Current Proteomics最新文献

{"title":"Plasma Apolipoprotein-AIV Downregulated in Patients with Major Depressive Disorder having Suicidal Ideation Compared to those without Suicidal Ideation","authors":"Boby Mathew, K. Srinivasan, Johnson Pradeep, Tinku Thoma, A. Mandal","doi":"10.2174/1570164618666211104151005","DOIUrl":"https://doi.org/10.2174/1570164618666211104151005","url":null,"abstract":"\u0000\u0000Identification of a peripheral biological marker might aid in identifying patients at high risk of attempting suicide and might help in effective early intervention. \u0000\u0000\u0000\u0000In the present study, we extend the findings of our previous multidimensional proteomics study by examining the levels of plasma Apolipoprotein-AIV in patients diagnosed with major depression with and without suicidal ideation compared to age and gender-matched controls. \u0000\u0000\u0000\u0000Using the mass spectrometry platform, we quantified the levels of plasma Apolipoprotein-AIV in patients with major depressive disorder with and without suicidal ideation compared to matched controls with isotope-labelled peptides-based quantitative proteomics approach. \u0000\u0000\u0000\u0000The targeted quantitative proteomics approach with isotope-labelled peptides showed that plasma Apolipoprotein-AIV was significantly downregulated in depressed patients having suicidal ideation 1.45 (CI:1.11–1.90) compared to those without suicidal ideation 0.88 (CI:0.77–1.003). \u0000\u0000\u0000\u0000These findings extend our earlier observation of downregulation of plasma Apolipoprotein-AIV in patients with suicidal attempts to depressed patients with suicidal ideation. The consistent downregulation of plasma Apolipoprotein-AIV observed in both the proteomics studies suggests Apolipoprotein-AIV might be a plasma-based biomarker for suicidal behaviour. \u0000\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"6 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-11-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89244123","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Meet the Editorial Board Member","authors":"Claire Lemaire","doi":"10.2174/157016461804210813092717","DOIUrl":"https://doi.org/10.2174/157016461804210813092717","url":null,"abstract":"[1] De Pooter D, Van Gulck E, Chen A, Evans CF, Neefs JM, Horton H, Boden D. A therapeutic hepatitis B virus DNA vaccine induces specific immune responses in mice and non-human primates. Vaccines, 2021; 9(9): 969. [2] Evans CF, Davtyan H, Petrushina I, Hovakimyan A, Davtyan A, Hannaman D, Cribbs DH, Agadjanyan MG, Ghochikyan A. Epitope-based DNA vaccine for Alzheimer's disease: translational study in macaques. Alzheimers Dement., 2014; 10(3): 284-95. [3] Evans, CF and Hannaman D. Current status of electroporation technologies for vaccine delivery n Immune Potentiators and Next Generation Vaccines, M. Singh, editor, Springer, New York, NY, 2013. [4] Jaini R, Hannaman D, Johnson JM, Bernard RM, Altuntas CZ, Delasalas MM, Kesaraju P, Luxembourg A, Evans CF, Tuohy VK. Gene-based intramuscular interferon-beta therapy for experimental autoimmune encephalomyelitis. Mol Ther., 2006; 14(3): 416-22.","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"31 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"81588580","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Airway Fibroblast Secretory Products Enhance Cell Migration","authors":"Nundisa Jaulin, R. Idrus, A. Saim, W. I. Wan-Ibrahim, P. S. Abdul-Rahman, Y. Lokanathan","doi":"10.2174/1570164618666210823094105","DOIUrl":"https://doi.org/10.2174/1570164618666210823094105","url":null,"abstract":"\u0000\u0000The nasal fibroblast secretome, which includes various cytokines, chemokines, and growth factors, promotes cell migration. Currently, the proteomics of airway fibroblast (AF) conditioned medium (AFCM) are being actively studied. \u0000\u0000\u0000\u0000\u0000 This study was aimed at profiling and identifying the AF secreted proteins that can enhance wound healing of the airway epithelium and predict the potential pathway involved.\u0000\u0000\u0000\u0000\u0000Airway epithelial cells (AECs) and AFs were isolated from redundant human nasal turbinate and cultured. AFCM was collected by culturing the AFs either with serum-free airway epithelium basal medium (AECM) or with serum-free F12:DMEM (FDCM). For evaluating cell migration, the AECs were supplemented with airway epithelium medium and defined keratinocyte medium (1:1; AEDK; control), or with AEDK supplemented with 20% AECM or 20% FDCM. The mass spectrometry sample was prepared by protein precipitation, followed by gel electrophoresis and in-gel digestion. \u0000\u0000\u0000\u0000\u0000AECM promoted better cell migration compared to the FDCM and the control medium. Bioinformatics analysis identified a total of 121, and 92 proteins from AECM and FDCM, respectively: 109 and 82 were identified as secreted proteins, respectively. STRING® analysis predicted that 23 proteins from the AECM and 16 proteins from the FDCM are involved in wound healing. \u0000\u0000\u0000\u0000\u0000 Conditioned medium promotes wound healing by enhancing cell migration, and we successfully identified various secretory proteins in a conditioned medium that play important roles in wound healing.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"1 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89468455","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Computational Insights into the Structure and Dynamics of the Human Serotonin Transporter N-Terminus by Microsecond Molecular Dynamics","authors":"Sorin Draga, L. Olariu, S. Avram","doi":"10.2174/1570164617999200917131021","DOIUrl":"https://doi.org/10.2174/1570164617999200917131021","url":null,"abstract":"\u0000\u0000The human serotonin transporter is an important drug target for the treatment\u0000of various medical conditions of which depression is the most important, but also include attention\u0000deficit hyperactivity disorder, schizophrenia, social anxiety disorder and irritable bowel syndrome,\u0000among others. The transmembrane portion of the human transporter has been studied extensively\u0000and was first crystalized in 2016. However, the dynamical nature of the N-terminal segment\u0000of protein and its post-translational modifications remain insufficiently explored.\u0000\u0000\u0000\u0000The present study aims to evaluate the structure and dynamics of the N-terminal segment\u0000of the human serotonin transporter and the presence and stability of possible secondary structure\u0000elements along with its post-translational modifications and disorder propensity.\u0000\u0000\u0000\u0000The segment was investigated using a combination of bioinformatics tools for physicochemical\u0000characterization, secondary structure prediction, post-translational modifications and disorder\u0000prediction, followed by ab initio modeling and microsecond long explicit solvent molecular\u0000dynamics.\u0000\u0000\u0000\u0000Our study reveals the presence of metastable secondary structure elements, namely two alpha helices and a beta-sheet, throughout the molecular dynamics run and identifies numerous sites with high probability for post-translational mod-ifications. \u0000\u0000\u0000\u0000Our results show that, despite the intrinsically unstructured nature, the N-terminus\u0000adopts a stable conformation with stable secondary structure elements, that could indicate an important\u0000functional role for the segment. Also, there is a high probability that the segment undergoes\u0000multiple post-translational modifications.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"15 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-08-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79694109","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Meet the Editorial Board Member","authors":"B. McDonagh","doi":"10.2174/157016461803210810092531","DOIUrl":"https://doi.org/10.2174/157016461803210810092531","url":null,"abstract":"Pittalà Pharmacia Corporation a research She of Combinatorial Chemistry Group and contributed to the discovery and identification of danusertib as co-inventor of bicyclopyrazoles chemicals. She currently holds the position of Assistant Professor at the University of Catania. Her major area of interest are the design and synthesis of heme oxygenase-1 inhibitors, and s receptor ligands as new antitumor agents. She has 7 patents to her credit.","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"102 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-08-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91250222","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Unraveling Potential Candidate Targets Associated with Expression of p16INK4a or p16 Truncated Fragment by Comparative Proteomics Analysis","authors":"Najmeh Fahham, F. Zandi, M. Ghahremani, S. Ostad, B. Vaziri, Seyed Sadegh Shahraeini, S. Sardari","doi":"10.2174/1570164618666210728121529","DOIUrl":"https://doi.org/10.2174/1570164618666210728121529","url":null,"abstract":"\u0000\u0000P16 is a tumor suppressor protein that is significantly involved in cycle regulation through the reduction of cell progression from G1 phase to S phase via CDK-cyclin D/p16INK4a/pRb/E2F cascade. The minimum functional domain of p16 has been uncovered that may function comparable to wild type p16.\u0000\u0000\u0000\u0000To expand the knowledge on molecules and mechanisms by which p16 or p1666-156 fragment suppresses human fibrosarcoma cell line growth, differential proteome profiles of fibrosarcoma cells following p16 full length or the functional domain overexpression were analyzed.\u0000\u0000\u0000\u0000Following transfecting HT-1080 fibrosarcoma cells with p16 full length, p1666-156 truncated form, and pcDNA3.1 empty vector, protein extract of each sample was harvested and clarified by centrifugation, and then the protein content was determined via Bradford assay. All protein extract of each sample was analyzed by two-dimensional gel electrophoresis. Immunoblot analysis was performed as further validation of the expression status of identified proteins.\u0000\u0000\u0000\u0000Expression of p16 or p1666-156 fragment could induce mostly common alterations (up/down-regulation) of proteome profile of HT-1080 cells. Mass spectrometry identification of the differentially expressed protein spots revealed several proteins that were grouped in functional clusters, including cell cycle regulation and proliferation, cell migration and structure, oxidative stress, protein metabolism, epigenetic regulation, and signal transduction. \u0000\u0000\u0000\u0000The minimum functional domain of p16 could act in the same way as p16 full length. Also, these new findings can significantly enrich the understanding of p16 growth-suppressive function at the molecular level by the introduction of potential candidate targets for new treatment strategies. Furthermore, the present study provides strong evidence on the functional efficacy of the identified fragment of p16 for further attempts toward peptidomimetic drug design or gene transfer to block cancer cell proliferation.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"15 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"82468581","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Cloning, Expression and Biochemical Characterization of the Recombinant α-amylase from Bacillus subtilis YX48","authors":"Y. Shan, Junjie Shang, Dongfang Zhang, Yinshan Cui, Yi Wang, Jie Zhu, Yongkai Ma, P. Song, K. Qin, X. Ji, Yunlin Wei, Lijun Wu","doi":"10.2174/1570164618666210726161428","DOIUrl":"https://doi.org/10.2174/1570164618666210726161428","url":null,"abstract":"\u0000\u0000Amylase used in the market is mostly medium-temperature enzyme or high-temperature enzyme and has poor enzyme activity under low-temperature environment. Acid α-amylase can be used to develop digestion additives in the pharmaceutical and healthcare industries. The amino acid sequence and structural differences among α-amylases obtained from various organisms are high enough to confer interesting biochemical diversity to the enzymes. However, low- temperature (0-50℃) amylase, with an optimum temperature and heat sensitivity, has a greater potential value than medium (50-80℃) and high (80-110℃) temperature amylases.\u0000\u0000\u0000\u0000\u0000The gene amy48 from encoding extracellular α-amylase in Bacillus subtilis YX48 was successfully cloned into the pET30a (+) vector and expressed in Escherichia coli BL21 (DE3) for biochemical characterization. \u0000\u0000\u0000\u0000\u0000The molecular weight of α-amylase was 75 kDa. The activity of α-amylase was not affected by Ca2+, and Amy48 had the best activity at pH 5.0 and 37℃. AMY48 has high stability over a narrow pH and temperature range (5.0-8.0 and 30-45℃). Amylase activity was strongly inhibited by Zn2+, Mn2+, Cu2+, and Fe2+ ions, but Na+, K+, and Co2+ ions stimulate its activity slightly. The purified enzyme showed gradually reduced activity in the presence of detergents. However, it was remarkably stable against EDTA and urea. \u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"8 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-07-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"90186555","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Evaluation of the Binding Affinity of a Gonadotropin-Releasing Hormone Analogue (GnRH-a) Buserelin through In Silico and In Vivo testing in Clarias magur","authors":"Mukesh Kumar, M. Goswami, S. Nayak, P. Gireesh-Babu, A. Chaudhari","doi":"10.2174/1570164618666210426090916","DOIUrl":"https://doi.org/10.2174/1570164618666210426090916","url":null,"abstract":"To evaluate the binding affinity and biological potency of gonadotropin releasing hormone analogue (GnRHa) Buserelin (‎C60H86N16O13) based on in silico and in vivo testing for induced breeding in Clarias magur. Many attempts have been made to induce C. magur but encouraging results have not yet been achieved. Hence, it is the need of the hour to find out more potent analogues or other bio-molecules for induced breeding in C. magur to facilitate sustainable aquaculture. To determine the binding affinity of C. magur GnRH receptor through in silico and its validation for induced breeding of C. magur. Buserelin (‎C60H86N16O13) was selected as the potential GnRHa after screening several peptides for their binding energy with the C. magur GnRH receptor. The induced breeding trial was set up at ICAR-CIFE Powarkheda Centre, M.P. India, and Buserelin was administered in different doses to the brooders along with the dopamine inhibitor domperidone. The standard treatment with the commercial salmon GnRH (sGnRH) analogue Ovaprim® (Syndel, USA) was used as the control. The 3-D structure of C. magur GnRH receptor was generated using MODELLER software. Molecular docking studies revealed the binding preference of the receptor as chicken (c) GnRH-II > Buserelin > sGnRH > catfish (cf) GnRH > human (m) GnRH. Though Buserelin showed better binding affinity compared to sGnRH, induced breeding experiments with magur showed similar performance of the ligands at the equivalent dose of 20 µg/kg B.W., but the spontaneous release of milt from the males was not obsereved in both the cases. Significantly better reproductive parameters were recorded with Buserelin at the dose of 30 µg/kg B.W. The study revealed that that the GnRHa Buserelin can be used as an effective inducing agent for breeding in C. magur.","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"60 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-04-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"90814550","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Arsenite induced conformational changes and aggregation in human serum albumin (HSA) and its prevention by naringin","authors":"S. Fatima, Fareeha Arshad, Samreen Amani","doi":"10.2174/1570164618666210423131625","DOIUrl":"https://doi.org/10.2174/1570164618666210423131625","url":null,"abstract":"\u0000\u0000Heavy metals and metalloids like arsenic, cadmium, mercury acts as denaturing agent for biomolecules. They interfere with protein’s physiological activity by forming a complex with the protein’s side chain or removing the essential metal ions from metalloproteins and replacing them. Protein aggregation is an extensive phenomenon in a cell and is linked with various pathological conditions. \u0000\u0000\u0000\u0000In this study, we aim to prove that proteins are highly susceptible to arsenite toxicity by arsenite-induced protein aggregation; and that naringin reduces the aggregation effect.\u0000\u0000\u0000\u0000\u0000 Several biophysical techniques were employed to study the protein aggregation due to arsenite and its prevention by naringin.\u0000\u0000\u0000\u0000 Through our experiments, the results showed that aggregation induced by arsenite was reduced in the presence of naringin at twice the concentration of arsenite.\u0000\u0000\u0000\u0000In conclusion, our study showed that naringin plays a protective role during HSA aggregation due to arsenite.\u0000\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"161 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-04-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75396211","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Quantitative Proteomics Reveals SOS2-related Proteins in Arabidopsis under Salt Stress","authors":"Xiang Yu, Xiaoyun Zhao, Yongqing Yang, Zhen Li","doi":"10.2174/1570164618666210413105907","DOIUrl":"https://doi.org/10.2174/1570164618666210413105907","url":null,"abstract":"\u0000\u0000Soil salinity is a major issue that seriously affects plant growth and cultivated land utilization. Salt tolerance is one of the most fundamental biological processes that ensures plants survival. SOS2 is one of the most important components of the Salt Overly Sensitive (SOS) signaling pathway, which maintains plant ion homeostasis under salt stress. The SOS2-related signaling pathways remain incompletely exploited especially at the proteomics level.\u0000\u0000\u0000\u0000In this paper, proteins potentially interacting with and regulated by SOS2 in Arabidopsis were identified.\u0000\u0000\u0000\u0000The proteomes of Arabidopsis Wild Type (WT) and SOS2-deficient mutant (sos2-2) exposed to 100 mM NaCl for 6 h were compared, proteins were identified using data-independent acquisition-based quantitative proteomics strategy.\u0000\u0000\u0000\u0000A total of 7470 proteins were identified and quantified, 372 Differentially Expressed Proteins (DEP) were detected between WT and sos2-2 mutant under normal condition and 179 DEPs were identified under salt treatment. Functional analysis showed that the DEPs were mainly involved in protein binding and catalytic activity. Among the DEPs under salt stress, the protein expressions of AVP1, Photosystem II reaction center protein A, B, C, and stress-responsive protein (KIN2) were significantly up-regulated. LHCA1, LHCA2, LHCA4, ATPD and ATPE were significantly down-regulated. These proteins were involved in biological processes including: stress response, photosynthesis, transport and heat shock.\u0000\u0000\u0000\u0000These results revealed complexity of the functions of SOS2 in maintaining intracellular homeostasis, in addition to its function in sodium homeostasis. Plant salt resistance is not independent but closely related to metabolic processes including photosystem, ATP synthase, transport and other stress resistances.\u0000\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"47 1 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-04-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"90052976","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}