Current Proteomics最新文献_第7页

Metabolomics of meat color: Practical implications 肉颜色的代谢组学:实际意义

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-12-30 DOI: 10.2174/1570164619666211230153145

M. Denzer, F. Kiyimba, G. Mafi, R. Ramanathan

{"title":"Metabolomics of meat color: Practical implications","authors":"M. Denzer, F. Kiyimba, G. Mafi, R. Ramanathan","doi":"10.2174/1570164619666211230153145","DOIUrl":"https://doi.org/10.2174/1570164619666211230153145","url":null,"abstract":"\u0000\u0000Meat is biochemically active, and the various pre-and post-harvest processes\u0000can affect meat quality. Metabolomics is a valuable tool to elucidate metabolite changes in meat.\u0000The overall goal of this study was to provide an overview of various techniques, data analysis, and\u0000application of metabolomics in meat color research.\u0000\u0000\u0000\u0000Both targeted and non-targeted approaches have been used to determine metabolite profiles in meat. Researchers use gas-, liquid-chromatography, and nuclear magnetic resonance platforms to separate molecules. Metabolomics is used to characterize muscle-specific differences in\u0000color stability, meat tenderness, the impact of aging on meat color, and to determine metabolite profile differences between normal-pH and dark-cutting beef. Color stable muscles have more glycolytic metabolites than color labile muscles.\u0000\u0000\u0000\u0000The use of metabolomics has greatly enhanced our understanding of metabolites' role\u0000in meat quality. There are challenges in data analysis; thus, there is a need for multiple platforms in\u0000order to obtain comprehensive metabolite libraries specific to food. Metabolomics in combination\u0000with wet-laboratory techniques can provide novel insights on the relationship between postmortem\u0000metabolism and meat color.\u0000","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":null,"pages":null},"PeriodicalIF":0.8,"publicationDate":"2021-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"84676639","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}

引用次数: 0

Subcellular Proteomic Analysis Reveals Dysregulation in Organization of Human A549 Cells Infected with Influenza Virus H7N9 亚细胞蛋白质组学分析揭示感染H7N9流感病毒的人A549细胞组织失调

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-12-22 DOI: 10.2174/1570164619666211222145450

L. Yin, Siyuan Liu, Huichun Shi, Yan-ling Feng, Yujiao Zhang, Dage Wu, Zhigang Song, Lijun Zhang

{"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":null,"pages":null},"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}

引用次数: 0

Proteomic analysis of early phosphorylated proteins in acute pancreatitis model 急性胰腺炎早期磷酸化蛋白的蛋白质组学分析

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-11-30 DOI: 10.2174/1570164618666211130144858

Pengcheng Zhang, Yuan Zhou, Qiangqiang Fang, Houmin Lin, Juan Xiao

{"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":null,"pages":null},"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}

引用次数: 0

Novel Feature Representation and Machine Learning Methods in Computational Proteomics 计算蛋白质组学中的新特征表示和机器学习方法

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-11-23 DOI: 10.2174/157016461805210924161719

Lei Chen

引用次数: 0

M.P. Molloy 议员莫雷

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-11-23 DOI: 10.2174/157016461805210924161310

M. Molloy

引用次数: 0

Plasma Apolipoprotein-AIV Downregulated in Patients with Major Depressive Disorder having Suicidal Ideation Compared to those without Suicidal Ideation 有自杀意念的重度抑郁症患者与无自杀意念的患者相比，血浆载脂蛋白aiv下调

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-11-04 DOI: 10.2174/1570164618666211104151005

Boby Mathew, K. Srinivasan, Johnson Pradeep, Tinku Thoma, A. Mandal

{"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":null,"pages":null},"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}

引用次数: 0

Meet the Editorial Board Member 与编辑委员会成员见面

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-10-15 DOI: 10.2174/157016461804210813092717

Claire Lemaire

引用次数: 0

Airway Fibroblast Secretory Products Enhance Cell Migration 气道成纤维细胞分泌产物促进细胞迁移

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-08-23 DOI: 10.2174/1570164618666210823094105

Nundisa Jaulin, R. Idrus, A. Saim, W. I. Wan-Ibrahim, P. S. Abdul-Rahman, Y. Lokanathan

{"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":null,"pages":null},"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}

引用次数: 1

Computational Insights into the Structure and Dynamics of the Human Serotonin Transporter N-Terminus by Microsecond Molecular Dynamics 利用微秒分子动力学计算人类血清素转运体n端结构和动力学

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-08-10 DOI: 10.2174/1570164617999200917131021

Sorin Draga, L. Olariu, S. Avram

{"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":null,"pages":null},"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}

引用次数: 0

Meet the Editorial Board Member 与编辑委员会成员见面

IF 0.8 4区生物学

Current Proteomics Pub Date : 2021-08-10 DOI: 10.2174/157016461803210810092531

B. McDonagh

引用次数: 0