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جستجوی مقالات مرتبط با کلیدواژه « peptides » در نشریات گروه « پزشکی »

  • Silpa Sajan, Rupachandra Saravanan*
    Introduction

    Peptides from lactic acid bacteria provide health benefits and can inhibit the growth of pathogenic organisms. The present work aimed to isolate and characterize peptides with antibacterial activity from Lactobacillus plantarum 1407.

    Methods

    Peptides were isolated and purified from L. plantarum 1407. The effect of various physiological parameters on the antibacterial activity of the isolated peptides was analyzed. The mode of action of the peptides on indicator organisms was observed using transmission microscopy analysis and flow cytometry analysis .

    Results

    Antibacterial activity and mode of action of peptides isolated from L. plantarum 1407 against gram-positive and gram-negative bacteria have been studied. L. plantarum culture exhibited maximum antibacterial activity at 40 °C, pH 8, and 0.7% salt concentration. The cell-free supernatant (CFS) was concentrated using a 3 kDa ultrafiltration membrane and the peptide fractions (<3 kDa) were further fractionated using Sephadex G-25 gel filtration chromatography. The antibacterial activity of the eluted fractions (F1 to F4) was evaluated using flow cytometry and transmission electron microscopy. F3 fraction exhibited increased antibacterial activity than F1, F2, and F4 fractions against the indicator organisms. Cell membrane damage and leakage of cytoplasmic content of the bacterial cells treated with the antibacterial F3 fraction peptides were observed.

    Conclusion

    The active peptides from L. plantarum 1407 can be potentially used for the treatment of bacterial infections.

    Keywords: Flow cytometry, Gel filtration chromatography, Lactobacillus plantarum, Peptides, Ultrafiltration}
  • Sonal Mehrotra, Pavan Kalyan BG, Pawan Ganesh Nayak, Alex Joseph, Jyothsna Manikkath*
    Purpose

    Proteins and peptides have secured a place as excellent therapeutic moieties on account of their high selectivity and efficacy. However due to oral absorption limitations, current formulations are mostly delivered parenterally. Oral delivery of peptides and proteins (PPs) can be considered the need of the hour due to the immense benefits of this route. This review aims to critically examine and summarize the innovations and mechanisms involved in oral delivery of peptide and protein drugs.

    Methods

    Comprehensive literature search was undertaken, spanning the early development to the current state of the art, using online search tools (PubMed, Google Scholar, ScienceDirect and Scopus).

    Results

    Research in oral delivery of proteins and peptides has a rich history and the development of biologics has encouraged additional research effort in recent decades. Enzyme hydrolysis and inadequate permeation into intestinal mucosa are the major causes that result in limited oral absorption of biologics. Pharmaceutical and technological strategies including use of absorption enhancers, enzyme inhibition, chemical modification (PEGylation, pro-drug approach, peptidomimetics, glycosylation), particulate delivery (polymeric nanoparticles, liposomes, micelles, microspheres), site-specific delivery in the gastrointestinal tract (GIT), membrane transporters, novel approaches (self-nanoemulsifying drug delivery systems, Eligen technology, Peptelligence, self-assembling bubble carrier approach, luminal unfolding microneedle injector, microneedles) and lymphatic targeting, are discussed. Limitations of these strategies and possible innovations for improving oral bioavailability of protein and peptide drugs are discussed.

    Conclusion

    This review underlines the application of oral route for peptide and protein delivery, which can direct the formulation scientist for better exploitation of this route.

    Keywords: Biologics, Peptides, Proteins, Oral delivery, Absorption, Permeation enhancement, Nanoparticles}
  • Zeinab Mohammadi, Mahdi Pouramir, MohammadReza Haghshenas *, Sedigheh Tahmasebi, Abbas Ghaderi
    Background

    Early detection of breast cancer (BC) is extremely important as late diagnosis has been associated with a high rate of mortality. Immunogenic proteins and autoantibodies have been considered as favorable targets for early detection and targeted therapy in cancer. Accordingly, the present study aimed to identify the immunogenic antigens in both early and advanced stages of BC via a serologic proteome analysis (SERPA) approach.

    Method

    This is a case-control study wherein we separated the proteins from BC tissues in the early stages (n = 10) and advanced stages (n = 10) utilizing two-dimensional electrophoresis (2DE) and then transferred them onto a Polyvinylidene Difluoride (PVDF) membrane. To explore the tumor antigens reacting with antibodies, two-dimensional (2D) blots of tumor tissues in the early and advanced stages were separately probed with the sera from the same patients. Afterwards, we identified antibody-reactive proteins via liquid chromatography with tandem mass spectrometry (LC-MS/MS).

    Results

    Fibrinogen beta chain (FGB), protein deglycase DJ-1(PARK7), and peroxiredoxin-2 (PRDX2) were the highly reactive antigens identified in the earlystage patients. In addition, RuvB-like1 (RUVBL1) and triose phosphate isomerase (TPI) were recognized as the immune reactive proteins in the late-stage patients.

    Conclusion

    The results herein revealed that the immune-proteome pattern of BC patients changes along with tumor progression from primary to advanced stages. Moreover, immunogenic proteins seemed to stimulate the humoral immune system to produce autoantibodies in the initiation phase of BC; these autoantibodies could be employed as complementary factors for early detection of BC. The findings are however preliminary, and further studies with a larger sample size are required for verification and validation of previous findings.

    Keywords: Breast neoplasms, Immunoreactive, Peptides, Autoantibodies, Serologic proteomic analysis, LC-MS, MS}
  • Bahare Nazemisalman, Venous Baheran, Mohammad Reza Shokrani, Seyede Solmaz Taheri *
    Background

    salivary proteins have, today, gained special importance in studies of the role of saliva in tooth decay. Among the peptides, histatins and defenses play a more important role. The aim of this study was to determine the concentration of salivary antibacterial peptides in children with early childhood caries (ECC, SECC) compared to children without caries.

    Methods

    This comparative-case study was conducted on 48 young children (under 6 years of age) with milk teeth referred to a private pediatric dentistry center. The participants were divided into three groups of 16 with early childhood caries (ECC, SECC) and without decay. After collecting children's saliva, the samples were sent to the laboratory to obtain peptide concentration in salivia using ELISA and the results were analyzed using SPSS 22 software.

    Results

    The average index of histatin-5 in the mild caries group was significantly lower than those in the moderate caries (p<0.001) and severe caries groups (p<0.001). The average index of beta-defensin-1 in the mild caries group was significantly higher than those in the moderate caries (p<0.001) and severe caries groups (p<0.001). The average beta-defensin-2 index in the mild caries group was significantly higher than those in the moderate caries group (p<0.001); and in the severe caries group, it was significantly higher than that in the moderate caries group (p<0.001).

    Conclusion

    With the increase of salivary HST-5, the progress of caries increased. Also, the progress of caries was associated with a decrease in the amount of β-defensin-1. No correlation was observed between the caries process and the amount of β-defensin-2.

    Keywords: Anti-Bacterial Agents, Dental Care for Children, Dental Caries, peptides, Saliva}
  • Fatemeh Ebrahimi Tarki, Mahboobeh Zarrabi *, Ahya Abdiali ORCID, Mahkame Sharbatdar
    Background

     The rise of antibiotic resistance has become a major concern, signaling the end of the golden age of antibiotics. Bacterial biofilms, which exhibit high resistance to antibiotics, significantly contribute to the emergence of antibiotic resistance. Therefore, there is an urgent need to discover new therapeutic agents with specific characteristics to effectively combat biofilm-related infections. Studies have shown the promising potential of peptides as antimicrobial agents.

    Objectives

     This study aimed to establish a cost-effective and streamlined computational method for predicting the antibiofilm effects of peptides. This method can assist in addressing the intricate challenge of designing peptides with strong antibiofilm properties, a task that can be both challenging and costly.

    Methods

     A positive library, consisting of peptide sequences with antibiofilm activity exceeding 50%, was assembled, along with a negative library containing quorum-sensing peptides. For each peptide sequence, feature vectors were calculated, while considering the primary structure, the order of amino acids, their physicochemical properties, and their distributions. Multiple supervised learning algorithms were used to classify peptides with significant antibiofilm effects for subsequent experimental evaluations.

    Results

     The computational approach exhibited high accuracy in predicting the antibiofilm effects of peptides, with accuracy, precision, Matthew's correlation coefficient (MCC), and F1 score of 99%, 99%, 0.97, and 0.99, respectively. The performance level of this computational approach was comparable to that of previous methods. This study introduced a novel approach by combining the feature space with high antibiofilm activity.

    Conclusions

     In this study, a reliable and cost-effective method was developed for predicting the antibiofilm effects of peptides using a computational approach. This approach allows for the identification of peptide sequences with substantial antibiofilm activities for further experimental investigations. Accessible source codes and raw data of this study can be found online (hiABF), providing easy access and enabling future updates.

    Keywords: Antibiotics Resistance, Biofilm Inhibition, Peptides, Supervised Machine Learning}
  • M.G. Shehata, A.N. Badr, N.M. Abd El-Aziz, H.S. Abd-Rabou, S.A. El-Sohaimy*
    Background

    Bacteriocins are small peptides which are ribosomally synthesized and have been shown to have wide range of antimicrobial activity. The aim of this study was to optimize the production of L. paracasei MG847589 bacteriocin. Furthermore, the potential antibacterial properties of the novel bacteriocins were characterized and evaluated against Staphylococcus aureus.

    Methods

    The present study optimized the growth media constituents of Lactobacillus paracasei MG847589 to improve bacteriocin yield by applying One-Factor-at-a-Time (OFAT) and Response Surface Methodology (RSM) methods.

    Results

    At OFAT, two-fold activity increased against Staphylococcus aureus in the presence of whey (22.5 g/L) as nitrogen source and sucrose (30 g/L) as carbon source. RSM tool was performed with media compounds using design expert 12.0.1.0. Whey (22.5 g/L), sucrose (30 g/L), temperature (30 ºC), and pH (6.5) condition yielded 25,600 AU/ml of bacteriocin against S. aureus. Bacteriocin was stable at pH range of 2.0 to 8.0 for one h and at 60 ºC for 15 min. The produced antimicrobial peptide is a novel bacteriocin with molecular mass of 2,611.122 Da.

    Conclusion

    Bacteriocin of L. paracasei MG847589 isolated from traditional Egyptian cheese (Kareish) showed great antimicrobial activity and could be applied as food preservative in food manufacturing.

    Keywords: Bacteriocins, Peptides, Lactobacillales, Lacticaseibacillus paracasei, Anti-Bacterial Agents, Staphylococcus aureus}
  • مقدمه

    رابطه بین ویژگی های بیوشیمیایی مایع فولیکولی (FF)، کیفیت تخمک و رشد جنینی هنوز مشخص نشده است. ما نمونه های FF با مشخصات متابولیک طبیعی را با نمونه هایی با ناهنجاری های متابولیکی مقایسه کردیم تا نشانگرهای زیستی پیش بینی کننده بالقوه موفقیت باروری را شناسایی کنیم.

    هدف

    تجزیه و تحلیل فعالیت پپتیدی در FF زنان تحت لقاح آزمایشگاهی با استفاده از 3 نمونه FF در هر فرد.

    مواد و روش ها

    نمونه های FF با برداشت تخمک به دست آمد. نمونه های پاتولوژیک به عنوان نمونه هایی از FF که از زنان مبتلا به بیماری های زنان یا ناباروری به دست آمد در نظر گرفته شد. در مجموع 30 زن در این مطالعه شرکت کردند. 3 نمونه FF از هر فرد (90 نمونه) به دست آمد، اما 8 نمونه به دلیل همولیز بودن حذف شدند. نمونه ها (FF 82=n) شامل افراد کنترل (36n = ، اهداکنندگان بدون مشکل باروری)، زنان مبتلا به آندومتریوز (15 n =)، ناباروری غیرقابل توضیح (19 = n)، و بیش از 39 سال (12 = n) بودند. ما آنسفالینرژیک های موضعی را ارزیابی کردیم: آمینوپپتیداز N (آمینوپپتیداز حساس به پورومایسین و اندوپپتیداز خنثی)؛ و اجزای سیستم آنژیوتانسین دستگاه تناسلی: پرولیل-اندوپپتیداز، APN، آسپارتات-آمینوپپتیداز، و باز-آمینوپپتیداز.

    نتایج

    هیچ تفاوتی در متابولیسم پپتید بر اساس وجود یا عدم وجود تخمک در FF مشاهده نشد. زنان مبتلا به آندومتریوز و سن بالای 39 سال تغییراتی را در آمینوپپتیداز حساس به پورومایسین (01/0 = p)، آمینوپپتیداز- B(01/0 = p) آسپارتات-آمینوپپتیداز (001/0 < p) و آندوپپتیداز خنثی (001/0 < p) نشان دادند.

    نتیجه گیری

    این مطالعه تغییراتی را در متابولیسم انکفالین و آنژیوتانسین در FF پاتولوژیک نشان می دهد که به این مولفه ها به عنوان بیومارکرهای بالقوه تشخیصی اشاره می کند.

    کلید واژگان: مایع فولیکولی, پپتیدها, بیماری های تخمدان, زنان, آندومتریوز, ناباروری}
    Maria Victoria Rodríguez Gallego*, Maria Victoria Aparicio Prieto, Andrea Leza García, Juana Hernández Hernández, Jose Antonio Arizaleta Uralde, Luis Casis Sáenz
    Background

    The relationship between the biochemical characteristics of follicular fluid (FF), oocyte quality and embryonic development has not yet been elucidated. We compared samples of FF with a normal metabolic profile against samples with metabolic abnormalities to identify potential predictive biomarkers of reproductive success.

    Objective

    To analyze peptide activity in the FF of women undergoing in vitro fertilization using 3 samples of FF per individual.

    Materials and Methods

    FF samples were obtained by ovum pick-up. Pathological samples were defined as samples of FF obtained from women with a gynecological condition or with infertility. A total of 30 women participated in this study. 3 samples of FF were obtained per individual (90 samples), but 8 samples were excluded because they were hemolyzed. The samples (n = 82 FF) included controls (n = 36, donors without fertility problems), women with endometriosis (n = 15), unexplained infertility (n = 19), and aged > 39 (n = 12). We assessed local encephalinergics: aminopeptidase-N (puromycin sensitive aminopeptidase and neutral endopeptidase; and components of the angiotensin system of the reproductive tract: prolyl-endopeptidase, APN, aspartate-aminopeptidase, and basic-aminopeptidase.

    Results

    No differences were observed in peptide metabolism based on the presence or absence of oocytes in the FF. Women with endometriosis and aged > 39 yr showed alterations in puromycin sensitive aminopeptidase (p = 0.01), aminopeptidase-B (p = 0.01), aspartate-aminopeptidase (p < 0.001) and neutral endopeptidase (p < 0.001).

    Conclusion

    This study reveals alterations in the metabolism of enkephalin and angiotensin in pathological FF, which points to these components as potential diagnostic biomarkers.

    Keywords: Follicular fluid, Peptides, Ovarian diseases, Women, Endometriosis, Infertility}
  • Mohsen Danaeifar

    Since the appearance of acquired immunodeficiency syndrome(AIDS) disease, millions of people got infected, thousands are died and many suffered from its complications. One of the chronic and late symptoms of AIDS is lipodystrophy that leads to losing of fat in some parts of the body while gaining it at other organs and sites. One of the main targets in drug development for management of lipodystrophy is growth hormone-releasing hormone (GHRH) receptor. As a secondary metabolite from plants, leginsulin is a peptide with 37 amino acids and considered as hormone-like peptide. In this study, through in silico approaches, binding of leginsulin and GHRH receptor was studied. The results showed strong binding of the two molecules with docking score of -324.16 and ligand RMSD of 47.26. The molecular dynamic investigation also revealed these two proteins remained bound for almost 104 ns. Evaluation of the peptide toxicity in the body had shown that it is not toxic to the human organs and also, it doesn’t pass through the blood brain barrier. The results support the use of legumes as a source of leginsulin for potential management of lipodystrophy in the patients with AIDS.

    Keywords: AIDS, Leginsulin, Lipodystrophy, Peptides, Protein docking}
  • Kobra Mehdinejadiani, Ali Hashemi, Mojgan Bandehpour, Hoda Rahmani, Mohammad Ranjbar, Vahid Yardel, Seyed Amir Jalali, Nariman Mosaffa

    Nosocomial infections caused by Acinetobacter baumannii (A. baumannii) nosocomial infections caused by Acinetobacter baumannii (A. baumannii) are considered as a global serious problem in hospitalized patients because of emerging antibiotic resistance. Immunotherapy approaches are promising to prevent such infections. In our previous study, five antigenic epitopes of outer membrane protein A (OmpA), as the most dangerous virulence molecule in A. baumanii, were predicted in silico. In this study, the investigators evaluated some immunological aspects of the peptides. Five peptides were separately injected into C5BL/6 mice; then the cytokine production (interleukin-4 and interferon-gamma) of splenocytes and opsonophagocytic activity of immunized serum were assessed. To identify the protective function of the peptides, animal models of sepsis and pneumonia infections were actively and passively immunized with selected peptides and pooled sera of immunized mice, respectively. Then, survival rates of them were compared with the non-infected controls. Based on the results, activated spleen cells in P127 peptide-immunized mice exhibited an increase level of IFN-γ compared with the other experimental groups, but not about the IL-4 concentration. The results of opsonophagocytic assay revealed an appropriate killing activity of produced antibodies against A. baumannii in a dose-dependent manner. Further, the survival rates of the mice under passive immunization with the immunized sera or active immunization with P127 peptide were significantly more than those in the control group. Moreover, the survival rate of the P127 peptide immunized group was considerably higher than that among the other peptide-immunized group. In conclusion, findings indicated that peptides derived from outer membrane protein-A can be used as a promising tool for designing the epitope-based vaccines against infections caused by A. baumannii.

    Keywords: Acinetobacter baumannii, Outer membrane proteins, Peptides, Pneumonia, Sepsis, Vaccines}
  • غلامحسین محبی، عمار مریم آبادی، ایرج نبی پور*

    با وجود توزیع گسترده کرم های زهرآگین دریایی در سراسر گیتی، اما مطالعات ساختاری و توکسینولوژی زهر آن ها، هنوز محدود است. این مطالعه با هدف بررسی سمیت کرم های دریایی زهراگین انجام گردید. تماس با تارهای کرم های دریایی کلویه فلاوا و سیپونکولا، موجب التهاب دردناک پوست می گردند. بسیاری از گونه های نمرتین ها، با یک پروبوسیس منعطف و موکوس غلیظی در سطح پوست خود، قربانی خود را شکار می کنند. آن ها اخیرا، به سه گروه پالیونمرتا، پیلیدیوفورا و هاپلونمرتیا، طبقه بندی گردیده اند. توکسین های آن ها شامل سه گروه اصلی پپتیدها، آلکالوییدهای پیریدینی و تترادوتوکسین و مشتقات آن ها هستند. ترکیب نیکوتینوییدی آمفیپورین، آنابازیین و مشتقات آن، نمرتلین و آنابازین، از توکسین های آلکالوییدی هستند. آن ها به طور انتخابی گیرنده های نیکوتینی، به ویژه گیرنده های نوع α-7 را تحریک می نمایند. نمرتین ها، انواع توکسین های پپتیدی را تولید می نمایند. برجسته ترین فعالیت "سربراتولوس توکسین های" A-I تا A-IV، فعالیت همولیتیک می باشد. سیتوتوکسین A-III، با تشکیل فرم های تترامری در غشاء بسیاری از سلول های مختلف و ایجاد منافذ بزرگ، آن ها را بسیار نفوذپذیر می کند. توکسین، در غلظت های زیر لیزکنندگی، موجب مهار پروتئین کیناز C و کانال های سدیمی و کلسیمی انتخابی کاتیونی دریچه ولتاژ در سیستم های عصبی و قلبی- عروقی می گردد. از چهار پروتئین اصلی "سربراتولوس توکسین های B-IV-B-I"، به نظر می رسد که توکسین B-II، سمی ترین ترکیب باشد. سنجش عصاره لینیوس نشان داد که آن ها در واقع زهری تر از عصاره های سربراتولوس هستند. آلفا و بتا- نمرتیدها، به ترتیب مربوط به خانواده سه و شش کیلو دالتونی نوروتوکسین ها هستند. نمرتید α-1، یک توکسین بی نهایت قدرتمند در برابر کانال سدیمی دریچه ولتاژ (VGSC می باشد. ژن توکسین های فراوانی در ژنوم و ترانسکریپتوم های نمرتین ها پیش بینی یا کشف شده اند. از برجسته ترین ژن توکسین ها، توالی پلانسیتوکسین-1، پپتید استیکوداکتیلا توکسین (Shk toxin)، اس ای- سفالوتوکسین، توکسین تشکیل دهنده منفذ β آیرولیزین و چندین توالی مرتبط با نوروتوکسین نظیر دلتا اکتیتوکسین-Amc1a، پریویتلین -2، مو-ترافتوکسین-Hhn2a 4 و توریپپتید Gsg9.2، توالی های مختلف آلفا- و بتا- نمرتید (آنالوگ های B- نوروتوکسین) و پاربورلیزین بودند. به احتمال زیاد، پاربورلیزین ها به همان خانواده سیتوتوکسین های AI تا AIV تعلق دارند. مطالعه بر روی توکسین های این زیستمندان دریایی، می تواند پروب های مفیدی را برای بررسی گیرنده ها، کانال های یونی و حتی مکانیسم های ایمنی ذاتی نسبت به ویروس های عفونی، انگل ها و سایر میکروب ها فراهم نماید.

    کلید واژگان: کرم دریایی, توکسین, پپتیدها, آلکالوئیدهای پیریدینی, تترادوتوکسین, توکسین ژن}
    Gholam Hossian Mohebbi, Ammar Maryamabadi, Iraj Nabipour*

    Although the widespread distribution of venomous marine worms around the world, the structural and toxinologcal studies of their toxins are still limited.This study was aimed to evaluate the toxicity of poisonous marine worms. Touching the cilium of Chloeia flava and Sipuncula marine worms cause painful inflammation of the skin. Many species of nemertines prey their victims by a flexible proboscis and dense mucus on the surface of the skin. They have recently been classified into three groups of the Palaeonmertea, Pilidiophora, and Hoplonemertea. Their toxins comprise the three main groups of peptides, pyridine alkaloids, and tetradotoxin and their derivatives. The nicotinoide amphiporine compound, anabaseine and its derivatives, Nemertelline, and anabasine are as alkaloid toxins. They are selectively stimulated the  nicotinic receptors, in particular the type of α-7 receptors. Nemerteans are produced a variety of peptide toxins.The hemolytic activity is the most prominent activity of the cerebratulus toxins A-I to A-IV. Cytotoxin A-III, by forming tetrameric forms in the membranes of many different cells, and creating large pores, makes them very permeable. The toxin inhibits the protein kinase C and the selective cationic sodium and calcium channels of the voltage-gate in the nervous and cardiovascular systems at low lytic concentrations. From four main proteins "Cerebratulus toxins- B-II to B-IV", the toxin B-II performed to be the most toxic compound.The assessment of the Lineus extract showed that they are actually more toxic than Cerebratulus extracts. The neurotoxins α- and β-nemertides, respectively, belong to the family of three and six kilodaltons. The nemertide α-1 is highly potent toxin against the VGSC. Dose-dependent injections have caused permanent paralysis to death. Many toxin genes have been predicted or discovered in the genomes and transcriptoms of nemerteans. The most prominent of the toxin genes were the Plancitoxin-1 sequence, Stichodactyla toxin peptide (Shk toxin), Se-Cephalotoxin, β pore-forming toxin aerolysin, and several neurotoxin-related sequences, such as delta-actitoxin-Amc1a, Perivitellin-2, Mu-theraphotoxin Hhn2a 4 and turripeptide Gsg9.2, different α-, β-nemertides (B-neurotoxins analogs), and Parborlysin. Most likely, the Parborlysins belong to the same family of cytotoxins AI-AIV. Study on these marine organism toxins can provide useful probes for examining receptors, ion channels, and even innate immunity mechanisms against infectious viruses, parasites, and other microbes.

    Keywords: Marine Worm, Toxin, Peptides, Pyridine Alkaloids, Tetradotoxin, Toxin gene}
  • Newsha Fallah, Saeed Siavashy, Nasim Ghaemian, Farshad Bahramian, Fatemeh Ghorbani-Bidkorbeh
    Proteins are the most fascinating multifaceted biomacromolecules in living systems and play various important roles such as structural, sensory, catalytic, and regulatory function. Protein and peptide interactions have emerged as an important and challenging topic in biochemistry and medicinal chemistry. Computational methods as promising tools have been utilized to predict protein and peptide interactions in order to intervene in the biochemical processes and facilitate pharmaceutical peptide design and clarify the complications. This review will introduce the computational methods which are applicable in protein and peptide interaction prediction and summarizes the most successful examples of computational methods described in the literature.
    Keywords: Peptides, Proteins, Computational Methods, Simulation, Interaction Prediction}
  • Fatemeh Ghorbani-Bidkorbeh
    Molecular imprinting described as a method utilized to create artificial receptors and antibodies by construction of selective recognition sites in a synthetic polymer can be a promising tool for generating peptide and protein artificial specific recognition sites. These materials, as potential antibody substitutes, have attracted great interest and attention in different fields such as peptide and protein purification and separation, chemical/electrochemical/optical sensors/biosensors, chromatographic stationary phases, and enzyme mimics. This review has focused on fundamentals of molecularly imprinted polymers in terms of selection of molecular template, functional monomer, cross linker, and polymerization format. Furthermore, several applications of peptide/protein-imprinted materials are highlighted and challenges regarding the intrinsic properties of peptide/ protein imprinting have been emphasized.
    Keywords: Molecular imprinting, Peptides, Proteins, Recognition, Artificial Antibodies}
  • Fatemeh Mohammad Pour Ghazi, Seyed Latif Mousavi Gargari
    Background And Objectives
    Cholera is a life-threatening diarrhea caused mainly by Gram-negative marine habitant Vibrio cholerae serogroup O1. Cholera vaccination is limited mainly to developed countries, due to the cumbersome and expensive task of vaccine production. In the present work, the aim was to study the immunogenicity of the synthetic mimotopes through two different routes of injection and oral administration. Lipopolysaccharide (LPS) is one of the immunogenic components in Gram-negative bacteria, which cannot be used as a vaccine candidate, due to its high toxic effect.
    Materials And Methods
    Three phage-displayed selected peptides, with high affinity to anti-LPS VHH tested in our previous study, were chemically synthesized and used as a potential vaccine candidate. In order to enhance the antigenic properties and safe delivery, these peptides were conjugated to BSA as a carrier and encapsulated with PLGA. Peptides were injected intra-peritoneally or administered orally, alone or in combined form. Mice sera and feces were collected for assessment of humoral and mucosal antibody titers, respectively. ELISA plates were coated with mimotope conjugates and V. cholerae, Shigella sonnei and ETEC were used as target antigens. Antibody titer was measured by adding IgG and IgA as primary antibodies.
    Results
    Mice receiving three selected synthetic peptide conjugates (individually or in combination) showed higher antibody titer compared to control groups. The mice immunized with synthetic peptides were protected against more than 15 LD50 of V. cholerae.
    Conclusion
    These peptides are mimicking LPS and can potentially act as vaccine candidates against V. cholerae.
    Keywords: Immunization, Peptides, Vibrio cholerae, Mimotope, LPS}
  • محمدرضا سلیمان، مصطفی خلیلی، علیرضا سلیمان میگونی، هادی محمدزاده قاشقایی، ادیب زنده دل، مریم باعزم
    سابقه و هدف
    پلی پپتید شبه الاستین (Elastin-like polypeptide، ELP) بیومتریال مصنوعی برگرفته از توالی پنتاپپتید Val-Pro-Gly-Xaa-Gly (VPGXG) الاستین ماتریکس خارج سلولی (ECM) است. پلیمرهای پروتئینی که از واحدهای تکراری اسیدهای آمینه طبیعی و غیرطبیعی پدید می آیند، به عنوان رده ای جدید از بیومواد شناخته می شوند. ویژگی های منحصر به فرد ELP همانند تولید بر پایه بیان ژنتیکی در انواع رده های میزبانی (به عنوان مثال باکتری ها و سلول های یوکاریوت)، تحریک پذیری تحت تاثیر عوامل محیطی، زیست سازگاری و زیست تخریب پذیری مولکول های ELP باعث جذابیت استفاده از آن در بیوتکنولوژی و پزشکی می گردد.
    مواد و روش ها
    در این مطالعه، الیگومریزاسیون ساختار ژن 330 جفت باز مونومری GRGDS-ELP (بیان کننده 21 پنتاپپتید) تا تولید ژن تریمر 990 جفت بازی (بیان کننده 63 پنتاپپتید فیوژن) درون وکتور کلونینگ pUC انجام گرفت. پس از تایید ساختار ژنی با سکوئنسینگ، ساختار ژنی به وکتور بیانی MOD-pET ساب کلون گشته و به میزبان E.coli انتقال یافت.
    یافته ها
    بیان پروتئین نوترکیب توسط IPTG القاء گشت و صحت پروتئین نوترکیب توسط PAGE-SDS و وسترن بلاتینگ تایید گردید.
    نتیجه گیری
    با روش به کار رفته ELP جهت مطالعات بعدی به دست آمد
    کلید واژگان: الاستین, پپتیدها, پروتئین های نوترکیب, نانو ساختارها, مهندسی بافت}
    Mohammad Reza Soleyman, Mostafa Khalili, Alireza Soleyman Meigoni, Hadi Mohammadzadeh Ghasghaii, Adib Zendedel, Maryam Baazm
    Introduction
    Elastin-like polypeptide (ELP) s an artificial biopolymer and a pentapeptide with repeating motif of Val-Pro-Gly-Xaa-Gly (VPGXG). The structure is derived from extracellular cellular matrix (ECM) elastin. Protein-based polymers, which are composed of repeat units of natural or unnatural amino acids, have recently emerged as a promising new class of materials. The unique properties of ELPs such as being genetically encoded in a heterologous host (e.g., bacteria or eukaryotic cell), excitability under the influence of environmental factors, biocompatibility and biodegradability made them popular in a wide variety of biomedical applications.
    Materials And Methods
    In this study, 330bp GRGDS-ELP monomer gene (expressing21 pentapeptide) was oligomerized into the cloning vector pUC to produce 990bp trimer gene (expressing63 fusion pentapeptide).After confirming gene structure by sequencing, the gene sequence was subcloned into pET-MOD expression vector and transduced into the E.coli.
    Results
    Recombinant protein expression was induced by IPTG and the accuracy of the recombinant protein was confirmed by SDS-PAGE and Western blotting.
    Conclusion
    With mentioned method, ELP was obtained for further studies
    Keywords: Elastin, Peptides, Recombinant protein, Nanostructures, Tissue Engineering}
  • ایرج میرزایی دیزگاه، حسین میرزایی دیزگاه، محمدرضا میرزایی دیزگاه، شمسی دارابی
    Iraj Mirzaii, Dizgah, Hossein Mirzaii, Dizgah, Mohammad, Reza Mirzaii, Dizgah, Shamsi Darabi
    Purpose
    To evaluate colostrum total protein differences between left and right breasts and between mothers of boy and girl infants.
    Materials And Methods
    A cross sectional study for delivery was carried out on 30 boy-delivered and 30 girl-delivered mothers aged 16 to 36 years, conducted at the Izadi and Al-Zahra Hospitals in Qom city, Iran. Colostrum was collected from both breasts by manual milking within the first day of delivery. Total protein concentration was assessed by Biuret method using affiliated kits. The data was analyzed through the student’s t-test using the SPSS program.
    Results
    Colostrum total protein was significantly higher in the left (166.9±13.1 mg/ml) and right (165.3±14.7 mg/ml) breasts of the boy-delivered mothers than in the left 144.8±4.1 mg/ ml) and right (122.7.3±7.4 mg/ml) breasts of the girl-delivered ones. It was also significantly higher in the left breast than the right breast in the girl-delivered mothers. However, there was no significant difference between the two breast colostrum total protein levels in the boydelivered mothers.
    Conclusion
    The results of the present study suggest that total protein of colostrum in the boydelivered mothers is greater than the girl-delivered mothers.
    Keywords: humans, peptides, isolation, purification, colostrum, physiology, milk proteins}
  • اسرا قمری، حکیمه زالی، مصطفی رضایی طاویرانی، سعید حسامی تکلو، فاطمه گشادرو، نایب علی احمدی، سارا ضماهنی، علی رشیدی پور
    سابقه و هدف
    آلزایمر شایع ترین نوع دمانس است که مطالعه آن در انسان در مراحل اولیه بیماری امکان پذیر نیست و بیش تر مطالعات روی نمونه بافت مغز پس از مرگ انجام می شود. درنتیجه مطالعه مدل های حیوانی بیماری آلزایمر جهت شناسایی مکانیسم و فرآیندهای دخیل در آن جهت ارزیابی بیماری انسانی ضروری به نظر می رسد. در این مطالعه با کمک دانش پروتئومیکس و بیوانفورماتیک به بررسی پروتئوم هیپوکمپ موش صحرایی پس از تزریق Aβ(1-42) پرداخته می شود.
    مواد و روش ها
    استخراج پروتئین از هیپوکمپ موش صحرایی سالم (N) و آلزایمری(A) که Aβ(1-42) به آن ها تزریق شده بود، صورت گرفت و با استفاده از الکتروفورز دوبعدی جداسازی پروتئین ها انجام شد. ژل ها جهت رویت لکه های پروتئینی با کوماسی بلو رنگ آمیزی شد. پروتئین های دو گروه با نرم افزارهای بیوانفورماتیکی آنالیز و توسط طیف سنجی جرمی شناسایی شدند.
    یافته ها
    آنالیز بیوانفورماتیکی ژل های به دست آمده از الکتروفورز دوبعدی نشان دهنده وجود 111 پروتئین به صورت اختصاصی متعلق به گروه N و 67 نقطه در گروه A با بیان جدید بود که ناشی از اثر تزریق است. تغییرات در سطح مولکولی با آنالیزهای آماری چند متغییره ای نظیر کلاسترینگ انجام گرفت و گروه های پروتئینی دارای تغییر بیان، در دو خوشه متابولیکی و تنظیمی معرفی گردید.
    نتیجه گیری
    پروتئین های شناسایی شده در هیپوکمپ موش آلزایمری دارای شرایط مشابهی در بیماری آلزایمر انسانی بودند. بنابراین با وجود تفاوت های موجود در بیماری در موش و انسان مطالعه بیماری آلزایمر در مدل موشی می تواند به ارزیابی بیماری در انسان بپردازد. مطالعه اثر Aβ(1-42) روی هیپوکمپ نیز بیانگر تغییرات در سطح پروتئین هایی بودند که با تغییرات کنفورماسیون پروتئینی موجود در این بیماری هم راه بود و متابولیسم سلولی را نیز دچار تغییر کرده بود.
    کلید واژگان: بیماری آلزایمر, پروتئومیکس, تحلیل خوشه ای, پپتید بتا آمیلوئید}
    Esra Ghamari, Hakimeh Zali, Mostafa Rezaie Tavirani, Saeed Hesami Takalu, Fatemeh Goshadrou, Nayebali Ahmadi, Sara Zamaheni, Ali Rashidy, Pour
    Introduction
    Alzheimer’s disease (AD) is one of the most common types of dementia. Studying the early stages of AD in human is not possible and thus, most studies are limited to post-mortem brain tissues. Therefore, studying the animal model of AD in order to understand the underlying mechanism and evaluate the molecular processes involved in human form of the disease is inevitable. In this study, with the help of proteomics and bioinformatics, we have studied the proteome of rat hippocampus after injection of Aβ(1-42) and analyzed the data with clustering method.
    Materials And Methods
    Proteins were extracted from the normal (N) and AD (A) subjects, whom have been injected with Aβ(1-42). Proteins were separated by two-dimensional electrophoresis. Gels were stained with Coomassie Brilliant Blue to visualize the protein spots. Proteins in two group samples were analyzed with bioinformatics software's and identified with mass Spectrometry.
    Results
    Bioinformatic analysis of two-dimensional electrophoretic gels indicated on the presence of 111 specific proteins belong to group N and 67 newly expressed proteins induced by Aβ(1-42) injection. Changes at the molecular level were statistically analyzed by several variables analysis method, such as clustering and groups of proteins with altered expression were categorized in metabolic and regulatory clusters.
    Conclusion
    identified proteins in rat hippocampus with AD were similar to human form of the disease. Despite the differences between the human and rat ADs, the study of AD can be established as a rat model of the disease. Injection of Aβ(1-42) had also reflected changes at the level of proteins, associated with changes in protein conformation occurring in the disease with some alteration in cellular mechanism.
    Keywords: Alzheimer Disease, Clustering Analysis, Proteomics, Amyloid beta, Peptides}
  • Amirali Reza Rasouli Ghahroudi, Mahvash Moosavijazi, Siamak Yaghoobee, Mojtaba Bayani, Eisa Salehi, Roozbeh Sadrimanesh
    Objective
    Epidermal growth factor (EGF) is a polypeptide molecule, with important functions in epithelial growth and wound repair. It exerts its effects on cells by binding to receptors on the cell surface. The aim of this study was to evaluate and compare salivary EGF levels in patients with gingivitis and advanced periodontitis as well as in healthy controls.
    Material And Methods
    Unstimulated salivary samples were collected from patients with gingivitis and advanced periodontitis and healthy individuals. The clinical parameters of plaque index (PI), bleeding on probing (BOP), probing pocket depth (PPD) and clinical attachment level (CAL) were measured and recorded using a Williams probe. The enzyme-linked immunosorbent assay (ELISA) was used to determine salivary levels of EGF. One-way ANOVA was used for data analysis.
    Results
    The mean salivary level of EGF in healthy individuals (99.27) was significantly higher than that in patients with gingivitis (61.53). This value in patients with gingivitis (61.53) was also significantly higher than that in subjects with periodontitis (36.14) (P<0.001).
    Conclusion
    The reduction in salivary level of EGF in patients with periodontal disease may be related to the pathogenesis of periodontitis.
    Keywords: Epidermal Growth Factor, Gingivitis, Periodontitis, Salivary Proteins, Peptides, Salivary Glands}
  • مرضیه کفشدوزی امین، حمزه رحیمی، نعمت الله غیبی، مرتضی کریمی پور
    زمینه
    گیرنده تروپومایوزین کیناز (Tropomyosin Receptor Kinas B، TRK B) یکی از پروتئین های سرطان زاست.
    هدف
    مطالعه به منظور طراحی و بهینه سازی پپتیدهای مناسب جهت مهار TRK B انجام شد.
    مواد و روش ها
    این مطالعه پایه در سال 1391 در دانشگاه علوم پزشکی قزوین انجام شد، پس از طراحی کتابخانه پپتیدی با روش sequence tolerance و بهینه سازی انرژی پپتیدهای طراحی شده با روش backrub در بسته نرم افزاری Rossseta 3.3، پپتیدهای دارای حداکثر پایداری، براساس مقادیر backrub توسط نرم افزار R انتخاب شدند. ساختار سه بعدی پپتیدها با استفاده از روش دینامیک مولکولی تعیین و میزان اتصال این پپتیدها توسط نرم افزار HADDOCK بررسی شد. پایدارترین پپتیدها سنتز و اثر سمی آن ها با استفاده از آزمون MTT بر روی رده سلولی U266 مطالعه شد.
    یافته ها
    پپتیدهای طراحی شده از لحاظ انرژی و ساختاری کاملا پایدار بودند و تمایل بالایی برای اتصال به TRK B نشان دادند. پس از سنجش بقای سلول به کمک روش MTT ضمن تیمار رده سلولی U266 با این پپتیدها بعد از 24 ساعت، غلظت مهار سلولی 50 درصد (IC 50%) پپتیدهای یک و دو 2/350 و 5/199 نانومولار به دست آمد.
    نتیجه گیری
    با توجه به یافته ها، به نظر می رسد مهار TRK B می تواند به توقف رشد در این رده سلولی سرطانی منجر شود.
    کلید واژگان: عامل نئوتروفیک مشتق شده مغزی, گیرنده تروپومایوزین کیناز B, پپتیدها, انکوژن ها, مدل سازی رایانه ای}
    M. Kafshdouzi Amin, H. Rahimi, N. Gheibi, M. Karimipour
    Background
    Tropomyosin receptor kinase B (TRK B) is one of the oncogene agents.
    Objective
    The aim of this study was to design and optimize inhibitory peptides for TRK B in U266 cell line.
    Methods
    This study was conducted in Qazvin University of Medical Sciences during 2012. After generating the peptides library using sequence tolerance method and optimizing energy of peptides employing backrub protocol in Rosetta 3. 3 software package، the most stable peptides were selected based on the energy scores in R package. Prediction of the three-dimensional structure of the peptides was performed using the molecular dynamic simulation. Peptides-TRK B docking was evaluated by HADDOCK web server. The most stable peptides were designed and their cytotoxicity effects on U266 cells were investigated by the MTT assay.
    Findings
    The designed peptides were stable in terms of energy and structure and had high affinity for binding to TRK B. For measuring cell survival during 24 hours treatment of U266 cell line with these peptides، t he half maximal inhibitory concentration (IC50 %) was obtained 350. 2 and 199. 5 nM for peptide one and two، respectively.
    Conclusion
    With regards to the results، it seems that TRK B inhibition can block cancer growth in this cell line.
    Keywords: Brain, Derived Neurotrophic Factor, Tropomyosin Receptor Kinase B, Peptides, Oncogenes, Computer Simulation}
نکته
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