Variation In Protein Expression Research Articles

Time-dependent alterations in mRNA, protein and microRNA during in vitro adipogenesis.

Adipogenesis is a complex biological process involving synchronised interplay of different nuclear receptors. Aberration in the process leads to obesity and associated disorders. Addressing the complexity of molecular mechanisms, we worked on characterising the changes in NR1C3/PPARγ-, NR1H3/LXRα- and NCoAs/SRCs-associated microRNA, genes and proteins during different time points of adipogenesis. Glucose uptake of differentiating cells was checked at selected time points with FACS. Observations on gene expression pattern pointed a correlation in adipogenic-related genes and increased expression of PPARγ, but not LXRα. Western blot experiments also supported the gene expression pattern. MicroRNAs that vary during adipogenesis was selected using bioinformatics tools and database. Real-time PCR-based experiments showed a change in the expression of mmu-mir-23a-3p, 206-3p, 17-3p, 126a-3p and 1a-3p. Mmu-mir-23a-3p showed a gradual decrease in expression corresponding to the progression of adipogenesis. MicroRNA 23a-3p and 1a-3p showed positive association to the mRNA levels of NCoA1 and 3. Overall, the study elaborates time-dependent variations in nucleic acid and protein expression during adipogenesis in accordance to fatty acid and glucose metabolism.

Protein Expression and Genetic Variation of IL32 and Association with Colorectal Cancer in Swedish Patients.

Interleukin 32 (IL32) is an intracellular pluripotent cytokine produced by epithelial cells, monocytes, T-lymphocytes and natural killer cells and seems to be involved in the pathogenesis of cancer and inflammatory diseases. Our purpose was to assess the role of protein expression and genetic polymorphisms of IL32 in colorectal cancer (CRC) susceptibility. To gain insight into clinical significance of IL32 in Swedish patients with CRC, using enzyme-linked immunosorbent assay, we determined whether IL32 protein level is altered in CRC tissue (n=75) compared with paired normal tissue and in plasma from patients with CRC (n=94) compared with controls (n=81). The expression of IL32 protein was confirmed by immunohistochemistry (n=73). We used Luminex technology to investigate protein levels of the cytokines IL6, tumor necrosis factor-α (TNFα) and vascular endothelial growth factor (VEGF) to relate these to IL32 levels in CRC tissue. Three single nucleotide polymorphisms (SNPs) (rs28372698, rs12934561, rs4786370) of the IL32 gene have been proposed as modifiers for different diseases. The present study evaluated the susceptibility of patients possessing these SNPs to CRC. Using TaqMan SNP genotyping assays, these SNPs were screened in Swedish patients with CRC (n=465) and healthy controls (n=331). We found no significant differences in the genotypic frequencies between the patients and healthy controls and no relation to survival for any of the SNPs. However, the SNP rs12934561 was statisticalLY significant associated with older patients. IL32 protein was up-regulated in CRC tissue and related to IL6, TNFα, and VEGF, and seems to be modulated by SNP rs28372698. The IL32 protein level in CRC tissue also reflects both disseminated disease and location. Our results suggest that altered IL32 protein concentrations in CRC tissue and genotypic variants of IL32 are related to disseminated CRC.

Differentiation of mitogen-activated protein kinase-dependent deregulated myokine production in inflamed skeletal muscle cells

Event Abstract Back to Event Differentiation of mitogen-activated protein kinase-dependent deregulated myokine production in inflamed skeletal muscle cells Divya Malathy Ravinath1 and Ren-In You1* 1 Tzu Chi University, Taiwan Background Skeletal muscles, when encountered with damage due to exercise, stress or myotrauma triggers regeneration process which includes the destructive/inflammatory phase, repair phase and remodeling phase. During the inflammatory phase, some myokines are produced which are involved in anti-inflammatory and immuno-modulatory roles. Deregulated expression of myokines due to abnormal inflammatory response serves as an important cause of inflammatory myopathies or severe muscle weakness. Methods In order to understand the underlying mechanism of inflammatory myopathies, the model system used was C2C12 myoblast cells cultured in low serum condition. Many inflammatory cytokines were used to stimulate the cells, thereby mimicking the inflammatory response. The morphology and fusion of myoblasts into multi-nuclear myotubes were demonstrated using Hoechst 33342 under fluorescent microscope. In addition, kinase inhibitors, SB203580, PD98059 and U0126 were used to investigate the involvement of mitogen-activated protein kinase (MAPK) signaling pathway during muscle inflammation condition. The gene expression variation of myokines was analyzed using qPCR. Finally western blot was performed to analyze the corresponding variation in protein expression of downstream kinases of MAPK pathway. Results We found that certain pro-inflammatory cytokines triggers the downstream MAPK signaling in C2C12 skeletal muscle cells. The inhibition of MAPK during inflammation stimulatory condition led to a significant increase of the myokines but inhibited the differentiation of myoblasts. The downstream of MAPK were also found to be selectively expressed in different time frames. Conclusion The MAPK pathway plays an important role in the regulation of inflamed muscle cells. In this study, the role of mitogen-activated protein kinase kinase (MEK) in altering the myokine expression during inflammatory conditions will be depicted. Keywords: Inflammatory myopathy, Myokines, mitogen activate protein kinase, skeletal muscle, signaling Conference: International Conference on Drug Discovery and Translational Medicine 2018 (ICDDTM '18) “Seizing Opportunities and Addressing Challenges of Precision Medicine”, Putrajaya, Malaysia, 3 Dec - 5 Feb, 2019. Presentation Type: Poster Presentation Topic: Inflammatory diseases Citation: Malathy Ravinath D and You R (2019). Differentiation of mitogen-activated protein kinase-dependent deregulated myokine production in inflamed skeletal muscle cells. Front. Pharmacol. Conference Abstract: International Conference on Drug Discovery and Translational Medicine 2018 (ICDDTM '18) “Seizing Opportunities and Addressing Challenges of Precision Medicine”. doi: 10.3389/conf.fphar.2018.63.00102 Copyright: The abstracts in this collection have not been subject to any Frontiers peer review or checks, and are not endorsed by Frontiers. They are made available through the Frontiers publishing platform as a service to conference organizers and presenters. The copyright in the individual abstracts is owned by the author of each abstract or his/her employer unless otherwise stated. Each abstract, as well as the collection of abstracts, are published under a Creative Commons CC-BY 4.0 (attribution) licence (https://creativecommons.org/licenses/by/4.0/) and may thus be reproduced, translated, adapted and be the subject of derivative works provided the authors and Frontiers are attributed. For Frontiers’ terms and conditions please see https://www.frontiersin.org/legal/terms-and-conditions. Received: 24 Oct 2018; Published Online: 17 Jan 2019. * Correspondence: Dr. Ren-In You, Tzu Chi University, Hualien City, Taiwan, yri100@gms.tcu.edu.tw Login Required This action requires you to be registered with Frontiers and logged in. To register or login click here. Abstract Info Abstract The Authors in Frontiers Divya Malathy Ravinath Ren-In You Google Divya Malathy Ravinath Ren-In You Google Scholar Divya Malathy Ravinath Ren-In You PubMed Divya Malathy Ravinath Ren-In You Related Article in Frontiers Google Scholar PubMed Abstract Close Back to top Javascript is disabled. Please enable Javascript in your browser settings in order to see all the content on this page.

MiR-24-3p/FGFR3 Signaling as a Novel Axis Is Involved in Epithelial-Mesenchymal Transition and Regulates Lung Adenocarcinoma Progression.

Our previous studies showed that Fibroblast growth factor receptor 3 (FGFR3) contributed to cell growth in lung cancer. However, the correlation between FGFR3 and tumor progression, coupled with the underlying mechanisms, are not fully understood. The clinical significance of FGFR3 was determined in two cohorts of clinical samples (n = 22, n = 78). A panel of biochemical assays and functional experiments was utilized to elucidate the underlying mechanisms and effects of FGFR3 and miR-24-3p on lung adenocarcinoma progression. Upregulated FGFR3 expression indicated an adverse prognosis for lung adenocarcinoma individuals and promoted metastatic potential of lung adenocarcinoma cells. Owing to the direct regulation towards FGFR3, miR-24-3p could interfere with the potential of proliferation, migration, and invasion in lung adenocarcinoma, following variations of EMT-related protein expression. As a significant marker of EMT, E-cadherin was negatively correlated with FGFR3, of which ectopic overexpression could neutralize the antitumour effects of miR-24-3p and reverse its regulatory effects on EMT markers. Taken together, these findings define a novel insight into the miR-24-3p/FGFR3 signaling axis in regulating lung adenocarcinoma progression and suggest that targeting the miR-24-3p/FGFR3 axis could be an effective and efficient way to prevent tumor progression.

Duchenne and Becker Muscular Dystrophies: A Review of Animal Models, Clinical End Points, and Biomarker Quantification.

Duchenne muscular dystrophy (DMD) and Becker muscular dystrophy (BMD) are neuromuscular disorders that primarily affect boys due to an X-linked mutation in the DMD gene, resulting in reduced to near absence of dystrophin or expression of truncated forms of dystrophin. Some newer therapeutic interventions aim to increase sarcolemmal dystrophin expression, and accurate dystrophin quantification is critical for demonstrating pharmacodynamic relationships in preclinical studies and clinical trials. Current challenges with measuring dystrophin include the variation in protein expression within individual muscle fibers and across whole muscle samples, the presence of preexisting dystrophin-positive revertant fibers, and trace amounts of residual dystrophin. Immunofluorescence quantification of dystrophin can overcome many of these challenges, but manual quantification of protein expression may be complicated by variations in the collection of images, reproducible scoring of fluorescent intensity, and bias introduced by manual scoring of typically only a few high-power fields. This review highlights the pathology of DMD and BMD, discusses animal models of DMD and BMD, and describes dystrophin biomarker quantitation in DMD and BMD, with several image analysis approaches, including a new automated method that evaluates protein expression of individual muscle fibers.

Differences in protein expression among five species of stream stonefly (Plecoptera) along a latitudinal gradient in Japan.

Proteome variation among natural populations along an environmental gradient may provide insights into how the biological functions of species are related to their local adaptation. We investigated protein expression in five stream stonefly species from four geographic regions along a latitudinal gradient in Japan with varying climatic conditions. The extracted proteins were separated by two-dimensional gel electrophoresis and identified by matrix-assisted laser desorption/ionization of time-of-flight (MALDI TOF/TOF), yielding 446 proteins. Low interspecies variation in the proteome profiles was observed among five species within geographical regions, presumably due to the co-occurring species sharing the environments. However, large spatial variations in protein expression were found among four geographic regions, suggesting strong regulation of protein expression in heterogeneous environments, where the spatial variations were positively correlated with water temperature. We identified 21 unique proteins expressed specifically in a geographical region and six common proteins expressed throughout all regions. In warmer regions, metabolic proteins were upregulated, whereas proteins related to cold stress, the photoperiod, and mating were downregulated. Oxygen-related and energy-production proteins were upregulated in colder regions with higher altitudes. Thus, our proteomic approach is useful for identifying and understanding important biological functions related to local adaptations by populations of stoneflies.

Gene copy number variation and protein overexpression of EGFR and HER2 in distal extrahepatic cholangiocarcinoma

EGFR and HER2 are among the most promising therapeutic targets in solid cancers. The expression status of EGFR and HER2 are associated with the prognosis, and with a number of clinicopathological factors, in many cancers. However, few studies have examined this association in distal extrahepatic cholangiocarcinoma (EHCC). Therefore, we investigated EGFR and HER2 protein expression and gene copy number variation (CNV) in distal EHCC. We also studied the association of these factors with clinicopathological parameters and prognosis. Immunostaining, using antibodies against EGFR and HER2, was performed on 84 cases of distal EHCC. All positive (3+) and equivocal (2+) EGFR and HER2 expression cases, together with randomly selected negative (1+ and 0) cases, were evaluated for EGFR and HER2 CNV. Among distal EHCC samples, 6.0% (n=5) were positive (3+) for EGFR expression and 6.0% (n=5) were equivocal (2+). HER2 expression was positively identified in 2.4% of samples (n=2), and was equivocal in 1.2% of samples (n=1). All cases of positive EGFR expression showed amplification (n=1) or high polysomy (n=4) involving the EGFR gene; three cases (60%) of equivocal EGFR expression showed high polysomy of the EGFR gene. All cases of positive or equivocal HER2 expression (n=3, 3.6%) showed amplification of the HER2 gene. In univariate analysis, EGFR expression and CNV were associated with shorter cancer-specific overall survival (p=0.003 and p=0.018, respectively). Multivariate analysis also showed that EGFR CNV was a significant prognostic factor in distal EHCC (p=0.015). Although further study is warranted, our findings suggest that EGFR expression and CNV are factors associated with poor prognosis, and that anticancer therapeutics against EGFR and HER2 receptors may be promising therapeutic options for patients with distal EHCC.

Proteomic analysis during of spore germination of Moniliophthora perniciosa, the causal agent of witches\u2019 broom disease in cacao

BackgroundMoniliophthora perniciosa is a phytopathogenic fungus responsible for witches’ broom disease of cacao trees (Theobroma cacao L.). Understanding the molecular events during germination of the pathogen may enable the development of strategies for disease control in these economically important plants. In this study, we determined a comparative proteomic profile of M. perniciosa basidiospores during germination by two-dimensional SDS-PAGE and mass spectrometry.ResultsA total of 316 proteins were identified. Molecular changes during the development of the germinative tube were identified by a hierarchical clustering analysis based on the differential accumulation of proteins. Proteins associated with fungal filamentation, such as septin and kinesin, were detected only 4 h after germination (hag). A transcription factor related to biosynthesis of the secondary metabolite fumagillin, which can form hybrids with polyketides, was induced 2 hag, and polyketide synthase was observed 4 hag. The accumulation of ATP synthase, binding immunoglobulin protein (BiP), and catalase was validated by western blotting.ConclusionsIn this study, we showed variations in protein expression during the early germination stages of fungus M. perniciosa. Proteins associated with fungal filamentation, and consequently with virulence, were detected in basidiospores 4 hag., for example, septin and kinesin. We discuss these results and propose a model of the germination of fungus M. perniciosa. This research can help elucidate the mechanisms underlying basic processes of host invasion and to develop strategies for control of the disease.

Quantitative Proteome Heterogeneity in Myeloproliferative Neoplasm Subtypes and Association with JAK2 Mutation Status.

Apart from well-known genetic abnormalities, several studies have reported variations in protein expression in Philadelphia-negative myeloproliferative neoplasm (MPN) patients that could contribute toward their clinical phenotype. In this context, a quantitative mass spectrometry proteomics protocol was used to identify differences in the granulocyte proteome with the goal to characterize the pathogenic role of aberrant protein expression in MPNs. LC/MS-MS (LTQ Orbitrap) coupled to iTRAQ labeling showed significant and quantitative differences in protein content among various MPN subtypes [polycythemia vera (PV), essential thrombocythemia (ET), and primary myelofibrosis (PMF)], and according to the genetic status of JAK2 (JAK2V617F presence and JAK2V617F allele burden). A number of differentially expressed proteins were identified, with the most frequent being members of the RAS GTPase family and oxidative stress regulatory proteins. Subsequent analysis found that calreticulin (CALR), known to be involved in calcium homeostasis and apoptotic signaling, was overexpressed in JAK2V617F granulocytes compared with JAK2 wild type and independently of the JAK2V617F allele burden. Finally, it was demonstrated, in a Ba/F3 cell model, that increased calreticulin expression was directly linked to JAK2V617F and could be regulated by JAK2 kinase inhibitors.Implications: In conclusion, these results reveal proteome alterations in MPN granulocytes depending on the phenotype and genotype of patients, highlighting new oncogenic mechanisms associated with JAK2 mutations and overexpression of calreticulin. Mol Cancer Res; 15(7); 852-61. ©2017 AACR.

Elucidating stress proteins in rice (Oryza sativa L.) genotype under elevated temperature: a proteomic approach to understand heat stress response.

Rice is one of the widely consumed staple foods among the world's human population. Its production is adversely affected by high temperature and is more pronounced at flowering stage. Elucidating elevated temperature stress-related proteins as well as associated mechanisms is inevitable for improving heat tolerance in rice. In the present study, a proteomic analysis of heat-sensitive rice genotype, IET 21405 was conducted. Two-dimensional electrophoresis (2-DE) and MALDI-TOF/MS-based proteomics approaches revealed a total of 73 protein spots in rice leaf. The protein profiles clearly indicated variations in protein expression between the control and heat treated rice genotypes. Functional assessment of 73 expressed proteins revealed several mechanisms thought to be involved in high temperature including their putative role in metabolism, energy, protein synthesis, protein transport/storage, etc. Besides these, some proteins are expected to involve in photosynthesis, tricarboxylic acid (TCA) cycle, glycolysis and other proteins for energy production. The proteins identified in the present study provide a strong basis to elucidate gene function of these proteins and to explain further the molecular mechanisms underlying the adaptation of rice to high temperature stress.

Gold Nanoparticles for BCR-ABL1 Gene Silencing: Improving Tyrosine Kinase Inhibitor Efficacy in Chronic Myeloid Leukemia.

Introduction of tyrosine kinase inhibitors for chronic myeloid leukemia treatment is associated with a 63% probability of maintaining a complete cytogenetic response, meaning that over 30% patients require an alternative methodology to overcome resistance, tolerance, or side effects. Considering the potential of nanotechnology in cancer treatment and the benefits of a combined therapy with imatinib, a nanoconjugate was designed to achieve BCR-ABL1 gene silencing. Gold nanoparticles were functionalized with a single-stranded DNA oligonucleotide that selectively targets the e14a2 BCR-ABL1 transcript expressed by K562 cells. This gold (Au)-nanoconjugate showed great efficacy in gene silencing that induced a significant increase in cell death. Variation of BCL-2 and BAX protein expression, an increase of caspase-3 activity, and apoptotic bodies in cells treated with the nanoconjugate demonstrate its aptitude for inducing apoptosis on K562 BCR-ABL1-expressing cells. Moreover, the combination of the silencing Au-nanoconjugate with imatinib prompted a decrease of imatinib IC50. This Au-nanoconjugate was also capable of inducing the loss of viability of imatinib-resistant K562 cells. This strategy shows that combination of Au-nanoconjugate and imatinib make K562 cells more vulnerable to chemotherapy and that the Au-nanoconjugate alone may overcome imatinib-resistance mechanisms, thus providing an effective treatment for chronic myeloid leukemia patients who exhibit drug tolerance.

Quantitative Age-specific Variability of Plasma Proteins in Healthy Neonates, Children and Adults

Human blood plasma is a complex biological fluid containing soluble proteins, sugars, hormones, electrolytes, and dissolved gasses. As plasma interacts with a wide array of bodily systems, changes in protein expression, or the presence or absence of specific proteins are regularly used in the clinic as a molecular biomarker tool. A large body of literature exists detailing proteomic changes in pathologic contexts, however little research has been conducted on the quantitation of the plasma proteome in age-specific, healthy subjects, especially in pediatrics. In this study, we utilized SWATH-MS to identify and quantify proteins in the blood plasma of healthy neonates, infants under 1 year of age, children between 1-5 years, and adults. We identified more than 100 proteins that showed significant differential expression levels across these age groups, and we analyzed variation in protein expression across the age spectrum. The plasma proteomic profiles of neonates were strikingly dissimilar to the older children and adults. By extracting the SWATH data against a large human spectral library we increased protein identification more than 6-fold (940 proteins) and confirmed the concentrations of several of these using ELISA. The results of this study map the variation in expression of proteins and pathways often implicated in disease, and so have significant clinical implication.

Comparative proteome profiling of hydatid fluid from Algerian patients reveals cyst location-related variation in Echinococcus granulosus

Human cystic echinococcosis, an endemic zoonosis in Algeria, is caused by larvae of the cestode Echinococcus granulosus. Parasitic modulation of the immune response allows E. granulosus to persist in intermediate hosts. Previous in vitro and in vivo immunological studies have shown differences in host immune responses according to the status and location of the hydatid cysts in the body. In this study, a proteomic analysis of human hydatid fluids was performed to identify the proteins in hydatid cyst fluids. Hydatid fluid was obtained after cystic surgical removal from three patients with these cysts. The study was conducted on fertile hydatid fluids from lungs, vertebra, and infertile paravertebral fluids. Comparisons of the protein compositions of these fluids revealed differences in their protein profiles. These differences are probably related to the cyst location and fertility status of the parasite. Notably, our analysis identified new proteins from the parasite and human host. The identification of host proteins in hydatid fluids indicates that the hydatid walls are permeable allowing a high protein exchange rate between the metacestode and the affected tissue. Interestingly, our study also revealed that parasite antigenic protein expression variations reflect the differences observed in host immunostimulation.

Proteomic response of Macrobrachium rosenbergii hepatopancreas exposed to chlordecone: Identification of endocrine disruption biomarkers?

The present work is the first study investigating the impacts of chlordecone, an organochlorine insecticide, on the proteome of the decapod crustacean Macrobrachium rosenbergii, by gel-free proteomic analysis. The hepatopancreas protein expression variations were analysed in organisms exposed to three environmental relevant concentrations of chlordecone (i.e. 0.2, 2 and 20µg/L). Results revealed that 62 proteins were significantly up- or down-regulated in exposed prawns compared to controls. Most of these proteins are involved in important physiological processes such as ion transport, defense mechanisms and immune system, cytoskeleton dynamics, or protein synthesis and degradation. Moreover, it appears that 6% of the deregulated protein are involved in the endocrine system and in the hormonal control of reproduction or development processes of M. rosenbergii (e.g. vitellogenin, farnesoic acid o-methyltransferase). These results indicate that chlordecone is potentially an endocrine disruptor compound for decapods, as already observed in vertebrates. These protein modifications could lead to disruptions of M. rosenbergii growth and reproduction, and therefore of the fitness population on the long-term. Besides, these disrupted proteins could be suggested as biomarkers of exposure for endocrine disruptions in invertebrates. However, further investigations are needed to complete understanding of action mechanisms of chlordecone on proteome and endocrine system of crustaceans.

The effects of alcohol exposure on CSB localization and concentration in stem cells.

Alcohol and drug addiction are major problems in today’s society, and specifically in the state of West Virginia. Chronic alcohol exposure has been shown to have various effects on cell proliferation, apoptosis, and DNA damage through oxidative stress. Neuronal stem cell populations in the adult brain help to support neuroplasticity improving short and long term memory. Chronic alcohol exposure reduces stem cell populations and suggests a link between alcoholism treatment paradigms and the damage induced to stem cells during use. Previous studies show as much as 40% reduction in stem cell numbers from chronic alcohol use and many cells experience substantial DNA damage. However, the mechanism repair mechanism used by exposed cells to repair DNA lesions is unknown. This study analyzes expression and localization of the CSB (ERCC6) protein responsible for recruitment and imitation of a Nucleotide Excision Repair (NER) mechanism necessary in DNA repair. Both alcohol treated and control stem cells were examined by immune-cytochemistry and western blot in order to analyze variations in protein expression and nuclear localization. We demonstrate changes in expression and increased localization to alcohol induced DNA lesions. This demonstrates a possible mechanism for Cellular losses in adult alcoholism.

Functional implications of Neandertal introgression in modern humans

BackgroundAdmixture between early modern humans and Neandertals approximately 50,000–60,000 years ago has resulted in 1.5–4% Neandertal ancestry in the genomes of present-day non-Africans. Evidence is accumulating that some of these archaic alleles are advantageous for modern humans, while others are deleterious; however, the major mechanism by which these archaic alleles act has not been fully explored.ResultsHere we assess the contributions of introgressed non-synonymous and regulatory variants to modern human protein and gene expression variation. We show that gene expression changes are more often associated with Neandertal ancestry than expected, and that the introgressed non-synonymous variants tend to have less predicted functional effect on modern human proteins than mutations that arose on the human lineage. Conversely, introgressed alleles contribute proportionally more to expression variation than non-introgressed alleles.ConclusionsOur results suggest that the major influence of Neandertal introgressed alleles is through their effects on gene regulation.

Differential Protein Expressions in Virus-Infected and Uninfected Trichomonas vaginalis.

Protozoan viruses may influence the function and pathogenicity of the protozoa. Trichomonas vaginalis is a parasitic protozoan that could contain a double stranded RNA (dsRNA) virus, T. vaginalis virus (TVV). However, there are few reports on the properties of the virus. To further determine variations in protein expression of T. vaginalis, we detected 2 strains of T. vaginalis; the virus-infected (V+) and uninfected (V−) isolates to examine differentially expressed proteins upon TVV infection. Using a stable isotope N-terminal labeling strategy (iTRAQ) on soluble fractions to analyze proteomes, we identified 293 proteins, of which 50 were altered in V+ compared with V− isolates. The results showed that the expression of 29 proteins was increased, and 21 proteins decreased in V+ isolates. These differentially expressed proteins can be classified into 4 categories: ribosomal proteins, metabolic enzymes, heat shock proteins, and putative uncharacterized proteins. Quantitative PCR was used to detect 4 metabolic processes proteins: glycogen phosphorylase, malate dehydrogenase, triosephosphate isomerase, and glucose-6-phosphate isomerase, which were differentially expressed in V+ and V− isolates. Our findings suggest that mRNA levels of these genes were consistent with protein expression levels. This study was the first which analyzed protein expression variations upon TVV infection. These observations will provide a basis for future studies concerning the possible roles of these proteins in host-parasite interactions.

MP39-10 INTRA-TUMOR HETEROGENEITY IN RENAL CELL CARCINOMA: IMPLICATIONS FOR PROTEOMIC ANALYSIS OF RENAL MASS BIOPSIES

You have accessJournal of UrologyKidney Cancer: Basic Research & Pathophysiology I1 Apr 2017MP39-10 INTRA-TUMOR HETEROGENEITY IN RENAL CELL CARCINOMA: IMPLICATIONS FOR PROTEOMIC ANALYSIS OF RENAL MASS BIOPSIES Rustin Massoudi, Christian Hoerner, Thomas Metzner, Jennifer O'Rourke, Rachael Curtis, Laurel Stell, Chiara Sabatti, James Brooks, Alice Fan, and John Leppert Rustin MassoudiRustin Massoudi More articles by this author , Christian HoernerChristian Hoerner More articles by this author , Thomas MetznerThomas Metzner More articles by this author , Jennifer O'RourkeJennifer O'Rourke More articles by this author , Rachael CurtisRachael Curtis More articles by this author , Laurel StellLaurel Stell More articles by this author , Chiara SabattiChiara Sabatti More articles by this author , James BrooksJames Brooks More articles by this author , Alice FanAlice Fan More articles by this author , and John LeppertJohn Leppert More articles by this author View All Author Informationhttps://doi.org/10.1016/j.juro.2017.02.1184AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookTwitterLinked InEmail INTRODUCTION AND OBJECTIVES Intra-tumor heterogeneity (ITH) is the presence of cell clones with different genetic or histologic phenotypes that occupy distinct spaces within a tumor. Whether genomic ITH translates into functional ITH on the level of protein expression and activity is less well characterized. We hypothesized that variation in expression and activation of critical RCC signaling proteins is less than genomic ITH, resulting in a limited number of functional phenotypes in a tumor. This framework would allow for representative sampling of RCC using renal mass biopsy and advanced proteomic techniques. METHODS We profiled the expression and activation state of extracellular signal-regulated kinase (ERK), a critical effector of the MAPK signaling pathway, in 131 ex vivo biopsies from 39 clear cell RCC tumors and adjacent normal parenchyma after nephrectomy. We performed fine-needle aspirate (FNA) biopsies of grossly representative sections after bivalving the kidney. We performed nano-scale immunoassays (NIA) to quantify the absolute and relative abundances of the phospho-isoforms of ERK1/2 using the Peggy Sue instrument (Protein Simple). ERK1/2 was interrogated with a pan-ERK antibody. Expression levels of ERK levels were compared across samples by normalization to the levels of the ubiquitously expressed protein HSP70. RESULTS ERK1 was infrequently activated, with most samples (69%) demonstrating no phosphorylation of ERK1. In contrast, ERK2 demonstrated phosphorylation in the majority of the samples. Two distinct mono-phosphorylated ERK2 isoforms were detected (pERK2a and pERK2b), with relative abundances ranging from 0-58% and 1-57%, respectively. The relative abundance of dual-phosphorylated ERK2 (ppERK2) ranged from 0-26%. The overall ITH of ERK2 activation was low (average standard deviation [SD] 6%) compared with the difference in ERK2 activation among the 39 tumors (SD 5% - 22%). CONCLUSIONS The abundance and activation of ERK1/2 can be measured from scant FNAs of RCC using novel proteomic methods. We found little ITH of ERK, which suggests that protein ITH is generally less than functional heterogeneity among tumors. These data suggest that a single renal mass biopsy may accurately measure the activity of relevant signaling pathways within a tumor, which may facilitate future precision medicine approaches. © 2017FiguresReferencesRelatedDetails Volume 197Issue 4SApril 2017Page: e496-e497 Advertisement Copyright & Permissions© 2017MetricsAuthor Information Rustin Massoudi More articles by this author Christian Hoerner More articles by this author Thomas Metzner More articles by this author Jennifer O'Rourke More articles by this author Rachael Curtis More articles by this author Laurel Stell More articles by this author Chiara Sabatti More articles by this author James Brooks More articles by this author Alice Fan More articles by this author John Leppert More articles by this author Expand All Advertisement Advertisement PDF downloadLoading ...

Testis specific Y-like 5: gene expression, methylation and implications for drug sensitivity in prostate carcinoma

BackgroundTSPYL5, a putative tumor suppressor gene, belongs to the nucleosome assembly protein family. The chromosomal location of the TSPYL5 gene is 8Q22.1, and its exact role in prostate cancer etiology remains unclear. Further TSPYL5 gene and protein expression in prostate carcinoma cells and diseased tissues including its susceptibility for epigenetic silencing is unknown. Also, not known is the variation in TSPYL5 protein expression with regards to progression of prostatic carcinoma and its possible role in drug sensitivity.MethodsTSPYL5, DNMT-1 and DNMT-B gene expression in DU145, LNCaP and RWPE-1 cells and prostate tumor tissues was analyzed by qRT-PCR and RT-PCR. Demethylation experiments were done by treating DU145 and LNCaP cells with 5-aza-2′-deoxycytidine in vitro. Methylation analysis of TSPYL5 gene was performed by methylation specific PCR and pyrosequencing. TSPYL5 protein expression in benign and diseased prostate tumor tissues was performed by immunohistochemistry and in the cells by Western blotting.ResultsTSPYL5 was differentially expressed in non-tumorigenic prostate epithelial cells (RWPE-1), androgen independent (DU145), dependent (LNCaP) prostate carcinoma cells and tissues. Methylation-specific PCR and pyrosequencing analysis identified an inverse relationship between DNA methylation and expression leading to the silencing of TSPYL5 gene. Treatment of prostate carcinoma cells in which TSPYL5 was absent or low (DU145 and LNCaP) with the demethylating agent 5-aza-2′-deoxycytidine upregulated its expression in these cells. Immunohistochemical studies clearly identified TSPYL5 protein in benign tissue and in tumors with Gleason score (GS) of 6 and 7. TSPYL5 protein levels were very low in tumors of GS ≥ 8. TSPYL5 overexpression in LNCaP cells increased the cell sensitivity to chemotherapy drugs such as docetaxel and paclitaxel, as measured by the cellular viability. Furthermore, the cells also exhibited reduced CDKN1A expression with only marginal reduction in pAKT.ConclusionsDecrease in TSPYL5 protein in advanced tumors might possibly function as an indicator of prostate tumor progression. Its absence due to methylation-induced silencing can lead to reduced drug sensitivity in prostate carcinoma.

Future of circulating tumor cells in the melanoma clinical and research laboratory settings

Circulating tumor cells (CTC) have become a field of interest for oncologists based on the premise that they constitute the underpinning for metastatic dissemination. The lethal nature of cancer is no longer attributed to solid tumor formation, but rather to the process of metastasis; shifting the focus of current studies towards the isolation and identification of metastatic progenitors, such as CTCs. CTCs originate from primary tumor masses that undergo morphologic and genetic alterations, which involve the release of mesenchymal-like cancer cells into the bloodstream, capable of invading nearby tissues for secondary tumor development. Cancerous cells contained in the primary tumor mass acquire the motile mesenchymal phenotype as a result of the Epithelial-to-Mesenchymal Transition, where substantial variations in protein expression and signaling pathways take place. CTCs that migrate from the primary tumor, intravasate into the systemic vasculature, are transported through the bloodstream, and invade tissues and organs suitable for secondary tumor development. While only a limited number of CTCs are viable in the bloodstream, their ability to elude the immune system, evade apoptosis and successfully metastasize at secondary tumor sites, makes CTCs promising candidates for unraveling the triggers that initiates the metastatic process. In this article, these subjects are explored in greater depth to elucidate the potential use of CTCs in the detection, disease staging and management of metastatic melanoma.