Abstract:
:Colorectal cancer (CRC) is the second deadliest cancer worldwide. Here, we aimed to study metastasis mechanisms using spatial proteomics in the KM12 cell model. Cells were SILAC-labeled and fractionated into five subcellular fractions corresponding to: cytoplasm, plasma, mitochondria and ER/golgi membranes, nuclear, chromatin-bound and cytoskeletal proteins and analyzed with high resolution mass spectrometry. We provide localization data of 4863 quantified proteins in the different subcellular fractions. A total of 1318 proteins with at least 1.5-fold change were deregulated in highly metastatic KM12SM cells respect to KM12C cells. The protein network organization, protein complexes and functional pathways associated to CRC metastasis was revealed with spatial resolution. Although 92% of the differentially expressed proteins showed the same deregulation in all subcellular compartments, a subset of 117 proteins (8%) showed opposite changes in different subcellular localizations. The chaperonin CCT, the Eif2 and Eif3 initiation of translation and the oxidative phosphorylation complexes together with an important number of guanine nucleotide-binding proteins, were deregulated in abundance and localization within the metastatic cells. Particularly relevant was the relationship of deregulated protein complexes with exosome secretion. The knowledge of the spatial proteome alterations at subcellular level contributes to clarify the molecular mechanisms underlying colorectal cancer metastasis and to identify potential targets of therapeutic intervention.
journal_name
Proteomicsjournal_title
Proteomicsauthors
Mendes M,Peláez-García A,López-Lucendo M,Bartolomé RA,Calviño E,Barderas R,Casal JIdoi
10.1002/pmic.201700094subject
Has Abstractpub_date
2017-10-01 00:00:00issue
19eissn
1615-9853issn
1615-9861journal_volume
17pub_type
杂志文章相关文献
PROTEOMICS文献大全abstract::Proteolysis affects every protein at some point in its life cycle. Many biomarkers of disease or cancer are stable proteolytic fragments in biological fluids. There is great interest and a challenge in proteolytically modified protein study to identify physiologic protease-substrate relationships and find potential bi...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201200027
更新日期:2012-06-01 00:00:00
abstract::The butyrate-producing anaerobe Fusobacterium varium is an integral constituent of human gut microflora. Unlike many gut microorganisms, F. varium is capable of fermenting both amino acids and glucose. Although F. varium has been implicated in beneficial as well as pathological bacterium-host interactions, its genome ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200700437
更新日期:2008-07-01 00:00:00
abstract::The transfection of glycoprotein glycosyltransferase genes into cells leads to modification of both the structure and function of the glycoproteins and as a result, changes in glycome patterns. N-glycan branching enzymes hold some promise as a model system for the identification of glycome patterns. Both N-acetylgluco...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/1615-9861(200102)1:2<239::AID-PROT239>3.0.
更新日期:2001-02-01 00:00:00
abstract::In the present study, changes in protein synthesis patterns after salt shock visualized by 35S-methionine labeling and the changed protein composition in salt-acclimated cells of the cyanobacterium Synechocystis sp. strain PCC 6803 were analyzed by a combination of 2-DE for protein separation and PMF for protein ident...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500538
更新日期:2006-05-01 00:00:00
abstract::Most cancers consist of heterogeneous populations of cells with substantial differences in tumorigenicity. Cells that possess self-renewal and tumor-initiating properties are often called cancer stem cells (CSCs). Since CSCs underlie tumor recurrence and metastasis and are resistant to current anti-cancer therapies, n...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201500472
更新日期:2016-12-01 00:00:00
abstract::Panax ginseng is an important herb that has clear effects on the treatment of diverse diseases. Until now, the natural peptide constitution of this herb remains unclear. Here, we conduct an extensive characterization of Ginseng peptidome using MS-based data mining and sequencing. The screen on the charge states of pre...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201600183
更新日期:2016-11-01 00:00:00
abstract::To exploit advances in proteomics for drug discovery, high-throughout methods for target validation that directly address the cellular roles of proteins are required. To do this, we have characterized fluorophore-assisted light inactivation (FALI) which uses coherent or diffuse light targeted by fluorescein-labeled pr...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/1615-9861(200203)2:3<247::aid-prot247>3.0.
更新日期:2002-03-01 00:00:00
abstract::Liquid Chromatography coupled to tandem mass spectrometry (nanoLC-MS/MS) is a powerful analytical technique for the identification and mass analysis of complex protein mixtures. Here, we present a combination of methods developed for the extensive/deep proteomic analysis of purified ribosome/mRNA particles assembled i...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201400628
更新日期:2015-07-01 00:00:00
abstract::Two-dimensional electrophoresis is a widely used method for separating a large number of proteins from complex protein mixtures and for revealing differential patterns of protein expressions. In the computer-assisted proteome research, the comparison of protein separation profiles involves several heuristic steps, ran...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/1615-9861(200211)2:11<1504::AID-PROT1504>3
更新日期:2002-11-01 00:00:00
abstract::Tyrosol (TYR, 2-(4-hydroxyphenyl)ethanol), one of the main phenols in olive oil and olive fruit, significantly strengthens resistance to thermal and oxidative stress in the nematode Caenorhabditis elegans and extends its lifespan. To elucidate the cellular functions regulated by TYR, we have used a proteomic procedure...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201200579
更新日期:2013-10-01 00:00:00
abstract::Aluminum (Al) toxicity is a major constraint for plant root development and growth as well as crop yield in acidic soils, which constitute approximately 40% of the potentially arable lands worldwide. The mechanisms of Al tolerance in plants are not well understood. As a whole systems approach, proteomic techniques hav...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201300252
更新日期:2014-03-01 00:00:00
abstract::Spatial organisation of proteins according to their function plays an important role in the specificity of their molecular interactions. Emerging proteomics methods seek to assign proteins to sub-cellular locations by partial separation of organelles and computational analysis of protein abundance distributions among ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201000359
更新日期:2010-12-01 00:00:00
abstract::Puccinia triticina causes leaf rust, a disease that causes annual yield losses in wheat. It is an obligate parasite that invades the host leaf and forms intracellular structures called haustoria, which obtain nutrients and suppress host immunity using secreted proteins called effectors. Since effector proteins act at ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201400241
更新日期:2015-04-01 00:00:00
abstract::Absolute protein concentration determination is becoming increasingly important in a number of fields including diagnostics, biomarker discovery and systems biology modeling. The recently introduced quantification concatamer methodology provides a novel approach to performing such determinations, and it has been appli...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201000454
更新日期:2011-01-01 00:00:00
abstract::The von Hippel-Lindau (VHL) tumour suppressor gene plays a central role in development of clear cell renal cell carcinoma (RCC). Using a cell line pair generated from the VHL-defective RCC cell line UMRC2 by transfection with vector control or VHL (-/+VHL) and stable isotope labelling with amino acids in cell culture ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200800756
更新日期:2009-04-01 00:00:00
abstract::This paper proposes a novel profiling method for SELDI-TOF and MALDI-TOF MS data that integrates a novel peak detection method based on modified smoothed non-linear energy operator, correlation-based peak selection and Bayesian additive regression trees. The peak detection and classification performance of the propose...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200800502
更新日期:2009-09-01 00:00:00
abstract::Until now, no data are available on the outer membrane (OM) proteome of Erwinia amylovora, a Gram-negative plant pathogen, causing fire blight in most of the members of the Rosaceae family. Since the OM forms the interface between the bacterial cell and its environment it is in direct contact with the host. Additional...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500513
更新日期:2016-09-01 00:00:00
abstract::Pollution of soils by heavy metals is an ever-growing problem throughout the world, and is the result of human activities as well as geochemical weathering of rocks and other environmental causes such as volcanic eruptions, acid rain and continental dusts. Plants everywhere are continuously exposed to metal-contaminat...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.200800935
更新日期:2009-05-01 00:00:00
abstract::Previously, we reported that nucleophosmin (NPM) was increased in glioblastoma multiforme (GBM). NPM is a phosphoprotein related to apoptosis, ribosome biogenesis, mitosis, and DNA repair, but details about its function remain unclear. We treated U87MG and A172 cells with small interference RNA (siRNA) and obtained a ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201200034
更新日期:2012-08-01 00:00:00
abstract::With recent progress in the analysis of the salivary proteome, the number of salivary proteins identified has increased dramatically. However, the physiological functions of many of the newly discovered proteins remain unclear. Closely related to the study of a protein's function is the identification of its interacti...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201100665
更新日期:2012-11-01 00:00:00
abstract::Neurons present a highly polarized morphology, often displaying a significantly imbalanced distribution of the cytoplasm between the somatic and axonal domains. This imbalance requires cell-specific mechanisms for the maintenance of the axoplasmic mass during development, neuronal homeostasis, and recovery after injur...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201900054
更新日期:2019-08-01 00:00:00
abstract::FBXO25 is one of the 68 human F-box proteins that serve as specificity factors for a family of ubiquitin ligases composed of s-phase-kinase associated protein 1, really interesting new gene-box 1, Cullin 1, and F-box protein (SCF1) that are involved in targeting proteins for destruction across the ubiquitin proteasome...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200900419
更新日期:2010-08-01 00:00:00
abstract::The accurate and precise absolute abundance of proteins can be determined using mass spectrometry by spiking the sample with stable isotope-labeled standards. In this study, we developed a strategy of hierarchical use of peptide-concatenated standards (PCSs) to quantify more proteins over a wider dynamic range. Multip...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500414
更新日期:2016-05-01 00:00:00
abstract::A proteome wide analysis was performed in Escherichia coli to identify the impact on protein N-termini of actinonin, an antibiotic specifically inhibiting peptide deformylase (PDF). A strategy and tool suite (SILProNaQ) was employed to provide large-scale quantitation of N-terminal modifications. In control conditions...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500027
更新日期:2015-07-01 00:00:00
abstract::SDS interferes with both bottom-up and top-down MS analysis, requiring removal prior to detection. Filter-aided sample preparation (FASP) is favored for bottom-up proteomics (BUP) while acetone precipitation is popular for top-down proteomics (TDP). We recently demonstrated acetone precipitation in a membrane filter c...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201700025
更新日期:2018-05-01 00:00:00
abstract::This is the first broad proteomic description of Gluconacetobacter diazotrophicus, an endophytic bacterium, responsible for the major fraction of the atmospheric nitrogen fixed in sugarcane in tropical regions. Proteomic coverage of G. diazotrophicus PAL5 was obtained by two independent approaches: 2-DE followed by MA...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200700912
更新日期:2008-04-01 00:00:00
abstract::Selected reaction monitoring (SRM) - also known as multiple reaction monitoring (MRM) - has emerged as a promising high-throughput targeted protein quantification technology for candidate biomarker verification and systems biology applications. A major bottleneck for current SRM technology, however, is insufficient se...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201100436
更新日期:2012-04-01 00:00:00
abstract::Protein interactions have been at the focus of computational biology in recent years. In particular, interest has come from two different communities--structural and systems biology. Here, we will discuss key systems and structural biology methods that have been used for analysis and prediction of protein-protein inte...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201100597
更新日期:2012-05-01 00:00:00
abstract::CID has become a routine method for fragmentation of peptides in shotgun proteomics, whereas electron transfer dissociation (ETD) has been described as a preferred method for peptides carrying labile PTMs. Though both of these fragmentation techniques have their obvious advantages, they also have their own drawbacks. ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201000547
更新日期:2011-06-01 00:00:00
abstract::The present review attempts to cover a number of methods that have appeared in the last few years for performing quantitative proteome analysis. However, due to the large number of methods described for both electrophoretic and chromatographic approaches, we have limited this review to conventional two-dimensional (2-...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.200401015
更新日期:2005-02-01 00:00:00