Impact of the core components of the phosphoenolpyruvate-carbohydrate phosphotransferase system, HPr and EI, on differential protein expression in Ralstonia eutropha H16.

Abstract:

:In Ralstonia eutropha H16, seven genes encoding proteins being involved in the phosphoenolpyruvate-carbohydrate phosphotransferase system (PEP-PTS) were identified. In order to provide more insights into the poly(3-hydroxybutyrate) (PHB)-leaky phenotype of the HPr/EI deletion mutants H16ΔptsH, H16ΔptsI, and H16ΔptsHI when grown on the non-PTS substrate gluconate, parallel fermentations for comparison of their growth behavior were performed. Samples from the exponential, the early stationary, and late stationary growth phases were investigated by microscopy, gas chromatography and (phospho-) proteome analysis. A total of 71 differentially expressed proteins were identified using 2D-PAGE, Pro-Q Diamond and Coomassie staining, and MALDI-TOF analysis. Detected proteins were classified into five major functional groups: carbon metabolism, energy metabolism, amino acid metabolism, translation, and membrane transport/outer membrane proteins. Proteome analyses revealed enhanced expression of proteins involved in the Entner-Doudoroff pathway and in subsequent reactions in cells of strain H16 compared to the mutant H16ΔptsHI. Furthermore, proteins involved in PHB accumulation showed increased abundance in the wild-type. This expression pattern allowed us to identify proteins affecting carbon metabolism/PHB biosynthesis in strain H16 and translation/amino acid metabolism in strain H16ΔptsHI, and to gain insight into the molecular response of R. eutropha to the deletion of HPr/EI.

journal_name

J Proteome Res

authors

Kaddor C,Voigt B,Hecker M,Steinbüchel A

doi

10.1021/pr300042f

subject

Has Abstract

pub_date

2012-07-06 00:00:00

pages

3624-36

issue

7

eissn

1535-3893

issn

1535-3907

journal_volume

11

pub_type

杂志文章
  • An informatics-assisted label-free quantitation strategy that depicts phosphoproteomic profiles in lung cancer cell invasion.

    abstract::Aberrant protein phosphorylation plays important roles in cancer-related cell signaling. With the goal of achieving multiplexed, comprehensive, and fully automated relative quantitation of site-specific phosphorylation, we present a simple label-free strategy combining an automated pH/acid-controlled IMAC procedure an...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr100394u

    authors: Wang YT,Tsai CF,Hong TC,Tsou CC,Lin PY,Pan SH,Hong TM,Yang PC,Sung TY,Hsu WL,Chen YJ

    更新日期:2010-11-05 00:00:00

  • Experimental metabonomic model of dietary variation and stress interactions.

    abstract::Stress in the form of moderate periods of maternal separation of newborn rats has been postulated to cause permanent changes in the central nervous system and diseases in later life. It is also considered that dietary supplementation with long chain polyunsaturated fatty acids (LC-PUFAs) can potentially ameliorate the...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr0504182

    authors: Wang Y,Holmes E,Tang H,Lindon JC,Sprenger N,Turini ME,Bergonzelli G,Fay LB,Kochhar S,Nicholson JK

    更新日期:2006-07-01 00:00:00

  • iTRAQ protein profile differential analysis between somatic globular and cotyledonary embryos reveals stress, hormone, and respiration involved in increasing plantlet regeneration of Gossypium hirsutum L.

    abstract::Somatic embryo development (SED) in upland cotton shows low frequencies of embryo maturation and plantlet regeneration. Progress in increasing the regeneration rate has been limited. Here a global analysis of proteome dynamics between globular and cotyledonary embryos was performed using isobaric tags for relative and...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr500688g

    authors: Ge X,Zhang C,Wang Q,Yang Z,Wang Y,Zhang X,Wu Z,Hou Y,Wu J,Li F

    更新日期:2015-01-02 00:00:00

  • Mass spectrometric analysis of the phosphorylation levels of the SWI/SNF chromatin remodeling/tumor suppressor proteins ARID1A and Brg1 in ovarian clear cell adenocarcinoma cell lines.

    abstract::Protein phosphorylation is one of the major factors involved in tumor progression and malignancy. We performed exploratory studies aimed at identifying phosphoproteins characteristic to cell lines derived from ovarian clear cell adenocarcinoma (CCA), a highly malignant type of ovarian cancer. Comparative phosphoproteo...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr500470h

    authors: Kimura A,Arakawa N,Hirano H

    更新日期:2014-11-07 00:00:00

  • InterMetalDB: A Database and Browser of Intermolecular Metal Binding Sites in Macromolecules with Structural Information.

    abstract::InterMetalDB is a free-of-charge database and browser of intermolecular metal binding sites that are present on the interfaces of macromolecules forming larger assemblies based on structural information deposited in Protein Data Bank (PDB). It can be found and freely used at https://intermetaldb.biotech.uni.wroc.pl/. ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.0c00906

    authors: Tran JB,Krężel A

    更新日期:2021-01-27 00:00:00

  • Contribution of proteomics to the study of plant pathogenic fungi.

    abstract::Phytopathogenic fungi are one of the most damaging plant parasitic organisms, and can cause serious diseases and important yield losses in crops. The study of the biology of these microorganisms and the interaction with their hosts has experienced great advances in recent years due to the development of moderm, holist...

    journal_title:Journal of proteome research

    pub_type: 杂志文章,评审

    doi:10.1021/pr200873p

    authors: Gonzalez-Fernandez R,Jorrin-Novo JV

    更新日期:2012-01-01 00:00:00

  • Metabolomic analysis of akt1-mediated muscle hypertrophy in models of diet-induced obesity and age-related fat accumulation.

    abstract::Akt1 is a serine/threonine kinase that promotes cell growth and survival. Previously, Akt1 activation in a double transgenic (DTG) mouse model fed a high-fat/high-sucrose (HF/HS) diet was found to promote type IIb muscle growth and to lead to a significant reduction in obesity. Here, we have used metabolomics to exami...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr500756u

    authors: Cheng KK,Akasaki Y,Lecommandeur E,Lindsay RT,Murfitt S,Walsh K,Griffin JL

    更新日期:2015-01-02 00:00:00

  • The cell line secretome, a suitable tool for investigating proteins released in vivo by tumors: application to the study of p53-modulated proteins secreted in lung cancer cells.

    abstract::Malignant processes such as metastasis, invasion, or angiogenesis are tightly dependent on the composition of the extracellular medium, which is itself affected by the release of proteins by the tumor cells. p53, a major tumor suppressor protein very frequently mutated and/or inactivated in cancer cells, is known to m...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr900383g

    authors: Chenau J,Michelland S,de Fraipont F,Josserand V,Coll JL,Favrot MC,Seve M

    更新日期:2009-10-01 00:00:00

  • A sulfated, phosphorylated 7 kDa secreted peptide characterized by direct analysis of cell culture media.

    abstract::An unusual sulfotyrosine-, phosphoserine-containing motif was mapped on a differentially post-translationally modified 60 residue antimicrobial neuroendocrine peptide called chrombacin. The study was performed by high resolution FT MS using complementary fragmentation techniques. The peptide was analyzed at low levels...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr7006686

    authors: Taylor SW,Sun C,Hsieh A,Andon NL,Ghosh SS

    更新日期:2008-02-01 00:00:00

  • Investigating the impact of elevated levels of ozone on tropical wheat using integrated phenotypical, physiological, biochemical, and proteomics approaches.

    abstract::Ozone (O3), a potent air pollutant and a significant greenhouse gas, has been recognized as a major component of global climate change. However, current increasing trends in its background level are projecting a more severe threat to natural and cultivated plants in the near future. The present study has been designed...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr1002824

    authors: Sarkar A,Rakwal R,Bhushan Agrawal S,Shibato J,Ogawa Y,Yoshida Y,Kumar Agrawal G,Agrawal M

    更新日期:2010-09-03 00:00:00

  • Calcium-dependent regulation of genes for plant nodulation in Rhizobium leguminosarum detected by iTRAQ quantitative proteomic analysis.

    abstract::Rhizobia, the nitrogen-fixing bacterial symbionts of legumes, represent an agricultural application of primary relevance and a model of plant-microbe molecular dialogues. We recently described rhizobium proteome alterations induced by plant flavonoids using iTRAQ. Herein, we further extend that experimentation, provin...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr400656g

    authors: Arrigoni G,Tolin S,Moscatiello R,Masi A,Navazio L,Squartini A

    更新日期:2013-11-01 00:00:00

  • GlycoWorkbench: a tool for the computer-assisted annotation of mass spectra of glycans.

    abstract::Mass spectrometry is the main analytical technique currently used to address the challenges of glycomics as it offers unrivalled levels of sensitivity and the ability to handle complex mixtures of different glycan variations. Determination of glycan structures from analysis of MS data is a major bottleneck in high-thr...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr7008252

    authors: Ceroni A,Maass K,Geyer H,Geyer R,Dell A,Haslam SM

    更新日期:2008-04-01 00:00:00

  • TGFBR2 Regulates Hedgehog Pathway and Cervical Cancer Cell Proliferation and Migration by Mediating SMAD4.

    abstract::TGFBR2 serves as an initial regulator of the TGF-β signaling pathway, and loss or reduction of its expression can lead to uncontrolled cell growth. This study was conducted to further explore the mechanism of TGFBR2/SMAD4 on the migration and proliferation of CC cells. Here, TGFBR2 and SMAD4 expressions in CC cells an...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.0c00239

    authors: Yuan J,Yi K,Yang L

    更新日期:2020-08-07 00:00:00

  • Dynamic changes in the proteome of Synechocystis 6803 in response to CO(2) limitation revealed by quantitative proteomics.

    abstract::Cyanobacteria developed efficient carbon concentrating mechanisms which significantly improve the photosynthetic performance and survival of cells under limiting CO(2) conditions. Dynamic changes of the Synechocystis proteome to CO(2) limitation were investigated using shotgun LC-MS/MS approach with isobaric tag for r...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr100651w

    authors: Battchikova N,Vainonen JP,Vorontsova N,Keranen M,Carmel D,Aro EM

    更新日期:2010-11-05 00:00:00

  • Proteomic analysis of leaves and roots of common wheat (Triticum aestivum L.) under copper-stress conditions.

    abstract::Proteomic studies were performed to identify the protein species involved in copper (Cu) stress responses in common wheat. Two-week-old wheat seedlings were exposed to 100 μM CuSO4 treatment for 3 days. Growth of shoots and roots was markedly inhibited and lipid peroxidation was greatly increased. Cu was readily absor...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr4008283

    authors: Li G,Peng X,Xuan H,Wei L,Yang Y,Guo T,Kang G

    更新日期:2013-11-01 00:00:00

  • Quantitative phosphoproteomic analysis of T cell receptor signaling in diabetes prone and resistant mice.

    abstract::Type 1 diabetes, in human patients and NOD mice, results from an immune attack on insulin-producing beta-cells of the pancreas by autoreactive T lymphocytes. In NOD mice, genetically controlled perturbations in the signaling pathways downstream of the antigen-specific T cell receptor (TCR) may be instrumental in the a...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr100035b

    authors: Iwai LK,Benoist C,Mathis D,White FM

    更新日期:2010-06-04 00:00:00

  • Determination of beta-amyloid peptide signatures in cerebrospinal fluid using immunoprecipitation-mass spectrometry.

    abstract::Early pathogenic events in Alzheimer's disease (AD) involve increased production and/or reduced clearance of beta-amyloid (Abeta), especially the 42 amino acid fragment Abeta1-42. The Abeta1-42 peptide is generated through cleavage of the amyloid precursor protein by beta- and gamma-secretase and is catabolised by a v...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr050475v

    authors: Portelius E,Westman-Brinkmalm A,Zetterberg H,Blennow K

    更新日期:2006-04-01 00:00:00

  • In-depth exploration of cow's whey proteome via combinatorial peptide ligand libraries.

    abstract::The use of combinatorial peptide ligand libraries, containing hexapeptides terminating with a primary amine, or modified with a terminal carboxyl group, allowed discovering and identifying a large number of previously unreported proteins in cow's whey. Whereas comprehensive whey protein lists progressively increased i...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr900221x

    authors: D'Amato A,Bachi A,Fasoli E,Boschetti E,Peltre G,Sénéchal H,Righetti PG

    更新日期:2009-08-01 00:00:00

  • Rapid alteration of the phosphoproteome in the moss Physcomitrella patens after cytokinin treatment.

    abstract::Cytokinin hormones are crucial regulators of a large number of processes in plant development. Recently, significant progress has been made toward the elucidation of the molecular details of cytokinin that has led to a model for signal transduction involving a phosphorylation cascade. However, the current knowledge of...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr060152e

    authors: Heintz D,Erxleben A,High AA,Wurtz V,Reski R,Van Dorsselaer A,Sarnighausen E

    更新日期:2006-09-01 00:00:00

  • Global analysis of protein expression and phosphorylation of three stages of Plasmodium falciparum intraerythrocytic development.

    abstract::During asexual intraerythrocytic development, Plasmodium falciparum diverges from the paradigm of the eukaryotic cell cycles by undergoing multiple rounds of DNA replication and nuclear division without cytokinesis. A better understanding of the molecular switches that coordinate a myriad of events for the progression...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr400394g

    authors: Pease BN,Huttlin EL,Jedrychowski MP,Talevich E,Harmon J,Dillman T,Kannan N,Doerig C,Chakrabarti R,Gygi SP,Chakrabarti D

    更新日期:2013-09-06 00:00:00

  • Sonoreactor-based technology for fast high-throughput proteolytic digestion of proteins.

    abstract::Fast (120 s) and high-throughput (more than six samples at once) in-gel trypsin digestion of proteins using sonoreactor technology has been achieved. Successful protein identification was done by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry, MALDI-TOF-MS. Specific identification of the ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr060508m

    authors: Rial-Otero R,Carreira RJ,Cordeiro FM,Moro AJ,Fernandes L,Moura I,Capelo JL

    更新日期:2007-02-01 00:00:00

  • EpiC: an open resource for exploring epitopes to aid antibody-based experiments.

    abstract::Antibodies are a primary research tool for a diverse range of experiments in biology, from development to pathology. Their utility is derived from their ability to specifically identify proteins at a high level of sensitivity. This diversity of experimental requirements stretches the capabilities of these key research...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr100029f

    authors: Haslam NJ,Gibson TJ

    更新日期:2010-07-02 00:00:00

  • Allostasis and Resilience of the Human Individual Metabolic Phenotype.

    abstract::The urine metabotype of 12 individuals was followed over a period of 8-10 years, which provided the longest longitudinal study of metabolic phenotypes to date. More than 2000 NMR metabolic profiles were analyzed. The majority of subjects have a stable metabotype. Subjects who were exposed to important pathophysiologic...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.5b00275

    authors: Ghini V,Saccenti E,Tenori L,Assfalg M,Luchinat C

    更新日期:2015-07-02 00:00:00

  • Pathway-based biomarker search by high-throughput proteomics profiling of secretomes.

    abstract::An efficient means for the identification of prognostic and predictive biomarkers is essential in today's cancer management. A new approach toward biomarker discovery has therefore been proposed, where pathways instead of individual proteins would be monitored and targeted. Recently, the 'secretome', a biological flui...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr8008572

    authors: Lawlor K,Nazarian A,Lacomis L,Tempst P,Villanueva J

    更新日期:2009-03-01 00:00:00

  • Proteomic analysis of high-grade dysplastic cervical cells obtained from ThinPrep slides using laser capture microdissection and mass spectrometry.

    abstract::The purpose of this discovery phase study was to identify candidate protein biomarkers for high-grade dysplastic cervical cells using mass spectrometry. Laser Capture Microdissection (LCM) was utilized to isolate high-grade dysplastic and normal cells from ThinPrep slides prepared from cervical cytological specimens. ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr070319j

    authors: Gu Y,Wu SL,Meyer JL,Hancock WS,Burg LJ,Linder J,Hanlon DW,Karger BL

    更新日期:2007-11-01 00:00:00

  • Quantitative Proteomics Analysis Confirmed Oxidative Metabolism Predominates in Streptomyces coelicolor versus Glycolytic Metabolism in Streptomyces lividans.

    abstract::Recent physiological studies indicated that S. lividans metabolism was mainly glycolytic, whereas S. coelicolor metabolism was mainly oxidative. To determine whether such metabolic characteristics were correlated with consistent proteomics features, a comparative label-free, shotgun proteomics analysis of these strain...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.7b00163

    authors: Millan-Oropeza A,Henry C,Blein-Nicolas M,Aubert-Frambourg A,Moussa F,Bleton J,Virolle MJ

    更新日期:2017-07-07 00:00:00

  • Untargeted metabolomic profiling of amphenicol-resistant Campylobacter jejuni by ultra-high-performance liquid chromatography-mass spectrometry.

    abstract::Campylobacter jejuni, an important foodborne microorganism, poses severe and emergent threats to human health as antibiotic resistance becomes increasingly prevalent. The mechanisms of drug resistance are hard to decipher, and little is known at the metabolic level. Here we apply metabolomic profiling to discover meta...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr501061d

    authors: Li H,Xia X,Li X,Naren G,Fu Q,Wang Y,Wu C,Ding S,Zhang S,Jiang H,Li J,Shen J

    更新日期:2015-02-06 00:00:00

  • Selenite-induced toxicity in cancer cells is mediated by metabolic generation of endogenous selenium nanoparticles.

    abstract::Selenite has been a touted cancer chemopreventative agent but generates conflicting outcomes. Multiple mechanisms of selenite cytotoxicity in cancer cells are thought to be induced by metabolites of selenite. We observed that intracellular metabolism of selenite generates endogenous selenium nanoparticles (SeNPs) in c...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr501086e

    authors: Bao P,Chen Z,Tai RZ,Shen HM,Martin FL,Zhu YG

    更新日期:2015-02-06 00:00:00

  • Comparative proteomics analysis of selenium responses in selenium-enriched rice grains.

    abstract::By foliar fortification with selenite, selenium (Se)-enriched rice with a higher Se content and grain yield has been generated. However, the regulatory mechanisms of Se response in rice grains remain unknown; therefore, we carried out a comparative proteomics study in Se-enriched rice grains by using two approaches in...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr300878y

    authors: Wang YD,Wang X,Ngai SM,Wong YS

    更新日期:2013-02-01 00:00:00

  • Targeted tissue proteomic analysis of human astrocytomas.

    abstract::Complicating proteomic analysis of whole tissues is the obvious problem of cell heterogeneity in tissues, which often results in misleading or confusing molecular findings. Thus, the coupling of tissue microdissection for tumor cell enrichment with capillary isotachophoresis-based selective analyte concentration not o...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr300303t

    authors: Fang X,Wang C,Balgley BM,Zhao K,Wang W,He F,Weil RJ,Lee CS

    更新日期:2012-08-03 00:00:00