the current situation is alarming. There are no vaccine or allergen shots available for Aspergillus-induced allergies. Thus, a novel approach in designing of an effective vaccine or allergen shot candidate against A. fumigatus is needed. Using immunoinformatics approaches from the characterized A. fumigatus allergens, we have mapped epitopic regions to predict potential peptides that elicit both Aspergillus-specific T cells and B cell immune response...
2016: BioResearch Open Access
https://www.readbyqxmd.com/read/27834872/unraveling-the-roots-of-selectivity-of-peptide-affinity-reagents-for-structurally-similar-ribosomal-inactivating-protein-derivatives
#15
Deborah A Sarkes, Margaret M Hurley, Dimitra N Stratis-Cullum
Peptide capture agents have become increasingly useful tools for a variety of sensing applications due to their ease of discovery, stability, and robustness. Despite the ability to rapidly discover candidates through biopanning bacterial display libraries and easily mature them to Protein Catalyzed Capture (PCC) agents with even higher affinity and selectivity, an ongoing challenge and critical selection criteria is that the peptide candidates and final reagent be selective enough to replace antibodies, the gold-standard across immunoassay platforms...
November 9, 2016: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/27828989/predicted-enhanced-human-propensity-of-current-avian-like-h1n1-swine-influenza-virus-from-china
#16
Veljko Veljkovic, Nevena Veljkovic, Slobodan Paessler, Marco Goeijenbier, Vladimir Perovic, Sanja Glisic, Claude P Muller
Influenza A virus (IAV) subtypes against which little or no pre-existing immunity exists in humans represent a serious threat to global public health. Monitoring of IAV in animal hosts is essential for early and rapid detection of potential pandemic IAV strains to prevent their spread. Recently, the increased pandemic potential of the avian-like swine H1N1 IAV A/swine/Guangdong/104/2013 has been suggested. The virus is infectious in humans and the general population seems to lack neutralizing antibodies against this virus...
2016: PloS One
https://www.readbyqxmd.com/read/27816827/in-silico-designing-breast-cancer-peptide-vaccine-for-binding-to-mhc-class-i-and-ii-a-molecular-docking-study
#17
Manijeh Mahdavi, Violaine Moreau
Antigenic peptides or cancer peptide vaccines can be directly delivered to cancer patients to produce immunologic responses against cancer cells. Specifically, designed peptides can associate with Major Histocompatibility Complex (MHC) class I or II molecules on the cell surface of antigen presenting cells activating anti-tumor effector mechanisms by triggering helper T cell (Th) or cytotoxic T cells (CTL). In general, high binding to MHCs approximately correlates with in vivo immunogenicity. Consequently, a molecular docking technique was run on a library of novel discontinuous peptides predicted by PEPOP from Human epidermal growth factor receptor 2 (HER2 ECD) subdomain III...
October 19, 2016: Computational Biology and Chemistry
https://www.readbyqxmd.com/read/27812412/in-silico-study-on-anti-chikungunya-virus-activity-of-hesperetin
#18
Adrian Oo, Pouya Hassandarvish, Sek Peng Chin, Vannajan Sanghiran Lee, Sazaly Abu Bakar, Keivan Zandi
BACKGROUND: The re-emerging, Aedes spp. transmitted Chikungunya virus (CHIKV) has recently caused large outbreaks in a wide geographical distribution of the world including countries in Europe and America. Though fatalities associated with this self-remitting disease were rarely reported, quality of patients' lives have been severely diminished by polyarthralgia recurrence. Neither effective antiviral treatment nor vaccines are available for CHIKV. Our previous in vitro screening showed that hesperetin, a bioflavonoid exhibits inhibitory effect on the virus intracellular replication...
2016: PeerJ
https://www.readbyqxmd.com/read/27806091/immunodominant-igm-and-igg-epitopes-recognized-by-antibodies-induced-in-enterovirus-a71-associated-hand-foot-and-mouth-disease-patients
#19
Kam Leng Aw-Yong, I-Ching Sam, Mia Tuang Koh, Yoke Fun Chan
Enterovirus A71 (EV-A71) is one of the main causative agents of hand, foot and mouth disease (HFMD). Unlike other enteroviruses that cause HFMD, EV-A71 is more frequently associated with severe neurological complications and fatality. To date, no effective licensed antivirals are available to combat EV-A71 infection. Little is known about the immunogenicity of viral non-structural proteins in humans. Previous studies have mainly focused on characterization of epitopes of EV-A71 structural proteins by using immunized animal antisera...
2016: PloS One
https://www.readbyqxmd.com/read/27788396/in-silico-analysis-of-hepatitis-c-virus-hcv-polyprotein-domains-and-their-comparison-with-other-pathogens-and-allergens-to-gain-insight-on-pathogenicity-mechanisms
#20
Seema Patel
Hepatitis C (HCV) is a deadly virus from family Flaviviridae, causing acute or chronic liver inflammation. Given its lethality and no known vaccine to curb it, understanding its pathogenic mechanism is critical. By analyzing the domains in its protein sequence, a plethora can be learnt about its immune manipulation strategies. In this regard, current in silico study compares publicly-available HCV polyprotein sequences and their domain profiles. Apart from using UniProt sequences and SMART (Simple modular architecture research tool) platform for domain profiling, a set of customized scripts were developed to extract the patterns of protein domain distribution...
October 15, 2016: Computational Biology and Chemistry
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