Current Proteomics最新文献

{"title":"Analysis of membrane proteins of streptomycin resistant Mycobacterium tuberculosis isolates","authors":"Rananjay Singh, D. Sharma, D. Sharma, Mahendra K. Gupta, D. Bisht","doi":"10.2174/1570164619666220428082752","DOIUrl":"https://doi.org/10.2174/1570164619666220428082752","url":null,"abstract":"\u0000\u0000Drug resistant tuberculosis remains a health security threat and resistance to second-line drugs limits the options for treatment. Consequently, there is an utmost need for identifying and characterizing new biomarkers/drug targets of prime importance. Membrane proteins have an anticipated role in biological processes and could qualify as biomarkers/drug targets. Streptomycin (SM) is recommended as a second-line treatment regimen only when amikacin resistance has been confirmed. As extensively drug-resistant (XDR) isolates are frequently cross-resistant to second-line injectable drugs, an untapped potential for continued use of SM has been suggested.\u0000\u0000\u0000\u0000The study aimed to analyze the membrane proteins overexpressed in SM resistant isolates of Mycobacterium tuberculosis using proteomics approaches.\u0000\u0000\u0000\u0000Membrane proteins were extracted employing sonication and ultracentrifugation. Two-dimensional gel electrophoresis (2DGE) of membrane proteins was performed and identification of proteins was done by liquid chromatography-mass spectrometry (LCMS) and bioinformatics tools.\u0000\u0000\u0000\u0000On analyzing the two-dimensional (2D) gels, five protein spots were found overexpressed in the membrane of SM resistant isolates. Docking analysis revealed that SM might bind to the conserved domain of overexpressed proteins and Group-based prediction system-prokaryotic ubiquitin-like protein (GPS-PUP) predicted potential pupylation sites within them.\u0000\u0000\u0000\u0000These proteins might be of diagnostic importance for detecting the cases early and for exploring effective control strategies against drug-resistant tuberculosis, particularly SM.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-04-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85100742","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":"Proteomic Profiling of Maternal Serum for Early Risk Analysis of Preterm Birth","authors":"Javeria Malik, Shaaf Ahmad, Humaira Aziz, N. Roohi, M. A. Iqbal","doi":"10.2174/1570164619666220412122959","DOIUrl":"https://doi.org/10.2174/1570164619666220412122959","url":null,"abstract":"\u0000\u0000The absence of absolute clinical indicators and suitable biomarkers hinders the timely diagnosis of women at risk of preterm birth. It influences roughly 12% of births. At\u0000delivery and clinical presentation, preterm births are generally inspected based on the gestational\u0000period. Different disturbed pathways are associated with the signs of at-risk pregnancies.\u0000\u0000\u0000\u0000The main purpose of this study is to analyze and explore the serum proteome of early deliveries and help health care professionals to improve the understanding of the progression of\u0000preterm birth.\u0000\u0000\u0000\u0000In the present study, 200 pregnant females of 20-30 years of age were selected. We collected samples of second and third-trimester pregnant females, out of which 40 females delivered\u0000preterm. We further divided them into three groups, i.e., extremely preterm group, very preterm,\u0000and controls. Overall comparison of serum profiles of all the three groups expressing fourteen proteins ranging between 200-10kDa was made. Serum proteins were isolated by one-dimensional\u0000sodium dodecyl sulfate-polyacrylamide gel electrophoresis and photographed by totalLab quant\u0000software. Groups were evaluated using the ANOVA Tukey’s Post Hoc analysis.\u0000\u0000\u0000\u0000Proteins of 69kDa and 15kDa expressed a significant decrease when compared with control subjects. In contrast, the proteins of 23kDa expressed a significant increase, while the proteins\u0000of 77kDa, 45kDa, and 25kDa demonstrated no considerable variation.\u0000\u0000\u0000\u0000The serum proteins showing significant difference as compared to the control group\u0000will serve as predictive biomarkers for at-risk pregnancies. The present study is expected to considerably improve the understanding of the disease pathogenesis along with improved diagnostic and\u0000therapeutic approaches leading to better management of pregnancy and reducing the risk of\u0000preterm birth.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-04-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85075925","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":"Proteome Profiling of Serum Exosomes from Newborns Delivered by Mothers with Preeclampsia","authors":"Haiying Li, Xiaoqun Zhang, Xianhui Hong, Shuxuan Zhang, Haijun Tang, Jinlong Shi, Hui Peng, Youjia Wu","doi":"10.2174/1570164619666220406121420","DOIUrl":"https://doi.org/10.2174/1570164619666220406121420","url":null,"abstract":"\u0000\u0000Preeclampsia (PE) is a common pregnancy-specific disease with potential adverse maternal and neonatal outcomes.\u0000\u0000\u0000\u0000We aimed to estimate proteomic profiles of serum-derived exosomes obtained from PE offspring with bioinformatics methods.\u0000\u0000\u0000\u0000Serum samples were collected from 12 h, 24 h, and 72 h newborns delivered by preeclamptic and normal pregnant women. Exosomes were extracted, and the concentration and size distribution were determined. The exosome surface markers CD9, CD63, CD81, and TSG101, were assayed by Western blot. The exosome proteins were screened by quantitative proteomics with tandem mass tag (TMT). All the identified proteins were subjected to the Weighted Gene Co-Expression Network Analysis (WGCNA), GO function, and KEGG pathway analysis. A protein-protein interaction network (PPI) was used to extract hub proteins through the Cytohubba plugin of Cytoscape\u0000\u0000\u0000\u0000The extracted exosomes were round or oval vesicular structures at a 100-200 nm concentration, and the size distribution was standard and uniform. Exosome surface markers CD9, CD63, and CD81 were detected, and TSG101 was not detected. A total of 450 expressed proteins were selected, and 444 proteins were mapped with gene names. A blue module with 66 proteins highly correlated with phenotype at 12 h. Functional analyses revealed that module proteins were mainly enriched in extracellular matrix. The top 10 selected hub proteins were identified as hub proteins, including COL6A2, HSPG2, COL4A1, COL3A1, etc.\u0000\u0000\u0000\u0000Our study provides important information for exploring molecular mechanisms of preeclampsia and potential biomarkers for future diagnosis and treatment in the clinic.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77553717","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":"Proteomic analysis of tumor-specific biomarkers in colon cancer","authors":"Yu-An Chien, H. Chou, Chu-Chun Yang, Yi- Shiuan Wang, yu-shan Wei, H. Chan","doi":"10.2174/1570164619666220406115339","DOIUrl":"https://doi.org/10.2174/1570164619666220406115339","url":null,"abstract":"\u0000\u0000With the development of medicine and technological advancement, the concept of precision medicine is rising, and the traditional principle of all-in-one therapy is gradually broken. Utilizing the detection of genome, transcriptome, proteome, and metabolome, combined with big data analysis to discover new pathogenic mechanisms, provide more effective prescriptions with fewer side effects, and even shift the emphasis of medicine from disease treatment to disease prevention.\u0000\u0000\u0000\u0000Proteomics is one of the potential tools for monitoring the alternations of protein expression. This study analyzed the proteomic alternations between normal colon tissue and cancerous colon tissue via two-dimensional difference gel electrophoresis (2D-DIGE) and matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS) to select the potential target proteins.\u0000\u0000\u0000\u0000The experimental results demonstrated that a total of 90 proteins were identified with significantly expressed. These proteins were classified according to their functions. These proteins are mainly associated with cytoskeleton regulation, glycolysis, and protein folding. Furthermore, immunoblotting was used to verify the differentially expressed proteins, and the results showed positive agreement with the trends in the proteomic analysis.\u0000\u0000\u0000\u0000To sum up, these differentially expressed proteins could be used as potential and precise biomarkers in the diagnosis or treatment of colorectal cancer.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75236936","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":"N. B. Maheswarappa","doi":"10.2174/157016461902220221140544","DOIUrl":"https://doi.org/10.2174/157016461902220221140544","url":null,"abstract":"","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75717399","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":"Identification of Potential Immunogenic Epitopes against SARS-CoV-2 using In-Silico Method: An Immunoinformatics Study","authors":"Subikshaa. S, S. P., Chethan Jaya Sai Nandamuri, Shruti Ramanathan, Shobana Sugumar","doi":"10.2174/1570164619666220401115509","DOIUrl":"https://doi.org/10.2174/1570164619666220401115509","url":null,"abstract":"\u0000\u0000Severe Acute Respiratory Syndrome (SARS-CoV-2), a zoonotic virus, is the pathogenic causal agent for the ongoing pandemic. Despite the lethality of the disease, there are no therapeutic agents available to combat the disease outbreak; and the vaccines currently accessible are insufficient to control the widespread, fast-mutating virus infection.\u0000\u0000\u0000\u0000This research study focuses on determining potential epitopes by examining the entire proteome of the SARS-CoV-2 virus using an in-silico approach.\u0000\u0000\u0000\u0000To design a vaccine for the deadly virus, the entire proteome of the SARS-CoV-2 virus was screened for identification of potential epitopes in order to identify the potent peptide candidate which is both unique and simultaneously solves the purpose of the vaccine discovery. It is mandatory to identify the suitable B-cell and T-cell epitopes of the observed SARS-CoV-2 Surface Glycoprotein (QKN61229.1). These epitopes were subjected to various tests, including antigenicity, allergenicity, and other physicochemical properties. The T-cell epitopes that met all of the criteria were then subjected to Population Coverage Analysis. It helped better understand the response of epitopes to the target population, compute the conservancy of a peptide, and then cluster them based on their sequence match, MHC binding, and T-cell restriction sites. Lastly, the interactions between the T-Cell Receptor (TCR) and a peptide-MHC were studied to gain a thorough understanding of MHC-restriction to design a peptide-vaccine.\u0000\u0000\u0000\u0000The results showed that there were 4 B-Cell epitopes, 2 MHC-I epitopes, 4 MHC-II epitopes that qualified all the subjected tests and thus have an affinity to prominent antigens.\u0000\u0000\u0000\u0000ased on the results obtained from this study, the estimated peptides are a promising candidate for peptide-vaccine design and development.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"83907966","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":"A motif in metallopeptidase inhibitor decreases effectively the activity of macrophage metalloproteinases","authors":"G. Esfandiari, G. Ghasempour, Naser Kakavandi, A. Soleimani, Borhan Rahimi, Elham Bahraini, M. Najafi, M. Khosravi","doi":"10.2174/1570164619666220304162545","DOIUrl":"https://doi.org/10.2174/1570164619666220304162545","url":null,"abstract":"\u0000\u0000The tissue remodeling process and cellular migration relate to the activities of matrix metalloproteinases (MMPs). The aim of this study was to investigate the effects of a predicted motif from TIMPs on the MMP-2 and MMP-9 activities secreted from the differentiated macrophages.\u0000\u0000\u0000\u0000The monocytes were isolated from the healthy individuals by RosetteSep kit and were differentiated into macrophages using M-CSF. A 4-amino acid motif (TCAP) was predicted using bioinformatics tools. Zymography technique was applied for the measurement of MMP activities. The docking studies were also investigated between MMPs, tetrapeptide, and Batimastat.\u0000\u0000\u0000\u0000The TCAP inhibited significantly the differentiated macrophage MMP-2 and MMP-9 activities (p=0.0001and p=0.01, respectively). The docking results suggested the some MMP amino acids are involved with both tetrapeptide (TCAP), and Batimastat,\u0000\u0000\u0000\u0000The data showed that the small motif (TCAP) of TIMPs inhibits effectively the MMP-2 activity.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-03-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89965276","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":"Proteomic profile analysis of pulmonary artery in a rat model under hypoxic pulmonary hypertensionc","authors":"Ma Shuang, L. Jie, Zhang Ruixia, Liu Chuanchuan, M. Yan","doi":"10.2174/1570164619666220204123709","DOIUrl":"https://doi.org/10.2174/1570164619666220204123709","url":null,"abstract":"\u0000\u0000Proteomic profile analysis of pulmonary artery in a rat model under hypoxic pulmonary hypertension\u0000\u0000\u0000\u0000Background: Hypoxic pulmonary hypertension (HPH) is a pathological condition exemplified by a constant rise in pulmonary artery pressure in high-altitudes.\u0000\u0000\u0000\u0000Objective: To investigated the proteome profile and response mechanisms of SD rats under hypoxia over a period of four-weeks.\u0000\u0000\u0000\u0000Method: Proteomic profile analysis of pulmonary artery in a rat model under hypoxic pulmonary hypertension.\u0000\u0000\u0000\u0000Results: With 3,204 proteins identified, 49 were up-regulated while 46 were down-regulated. Upregulated genes included Prolargin, Protein S100-A6 and Transgelin-2, whereas Nascent polypeptide-associated complex and Elongator complex protein 1 were down-regulated. KEGG enriched pathways had purine metabolism, cancer and lipolysis regulation as significantly enriched in hypoxic group.\u0000\u0000\u0000\u0000Conclusion: In conclusion, our findings submit basis for downstream studies on tissue hypoxia mechanisms alongside the associated physiological conditions.\u0000Hypoxic pulmonary hypertension (HPH) is a pathological condition exemplified by a constant rise in pulmonary artery pressure in high altitudes. Herein, we investigated the proteome profile and response mechanisms of Sprague-Dawley (SD) rats under hypoxia over a period of four weeks. Unbiased iTRAQ-based quantitative proteomics was utilized in proteome profile analysis of a rat model exposed to HPH. With 3,204 proteins identified, 49 were upregulated while 46 were downregulated. Upregulated genes included Prolargin, Protein, S100-A6 and Transgelin-2, whereas Nascent polypeptide-associated complex and Elongator complex protein 1 were downregulated. The Kyoto Encyclopedia of Genes and Genomes (KEGG) enriched pathways had purine metabolism, cancer, and lipolysis regulation as significantly enriched in hypoxic group. In conclusion, the findings from this study submit a basis for downstream studies on tissue hypoxia mechanisms alongside the associated physiological conditions.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-02-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"76647837","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":"N. Taylor","doi":"10.2174/157016461901220119162454","DOIUrl":"https://doi.org/10.2174/157016461901220119162454","url":null,"abstract":"","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79843589","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":"iTRAQ-Based Quantitative Proteomics Analysis Reveals the Invasion Mechanism of Spiroplasma eriocheiris in 3T6 Cells","authors":"Peng Liu, Youyuan Ye, Shasha Xiang, Yuxin Li, Chengbin Zhu, Zixu Chen, Jie Hu, Ye Gen, Li Lou, Xuqi Duan, Juan Zhang, W. Gu","doi":"10.2174/1570164619666220113154423","DOIUrl":"https://doi.org/10.2174/1570164619666220113154423","url":null,"abstract":"\u0000\u0000Spiroplasma eriocheiris is a novel pathogen of freshwater crustaceans and\u0000is closely related to S. mirum. They have no cell wall and a helical morphology. They have the ability\u0000to infect mammals with an unclear mechanism.\u0000\u0000\u0000\u0000In this study, our aim was to investigate the profile of protein expression in 3T6 cells infected\u0000with S. eriocheiris.\u0000\u0000\u0000\u0000The proteome of 3T6 cells infected by S. eriocheiris was systematically investigated by\u0000iTRAQ.\u0000\u0000\u0000\u0000We identified and quantified 4915 proteins, 67 differentially proteins were found, including\u000030 up-regulated proteins and 37 down-regulated proteins. GO term analysis shows that dysregulation\u0000of adhesion protein , interferon and cytoskeletal regulation are associated with apoptosis. Adhesion\u0000protein Vcam1 and Interferon-induced protein GBP2, Ifit1, TAPBP, CD63 ,Arhgef2 were\u0000up-regulated. A key cytoskeletal regulatory protein, ARHGEF17 was down-regulated. KEGG pathway\u0000analysis showed the NF-kappa B signaling pathway, the MAPK signaling pathway , the Jak-STAT\u0000signaling pathway and NOD-like receptor signaling are closely related to apoptosis in vivo.\u0000\u0000\u0000\u0000Analysis of the signaling pathways involved in invasion may provide new insights for\u0000understanding the infection mechanisms of S. eriocheiris.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2022-01-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77294974","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}