Pub Date : 2021-12-22DOI: 10.2174/1570164619666211222145450
L. Yin, Siyuan Liu, Huichun Shi, Yan-ling Feng, Yujiao Zhang, Dage Wu, Zhigang Song, Lijun Zhang
H7N9 influenza virus poses a high risk to human beings and proteomic evaluations of these infections may help to better understand its pathogenic mechanisms in human systems. Objective: To find membrane proteins related to H7N9 infection. Here, we infected primary human alveolar adenocarcinoma epithelial cells (A549) cells with H7N9 (including wild and mutant strains) and then produced enriched cellular membrane isolations which were evaluated by western blot. The proteins in these cell membrane fractions were analyzed using the isobaric Tags for Relative and Absolute Quantitation (iTRAQ) proteome technologies. Differentially expressed proteins (n = 32) were identified following liquid chromatography-tandem mass spectrometry, including 20 down-regulated proteins such as CD44 antigen, and CD151 antigen, and 12 up-regulated proteins such as tight junction protein ZO-1, and prostaglandin reductase 1. Gene Ontology database searching revealed that 20 out of the 32 differentially expressed proteins were localized to the plasma membrane. These proteins were primarily associated with cellular component organization (n = 20), and enriched in the Reactome pathway of extracellular matrix organization (n = 4). These findings indicate that H7N9 may dysregulate cellular organization via specific alterations to the protein profile of the plasma membrane.
{"title":"Subcellular Proteomic Analysis Reveals Dysregulation in Organization of Human A549 Cells Infected with Influenza Virus H7N9","authors":"L. Yin, Siyuan Liu, Huichun Shi, Yan-ling Feng, Yujiao Zhang, Dage Wu, Zhigang Song, Lijun Zhang","doi":"10.2174/1570164619666211222145450","DOIUrl":"https://doi.org/10.2174/1570164619666211222145450","url":null,"abstract":"\u0000\u0000H7N9 influenza virus poses a high risk to human beings and proteomic evaluations of these infections may help to better understand its pathogenic mechanisms in human systems. Objective: To find membrane proteins related to H7N9 infection. \u0000\u0000\u0000\u0000\u0000 Here, we infected primary human alveolar adenocarcinoma epithelial cells (A549) cells with H7N9 (including wild and mutant strains) and then produced enriched cellular membrane isolations which were evaluated by western blot. The proteins in these cell membrane fractions were analyzed using the isobaric Tags for Relative and Absolute Quantitation (iTRAQ) proteome technologies. \u0000\u0000\u0000\u0000\u0000 Differentially expressed proteins (n = 32) were identified following liquid chromatography-tandem mass spectrometry, including 20 down-regulated proteins such as CD44 antigen, and CD151 antigen, and 12 up-regulated proteins such as tight junction protein ZO-1, and prostaglandin reductase 1. Gene Ontology database searching revealed that 20 out of the 32 differentially expressed proteins were localized to the plasma membrane. These proteins were primarily associated with cellular component organization (n = 20), and enriched in the Reactome pathway of extracellular matrix organization (n = 4). \u0000\u0000\u0000\u0000\u0000These findings indicate that H7N9 may dysregulate cellular organization via specific alterations to the protein profile of the plasma membrane.\u0000\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"24 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"86743952","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}
Pub Date : 2021-11-30DOI: 10.2174/1570164618666211130144858
Pengcheng Zhang, Yuan Zhou, Qiangqiang Fang, Houmin Lin, Juan Xiao
The exact mechanism of acute pancreatitis (AP), which is an inflammation of the pancreas, still remains unclear. In this study, we examined the protein phosphorylation changes during the early stage of AP in mice using proteomic analysis. AP model in mice was constructed using an intraperitoneal injection of cerulein. Blood samples and pancreas were collected at 1, 3, 6, 9h after the final injection (n=3 at each time point). Samples collected 3h after the final injection were separately mixed and named S (saline group) and C1 (cerulein group); samples collected 6h after the final injection from the cerulein group were mixed and named C2. Proteins from S, C1, and C2 were extracted, digested by trypsin, and subjected to LC-MS/MS analysis, bioinformatics analysis, and Western blotting. A total of 549 sites (426 proteins) were upregulated, and 501 sites (367 proteins) were downregulated in C1 compared to S; while 491 phosphorylation sites (377 proteins) were upregulated and 367 sites (274 proteins) were downregulated in C2 compared to S. Motif analysis showed that proline-directed kinase and basophilic kinase had a key role during early AP. During an early AP stage, the cellular distributions of proteins slightly changed. The types of domains changed with the development of AP. Phosphorylation proteins associated with calcium signaling, especially IP3R mediated calcium release, lysosome and autophagosome pathway, pancreatic digestive activation, and secretion, were found to be involved in the development of early AP independent of NF-kB activation. Moreover, the MAPK family was found to have a greater impact at the early stage of AP. We also found differentially expressed phosphorylations of amylase and trypsinogen and increased phosphorylation of MAPK6 S189 in early AP. IP3R mediated calcium release and activation of MAPK family are key events promoting the development of early AP.
{"title":"Proteomic analysis of early phosphorylated proteins in acute pancreatitis model","authors":"Pengcheng Zhang, Yuan Zhou, Qiangqiang Fang, Houmin Lin, Juan Xiao","doi":"10.2174/1570164618666211130144858","DOIUrl":"https://doi.org/10.2174/1570164618666211130144858","url":null,"abstract":"\u0000\u0000 The exact mechanism of acute pancreatitis (AP), which is an inflammation of the pancreas, still remains unclear. In this study, we examined the protein phosphorylation changes during the early stage of AP in mice using proteomic analysis. \u0000\u0000\u0000\u0000\u0000AP model in mice was constructed using an intraperitoneal injection of cerulein. Blood samples and pancreas were collected at 1, 3, 6, 9h after the final injection (n=3 at each time point). Samples collected 3h after the final injection were separately mixed and named S (saline group) and C1 (cerulein group); samples collected 6h after the final injection from the cerulein group were mixed and named C2. Proteins from S, C1, and C2 were extracted, digested by trypsin, and subjected to LC-MS/MS analysis, bioinformatics analysis, and Western blotting.\u0000\u0000\u0000\u0000\u0000A total of 549 sites (426 proteins) were upregulated, and 501 sites (367 proteins) were downregulated in C1 compared to S; while 491 phosphorylation sites (377 proteins) were upregulated and 367 sites (274 proteins) were downregulated in C2 compared to S. Motif analysis showed that proline-directed kinase and basophilic kinase had a key role during early AP. During an early AP stage, the cellular distributions of proteins slightly changed. The types of domains changed with the development of AP. Phosphorylation proteins associated with calcium signaling, especially IP3R mediated calcium release, lysosome and autophagosome pathway, pancreatic digestive activation, and secretion, were found to be involved in the development of early AP independent of NF-kB activation. Moreover, the MAPK family was found to have a greater impact at the early stage of AP. We also found differentially expressed phosphorylations of amylase and trypsinogen and increased phosphorylation of MAPK6 S189 in early AP. \u0000\u0000\u0000\u0000\u0000IP3R mediated calcium release and activation of MAPK family are key events promoting the development of early AP. \u0000\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"6 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-11-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77825348","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}
Pub Date : 2021-11-23DOI: 10.2174/157016461805210924161719
Lei Chen
In recent years, protein-related data have grown rapidly with the application of novel methods and techniques. Several online public databases have been set up, and investigators can easily retrieve various data reported in them. Traditional computational methods to deal with these data are becoming more and more inappropriate because they are in different forms. Thus, novel data-driven computational methods are increasingly needed. This thematic issue collects six excellent papers, out of which three papers reviewed newly proposed methods of essential problems in computational proteomics and three research articles proposed novel computational methods to deal with specific problems.
{"title":"Novel Feature Representation and Machine Learning Methods in Computational Proteomics","authors":"Lei Chen","doi":"10.2174/157016461805210924161719","DOIUrl":"https://doi.org/10.2174/157016461805210924161719","url":null,"abstract":"In recent years, protein-related data have grown rapidly with the application of novel methods and techniques. Several online public databases have been set up, and investigators can easily retrieve various data reported in them. Traditional computational methods to deal with these data are becoming more and more inappropriate because they are in different forms. Thus, novel data-driven computational methods are increasingly needed. This thematic issue collects six excellent papers, out of which three papers reviewed newly proposed methods of essential problems in computational proteomics and three research articles proposed novel computational methods to deal with specific problems.","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"29 1","pages":""},"PeriodicalIF":0.8,"publicationDate":"2021-11-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85288542","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}
Pub Date : 2021-11-04DOI: 10.2174/1570164618666211104151005
Boby Mathew, K. Srinivasan, Johnson Pradeep, Tinku Thoma, A. Mandal
Identification of a peripheral biological marker might aid in identifying patients at high risk of attempting suicide and might help in effective early intervention. In 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. Using 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. The 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). These 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.
{"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}
Pub Date : 2021-10-15DOI: 10.2174/157016461804210813092717
Claire Lemaire
[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.
{"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}
Pub Date : 2021-08-23DOI: 10.2174/1570164618666210823094105
Nundisa Jaulin, R. Idrus, A. Saim, W. I. Wan-Ibrahim, P. S. Abdul-Rahman, Y. Lokanathan
The 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. 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. Airway 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. AECM 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. 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.
{"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}
Pub Date : 2021-08-10DOI: 10.2174/1570164617999200917131021
Sorin Draga, L. Olariu, S. Avram
The human serotonin transporter is an important drug target for the treatment of various medical conditions of which depression is the most important, but also include attention deficit hyperactivity disorder, schizophrenia, social anxiety disorder and irritable bowel syndrome, among others. The transmembrane portion of the human transporter has been studied extensively and was first crystalized in 2016. However, the dynamical nature of the N-terminal segment of protein and its post-translational modifications remain insufficiently explored. The present study aims to evaluate the structure and dynamics of the N-terminal segment of the human serotonin transporter and the presence and stability of possible secondary structure elements along with its post-translational modifications and disorder propensity. The segment was investigated using a combination of bioinformatics tools for physicochemical characterization, secondary structure prediction, post-translational modifications and disorder prediction, followed by ab initio modeling and microsecond long explicit solvent molecular dynamics. Our 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. Our results show that, despite the intrinsically unstructured nature, the N-terminus adopts a stable conformation with stable secondary structure elements, that could indicate an important functional role for the segment. Also, there is a high probability that the segment undergoes multiple post-translational modifications.
{"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}
Pub Date : 2021-08-10DOI: 10.2174/157016461803210810092531
B. McDonagh
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.
{"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}
Pub Date : 2021-07-28DOI: 10.2174/1570164618666210728121529
Najmeh Fahham, F. Zandi, M. Ghahremani, S. Ostad, B. Vaziri, Seyed Sadegh Shahraeini, S. Sardari
P16 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. To 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. Following 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. Expression 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. The 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.
{"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}
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