Geological and geochemical aspects of uranium deposits. A selected, annotated bibliography

DOE Office of Scientific and Technical Information (OSTI.GOV)

Garland, P.A.; Thomas, J.M.; Brock, M.L.

1980-06-01

A bibliography of 479 references encompassing the fields of uranium and thorium geochemistry and mineralogy, geology of uranium deposits, uranium mining, and uranium exploration techniques has been compiled by the Ecological Sciences Information Center of Oak Ridge National Laboratory. The bibliography was produced for the National Uranium Resource Evaluation Program, which is funded by the Grand Junction Office of the Department of Energy. The references contained in the bibliography have been divided into the following eight subject categories: (1) geology of deposits, (2) geochemistry, (3) genesis O deposits, (4) exploration, (5) mineralogy, (6) uranium industry, (7) reserves and resources, andmore » (8) geology of potential uranium-bearing areas. All categories specifically refer to uranium and thorium; the last category contains basic geologic information concerning areas which the Grand Junction Office feels are particularly favorable for uranium deposition. The references are indexed by author, geographic location, quadrangle name, geoformational feature, taxonomic name, and keyword.« less

Molecular Characterization of Plant Ubiquitin-Conjugating Enzymes Belonging to the UbcP4/E2-C/UBCx/UbcH10 Gene Family1

PubMed Central

Criqui, Marie Claire; de Almeida Engler, Janice; Camasses, Alain; Capron, Arnaud; Parmentier, Yves; Inzé, Dirk; Genschik, Pascal

2002-01-01

The anaphase promoting complex or cyclosome is the ubiquitin-ligase that targets destruction box-containing proteins for proteolysis during the cell cycle. Anaphase promoting complex or cyclosome and its activator (the fizzy and fizzy-related) proteins work together with ubiquitin-conjugating enzymes (UBCs) (E2s). One class of E2s (called E2-C) seems specifically involved in cyclin B1 degradation. Although it has recently been shown that mammalian E2-C is regulated at the protein level during the cell cycle, not much is known concerning the expression of these genes. Arabidopsis encodes two genes belonging to the E2-C gene family (called UBC19 and UBC20). We found that UBC19 is able to complement fission yeast (Schizosaccharomyces pombe) UbcP4-140 mutant, indicating that the plant protein can functionally replace its yeast ortholog for protein degradation during mitosis. In situ hybridization experiments were performed to study the expression of the E2-C genes in various tissues of plants. Their transcripts were always, but not exclusively, found in tissues active for cell division. Thus, the UBC19/20 E2s may have a key function during cell cycle, but may also be involved in ubiquitylation reactions occurring during differentiation and/or in differentiated cells. Finally, we showed that a translational fusion protein between UBC19 and green fluorescent protein localized both in the cytosol and the nucleus in stable transformed tobacco (Nicotiana tabacum cv Bright Yellow 2) cells. PMID:12427990

Characterization and expression analysis of genes encoding ubiquitin conjugating domain-containing enzymes in Carica papaya

PubMed Central

Jue, Dengwei; Sang, Xuelian; Shu, Bo; Liu, Liqin; Wang, Yicheng; Jia, Zhiwei; Zou, Yu; Shi, Shengyou

2017-01-01

Background Ripening affects the quality and nutritional contents of fleshy fruits and is a crucial process of fruit development. Although several studies have suggested that ubiquitin-conjugating enzyme (E2s or UBC enzymes) are involved in the regulation of fruit ripening, little is known about the function of E2s in papaya (Carica papaya). Methodology/Principal findings In the present study, we searched the papaya genome and identified 34 putative UBC genes, which were clustered into 17 phylogenetic subgroups. We also analyzed the nucleotide sequences of the papaya UBC (CpUBC) genes and found that both exon-intron junctions and sequence motifs were highly conserved among the phylogenetic subgroups. Using real-time PCR analysis, we also found that all the CpUBC genes were expressed in roots, stems, leaves, male and female flowers, and mature fruit, although the expression of some of the genes was increased or decreased in one or several specific organs. We also found that the expression of 13 and two CpUBC genes were incresesd or decreased during one and two ripening stages, respectively. Expression analyses indicates possible E2s playing a more significant role in fruit ripening for further studies. Conclusions To the best of our knowledge, this is the first reported genome-wide analysis of the papaya UBC gene family, and the results will facilitate further investigation of the roles of UBC genes in fruit ripening and will aide in the functional validation of UBC genes in papaya. PMID:28231288

Cost of illness of urothelial bladder cancer in Italy.

PubMed

Gerace, Claudio; Montorsi, Francesco; Tambaro, Rosa; Cartenì, Giacomo; De Luca, Stefano; Tucci, Marcello; Martorana, Giuseppe; Basso, Umberto; Cardosi, Leonardo; Teruzzi, Cristina

2017-01-01

Urothelial bladder cancer (UBC) is the ninth most common cancer worldwide. In Italy, the prevalence of the disease is approximately 10%, making it the fourth most prevalent cancer in the country. The increase in prevalence requires continuous surveillance and care, resulting in a significant burden on Italian National Health Service, making any improvement to the strategy for diagnosing and treating this disease important to the medical and scientific community. The aim of this study was to evaluate the UBC cost of illness in the Italian context, collecting the total costs of the disease. An economic analysis was carried out in the context of the National Health Service, using data collected from six centers, in order to evaluate direct costs in terms of outpatient, inpatient, and emergency care; pharmaceuticals and follow-up procedures; and indirect costs in terms of productivity losses. Data were collected through aggregated form reports, focusing on patients with an existing diagnosis of UBC who were treated in the last year. The Italian Association of Medical Oncology (AIOM) guidelines were used to identify diagnostic and therapeutic procedures. Statistical analysis was conducted to explore variations among centers. The weighted mean total annual cost per patient was € 3,591, where the cost for superficial disease was € 3,252 and that for metastatic disease was € 606. The analysis confirmed a proportional relation between disease severity and disability grade. The UBC cost of illness, considering prevalence and incidence data coming from the 2016 AIOM/Italian Association of Cancer Registries report, was € 1,187,036,344. Indirect costs accounted to 44%, represented by estimated productivity losses. Our analysis represents the first economic study of UBC in the Italian context, as well as the first real-life evidence of the current therapeutic algorithm. This study opens the possibility for further analysis on the indirect cost components that represent a great burden for the society, especially for those in the severest stages of the disease with high disability grades.

Cost of illness of urothelial bladder cancer in Italy

PubMed Central

Gerace, Claudio; Montorsi, Francesco; Tambaro, Rosa; Cartenì, Giacomo; De Luca, Stefano; Tucci, Marcello; Martorana, Giuseppe; Basso, Umberto; Cardosi, Leonardo; Teruzzi, Cristina

2017-01-01

Background Urothelial bladder cancer (UBC) is the ninth most common cancer worldwide. In Italy, the prevalence of the disease is approximately 10%, making it the fourth most prevalent cancer in the country. The increase in prevalence requires continuous surveillance and care, resulting in a significant burden on Italian National Health Service, making any improvement to the strategy for diagnosing and treating this disease important to the medical and scientific community. The aim of this study was to evaluate the UBC cost of illness in the Italian context, collecting the total costs of the disease. Methods An economic analysis was carried out in the context of the National Health Service, using data collected from six centers, in order to evaluate direct costs in terms of outpatient, inpatient, and emergency care; pharmaceuticals and follow-up procedures; and indirect costs in terms of productivity losses. Data were collected through aggregated form reports, focusing on patients with an existing diagnosis of UBC who were treated in the last year. The Italian Association of Medical Oncology (AIOM) guidelines were used to identify diagnostic and therapeutic procedures. Statistical analysis was conducted to explore variations among centers. Results The weighted mean total annual cost per patient was € 3,591, where the cost for superficial disease was € 3,252 and that for metastatic disease was € 606. The analysis confirmed a proportional relation between disease severity and disability grade. The UBC cost of illness, considering prevalence and incidence data coming from the 2016 AIOM/Italian Association of Cancer Registries report, was € 1,187,036,344. Indirect costs accounted to 44%, represented by estimated productivity losses. Conclusion Our analysis represents the first economic study of UBC in the Italian context, as well as the first real-life evidence of the current therapeutic algorithm. This study opens the possibility for further analysis on the indirect cost components that represent a great burden for the society, especially for those in the severest stages of the disease with high disability grades. PMID:28769578

Degradation signals for ubiquitin system proteolysis in Saccharomyces cerevisiae.

PubMed Central

Gilon, T; Chomsky, O; Kulka, R G

1998-01-01

Combinations of different ubiquitin-conjugating (Ubc) enzymes and other factors constitute subsidiary pathways of the ubiquitin system, each of which ubiquitinates a specific subset of proteins. There is evidence that certain sequence elements or structural motifs of target proteins are degradation signals which mark them for ubiquitination by a particular branch of the ubiquitin system and for subsequent degradation. Our aim was to devise a way of searching systematically for degradation signals and to determine to which ubiquitin system subpathways they direct the proteins. We have constructed two reporter gene libraries based on the lacZ or URA3 genes which, in Saccharomyces cerevisiae, express fusion proteins with a wide variety of C-terminal extensions. From these, we have isolated clones producing unstable fusion proteins which are stabilized in various ubc mutants. Among these are 10 clones whose products are stabilized in ubc6, ubc7 or ubc6ubc7 double mutants. The C-terminal extensions of these clones, which vary in length from 16 to 50 amino acid residues, are presumed to contain degradation signals channeling proteins for degradation via the UBC6 and/or UBC7 subpathways of the ubiquitin system. Some of these C-terminal tails share similar sequence motifs, and a feature common to almost all of these sequences is a highly hydrophobic region such as is usually located inside globular proteins or inserted into membranes. PMID:9582269

Structure of a SUMO-binding-motif mimic bound to Smt3p–Ubc9p: conservation of a noncovalent Ubiquitin-like protein–E2 complex as a platform for selective interactions within a SUMO pathway

PubMed Central

Duda, David M.; van Waardenburg, Robert C. A. M.; Borg, Laura A.; McGarity, Sierra; Nourse, Amanda; Waddell, M. Brett; Bjornsti, Mary-Ann; Schulman, Brenda A.

2007-01-01

Summary The SUMO ubiquitin-like proteins play regulatory roles in cell division, transcription, DNA repair, and protein subcellular localization. Paralleling other ubiquitin-like proteins, SUMO proteins are proteolytically processed to maturity, conjugated to targets by E1-E2-E3 cascades, and subsequently recognized by specific downstream effectors containing a SUMO-binding motif (SBM). SUMO and its E2 from the budding yeast S. cerevisiae, Smt3p and Ubc9p, are encoded by essential genes. Here we describe the 1.9 Å resolution crystal structure of a noncovalent Smt3p–Ubc9p complex. Unexpectedly, a heterologous portion of the crystallized complex derived from the expression construct mimics an SBM, and binds Smt3p in a manner resembling SBM binding to human SUMO family members. In the complex, Smt3p binds a surface distal from Ubc9's catalytic cysteine. The structure implies that a single molecule of Smt3p cannot bind concurrently to both the noncovalent binding site and the catalytic cysteine of a single Ubc9p molecule. However, formation of higher-order complexes can occur, where a single Smt3p covalently linked to one Ubc9p's catalytic cysteine also binds noncovalently to another molecule of Ubc9p. Comparison with other structures from the SUMO pathway suggests that formation of the noncovalent Smt3p–Ubc9p complex occurs mutually exclusively with many other Smt3p and Ubc9p interactions in the conjugation cascade. By contrast, high-resolution insights into how Smt3p–Ubc9p can also interact with downstream recognition machineries come from contacts with the SBM mimic. Interestingly, the overall architecture of the Smt3p–Ubc9p complex is strikingly similar to recent structures from the ubiquitin pathway. The results imply that noncovalent ubiquitin-like protein–E2 complexes are conserved platforms, which function as parts of larger assemblies involved many protein post-translational regulatory pathways. PMID:17475278

Boulder Creek: A stream ecosystem in an urban landscape

USGS Publications Warehouse

Verplanck, Philip L.; Murphy, Sheila F.; Birkeland, Peter W.; Pitlick,; Barber, Larry B.; Schmidt, Travis S.; Raynolds, Robert G.H.

2008-01-01

The Boulder Creek Watershed, within the Front Range region of Colorado, is typical of many western watersheds because it is composed of a high-gradient upper reach mostly fed by snowmelt, a substantial change in gradient at the range front, and an urban corridor within the lower gradient section. A stream ecosystem within an urban landscape not only can provide water for municipal, industrial, and agricultural needs, but also can be utilized for recreation, esthetic enjoyment, and wastewater disposal. The purpose of this 26 km bicycle field trip is to explore the hydrology and geochemistry of Boulder and South Boulder Creeks and to discuss topics including flood frequency and hazards, aqueous geochemistry of the watershed, and potential impacts of invasive species and emerging contaminants on stream ecology.

Wnt7a activates canonical Wnt signaling, promotes bladder cancer cell invasion, and is suppressed by miR-370-3p.

PubMed

Huang, Xiaojing; Zhu, Hongwen; Gao, Zemin; Li, Junzun; Zhuang, Junlong; Dong, Yu; Shen, Bing; Li, Meiqian; Zhou, Hu; Guo, Hongqian; Huang, Ruimin; Yan, Jun

2018-05-04

Once urinary bladder cancer (UBC) develops into muscle-invasive bladder cancer, its mortality rate increases dramatically. However, the molecular mechanisms of UBC invasion and metastasis remain largely unknown. Herein, using 5637 UBC cells, we generated two sublines with low (5637 NMI) and high (5637 HMI) invasive capabilities. Mass spectrum analyses revealed that the Wnt family protein Wnt7a is more highly expressed in 5637 HMI cells than in 5637 NMI cells. We also found that increased Wnt7a expression is associated with UBC metastasis and predicted worse clinical outcome in UBC patients. Wnt7a depletion in 5637 HMI and T24 cells reduced UBC cell invasion and decreased levels of active β-catenin and its downstream target genes involved in the epithelial-to-mesenchymal transition (EMT) and extracellular matrix (ECM) degradation. Consistently, treating 5637 NMI and J82 cells with recombinant Wnt7a induced cell invasion, EMT, and expression of ECM degradation-associated genes. Moreover, TOP/FOPflash luciferase assays indicated that Wnt7a activated canonical β-catenin signaling in UBC cells, and increased Wnt7a expression was associated with nuclear β-catenin in UBC samples. Wnt7a ablation suppressed matrix metalloproteinase 10 (MMP10) expression, and Wnt7a overexpression increased MMP10 promoter activity through two TCF/LEF promoter sites, confirming that Wnt7a-mediated MMP10 activation is mediated by the canonical Wnt/β-catenin pathway. Of note, the microRNA miR-370-3p directly repressed Wnt7a expression and thereby suppressed UBC cell invasion, which was partially restored by Wnt7a overexpression. Our results have identified an miR-370-3p/Wnt7a axis that controls UBC invasion through canonical Wnt/β-catenin signaling, which may offer prognostic and therapeutic opportunities. © 2018 Huang et al.

[Experimental and calculated spectra of the amplicons UBC-85 and UBC-126 (RAPD-PCR)].

PubMed

Glazko, G V; Rogozin, I B; Glazko, V I; Zelenaia, L B; Sozinov, A A

1997-01-01

The comparative analysis of experimental amplification spectrum in 13 Ungulata species and counting ones in DNA sequences of different taxa in GenBank (mammalian, other vertebrate, invertebrate, viruses, prokaryote) with the uses of RAPD-PCR primers UBC-85 and UBC-126 was carried out. The particularities of the distribution of amplicons' frequencies in experimental and counting spectrums were revealed, for some of them the similar increased frequencies in mammalian and prokaryotic species were observed.

Asthma status is associated with decreased risk of aggressive urothelial bladder cancer.

PubMed

Rava, Marta; Czachorowski, Maciej J; Silverman, Debra; Márquez, Mirari; Kishore, Sirish; Tardón, Adonina; Serra, Consol; García-Closas, Montse; Garcia-Closas, Reina; Carrato, Alfredo; Rothman, Nathaniel; Real, Francisco X; Kogevinas, Manolis; Malats, Núria

2018-02-01

Previous studies suggested an association between atopic conditions and specific cancers. The results on the association with urothelial bladder cancer (UBC) are scarce and inconsistent. To evaluate the association between asthma and risk of UBC, we considered 936 cases and 1,022 controls from the Spanish Bladder Cancer/EPICURO Study (86% males, mean age 65.4 years), a multicenter and hospital-based case-control study conducted during 1998-2001. Participants were asked whether they had asthma and detailed information about occupational exposures, smoking habits, dietary factors, medical conditions and history of medication was collected through face-to-face questionnaires performed by trained interviewers. Since asthma and UBC might share risk factors, association between patients' characteristics and asthma was studied in UBC controls. Association between UBC and asthma was assessed using logistic regression unadjusted and adjusted for potential confounders. The complex interrelationships, direct and mediating effect of asthma on UBC, were appraised using counterfactual mediation models. Asthma was associated with a reduced risk of UBC (odds ratio (OR) = 0.54, 95% confidence interval (CI) 0.37, 0.79) after adjusting for a wide range of confounders. No mediating effect was identified. The reduced risk associated with asthma was restricted to patients with high-risk non-muscle invasive (OR = 0.25, 95%CI 0.10, 0.62) and muscle invasive UBC (OR = 0.32, 95%CI 0.15, 0.69). Our results support that asthma is associated with a decreased risk of UBC, especially among aggressive tumors. Further work on the relationship between asthma and other atopic conditions and cancer risk should shed light on the relationship between immune response mechanisms and bladder carcinogenesis. © 2017 UICC.

α-synuclein expression in the mouse cerebellum is restricted to VGluT1 excitatory terminals and is enriched in unipolar brush cells

PubMed Central

Lee, Sun Kyong; Sillitoe, Roy V.; Silva, Coralie; Martina, Marco; Sekerkova, Gabriella

2015-01-01

α-synuclein has a crucial role in synaptic vesicle release and synaptic membrane recycling. Although its general expression pattern has been described in the cerebellum, the precise cerebellar structures where α-synuclein is localized are poorly understood. To address this question, we used α-synuclein immunohistochemistry in adult mice cerebellar sections. We found that α-synuclein labels glutamatergic but not glycinergic and GABAergic synaptic terminals in the molecular and granule cell layers. α-synuclein was preferentially expressed in parallel and mossy fiber synaptic terminals that also express vesicular glutamate transporter 1 (VGluT1) while it was not detected in VGluT2-positive climbing fibers. α-synuclein was particularly enriched in lobules IX and X, a region known to contain high density of unipolar brush cells (UBCs). To elucidate whether the α-synuclein-positive mossy fibers belong to UBCs, we double labeled cerebellar sections with antibodies to α-synuclein and UBCs type specific markers(calretinin for type I and metabotropic glutamate receptor 1α (mGluR1α) for type II UBCs), and took advantage of organotypic cerebellar cultures (in which all mossy fibers are UBC axons) and moonwalker mice (in which almost all UBCs are ablated) and found that both type I and type II UBCs express α-synuclein. In moonwalker mutant cerebella, the α-synuclein/VGluT1 immunolabeling showed dramatic decrease in the vestibulocerebellum that correlated with the absence of UBC. α-synuclein appears to be an excellent marker for intrinsic mossy fibers of the VGluT1 subset in conjunction with UBCs of both subtypes. PMID:25917213

α-Synuclein expression in the mouse cerebellum is restricted to VGluT1 excitatory terminals and is enriched in unipolar brush cells.

PubMed

Lee, Sun Kyong; Sillitoe, Roy V; Silva, Coralie; Martina, Marco; Sekerkova, Gabriella

2015-10-01

α-Synuclein has a crucial role in synaptic vesicle release and synaptic membrane recycling. Although its general expression pattern has been described in the cerebellum, the precise cerebellar structures where α-synuclein is localized are poorly understood. To address this question, we used α-synuclein immunohistochemistry in adult mice cerebellar sections. We found that α-synuclein labels glutamatergic but not glycinergic and GABAergic synaptic terminals in the molecular and granule cell layers. α-Synuclein was preferentially expressed in parallel and mossy fiber synaptic terminals that also express vesicular glutamate transporter 1 (VGluT1), while it was not detected in VGluT2-positive climbing fibers. α-Synuclein was particularly enriched in lobules IX and X, a region known to contain a high density of unipolar brush cells (UBCs). To elucidate whether the α-synuclein-positive mossy fibers belong to UBCs, we double-labeled cerebellar sections with antibodies to α-synuclein and UBC-type-specific markers (calretinin for type I and metabotropic glutamate receptor 1α (mGluR1α) for type II UBCs) and took advantage of organotypic cerebellar cultures (in which all mossy fibers are UBC axons) and moonwalker mice (in which almost all UBCs are ablated) and found that both type I and type II UBCs express α-synuclein. In moonwalker mutant cerebella, the α-synuclein/VGluT1 immunolabeling showed a dramatic decrease in the vestibulocerebellum that correlated with the absence of UBC. α-Synuclein appears to be an excellent marker for intrinsic mossy fibers of the VGluT1 subset in conjunction with UBCs of both subtypes.

Exploration Geochemistry.

ERIC Educational Resources Information Center

Closs, L. Graham

1983-01-01

Contributions in mineral-deposit model formulation, geochemical exploration in glaciated and arid environments, analytical and sampling problems, and bibliographic research were made in symposia held and proceedings volumes published during 1982. Highlights of these symposia and proceedings and comments on trends in exploration geochemistry are…

The SUMO pathway is essential for nuclear integrity and chromosome segregation in mice.

PubMed

Nacerddine, Karim; Lehembre, François; Bhaumik, Mantu; Artus, Jérôme; Cohen-Tannoudji, Michel; Babinet, Charles; Pandolfi, Pier Paolo; Dejean, Anne

2005-12-01

Covalent modification by SUMO regulates a wide range of cellular processes, including transcription, cell cycle, and chromatin dynamics. To address the biological function of the SUMO pathway in mammals, we generated mice deficient for the SUMO E2-conjugating enzyme Ubc9. Ubc9-deficient embryos die at the early postimplantation stage. In culture, Ubc9 mutant blastocysts are viable, but fail to expand after 2 days and show apoptosis of the inner cell mass. Loss of Ubc9 leads to major chromosome condensation and segregation defects. Ubc9-deficient cells also show severe defects in nuclear organization, including nuclear envelope dysmorphy and disruption of nucleoli and PML nuclear bodies. Moreover, RanGAP1 fails to accumulate at the nuclear pore complex in mutant cells that show a collapse in Ran distribution. Together, these findings reveal a major role for Ubc9, and, by implication, for the SUMO pathway, in nuclear architecture and function, chromosome segregation, and embryonic viability in mammals.

Distinct Functional Domains of Ubc9 Dictate Cell Survival and Resistance to Genotoxic Stress

PubMed Central

van Waardenburg, Robert C. A. M.; Duda, David M.; Lancaster, Cynthia S.; Schulman, Brenda A.; Bjornsti, Mary-Ann

2006-01-01

Covalent modification with SUMO alters protein function, intracellular localization, or protein-protein interactions. Target recognition is determined, in part, by the SUMO E2 enzyme, Ubc9, while Siz/Pias E3 ligases may facilitate select interactions by acting as substrate adaptors. A yeast conditional Ubc9P123L mutant was viable at 36°C yet exhibited enhanced sensitivity to DNA damage. To define functional domains in Ubc9 that dictate cellular responses to genotoxic stress versus those necessary for cell viability, a 1.75-Å structure of yeast Ubc9 that demonstrated considerable conservation of backbone architecture with human Ubc9 was solved. Nevertheless, differences in side chain geometry/charge guided the design of human/yeast chimeras, where swapping domains implicated in (i) binding residues within substrates that flank canonical SUMOylation sites, (ii) interactions with the RanBP2 E3 ligase, and (iii) binding of the heterodimeric E1 and SUMO had distinct effects on cell growth and resistance to DNA-damaging agents. Our findings establish a functional interaction between N-terminal and substrate-binding domains of Ubc9 and distinguish the activities of E3 ligases Siz1 and Siz2 in regulating cellular responses to genotoxic stress. PMID:16782883

The mechanism of OTUB1-mediated inhibition of ubiquitination

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wiener, Reuven; Zhang, Xiangbin; Wang, Tao

2013-04-08

Histones are ubiquitinated in response to DNA double-strand breaks (DSB), promoting recruitment of repair proteins to chromatin. UBC13 (also known as UBE2N) is a ubiquitin-conjugating enzyme (E2) that heterodimerizes with UEV1A (also known as UBE2V1) and synthesizes K63-linked polyubiquitin (K63Ub) chains at DSB sites in concert with the ubiquitin ligase (E3), RNF168 (ref. 3). K63Ub synthesis is regulated in a non-canonical manner by the deubiquitinating enzyme, OTUB1 (OTU domain-containing ubiquitin aldehyde-binding protein 1), which binds preferentially to the UBC13-Ub thiolester. Residues amino-terminal to the OTU domain, which had been implicated in ubiquitin binding, are required for binding to UBC13-Ub andmore » inhibition of K63Ub synthesis. Here we describe structural and biochemical studies elucidating how OTUB1 inhibits UBC13 and other E2 enzymes. We unexpectedly find that OTUB1 binding to UBC13-Ub is allosterically regulated by free ubiquitin, which binds to a second site in OTUB1 and increases its affinity for UBC13-Ub, while at the same time disrupting interactions with UEV1A in a manner that depends on the OTUB1 N terminus. Crystal structures of an OTUB1-UBC13 complex and of OTUB1 bound to ubiquitin aldehyde and a chemical UBC13-Ub conjugate show that binding of free ubiquitin to OTUB1 triggers conformational changes in the OTU domain and formation of a ubiquitin-binding helix in the N terminus, thus promoting binding of the conjugated donor ubiquitin in UBC13-Ub to OTUB1. The donor ubiquitin thus cannot interact with the E2 enzyme, which has been shown to be important for ubiquitin transfer. The N-terminal helix of OTUB1 is positioned to interfere with UEV1A binding to UBC13, as well as with attack on the thiolester by an acceptor ubiquitin, thereby inhibiting K63Ub synthesis. OTUB1 binding also occludes the RING E3 binding site on UBC13, thus providing a further component of inhibition. The general features of the inhibition mechanism explain how OTUB1 inhibits other E2 enzymes in a non-catalytic manner.« less

Assessment of DNA Damage and Telomerase Activity in Exfoliated Urinary Cells as Sensitive and Noninvasive Biomarkers for Early Diagnosis of Bladder Cancer in Ex-Workers of a Rubber Tyres Industry

PubMed Central

Pira, Enrico; Romano, Canzio; Fresegna, Anna Maria; Ciervo, Aureliano; Buresti, Giuliana; Zoli, Wainer; Calistri, Daniele

2014-01-01

The aim of the present study was to identify sensitive and noninvasive biomarkers of early carcinogenic effect at target organ to use in biomonitoring studies of workers at risk for previous occupational exposure to potential carcinogens. Standard urine cytology (Papanicolaou staining test), comet assay, and quantitative telomerase repeat amplification protocol (TRAP) assay were performed in 159 ex-rubber workers employed in tyres production and 97 unexposed subjects. In TRAP positive cases, a second level analysis using FISH (Urovysion) was done. Cystoscopy results were available for 11 individuals whose 6 FISH/TRAP/comet positive showed in 3 cases a dysplastic condition confirmed by biopsy, 1 comet positive resulted in infiltrating UBC to the biopsy and with hyperplasia and slight dysplasia to the urinary cytology, 1 comet positive resulted in papillary superficial UBC to the biopsy, 1 FISH/TRAP positive showed a normal condition, and 2 TRAP positive showed in one case a phlogosis condition. The results evidenced good concordance of TRAP, comet, and FISH assays as early biomarkers of procarcinogenic effect confirmed by the dysplastic condition and UBC found by cystoscopy-biopsy analysis. The analysis of these markers in urine cells could be potentially more accurate than conventional cytology in monitoring workers exposed to mixture of bladder potential carcinogens. PMID:24877087

Assessment of DNA damage and telomerase activity in exfoliated urinary cells as sensitive and noninvasive biomarkers for early diagnosis of bladder cancer in ex-workers of a rubber tyres industry.

PubMed

Cavallo, Delia; Casadio, Valentina; Bravaccini, Sara; Iavicoli, Sergio; Pira, Enrico; Romano, Canzio; Fresegna, Anna Maria; Maiello, Raffaele; Ciervo, Aureliano; Buresti, Giuliana; Zoli, Wainer; Calistri, Daniele

2014-01-01

The aim of the present study was to identify sensitive and noninvasive biomarkers of early carcinogenic effect at target organ to use in biomonitoring studies of workers at risk for previous occupational exposure to potential carcinogens. Standard urine cytology (Papanicolaou staining test), comet assay, and quantitative telomerase repeat amplification protocol (TRAP) assay were performed in 159 ex-rubber workers employed in tyres production and 97 unexposed subjects. In TRAP positive cases, a second level analysis using FISH (Urovysion) was done. Cystoscopy results were available for 11 individuals whose 6 FISH/TRAP/comet positive showed in 3 cases a dysplastic condition confirmed by biopsy, 1 comet positive resulted in infiltrating UBC to the biopsy and with hyperplasia and slight dysplasia to the urinary cytology, 1 comet positive resulted in papillary superficial UBC to the biopsy, 1 FISH/TRAP positive showed a normal condition, and 2 TRAP positive showed in one case a phlogosis condition. The results evidenced good concordance of TRAP, comet, and FISH assays as early biomarkers of procarcinogenic effect confirmed by the dysplastic condition and UBC found by cystoscopy-biopsy analysis. The analysis of these markers in urine cells could be potentially more accurate than conventional cytology in monitoring workers exposed to mixture of bladder potential carcinogens.

Vesicular glutamate transporters VGLUT1 and VGLUT2 define two subsets of unipolar brush cells in organotypic cultures of mouse vestibulocerebellum.

PubMed

Nunzi, M G; Russo, M; Mugnaini, E

2003-01-01

Different isoforms of a vesicular glutamate transporter (VGLUT) mediate glutamate uptake into synaptic vesicles of excitatory neurons. There is agreement that the VGLUTs are differentially expressed in brain, and that two isoforms, VGLUT1 and VGLUT2, are localized to excitatory axon terminals in the cerebellar cortex. While granule cells express solely VGLUT1, there is no report about the VGLUT(s) of the unipolar brush cell (UBC), the second type of glutamatergic interneuron residing in the cerebellar granular layer. In the mouse, UBCs are particularly numerous in the uvula (lobule IX) and nodulus (lobule X). These folia contain two distinct subsets of UBCs: one kind expresses the calcium-binding protein calretinin (CR), and the other kind expresses the metabotropic glutamate receptor (mGluR) 1alpha. UBCs give rise to an extensive system of intrinsic mossy fibers (MF), whose terminals innervate granule cells and other UBCs, altogether similar to those formed by the extrinsic MFs. The presence of both extrinsic and intrinsic MFs in the vestibulocerebellum makes it difficult to determine which type of VGLUT is contained in MFs formed by the UBC axons. Hence, the nodulus was isolated from sagittal cerebellar slices from postnatal day 10 mice, and cultured for 15-20 days in vitro. Double immunofluorescence and confocal microscopy showed that mossy terminals of CR-positive (CR(+)) UBCs were immunoreactive for VGLUT1 and VGLUT2, while mossy terminals of mGluR1alpha-positive (mGluR1alpha(+)) UBCs were provided with VGLUT1 only. Moreover, CR(+) dendritic brushes were contacted by mossy terminals provided with both transporters, while mGluR1alpha(+) dendritic brushes were contacted by mossy terminals immunopositive for VGLUT1 and immunonegative for VGLUT2. These data indicate that the two UBC subsets use different modalities of vesicular glutamate storage and form separate networks. We consider it possible that expressions of CR with VGLUT1/VGLUT2 and mGluR1alpha(+) with VGLUT1 in the two subsets of vestibulocerebellar UBCs are determined by specific vestibular inputs, carried by groups of primary and/or secondary vestibular afferents.

Exaggerated inflammatory response after use of recombinant bone morphogenetic protein in recurrent unicameral bone cysts.

PubMed

MacDonald, Kevin M; Swanstrom, Morgan M; McCarthy, James J; Nemeth, Blaise A; Guliani, Teresa A; Noonan, Kenneth J

2010-03-01

Recurrent unicameral bone cysts (UBCs) can result in significant morbidity during a child's physical and emotional development. Multiple treatment options are available and a review of the literature fails to clearly define the optimal treatment for UBCs. Recombinant bone morphogenetic protein (BMP) has been used with success in other disorders of poor bone formation. This manuscript is the first to report on the use of recombinant BMP in the treatment of UBCs. Three patients with recurrent UBCs underwent revision surgery with recombinant BMP. Radiographic and medical review was performed and is reported here. In these patients, the use of BMP failed to fully resolve their UBC; 2 patients had complete recurrence that required further surgery. In addition to poor radiographic results, all patients developed exaggerated inflammatory responses in the acute postoperative period. Each child developed clinically significant limb swelling and pain that mimicked infection. On the basis of our poor radiographic results and a paradoxical clinical result, we no longer recommend the use of recombinant BMP in the manner reported here for the treatment of recurrent UBCs. Level IV, case series.

Unicameral Bone Cysts in the Humerus: Treatment Outcomes.

PubMed

Kadhim, Muayad; Sethi, Samir; Thacker, Mihir M

2016-06-01

Several treatment modalities have been described for the treatment of unicameral bone cysts (UBC). The aim of this study was to examine the outcome of various treatment modalities of UBC in a specific anatomic location, the humerus. This study is a retrospective case-only study of patients with humeral UBC with minimum follow-up of 1 year. Medical records and radiographs were assessed and UBC healing status was determined based on most recent follow-up radiographs and divided into 3 groups (healed, partially healed, and not healed). Descriptive statistics were utilized to summarize study outcome. Sixty-eight patients (54 boys and 14 girls) with humeral UBC comprised the study population. Sixty-four cases (94.1%) presented with a pathologic fracture. Fifty-one cases were in the proximal metaphysis and 17 were in the diaphysis. Mean age at diagnosis was 9.2±3.7 years, and mean follow-up was 4.0±2.6 years. Twenty-five patients were treated with observation, 38 by injection (27 with steroids and 11 with bone marrow), and 5 by open surgery. Patients who underwent open surgery had relatively larger cyst length, width, and cyst index, and all healed or partially healed at last follow-up. UBC persistence was observed in 29% of diaphyseal and 27.5% of metaphyseal cysts. Of the 19 patients with persistence, 8 were treated with observation, 9 with steroid injection, and 2 with bone marrow injection. Inner wall disruption before injection was performed in 17 patients (24% did not heal), whereas 21 patients did not have inner wall disruption (33% did not heal). Twenty patients received >1 injection. Eleven patients complained of pain at the last visit (8 had a persistent cyst, 2 were partially healed, and 1 had a healed UBC). Complete healing of humeral UBC is challenging to achieve irrespective of treatment modality. UBCs treated with open surgery tended to heal better. Unhealed cysts were more likely to be associated with pain. Level III-a retrospective comparative study.

Immobilization of Cu2+ and Cd2+ by earthworm manure derived biochar in acidic circumstance.

PubMed

Wang, Zhanghong; Shen, Fei; Shen, Dekui; Jiang, Yahui; Xiao, Rui

2017-03-01

Earthworm manure, the by-product obtained from the disposing of biowastes by earthworm breeding, is largely produced and employed as a feedstock for biochar preparation through pyrolysis. For repairing acidic soil or acidic electroplating effluent, biochar physicochemical properties would suffer from some changes like an acidic washing process, which hence affected its application functions. Pristine biochar (UBC) from pyrolysis of earthworm manure at 700°C and biochar treated by HCl (WBC) were comparatively investigated regarding their physicochemical properties, adsorption capability and adsorption mechanism of Cu 2+ and Cd 2+ from aqueous solution to explore the immobilization characteristics of biochar in acidic environment. After HCl treatment, the soluble ash content and phenolic-OH in the WBC sample was notably decreased against the increase of the carboxyl CO, aromatic CC and Si-O-Si, compared to that of UBC. All adsorption processes can be well described by Langmuir isotherm model. The calculated maximum adsorption capacity of Cu 2+ and Cd 2+ adsorption on UBC were 36.56 and 29.31mg/g, respectively, which were higher than that of WBC (8.64 and 12.81mg/g, respectively), indicating that HCl treatment significantly decreased biochar adsorption ability. Mechanism analysis revealed that alkali and alkaline earth metallic, salts (carbonates, phosphates and silicates), and surface functional groups were responsible for UBC adsorption, corresponding to ion exchange, precipitation and complexation, respectively. However, ion exchange made little contributions to WBC adsorption due to the great loss of soluble ash content. WBC adsorption was mainly attributed to the abundant exposure of silicates and surface functional groups (carboxyl CO and aromatic CC). Copyright © 2016. Published by Elsevier B.V.

The role of osteoblast cells in the pathogenesis of unicameral bone cysts.

PubMed

Aarvold, Alexander; Smith, James O; Tayton, Edward R; Edwards, Caroline J; Fowler, Darren J; Gent, Edward D; Oreffo, Richard O C

2012-08-01

The pathogenesis of unicameral bone cysts (UBCs) remains largely unknown. Osteoclasts have been implicated, but the role of osteoblastic cells has, to date, not been explored. This study investigated the pathophysiology of UBCs by examining the interactions between the cyst fluid and human bone marrow stromal cells (hBMSCs) and the effect of the fluid on osteogenesis. Fluid was aspirated from two UBCs and analysed for protein, electrolyte and cytokine levels. Graded concentrations of the fluid were used as culture media for hBMSCs to determine the effects of the fluid on hBMSC proliferation and osteogenic differentiation. The fibrocellular lining was analysed histologically and by electron microscopy. Alkaline phosphatase (ALP) staining of hBMSCs that were cultured in cyst fluid demonstrated increased cell proliferation and osteogenic differentiation compared to basal media controls. Biochemical analysis of these hBMSCs compared to basal controls confirmed a marked increase in DNA content (as a marker of proliferation) and ALP activity (as a marker of osteogenic differentiation) which was highly significant (p < 0.001). Osteoclasts were demonstrated in abundance in the cyst lining. The cyst fluid cytokine profile revealed levels of the pro-osteoclast cytokines IL-6, MIP-1α and MCP-1 that were 19×, 31× and 35× greater than those in reference serum. Cyst fluid promoted osteoblastic growth and differentiation. Despite appearing paradoxical that the cyst fluid promoted osteogenesis, osteoblastic cells are required for osteoclastogenesis through RANKL signalling. Three key cytokines in this pathway (IL-6, MIP-1α, MCP-1) were highly elevated in cyst fluid. These findings may hold the key to the pathogenesis of UBCs, with implications for treatment methods.

Comparison of three surgical treatment options for unicameral bone cysts in humerus.

PubMed

Mavčič, Blaž; Saraph, Vinay; Gilg, Magdalena M; Bergovec, Marko; Brecelj, Janez; Leithner, Andreas

2018-04-23

Treatment of unicameral bone cysts (UBC) in the humerus with drainage screws is scarcely reported in the literature. The aim of this retrospective study was to compare drainage screws and alternative treatment methods with respect to the number of required surgical procedures to achieve sufficient UBC healing, postoperative fractures/recurrences/complications, and radiological outcome. Medical archives of two tertiary orthopedic referral centers were screened for all patients who were treated surgically for humeral UBC in the period 1991-2015 with a histologically/cytologically confirmed diagnosis. Sex, age, all surgical procedures, fractures, complications, recurrences, and the final radiological outcome were compared between patients treated with drainage screws, elastic intramedullary nails, or curettage with optional grafting. The study included 106 operated patients with a mean age of 10.3 years, with a mean follow-up of 5.7 years. The average number of UBC-related surgical procedures in sex-matched and age-matched treatment groups was 2.7 with drainage screws, 2.8 with intramedullary nails, and 3.5 with curettage/grafting (P=0.54). Intramedullary nails (odds ratio 0.20) and older age (odds ratio for each year 0.83) predicted a lower risk of postoperative UBC recurrence. Patients with drainage screws had the highest UBC recurrence rates and the lowest rates of changed initial treatment method. There was no difference between the treatment groups in the postoperative fracture rate, complications, or the final radiological outcome. UBC treatment in the humerus therefore requires approximately three surgical procedures, irrespective of the treatment modality chosen. Adding an elastic intramedullary nail to a humeral UBC cyst may reduce recurrence risk and prevent further fractures. Level III - therapeutic retrospective comparative study.

The prognostic value of family history among patients with urinary bladder cancer.

PubMed

Egbers, Lieke; Grotenhuis, Anne J; Aben, Katja K; Alfred Witjes, J; Kiemeney, Lambertus A; Vermeulen, Sita H

2015-03-01

A history of urinary bladder cancer (UBC) in first-degree relatives increases UBC risk by twofold. The influence of positive family history on UBC prognosis is unknown. Here, we investigated association of first-degree UBC family history with clinicopathological characteristics and prognosis of UBC patients. Detailed clinical data of 1,465 non-muscle-invasive bladder cancer (NMIBC) and 250 muscle-invasive or metastatic bladder cancer (MIBC) patients, diagnosed from 1995 to 2010, were collected through medical file review. Competing risk analyses were used to compare recurrence-free survival (RFS) and progression-free survival (PFS) of NMIBC patients according to self-reported UBC family history. Overall survival in MIBC patients was estimated using Kaplan-Meier analysis. The added value of family history in prediction of NMIBC prognosis was quantified with Harrell's concordance-index. Hundred (6.8%) NMIBC and 14 (5.6%) MIBC patients reported UBC in first-degree relatives. Positive family history was statistically significantly associated with smaller tumor size and non-significantly with more favorable distribution of other tumor characteristics. In univariable analyses, positive family history correlated with longer RFS (p = 0.11) and PFS (p = 0.04). Hazard ratios for positive vs. negative family history after adjustment for clinicopathological characteristics were 0.75 (95% CI = 0.53-1.07) and 0.45 (95% CI = 0.18-1.12) for RFS and PFS, respectively. Five familial and 48 sporadic MIBC patients (Kaplan-Meier 10-year risk: 41% and 25%) died within 10 years. Family history did not improve the c-index of prediction models. This study shows that a first-degree family history of UBC is not clearly associated with NMIBC prognosis. Family history does not aid in prediction of NMIBC recurrence or progression. © 2014 The Authors. Published by Wiley Periodicals, Inc. on behalf of UICC.

Modulation of TEL transcription activity by interaction with the ubiquitin-conjugating enzyme UBC9

PubMed Central

Chakrabarti, Subhra Ranjan; Sood, Rashmi; Ganguly, Surajit; Bohlander, Stefan; Shen, Zhiyuan; Nucifora, Giuseppina

1999-01-01

The E-26 transforming specific (ETS)-related gene TEL, also known as ETV6, is involved in a large number of chromosomal rearrangements associated with leukemia and congenital fibrosarcoma. The encoded protein contains two functional domains: a helix–loop–helix (HLH) domain (also known as pointed domain) located at the N terminus and a DNA-binding domain located at the C terminus. The HLH domain is involved in protein–protein interaction with itself and other members of the ETS family of transcription factors such as FLI1. TEL is a transcription factor, and we and others have shown that it is a repressor of gene expression. To understand further the role of TEL in the cell, we have used an in vivo interaction system to identify proteins that interact with TEL. We show that a protein, UBC9, interacts specifically with TEL in vitro and in vivo. UBC9 is a member of the family of ubiquitin-conjugating enzymes. These enzymes usually are involved in proteosome-mediated degradation; however, our data suggest that interaction of TEL with UBC9 does not lead to TEL degradation. Our studies show that UBC9 binds to TEL exclusively through the HLH domain of TEL. We also show that TEL expressed as fusion to the DNA-binding domain of Gal4 completely represses a Gal4-responsive promoter, but that the coexpression of UBC9 in the same system restores the activity of the promoter. Targeted point mutation of conserved amino acids in UBC9 essential for enzymatic ubiquitination of proteins does not affect interaction nor transcriptional activity. Based on our data, we conclude that UBC9 physically interacts with TEL through the HLH domain and that the interaction leads to modulation of the transcription activity of TEL. PMID:10377438

Genome-wide association study yields variants at 20p12.2 that associate with urinary bladder cancer.

PubMed

Rafnar, Thorunn; Sulem, Patrick; Thorleifsson, Gudmar; Vermeulen, Sita H; Helgason, Hannes; Saemundsdottir, Jona; Gudjonsson, Sigurjon A; Sigurdsson, Asgeir; Stacey, Simon N; Gudmundsson, Julius; Johannsdottir, Hrefna; Alexiusdottir, Kristin; Petursdottir, Vigdis; Nikulasson, Sigfus; Geirsson, Gudmundur; Jonsson, Thorvaldur; Aben, Katja K H; Grotenhuis, Anne J; Verhaegh, Gerald W; Dudek, Aleksandra M; Witjes, J Alfred; van der Heijden, Antoine G; Vrieling, Alina; Galesloot, Tessel E; De Juan, Ana; Panadero, Angeles; Rivera, Fernando; Hurst, Carolyn; Bishop, D Timothy; Sak, Sei C; Choudhury, Ananya; Teo, Mark T W; Arici, Cecilia; Carta, Angela; Toninelli, Elena; de Verdier, Petra; Rudnai, Peter; Gurzau, Eugene; Koppova, Kvetoslava; van der Keur, Kirstin A; Lurkin, Irene; Goossens, Mieke; Kellen, Eliane; Guarrera, Simonetta; Russo, Alessia; Critelli, Rossana; Sacerdote, Carlotta; Vineis, Paolo; Krucker, Clémentine; Zeegers, Maurice P; Gerullis, Holger; Ovsiannikov, Daniel; Volkert, Frank; Hengstler, Jan G; Selinski, Silvia; Magnusson, Olafur T; Masson, Gisli; Kong, Augustine; Gudbjartsson, Daniel; Lindblom, Annika; Zwarthoff, Ellen; Porru, Stefano; Golka, Klaus; Buntinx, Frank; Matullo, Giuseppe; Kumar, Rajiv; Mayordomo, José I; Steineck, D Gunnar; Kiltie, Anne E; Jonsson, Eirikur; Radvanyi, François; Knowles, Margaret A; Thorsteinsdottir, Unnur; Kiemeney, Lambertus A; Stefansson, Kari

2014-10-15

Genome-wide association studies (GWAS) of urinary bladder cancer (UBC) have yielded common variants at 12 loci that associate with risk of the disease. We report here the results of a GWAS of UBC including 1670 UBC cases and 90 180 controls, followed by replication analysis in additional 5266 UBC cases and 10 456 controls. We tested a dataset containing 34.2 million variants, generated by imputation based on whole-genome sequencing of 2230 Icelanders. Several correlated variants at 20p12, represented by rs62185668, show genome-wide significant association with UBC after combining discovery and replication results (OR = 1.19, P = 1.5 × 10(-11) for rs62185668-A, minor allele frequency = 23.6%). The variants are located in a non-coding region approximately 300 kb upstream from the JAG1 gene, an important component of the Notch signaling pathways that may be oncogenic or tumor suppressive in several forms of cancer. Our results add to the growing number of UBC risk variants discovered through GWAS. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Unique blood culture for diagnosis of bloodstream infections in emergency departments: a prospective multicentre study.

PubMed

Dargère, S; Parienti, J-J; Roupie, E; Gancel, P-E; Wiel, E; Smaiti, N; Loiez, C; Joly, L-M; Lemée, L; Pestel-Caron, M; du Cheyron, D; Verdon, R; Leclercq, R; Cattoir, V

2014-11-01

Detection of microorganisms by blood cultures (BCs) is essential in managing patients with bacteraemia. Rather than the number of punctures, the volume of blood drawn is considered paramount in efficient and reliable detection of microorganisms. We performed a 1-year prospective multicentre study in adult emergency departments of three French university hospitals comparing two methods for BCs: a unique blood culture (UBC) collecting a large volume of blood (40 mL) and the standard method of multiple blood cultures (MBC). The performances of both methods for bacterial contamination and efficient microbial detection were compared, each patient serving as his own control. Amongst the 2314 patients included, three hundred were positive for pathogens (n=245) or contaminants (n=55). Out of the 245 patients, 11 were positive for pathogens by UBC but negative by MBC and seven negative by UBC but positive by MBC (p 0.480). In the subgroup of 137 patients with only two BCs, UBC was superior to MBC (p 0.044). Seven and 17 patients had contaminated BCs by UBC and MBC only, respectively (p 0.062). Considering the sums of pathogens missed and contaminants, UBC significantly outperformed MBC (p 0.045). Considering the complete picture of cost savings, efficient detection of microorganisms and decrease in contaminations, UBC offers an interesting alternative to MBC. © 2014 The Authors Clinical Microbiology and Infection © 2014 European Society of Clinical Microbiology and Infectious Diseases.

2013 Alan Blizzard Award Feature Article--Enriching Educational Experiences through UBC's First Year Seminar in Science (SCIE113)

ERIC Educational Resources Information Center

Fox, Joanne; Birol, Gülnur; Han, Andrea; Cassidy, Alice; Nakonechny, Joanne; Berger, Jim; Peacock, Simon; Samuels, Lacey

2014-01-01

The First Year Seminar in Science (SCIE113) was developed during 2009/2010 academic year through an exemplary collaboration between faculty, administrators and educational support staff in the Faculty of Science at the University of British Columbia (UBC). SCIE113 reflects the vision and values of the Faculty of Science and UBC by offering an…

Undocumented Border Crosser Deaths in Arizona: Expanding Intrastate Collaborative Efforts in Identification.

PubMed

Fleischman, Julie M; Kendell, Ashley E; Eggers, Christen C; Fulginiti, Laura C

2017-07-01

Undocumented Border Crosser (UBC) deaths in Arizona are a major issue faced by medicolegal authorities. Currently, the Maricopa County Office of the Medical Examiner (MCOME) is in possession of over two hundred unidentified individuals, more than half of whom are presumed to be UBCs. The primary goal of this study was to address the growing number of UBC deaths in Maricopa County in order to provide a more comprehensive picture of this important anthropological issue within the state of Arizona. Of the 107 total UBC cases evaluated for the study, the majority were male and age estimates for all individuals were between 15 to 60 years old. Modeled after the recording system established by the Pima County Office of the Medical Examiner, the biographic and geographic data for these cases were entered into a new UBC database at MCOME and later added to the online Map of Migrant Mortality. © 2017 American Academy of Forensic Sciences.

Leucettamol A: a new inhibitor of Ubc13-Uev1A interaction isolated from a marine sponge, Leucetta aff. microrhaphis.

PubMed

Tsukamoto, Sachiko; Takeuchi, Tomoharu; Rotinsulu, Henki; Mangindaan, Remy E P; van Soest, Rob W M; Ukai, Kazuyo; Kobayashi, Hisayoshi; Namikoshi, Michio; Ohta, Tomihisa; Yokosawa, Hideyoshi

2008-12-15

A compound that inhibits the formation of a complex composed of the ubiquitin E2 enzyme Ubc13 and Uev1A was isolated from the marine sponge Leucetta aff. microrhaphis. The compound was identified as leucettamol A (1) by spectroscopic analysis. Its inhibition of Ubc13-Uev1A interaction was tested by the ELISA method, revealing an IC(50) value of 50 microg/mL. The compound is the first inhibitor of Ubc13-Uev1A interaction, that is, that of the E2 activity of Ubc13. Such inhibitors are presumed to be leads for anti-cancer agents that upregulate activity of the tumor suppressor p53 protein. Interestingly, hydrogenation of 1 increased its inhibitory activity with an IC(50) value of 4 microg/mL, while its tetraacetate derivative was inactive, indicating that the hydroxy and/or amino groups of 1 are required for the inhibition.

Cellular Ubc2/Rad6 E2 ubiquitin-conjugating enzyme facilitates tombusvirus replication in yeast and plants

DOE Office of Scientific and Technical Information (OSTI.GOV)

Imura, Yoshiyuki, E-mail: imura@brs.nihon-u.ac.jp; Molho, Melissa; Chuang, Chingkai

Mono- and multi-ubiquitination alters the functions and subcellular localization of many cellular and viral proteins. Viruses can co-opt or actively manipulate the ubiquitin network to support viral processes or suppress innate immunity. Using yeast (Saccharomyces cerevisiae) model host, we show that the yeast Rad6p (radiation sensitive 6) E2 ubiquitin-conjugating enzyme and its plant ortholog, AtUbc2, interact with two tombusviral replication proteins and these E2 ubiquitin-conjugating enzymes could be co-purified with the tombusvirus replicase. We demonstrate that TBSV RNA replication and the mono- and bi-ubiquitination level of p33 is decreased in rad6Δ yeast. However, plasmid-based expression of AtUbc2p could complement bothmore » defects in rad6Δ yeast. Knockdown of UBC2 expression in plants also decreases tombusvirus accumulation and reduces symptom severity, suggesting that Ubc2p is critical for virus replication in plants. We provide evidence that Rad6p is involved in promoting the subversion of Vps23p and Vps4p ESCRT proteins for viral replicase complex assembly. - Highlights: • Tombusvirus p33 replication protein interacts with cellular RAD6/Ubc2 E2 enzymes. • Deletion of RAD6 reduces tombusvirus replication in yeast. • Silencing of UBC2 in plants inhibits tombusvirus replication. • Mono- and bi-ubiquitination of p33 replication protein in yeast and in vitro. • Rad6p promotes the recruitment of cellular ESCRT proteins into the tombusvirus replicase.« less

The type 2 dengue virus envelope protein interacts with small ubiquitin-like modifier-1 (SUMO-1) conjugating enzyme 9 (Ubc9).

PubMed

Chiu, Mei-Wui; Shih, Hsiu-Ming; Yang, Tsung-Han; Yang, Yun-Liang

2007-05-01

Dengue viruses are mosquito-borne flaviviruses and may cause the life-threatening dengue hemorrhagic fever and dengue shock syndrome. Its envelope protein is responsible mainly for the virus attachment and entry to host cells. To identify the human cellular proteins interacting with the envelope protein of dengue virus serotype 2 inside host cells, we have performed a screening with the yeast-two-hybrid-based "Functional Yeast Array". Interestingly, the small ubiquitin-like modifier-1 conjugating enzyme 9 protein, modulating cellular processes such as those regulating signal transduction and cell growth, was one of the candidates interacting with the dengue virus envelope protein. With co-precipitation assay, we have demonstrated that it indeed could interact directly with the Ubc9 protein. Site-directed mutagenesis has demonstrated that Ubc9 might interact with the E protein via amino acid residues K51 and K241. Furthermore, immunofluorescence microscopy has shown that the DV2E-EGFP proteins tended to progress toward the nuclear membrane and co-localized with Flag-Ubc9 proteins around the nuclear membrane in the cytoplasmic side, and DV2E-EGFP also shifted the distribution of Flag-Ubc9 from evenly in the nucleus toward concentrating around the nuclear membrane in the nucleic side. In addition, over-expression of Ubc9 could reduce the plaque formation of the dengue virus in mammalian cells. This is the first report that DV envelope proteins can interact with the protein of sumoylation system and Ubc9 may involve in the host defense system to prevent virus propagation.

RING-type ubiquitin ligase McCPN1 catalyzes UBC8-dependent protein ubiquitination and interacts with Argonaute 4 in halophyte ice plant.

PubMed

Li, Chang-Hua; Chiang, Chih-Pin; Yang, Jun-Yi; Ma, Chia-Jou; Chen, Yu-Chan; Yen, Hungchen Emilie

2014-07-01

RING-type copines are a small family of plant-specific RING-type ubiquitin ligases. They contain an N-terminal myristoylation site for membrane anchoring, a central copine domain for substrate recognition, and a C-terminal RING domain for E2 docking. RING-type copine McCPN1 (copine1) from halophyte ice plant (Mesembryanthemum crystallinum L.) was previously identified from a salt-induced cDNA library. In this work, we characterize the activity, expression, and localization of McCPN1 in ice plant. An in vitro ubiquitination assay of McCPN1 was performed using two ice plant UBCs, McUBC1 and McUBC2, characterized from the same salt-induced cDNA library. The results showed that McUBC2, a member of the UBC8 family, stimulated the autoubiquitination activity of McCPN1, while McUBC1, a homolog of the UBC35 family, did not. The results indicate that McCPN1 has selective E2-dependent E3 ligase activity. We found that McCPN1 localizes primarily on the plasma membrane and in the nucleus of plant cells. Under salt stress, the accumulation of McCPN1 in the roots increases. A yeast two-hybrid screen was used to search for potential McCPN1-interacting partners using a library constructed from salt-stressed ice plants. Screening with full-length McCPN1 identified several independent clones containing partial Argonaute 4 (AGO4) sequence. Subsequent agro-infiltration, protoplast two-hybrid analysis, and bimolecular fluorescence complementation assay confirmed that McCPN1 and AGO4 interacted in vivo in the nucleus of plant cells. The possible involvement of a catalyzed degradation of AGO4 by McCPN1 in response to salt stress is discussed. Copyright © 2014 Elsevier Masson SAS. All rights reserved.

The Role of Lymphangiogenesis in Orthotopic Prostatic Tumor-Environment on Regional and Systemic Metastasis

DTIC Science & Technology

2008-01-01

expressing Renilla luciferase and VEGF-C shRNA or irrelevant firefly luciferase shRNA (Ctrl) were implanted orthotopically as before. To determine the...on metastasis in Pten knockout model (Month 10-24): a) Generate Ubc/sVEGFR-3 and Ubc/ Renilla luciferase (RL) lentiviral vectors by subcloning...progression (month 10-12) c) Monitor efficiency of Ubc/lentiviral transduction and expression in Pten (-/-) prostate using optical imaging of Renilla

The ubiquitin conjugating enzyme UbcH10 competes with UbcH3 for binding to the SCF complex, a ubiquitin ligase involved in cell cycle progression

USDA-ARS?s Scientific Manuscript database

Ubiquitylation, which regulates most biological pathways, occurs through an enzymatic cascade involving a ubiquitin (ub) activating enzyme (E1), a ub conjugating enzyme (E2) and a ub ligase (E3). UbcH3 is the E2 that interacts with SCF (Skp1/Cul1/F-box protein) complex and ubiquitylates many protein...

Case report: unicameral bone cysts in a young patient with acquired generalized lipodystrophy.

PubMed

Gregory, James M; Arkader, Alexandre; Bokhari, Aqiba; Bothari, Aqiba; Dormans, John P

2010-05-01

We report the case of a 13-year-old boy with bilateral distal femoral unicameral bone cysts (UBCs) associated with acquired generalized lipodystrophy. As opposed to congenital generalized lipodystrophy, cystic bone lesions in acquired generalized lipodystrophy are rare. After radiographic and histologic confirmation of the UBCs, we performed percutaneous intramedullary decompression, curettage, and grafting. UBCs can be an important manifestation of acquired generalized lipodystrophy. Cystic bone lesions appear to be less common in acquired generalized lipodystrophy than in congenital generalized lipodystrophy, and intramedullary adipose tissue loss may be a predisposing factor for the development of bone lesions in patients with acquired generalized lipodystrophy. When evaluating a patient with lipodystrophy, doctors should recognize the clinical course may include the development of UBCs.

Protein Substrate Discrimination in the Quiescin-sulfhydryl Oxidase (QSOX) Family†

PubMed Central

Codding, Jennifer A.; Israel, Benjamin A.; Thorpe, Colin

2012-01-01

This work explores the substrate specificity of the Quiescin-sulfhydryl oxidase (QSOX) family of disulfide-generating flavoenzymes to provide enzymological context for investigation of the physiological roles of these facile catalysts of oxidative protein folding. QSOX enzymes are generally unable to form disulfide bonds within well-structured proteins. Use of a temperature-sensitive mutant of ubiquitin-conjugating enzyme 4 (Ubc4′) as a model substrate shows that QSOX activity correlates with the unfolding of Ubc4′ monitored by circular dichroism. Fusion of Ubc4′ with the more stable glutathione-S-transferase domain demonstrates that QSOX can selectively introduce disulfides into the less stable domain of the fusion protein. In terms of intermolecular disulfide bond generation, QSOX is unable to crosslink well-folded globular proteins via their surface thiols. However, the construction of a septuple mutant of RNase A, retaining a single cysteine residue, demonstrates that flexible protein monomers can be directly coupled by the oxidase. Steady- and pre-steady state kinetic experiments, combined with static fluorescence approaches, indicate that while QSOX is an efficient catalyst for disulfide bond formation between mobile elements of structure, it does not appear to have a significant binding site for unfolded proteins. These aspects of protein substrate discrimination by QSOX family members are rationalized in terms of the stringent steric requirements for disulfide exchange reactions. PMID:22582951

Treatment of unicameral bone cyst: systematic review and meta analysis.

PubMed

Kadhim, Muayad; Thacker, Mihir; Kadhim, Amjed; Holmes, Laurens

2014-03-01

Different treatment modalities have been utilized to treat unicameral bone cyst (UBC), but evidence has not been fully described to support one treatment over another and the optimal treatment is controversial. The aim of this quantitative systematic review was to assess the effectiveness of different UBC treatment modalities. We utilized Pubmed to isolate retrospective studies on patients with UBC who received any kind of treatment. The included studies needed to have a minimum sample size of 15 patients, and have provided data on radiographic healing outcome. Sixty-two articles were selected for the meta-analysis from a total of 463 articles. The cumulative sample size was 3,211 patients with 3,217 UBC, and male to female ratio was 2.2:1. The summary or pool estimate of methylprednisolone acetate (MPA) injection resulted in a healing rate of (77.4 %) that was comparable to bone marrow injection (77.9 %). A higher healing rate was observed with MPA injection when inner wall disruption was performed. The pool estimate of bone marrow with demineralized bone matrix injection was high (98.7 %). UBC healing rate after surgical curettage was comparable whether autograft or allograft was utilized (90 %). UBC treatment with flexible intramedullary nails without curettage provided almost 100% healing rate, while continuous decompression with cannulated screws provided 89 % healing rate. Conservative treatment indicated a healing rate of 64.2, 95 % CI (26.7-101.8). Active treatment for UBC provided variable healing rates and the outcomes were favorable relative to conservative treatment. Due to the heterogeneity of the studies and reporting bias, the interpretation of these findings should be handled with caution.

Genome-Wide Identification, Phylogenetic and Expression Analyses of the Ubiquitin-Conjugating Enzyme Gene Family in Maize.

PubMed

Jue, Dengwei; Sang, Xuelian; Lu, Shengqiao; Dong, Chen; Zhao, Qiufang; Chen, Hongliang; Jia, Liqiang

2015-01-01

Ubiquitination is a post-translation modification where ubiquitin is attached to a substrate. Ubiquitin-conjugating enzymes (E2s) play a major role in the ubiquitin transfer pathway, as well as a variety of functions in plant biological processes. To date, no genome-wide characterization of this gene family has been conducted in maize (Zea mays). In the present study, a total of 75 putative ZmUBC genes have been identified and located in the maize genome. Phylogenetic analysis revealed that ZmUBC proteins could be divided into 15 subfamilies, which include 13 ubiquitin-conjugating enzymes (ZmE2s) and two independent ubiquitin-conjugating enzyme variant (UEV) groups. The predicted ZmUBC genes were distributed across 10 chromosomes at different densities. In addition, analysis of exon-intron junctions and sequence motifs in each candidate gene has revealed high levels of conservation within and between phylogenetic groups. Tissue expression analysis indicated that most ZmUBC genes were expressed in at least one of the tissues, indicating that these are involved in various physiological and developmental processes in maize. Moreover, expression profile analyses of ZmUBC genes under different stress treatments (4°C, 20% PEG6000, and 200 mM NaCl) and various expression patterns indicated that these may play crucial roles in the response of plants to stress. Genome-wide identification, chromosome organization, gene structure, evolutionary and expression analyses of ZmUBC genes have facilitated in the characterization of this gene family, as well as determined its potential involvement in growth, development, and stress responses. This study provides valuable information for better understanding the classification and putative functions of the UBC-encoding genes of maize.

Genome-Wide Identification, Phylogenetic and Expression Analyses of the Ubiquitin-Conjugating Enzyme Gene Family in Maize

PubMed Central

Jue, Dengwei; Sang, Xuelian; Lu, Shengqiao; Dong, Chen; Zhao, Qiufang; Chen, Hongliang; Jia, Liqiang

2015-01-01

Background Ubiquitination is a post-translation modification where ubiquitin is attached to a substrate. Ubiquitin-conjugating enzymes (E2s) play a major role in the ubiquitin transfer pathway, as well as a variety of functions in plant biological processes. To date, no genome-wide characterization of this gene family has been conducted in maize (Zea mays). Methodology/Principal Findings In the present study, a total of 75 putative ZmUBC genes have been identified and located in the maize genome. Phylogenetic analysis revealed that ZmUBC proteins could be divided into 15 subfamilies, which include 13 ubiquitin-conjugating enzymes (ZmE2s) and two independent ubiquitin-conjugating enzyme variant (UEV) groups. The predicted ZmUBC genes were distributed across 10 chromosomes at different densities. In addition, analysis of exon-intron junctions and sequence motifs in each candidate gene has revealed high levels of conservation within and between phylogenetic groups. Tissue expression analysis indicated that most ZmUBC genes were expressed in at least one of the tissues, indicating that these are involved in various physiological and developmental processes in maize. Moreover, expression profile analyses of ZmUBC genes under different stress treatments (4°C, 20% PEG6000, and 200 mM NaCl) and various expression patterns indicated that these may play crucial roles in the response of plants to stress. Conclusions Genome-wide identification, chromosome organization, gene structure, evolutionary and expression analyses of ZmUBC genes have facilitated in the characterization of this gene family, as well as determined its potential involvement in growth, development, and stress responses. This study provides valuable information for better understanding the classification and putative functions of the UBC-encoding genes of maize. PMID:26606743

Structural model of the hUbA1-UbcH10 quaternary complex: in silico and experimental analysis of the protein-protein interactions between E1, E2 and ubiquitin.

PubMed

Correale, Stefania; de Paola, Ivan; Morgillo, Carmine Marco; Federico, Antonella; Zaccaro, Laura; Pallante, Pierlorenzo; Galeone, Aldo; Fusco, Alfredo; Pedone, Emilia; Luque, F Javier; Catalanotti, Bruno

2014-01-01

UbcH10 is a component of the Ubiquitin Conjugation Enzymes (Ubc; E2) involved in the ubiquitination cascade controlling the cell cycle progression, whereby ubiquitin, activated by E1, is transferred through E2 to the target protein with the involvement of E3 enzymes. In this work we propose the first three dimensional model of the tetrameric complex formed by the human UbA1 (E1), two ubiquitin molecules and UbcH10 (E2), leading to the transthiolation reaction. The 3D model was built up by using an experimentally guided incremental docking strategy that combined homology modeling, protein-protein docking and refinement by means of molecular dynamics simulations. The structural features of the in silico model allowed us to identify the regions that mediate the recognition between the interacting proteins, revealing the active role of the ubiquitin crosslinked to E1 in the complex formation. Finally, the role of these regions involved in the E1-E2 binding was validated by designing short peptides that specifically interfere with the binding of UbcH10, thus supporting the reliability of the proposed model and representing valuable scaffolds for the design of peptidomimetic compounds that can bind selectively to Ubcs and inhibit the ubiquitylation process in pathological disorders.

Unicameral (simple) and aneurysmal bone cysts: the effect of insufficient curettage on recurrence.

PubMed

Çelik, Suat; Uludağ, Abuzer; Tosun, Hacı Bayram; Serbest, Sancar; Gürger, Murat; Kılıç, Sabahattin

2016-01-01

Curettage of the cyst and bone grafting are the most common methods used in the treatment of unicameral bone cysts (UBC) and aneurysmal bone cysts (ABC). Recurrence of these cysts is often associated with insufficient curettage of the cyst during surgery. In this study, we aimed to evaluate the effect of insufficient curettage on recurrence in patients with UBC and ABC. The retrospective study included 18 patients with UBC and 14 patients with ABC that were surgically treated by curettage and bone grafting in our clinic between 2006-2013. Mean age was 19.80 (range, 4-50) years in the patients with UBC and 21.76 (range, 4-56) in the patients with ABC. The diagnosis of the cysts was established both clinically and radiologically. Mean follow-up period was 36 (range, 6-60) months both in the patients with UBC and ABC. The patients with recurrence underwent a second curettage and grafting procedure. Healing and recurrence were evaluated according to modified Neer's scale. Recurrence occurred in 8 patients. Of these, 5 patients underwent a second curettage and grafting procedure and 3 patients were lost to follow-up. Complete healing occurred in all the patients that underwent a second curettage and grafting procedure. The achievement of complete healing in the patients that underwent a second curettage and grafting procedure indicates that the recurrence of UBC and ABC is associated with insufficient curettage.

Unicameral Bone Cyst in the Calcaneus of Mirror Image Twins.

PubMed

Lenze, Ulrich; Stolberg-Stolberg, Josef; Pohlig, Florian; Lenze, Florian; von Eisenhart-Rothe, Rüdiger; Rechl, Hans; Toepfer, Andreas

2015-01-01

Unicameral bone cysts (UBCs) are benign tumor-like lesions that commonly occur in the diaphyseal or metaphyseal region of the long bones within the first 2 decades of life. Until today, the pathogenesis of UBC has been unclear, but mechanisms such as vascular occlusion or a response to trauma have been supposed. During the past decade, in particular, the genetic aspects of the development of this rare lesion have been discussed. We present the first case of mirror image monozygotic twins with a mirror image UBC of the calcaneus. Our findings reinforce the importance of additional studies to understand the significance of cytogenetic factors in the etiology of UBC. Copyright © 2015 American College of Foot and Ankle Surgeons. Published by Elsevier Inc. All rights reserved.

Case Report: Unicameral Bone Cysts in a Young Patient with Acquired Generalized Lipodystrophy

PubMed Central

Gregory, James M.; Arkader, Alexandre; Bothari, Aqiba

2009-01-01

We report the case of a 13-year-old boy with bilateral distal femoral unicameral bone cysts (UBCs) associated with acquired generalized lipodystrophy. As opposed to congenital generalized lipodystrophy, cystic bone lesions in acquired generalized lipodystrophy are rare. After radiographic and histologic confirmation of the UBCs, we performed percutaneous intramedullary decompression, curettage, and grafting. UBCs can be an important manifestation of acquired generalized lipodystrophy. Cystic bone lesions appear to be less common in acquired generalized lipodystrophy than in congenital generalized lipodystrophy, and intramedullary adipose tissue loss may be a predisposing factor for the development of bone lesions in patients with acquired generalized lipodystrophy. When evaluating a patient with lipodystrophy, doctors should recognize the clinical course may include the development of UBCs. PMID:19924491

SUMOylation pathway alteration coupled with downregulation of SUMO E2 enzyme at mucosal epithelium modulates inflammation in inflammatory bowel disease

PubMed Central

Mustfa, Salman Ahmad; Singh, Mukesh; Suhail, Aamir; Mohapatra, Gayatree; Verma, Smriti; Chakravorty, Debangana; Rana, Sarika; Rampal, Ritika; Dhar, Atika; Saha, Sudipto; Ahuja, Vineet

2017-01-01

Post-translational modification pathways such as SUMOylation are integral to all cellular processes and tissue homeostasis. We investigated the possible involvement of SUMOylation in the epithelial signalling in Crohn's disease (CD) and ulcerative colitis (UC), the two major forms of inflammatory bowel disease (IBD). Initially in a murine model of IBD, induced by dextran–sulfate–sodium (DSS mice), we observed inflammation accompanied by a lowering of global SUMOylation of colonic epithelium. The observed SUMOylation alteration was due to a decrease in the sole SUMO E2 enzyme (Ubc9). Mass-spectrometric analysis revealed the existence of a distinct SUMOylome (SUMO-conjugated proteome) in DSS mice with alteration of key cellular regulators, including master kinase Akt1. Knocking-down of Ubc9 in epithelial cells resulted in dramatic activation of inflammatory gene expression, a phenomenon that acted via reduction in Akt1 and its SUMOylated form. Importantly, a strong decrease in Ubc9 and Akt1 was also seen in endoscopic biopsy samples (N = 66) of human CD and UC patients. Furthermore, patients with maximum disease indices were always accompanied by severely lowered Ubc9 or SUMOylated-Akt1. Mucosal tissues with severely compromised Ubc9 function displayed higher levels of pro-inflammatory cytokines and compromised wound-healing markers. Thus, our results reveal an important and previously undescribed role for the SUMOylation pathway involving Ubc9 and Akt1 in modulation of epithelial inflammatory signalling in IBD. PMID:28659381

Unicameral (simple) and aneurysmal bone cysts: the effect of insufficient curettage on recurrence

PubMed Central

Çelik, Suat; Uludağ, Abuzer; Tosun, Hacı Bayram; Serbest, Sancar; Gürger, Murat; Kılıç, Sabahattin

2016-01-01

Introduction Curettage of the cyst and bone grafting are the most common methods used in the treatment of unicameral bone cysts (UBC) and aneurysmal bone cysts (ABC). Recurrence of these cysts is often associated with insufficient curettage of the cyst during surgery. In this study, we aimed to evaluate the effect of insufficient curettage on recurrence in patients with UBC and ABC. Methods The retrospective study included 18 patients with UBC and 14 patients with ABC that were surgically treated by curettage and bone grafting in our clinic between 2006-2013. Mean age was 19.80 (range, 4-50) years in the patients with UBC and 21.76 (range, 4-56) in the patients with ABC. The diagnosis of the cysts was established both clinically and radiologically. Mean follow-up period was 36 (range, 6-60) months both in the patients with UBC and ABC. The patients with recurrence underwent a second curettage and grafting procedure. Healing and recurrence were evaluated according to modified Neer's scale. Results Recurrence occurred in 8 patients. Of these, 5 patients underwent a second curettage and grafting procedure and 3 patients were lost to follow-up. Complete healing occurred in all the patients that underwent a second curettage and grafting procedure. Conclusion The achievement of complete healing in the patients that underwent a second curettage and grafting procedure indicates that the recurrence of UBC and ABC is associated with insufficient curettage. PMID:28154666

Identification of novel potential genetic predictors of urothelial bladder carcinoma susceptibility in Pakistani population.

PubMed

Ali, Syeda Hafiza Benish; Bangash, Kashif Sardar; Rauf, Abdur; Younis, Muhammad; Anwar, Khursheed; Khurram, Raja; Khawaja, Muhammad Athar; Azam, Maleeha; Qureshi, Abid Ali; Akhter, Saeed; Kiemeney, Lambertus A; Qamar, Raheel

2017-10-01

Urothelial bladder carcinoma (UBC) is the most common among urinary bladder neoplasms. We carried out a preliminary study to determine the genetic etiology of UBC in Pakistani population, for this 25 sequence variants from 17 candidate genes were studied in 400 individuals by using polymerase chain reaction-based techniques. Multivariate logistic regression analysis was performed for association analysis of the overall data as well as the data stratified by smoking status, tumor grade and tumor stage. Variants of GSTM1, IGFBP3, LEPR and ACE were found to be associated with altered UBC risk in the overall comparison. CYP1B1 and CDKN1A variants displayed a risk modulation among smokers; IGFBP3 and LEPR variants among non-smokers while GSTM1 polymorphism exhibited association with both. GSTM1 and LEPR variants conferred an altered susceptibility to low grade UBC; GSTT1, IGFBP3 and PPARG variants to high grade UBC while ACE polymorphism to both grades. GSTM1 and LEPR variants exhibited risk modulation for non-muscle-invasive bladder cancer (NMIBC); GSTT1 and PPARG variants for muscle-invasive bladder cancer (MIBC), and ACE variant for NMIBC as well as MIBC. In general, the susceptibility markers were common for low grade and NMIBC; and distinct from those for high grade and MIBC indicating the distinct pathologies of both groups. In brief, our results conform to reports of previously associated variants in addition to identifying novel potential genetic predictors of UBC susceptibility.

A comparison of IBC with 1997 UBC for modal response spectrum analysis in standard-occupancy buildings

NASA Astrophysics Data System (ADS)

Nahhas, Tariq M.

2011-03-01

This paper presents a comparison of the seismic forces generated from a Modal Response Spectrum Analysis (MRSA) by applying the provisions of two building codes, the 1997 Uniform Building Code (UBC) and the 2000-2009 International Building Code (IBC), to the most common ordinary residential buildings of standard occupancy. Considering IBC as the state of the art benchmark code, the primary concern is the safety of buildings designed using the UBC as compared to those designed using the IBC. A sample of four buildings with different layouts and heights was used for this comparison. Each of these buildings was assumed to be located at four different geographical sample locations arbitrarily selected to represent various earthquake zones on a seismic map of the USA, and was subjected to code-compliant response spectrum analyses for all sample locations and for five different soil types at each location. Response spectrum analysis was performed using the ETABS software package. For all the cases investigated, the UBC was found to be significantly more conservative than the IBC. The UBC design response spectra have higher spectral accelerations, and as a result, the response spectrum analysis provided a much higher base shear and moment in the structural members as compared to the IBC. The conclusion is that ordinary office and residential buildings designed using UBC 1997 are considered to be overdesigned, and therefore they are quite safe even according to the IBC provisions.

Insights into Igneous Geochemistry from Trace Element Partitioning

NASA Technical Reports Server (NTRS)

Jones, J. H.; Hanson, B. Z.

2001-01-01

Partitioning of trivalent elements into olivine are used to explore basic issues relevant to igneous geochemistry, such as Henry's law. Additional information is contained in the original extended abstract.

Clinical factors affecting pathological fracture and healing of unicameral bone cysts

PubMed Central

2014-01-01

Background Unicameral bone cyst (UBC) is the most common benign lytic bone lesion seen in children. The aim of this study is to investigate clinical factors affecting pathological fracture and healing of UBC. Methods We retrospectively reviewed 155 UBC patients who consulted Nagoya musculoskeletal oncology group hospitals in Japan. Sixty of the 155 patients had pathological fracture at presentation. Of 141 patients with follow-up periods exceeding 6 months, 77 were followed conservatively and 64 treated by surgery. Results The fracture risk was significantly higher in the humerus than other bones. In multivariate analysis, ballooning of bone, cyst in long bone, male sex, thin cortical thickness and multilocular cyst were significant adverse prognostic factors for pathological fractures at presentation. The healing rates were 30% and 83% with observation and surgery, respectively. Multivariate analysis revealed that fracture at presentation and history of biopsy were good prognostic factors for healing of UBC in patients under observation. Conclusion The present results suggest that mechanical disruption of UBC such as fracture and biopsy promotes healing, and thus watchful waiting is indicated in these patients, whereas patients with poor prognostic factors for fractures should be considered for surgery. PMID:24884661

Clinical factors affecting pathological fracture and healing of unicameral bone cysts.

PubMed

Urakawa, Hiroshi; Tsukushi, Satoshi; Hosono, Kozo; Sugiura, Hideshi; Yamada, Kenji; Yamada, Yoshihisa; Kozawa, Eiji; Arai, Eisuke; Futamura, Naohisa; Ishiguro, Naoki; Nishida, Yoshihiro

2014-05-17

Unicameral bone cyst (UBC) is the most common benign lytic bone lesion seen in children. The aim of this study is to investigate clinical factors affecting pathological fracture and healing of UBC. We retrospectively reviewed 155 UBC patients who consulted Nagoya musculoskeletal oncology group hospitals in Japan. Sixty of the 155 patients had pathological fracture at presentation. Of 141 patients with follow-up periods exceeding 6 months, 77 were followed conservatively and 64 treated by surgery. The fracture risk was significantly higher in the humerus than other bones. In multivariate analysis, ballooning of bone, cyst in long bone, male sex, thin cortical thickness and multilocular cyst were significant adverse prognostic factors for pathological fractures at presentation. The healing rates were 30% and 83% with observation and surgery, respectively. Multivariate analysis revealed that fracture at presentation and history of biopsy were good prognostic factors for healing of UBC in patients under observation. The present results suggest that mechanical disruption of UBC such as fracture and biopsy promotes healing, and thus watchful waiting is indicated in these patients, whereas patients with poor prognostic factors for fractures should be considered for surgery.

Controversial roles played by toll like receptor 4 in urinary bladder cancer; A systematic review.

PubMed

Afsharimoghaddam, Amin; Soleimani, Mohammad; Lashay, Alireza; Dehghani, Mahdi; Sepehri, Zahra

2016-08-01

Urinary bladder cancer (UBC) is a prevalent human cancer. The main mechanisms which lead to eradication or progression the disease has yet to be clarified. Toll like receptor (TLR) 4 is a membrane receptor which is expressed either on immune cells or tumor cells. This review article was aimed to clear the main mechanisms played by TLR4 and its related intracellular pathways on outcome of UBC. PubMed, Scopus and Google scholar databases have been used for searching related research articles which have evaluated the roles played by TLR4 and its related intracellular pathways on outcome of UBC. Collected information from the related articles revealed that TLR4 either participates in induction of immune responses against UBC or development of the malignancy. There are limited investigations regarding the genetic variations of TLR4 in UBC. According to the results it seems that TLR4/ligands interaction outcome is dependent on several factors including TLR4 ligand doses, interaction of TLR4 with its ligands on immune cells or tumor cells, and other TLRs/ligand interaction simultaneously. Copyright © 2016 Elsevier Inc. All rights reserved.

Non-invasive prediction of recurrence in bladder cancer by detecting somatic TERT promoter mutations in urine.

PubMed

Descotes, Françoise; Kara, Norelyakin; Decaussin-Petrucci, Myriam; Piaton, Eric; Geiguer, Florence; Rodriguez-Lafrasse, Claire; Terrier, Jean E; Lopez, Jonathan; Ruffion, Alain

2017-08-08

Urothelial bladder cancer (UBC) is characterised by a high risk of recurrence. Patient monitoring is currently based on iterative cystoscopy and on urine cytology with low sensitivity in non-muscle-invasive bladder cancer (NMIBC). Telomerase reverse transcriptase (TERT) is frequently reactivated in UBC by promoter mutations. We studied whether detection of TERT mutation in urine could be a predictor of UBC recurrence and compared this to cytology/cystoscopy for patient follow-up. A total of 348 patients treated by transurethral bladder resection for UBC were included together with 167 control patients. Overall sensitivity was 80.5% and specificity 89.8%, and was not greatly impacted by inflammation or infection. TERT remaining positive after initial surgery was associated with residual carcinoma in situ. TERT in urine was a reliable and dynamic predictor of recurrence in NMIBC (P<0.0001). In univariate analysis, TERT positive-status after initial surgery increased risk of recurrence by 5.34-fold (P=0.0004). TERT positive-status was still associated with recurrence in the subset of patients with negative cystoscopy (P=0.034). TERT mutations in urine might be helpful for early detection of recurrence in UBC, especially in NMIBC.

USGS exploration geochemistry studies at the Pebble porphyry Cu-Au-Mo deposit, Alaska-pdf of presentation

USGS Publications Warehouse

Eppinger, Robert G.; Kelley, Karen D.; Fey, David L.; Giles, Stuart A.; Minsley, Burke J.; Smith, Steven M.

2010-01-01

From 2007 through 2010, scientists in the U.S. Geological Survey (USGS) have been conducting exploration-oriented geochemical and geophysical studies in the region surrounding the giant Pebble porphyry Cu-Au-Mo deposit in southwestern Alaska. The Cretaceous Pebble deposit is concealed under tundra, glacial till, and Tertiary cover rocks, and is undisturbed except for numerous exploration drill holes. These USGS studies are part of a nation-wide research project on evaluating and detecting concealed mineral resources. This report focuses on exploration geochemistry and comprises illustrations and associated notes that were presented as a case study in a workshop on this topic. The workshop, organized by L.G. Closs and R. Glanzman, is called 'Geochemistry in Mineral Exploration and Development,' presented by the Society of Economic Geologists at a technical conference entitled 'The Challenge of Finding New Mineral Resources: Global Metallogeny, Integrative Exploration and New Discoveries,' held at Keystone, Colorado, October 2-5, 2010.

Quantitative SUMO proteomics reveals the modulation of several PML nuclear body associated proteins and an anti-senescence function of UBC9.

PubMed

McManus, Francis P; Bourdeau, Véronique; Acevedo, Mariana; Lopes-Paciencia, Stéphane; Mignacca, Lian; Lamoliatte, Frédéric; Rojas Pino, John W; Ferbeyre, Gerardo; Thibault, Pierre

2018-05-17

Several regulators of SUMOylation have been previously linked to senescence but most targets of this modification in senescent cells remain unidentified. Using a two-step purification of a modified SUMO3, we profiled the SUMO proteome of senescent cells in a site-specific manner. We identified 25 SUMO sites on 23 proteins that were significantly regulated during senescence. Of note, most of these proteins were PML nuclear body (PML-NB) associated, which correlates with the increased number and size of PML-NBs observed in senescent cells. Interestingly, the sole SUMO E2 enzyme, UBC9, was more SUMOylated during senescence on its Lys-49. Functional studies of a UBC9 mutant at Lys-49 showed a decreased association to PML-NBs and the loss of UBC9's ability to delay senescence. We thus propose both pro- and anti-senescence functions of protein SUMOylation.

Elastic stable intramedullary nailing is the best treatment of unicameral bone cysts of the long bones in children?: Prospective long-term follow-up study.

PubMed

de Sanctis, Nando; Andreacchio, Antonio

2006-01-01

Since Virchow first described the unicameral bone cyst (UBC) in 1876, several methods for management were proposed. Currently performed surgical procedures include curettage combined with bone grafting, allografting with freeze-dried crushed cortical bone, use of homologous cancellous bone chips, the application of high-porosity hydroxyapatite, and cryosurgery. Decompression with multiple drill holes and intralesional injections of either steroids or bone marrow have also been used to treat UBC, with variable success rates. Elastic stable intramedullary nailing for the treatment of UBC in long bones has been rapidly gaining popularity. Elastic stable intramedullary nailing for the treatment of a UBC was performed in 56 patients between 1994 and 2003. The follow-up is between 2.1 and 11 years. Nine children were excluded because of short period of follow-up or were lost. The study population consisted of 47 children. The cyst was located in the humerus in 36 patients, in the femur in 11. The mean age of the patients at the time of surgery was 8.9 years. Results were evaluated on plain radiographs according to the classification system of Capanna et al. In our study population of 47 UBCs, 31 (65.9 %) were classified as completely healed, and 16 (34.1%) were healed with residual radiolucency. No recurrence or no response was observed. Each lesion responded to treatment after the nailing. This method can solve in time the pathology, and we feel that, with skilled hands, this method is the best one for UBC treatment in the long bones of the children.

Fluid-rock geochemical interaction for modelling calibration in geothermal exploration in Indonesia

NASA Astrophysics Data System (ADS)

Deon, Fiorenza; Barnhoorn, Auke; Lievens, Caroline; Ryannugroho, Riskiray; Imaro, Tulus; Bruhn, David; van der Meer, Freek; Hutami, Rizki; Sibarani, Besteba; Sule, Rachmat; Saptadij, Nenny; Hecker, Christoph; Appelt, Oona; Wilke, Franziska

2017-04-01

Indonesia with its large, but partially unexplored geothermal potential is one of the most interesting and suitable places in the world to conduct geothermal exploration research. This study focuses on geothermal exploration based on fluid-rock geochemistry/geomechanics and aims to compile an overview on geochemical data-rock properties from important geothermal fields in Indonesia. The research carried out in the field and in the laboratory is performed in the framework of the GEOCAP cooperation (Geothermal Capacity Building program Indonesia- the Netherlands). The application of petrology and geochemistry accounts to a better understanding of areas where operating power plants exist but also helps in the initial exploration stage of green areas. Because of their relevance and geological setting geothermal fields in Java, Sulawesi and the sedimentary basin of central Sumatra have been chosen as focus areas of this study. Operators, universities and governmental agencies will benefit from this approach as it will be applied also to new green-field terrains. By comparing the characteristic of the fluids, the alteration petrology and the rock geochemistry we also aim to contribute to compile an overview of the geochemistry of the important geothermal fields in Indonesia. At the same time the rock petrology and fluid geochemistry will be used as input data to model the reservoir fluid composition along with T-P parameters with the geochemical workbench PHREEQC. The field and laboratory data are mandatory for both the implementation and validation of the model results.

Treatment of Unicameral Bone Cysts of the Calcaneus: A Systematic Review.

PubMed

Levy, David M; Gross, Christopher E; Garras, David N

2015-01-01

The calcaneus is the most common tarsal affected by unicameral bone cysts (UBCs); however, the treatment of calcaneal UBCs remains controversial. The purpose of the present systematic review was to evaluate the treatment modalities for calcaneal UBCs. A systematic review was performed using clinical studies of calcaneal UBCs with a minimum of 1 year of follow-up and level I to IV evidence. Ten studies with 171 patients (181 cysts) were selected. Heel pain and radiographic cyst consolidation were the primary outcomes. A series of Z tests were used to compare the outcomes in the nonoperative and operative groups, cannulated screw and bone augmentation groups, and autografting and allografting groups. All patients treated with open curettage and bone augmentation had significant improvements in heel pain (p < .001). Only 1.1% ± 1.0% of the cysts treated conservatively had healed on radiographs compared with 93.0% ± 13.0% of the cysts after surgery (p < .001). A greater percentage of patients treated with bone augmentation had preoperative heel pain and resolution of that pain than did patients treated with cannulated screws (p < .001). Autografting had a significantly greater percentage of radiographic cyst consolidation than did allografting (97.4% ± 11.1% versus 85.1% ± 15.8%, p < .001, Z = 3.5). Objective outcomes data on calcaneal UBCs are relatively sparse. The results of the present review suggest that open curettage with autograft bone augmentation is the most effective procedure. We would encourage future comparative clinical studies to elucidate differences in UBC treatment modalities. Copyright © 2015 American College of Foot and Ankle Surgeons. Published by Elsevier Inc. All rights reserved.

The HIP2~Ubiquitin Conjugate Forms a Non-Compact Monomeric Thioester during Di-Ubiquitin Synthesis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cook, Benjamin W.; Barber, Kathryn R.; Shilton, Brian H.

2015-03-23

Polyubiquitination is a post-translational event used to control the degradation of damaged or unwanted proteins by modifying the target protein with a chain of ubiquitin molecules. One potential mechanism for the assembly of polyubiquitin chains involves the dimerization of an E2 conjugating enzyme allowing conjugated ubiquitin molecules to be put into close proximity to assist reactivity. HIP2 (UBE2K) and Ubc1 (yeast homolog of UBE2K) are unique E2 conjugating enzymes that each contain a C-terminal UBA domain attached to their catalytic domains, and they have basal E3-independent polyubiquitination activity. Although the isolated enzymes are monomeric, polyubiquitin formation activity assays show thatmore » both can act as ubiquitin donors or ubiquitin acceptors when in the activated thioester conjugate suggesting dimerization of the E2-ubiquitin conjugates. Stable disulfide complexes, analytical ultracentrifugation and small angle x-ray scattering were used to show that the HIP2-Ub and Ubc1-Ub thioester complexes remain predominantly monomeric in solution. Models of the HIP2-Ub complex derived from SAXS data show the complex is not compact but instead forms an open or backbent conformation similar to UbcH5b~Ub or Ubc13~Ub where the UBA domain and covalently attached ubiquitin reside on opposite ends of the catalytic domain. Activity assays showed that full length HIP2 exhibited a five-fold increase in the formation rate of di-ubiquitin compared to a HIP2 lacking the UBA domain. This difference was not observed for Ubc1 and may be attributed to the closer proximity of the UBA domain in HIP2 to the catalytic core than for Ubc1.« less

Unusual localizations of unicameral bone cysts and aneurysmal bone cysts: A retrospective review of 451 cases.

PubMed

Aycan, Osman Emre; Çamurcu, İsmet Yalkın; Özer, Devrim; Arıkan, Yavuz; Kabukçuoğlu, Yavuz Selim

2015-06-01

Unicameral bone cysts (UBC) and aneurysmal bone cysts (ABC) are benign cystic lesions of bone which are easily diagnosed. However, unusual locations may lead to a false diagnosis. Therefore the aim of this retrospective study was to determine the frequency of unusual localizations. The authors studied 451 cases with histopathologically confirmed diagnosis of UBC or ABC, seen between 1981 and 2012. In the UBC group (352 cases) humerus, femur and calcaneus were found to be the most common sites, while acetabulum, scapula, scaphoid, lunatum, metacarpals, metatarsals, toe phalanges and ulna each accounted for less than 1%. In the ABC group (99 cases) the most common sites of involvement were femur, humerus and tibia, while finger phalanges, ilium, acetabulum, pubis, calcaneus, cuboid, and toe phalanges each accounted for only 1%. The differential diagnosis of cystic bone lesions should include both UBC and ABC. Pain complaints plead for the latter, except in case of fracture.

Ubc13 and COOH Terminus of Hsp70-interacting Protein (CHIP) Are Required for Growth Hormone Receptor Endocytosis*

PubMed Central

Slotman, Johan A.; da Silva Almeida, Ana C.; Hassink, Gerco C.; van de Ven, Robert H. A.; van Kerkhof, Peter; Kuiken, Hendrik J.; Strous, Ger J.

2012-01-01

Growth hormone receptor (GHR) endocytosis is a highly regulated process that depends on the binding and activity of the multimeric ubiquitin ligase, SCFβTrCP (Skp Cullin F-box). Despite a specific interaction between β-transducin repeat-containing protein (βTrCP) and the GHR, and a strict requirement for ubiquitination activity, the receptor is not an obligatory target for SCFβTrCP-directed Lys48 polyubiquitination. We now show that also Lys63-linked ubiquitin chain formation is required for GHR endocytosis. We identified both the ubiquitin-conjugating enzyme Ubc13 and the ubiquitin ligase COOH terminus of Hsp70 interacting protein (CHIP) as being connected to this process. Ubc13 activity and its interaction with CHIP precede endocytosis of GHR. In addition to βTrCP, CHIP interacts specifically with the cytosolic tails of the dimeric GHR, identifying both Ubc13 and CHIP as novel factors in the regulation of cell surface availability of GHR. PMID:22433856

Considering University-Business Cooperation Modes from the Perspective of Enterprises

ERIC Educational Resources Information Center

Pavlin, Samo

2016-01-01

This article analyses enterprises' engagement in university-business cooperation (UBC) activities: research and development, mobility of academics and students, curriculum development and lifelong learning. It first provides an introductory overview of university-business cooperation policy. It then presents a selection of UBC models, elements and…

UBC's Centre for Interactive Research on Sustainability (CIRS) Will Serve as Test Bed for Innovation

ERIC Educational Resources Information Center

Neary, Tim

2012-01-01

The University of British Columbia (UBC) recently celebrated the opening of its Centre for Interactive Research on Sustainability (CIRS), a living laboratory for researchers to teach, test, and study the long-term impact of sustainable practices and technologies. Featuring advanced building controls, sensing technology, and management software…

Criteria for the Function Classes UBC and M1No.

NASA Astrophysics Data System (ADS)

Aulaskari, Rauno; Rättyä, Jouni

2011-09-01

For a function f, meromorphic in the unit disc D, and parameter values 0p/2-1|f'(z)|1+|f(z)|p. New characterizations for the classes UBC and M1♯ in terms of fp♯ are obtained.

Barriers and Pathways to Creating Sustainability Education Programs: Policy, Rhetoric and Reality

ERIC Educational Resources Information Center

Moore, Janet

2005-01-01

This article outlines an action-oriented research project regarding the University of British Columbia's engagement with sustainability. In 1997, the University of British Columbia (UBC) created a sustainability policy that suggests all UBC students should be educated about sustainability. Using data from a series of in-depth interviews the author…

Reflections on International Bibliographic Standards.

ERIC Educational Resources Information Center

Roberts, W.

This paper raises questions about many bibliographic standards developed over the past 20 years, and challenges librarians to consider how standards might evolve. A brief overview is given of the aims of Universal Bibliographic Control (UBC) and to some assumptions common to much standardization work in recent years inspired by the concept of UBC.…

Draft Genome Sequence of a Rare Smut Relative, Tilletiaria anomala UBC 951

DOE PAGES

Toome, Merje; Kuo, Alan; Henrissat, Bernard; ...

2014-06-12

We present the draft genome sequence of the smut fungus Tilletiaria anomala UBC 951 (Basidiomycota, Ustilaginomycotina). The sequenced genome size is 18.7 Mb, consisting of 289 scaffolds and a total of 6,810 predicted genes. This is the first genome sequence published for a fungus in the order Georgefisheriales (Exobasidiomycetes).

Host adaptation to viruses relies on few genes with different cross-resistance properties

PubMed Central

Martins, Nelson E.; Faria, Vítor G.; Nolte, Viola; Schlötterer, Christian; Teixeira, Luis; Sucena, Élio; Magalhães, Sara

2014-01-01

Host adaptation to one parasite may affect its response to others. However, the genetics of these direct and correlated responses remains poorly studied. The overlap between these responses is instrumental for the understanding of host evolution in multiparasite environments. We determined the genetic and phenotypic changes underlying adaptation of Drosophila melanogaster to Drosophila C virus (DCV). Within 20 generations, flies selected with DCV showed increased survival after DCV infection, but also after cricket paralysis virus (CrPV) and flock house virus (FHV) infection. Whole-genome sequencing identified two regions of significant differentiation among treatments, from which candidate genes were functionally tested with RNAi. Three genes were validated—pastrel, a known DCV-response gene, and two other loci, Ubc-E2H and CG8492. Knockdown of Ubc-E2H and pastrel also led to increased sensitivity to CrPV, whereas knockdown of CG8492 increased susceptibility to FHV infection. Therefore, Drosophila adaptation to DCV relies on few major genes, each with different cross-resistance properties, conferring host resistance to several parasites. PMID:24711428

RNF8 E3 Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment

DOE PAGES

Hodge, Curtis D.; Ismail, Ismail H.; Edwards, Ross A.; ...

2016-02-22

DNA double strand break (DSB) responses depend on the sequential actions of the E3 ubiquitin ligases RNF8 and RNF168 plus E2 ubiquitin-conjugating enzyme Ubc13 to specifically generate histone Lys-63-linked ubiquitin chains in DSB signaling. In this paper, we defined the activated RNF8-Ubc13~ubiquitin complex by x-ray crystallography and its functional solution conformations by x-ray scattering, as tested by separation-of-function mutations imaged in cells by immunofluorescence. The collective results show that the RING E3 RNF8 targets E2 Ubc13 to DSB sites and plays a critical role in damage signaling by stimulating polyubiquitination through modulating conformations of ubiquitin covalently linked to the Ubc13more » active site. Structure-guided separation-of-function mutations show that the RNF8 E2 stimulating activity is essential for DSB signaling in mammalian cells and is necessary for downstream recruitment of 53BP1 and BRCA1. Chromatin-targeted RNF168 rescues 53BP1 recruitment involved in non-homologous end joining but not BRCA1 recruitment for homologous recombination. Finally, these findings suggest an allosteric approach to targeting the ubiquitin-docking cleft at the E2-E3 interface for possible interventions in cancer and chronic inflammation, and moreover, they establish an independent RNF8 role in BRCA1 recruitment.« less

Low awareness of risk factors among bladder cancer survivors: New evidence and a literature overview.

PubMed

Westhoff, Ellen; Maria de Oliveira-Neumayer, Julia; Aben, Katja K; Vrieling, Alina; Kiemeney, Lambertus A

2016-06-01

Data on urinary bladder cancer (UBC) patients' perceptions about causes of bladder cancer is limited, while this may be important knowledge for health prevention and education. We evaluated self-reported perceptions and beliefs about the causes of bladder cancer among UBC survivors in the Netherlands. UBC survivors identified through the Netherlands Cancer Registry from 2007 to 2012 were invited to participate. Patients who consented were asked to fill out a questionnaire, including questions on lifestyle characteristics, occupational and medical history, and family history of cancer. The final question was 'You have been diagnosed with bladder cancer. Do you have any idea what may have been the cause of your cancer?'. Of the 1793 UBC survivors included, 366 (20%) reported a possible cause for their bladder cancer. The most frequently reported suspected causes were smoking (10%), occupational exposure (5%), and heredity (2%). Smoking, occupational exposure and heredity were mentioned only slightly more frequently by participants with these risk factors (11%, 8%, and 5%, respectively) compared to the total population. Most UBC survivors did not suspect any cause that might have contributed to the development of their cancer. Even among participants with established risk factors for bladder cancer, these risk factors were not commonly perceived. This finding probably reflects the superficial knowledge of risk factors for bladder cancer in the population and highlights the importance of effective education on cancer prevention. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

Ubiquitin in Motion: Structural Studies of the Ubiquitin-Conjugating Enzyme~Ubiquitin Conjugate

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pruneda, Jonathan N.; Stoll, Kate E.; Bolton, Laura J.

2011-03-15

Ubiquitination of proteins provides a powerful and versatile post-translational signal in the eukaryotic cell. The formation of a thioester bond between ubiquitin (Ub) and the active site of a ubiquitin-conjugating enzyme (E2) is critical for the transfer of Ub to substrates. Assembly of a functional ubiquitin ligase (E3) complex poised for Ub transfer involves recognition and binding of an E2~Ub conjugate. Therefore, full characterization of the structure and dynamics of E2~Ub conjugates is required for further mechanistic understanding of Ub transfer reactions. Here we present characterization of the dynamic behavior of E2~Ub conjugates of two human enzymes, UbcH5c~Ub and Ubc13~Ub,more » in solution as determined by nuclear magnetic resonance and small-angle X-ray scattering. Within each conjugate, Ub retains great flexibility with respect to the E2, indicative of highly dynamic species that adopt manifold orientations. The population distribution of Ub conformations is dictated by the identity of the E2: the UbcH5c~Ub conjugate populates an array of extended conformations, and the population of Ubc13~Ub conjugates favors a closed conformation in which the hydrophobic surface of Ub faces helix 2 of Ubc13. Finally, we propose that the varied conformations adopted by Ub represent available binding modes of the E2~Ub species and thus provide insight into the diverse E2~Ub protein interactome, particularly with regard to interaction with Ub ligases.« less

Mid- and long-term clinical results of surgical therapy in unicameral bone cysts.

PubMed

Hagmann, Sébastien; Eichhorn, Florian; Moradi, Babak; Gotterbarm, Tobias; Dreher, Thomas; Lehner, Burkhard; Zeifang, Felix

2011-12-13

Unicameral (or simple) bone cysts (UBC) are benign tumours most often located in long bones of children and adolescents. Pathological fractures are common, and due to high recurrence rates, these lesions remain a challenge to treat. Numerous surgical procedures have been proposed, but there is no general consensus of the ideal treatment. The aim of this investigation therefore was to study the long-term outcome after surgical treatment in UBC. A retrospective analysis of 46 patients surgically treated for UBC was performed for short and mid-term outcome. Clinical and radiological outcome parameters were studied according to a modified Neer classification system. Long-term clinical information was retrieved via a questionnaire at a minimum follow-up of 10 years after surgery. Forty-six patients (17 female, 29 male) with a mean age of 10.0 ± 4.8 years and with histopathologically confirmed diagnosis of UBC were included. Pathological fractures were observed in 21 cases (46%). All patients underwent surgery for UBC (35 patients underwent curettage and bone grafting as a primary therapy, 4 curettage alone, 3 received corticoid instillation and 4 decompression by cannulated screws). Overall recurrence rate after the first surgical treatment was 39% (18/46), second (17.4% of all patients) and third recurrence (4.3%) were frequently observed and were addressed by revision surgery. Recurrence was significantly higher in young and in male patients as well as in active cysts. After a mean of 52 months, 40 out of 46 cysts were considered healed. Prognosis was significantly better when recurrence was observed later than 30 months after therapy. After a mean follow-up of 15.5 ± 6.2 years, 40 patients acknowledged clinically excellent results, while five reported mild and casual pain. Only one patient reported a mild limitation of range of motion. Our results suggest satisfactory overall long-term outcome for the surgical treatment of UBC, although short-and mid-term observation show a considerable rate of recurrence independent of the surgical technique.

Cell cycle-regulated proteolysis of mitotic target proteins.

PubMed

Bastians, H; Topper, L M; Gorbsky, G L; Ruderman, J V

1999-11-01

The ubiquitin-dependent proteolysis of mitotic cyclin B, which is catalyzed by the anaphase-promoting complex/cyclosome (APC/C) and ubiquitin-conjugating enzyme H10 (UbcH10), begins around the time of the metaphase-anaphase transition and continues through G1 phase of the next cell cycle. We have used cell-free systems from mammalian somatic cells collected at different cell cycle stages (G0, G1, S, G2, and M) to investigate the regulated degradation of four targets of the mitotic destruction machinery: cyclins A and B, geminin H (an inhibitor of S phase identified in Xenopus), and Cut2p (an inhibitor of anaphase onset identified in fission yeast). All four are degraded by G1 extracts but not by extracts of S phase cells. Maintenance of destruction during G1 requires the activity of a PP2A-like phosphatase. Destruction of each target is dependent on the presence of an N-terminal destruction box motif, is accelerated by additional wild-type UbcH10 and is blocked by dominant negative UbcH10. Destruction of each is terminated by a dominant activity that appears in nuclei near the start of S phase. Previous work indicates that the APC/C-dependent destruction of anaphase inhibitors is activated after chromosome alignment at the metaphase plate. In support of this, we show that addition of dominant negative UbcH10 to G1 extracts blocks destruction of the yeast anaphase inhibitor Cut2p in vitro, and injection of dominant negative UbcH10 blocks anaphase onset in vivo. Finally, we report that injection of dominant negative Ubc3/Cdc34, whose role in G1-S control is well established and has been implicated in kinetochore function during mitosis in yeast, dramatically interferes with congression of chromosomes to the metaphase plate. These results demonstrate that the regulated ubiquitination and destruction of critical mitotic proteins is highly conserved from yeast to humans.

Biofluorescence as a survey tool for cryptic marine species.

PubMed

De Brauwer, Maarten; Hobbs, Jean-Paul A; Ambo-Rappe, Rohani; Jompa, Jamaluddin; Harvey, Euan S; McIlwain, Jennifer L

2017-10-06

As ecosystems come under increasing anthropogenic pressure, rare species face the highest risk of extinction. Paradoxically, data necessary to evaluate the conservation status of rare species are often lacking because of the challenges of detecting species with low abundance. One group of fishes subject to this undersampling bias are those with cryptic body patterns. Twenty-one percent of cryptic fish species assessed for their extinction risk (International Union for Conservation of Nature [IUCN]) are data deficient. We developed a nondestructive method for surveying cryptically patterned marine fishes based on the presence of biofluorescence (underwater biofluorescence census, UBC). Blue LED torches were used to investigate how widespread biofluorescence was in cryptic reef fishes in the Coral Triangle region. The effectiveness of UBC to generate abundance data was tested on a data-deficient pygmy seahorse species (Hippocampus bargibanti) and compared with data obtained from standard underwater visual census (UVC) surveys. We recorded 95 reef fish species displaying biofluorescence, 73 of which had not been previously described as biofluorescent. Of those fish with cryptic patterns, 87% were biofluorescent compared with 9% for noncryptic fishes. The probability of species displaying biofluorescence was 70.9 times greater for cryptic species than for noncryptic species. Almost twice the number of H. bargibanti was counted using the UBC compared with UVC. For 2 triplefin species (Ucla xenogrammus, Enneapterygius tutuilae), the abundance detected with UBC was triple that detected with UVC. The UBC method was effective at finding cryptic species that would otherwise be difficult to detect and thus will reduce interobserver variability inherent to UVC surveys. Biofluorescence is ubiquitous in cryptic fishes, making this method applicable across a wide range of species. Data collected using UBC could be used with multiple IUCN criteria to assess the extinction risk of cryptic species. Adopting this technique will enhance researchers' ability to survey cryptic species and facilitate management and conservation of cryptic marine species. © 2017 Society for Conservation Biology.

Matrine combined with cisplatin synergistically inhibited urothelial bladder cancer cells via down-regulating VEGF/PI3K/Akt signaling pathway.

PubMed

Liao, Xiao-Zhong; Tao, Lan-Ting; Liu, Jia-Hui; Gu, Yue-Yu; Xie, Jun; Chen, Yuling; Lin, Mei-Gui; Liu, Tao-Li; Wang, Dong-Mei; Guo, Hai-Yan; Mo, Sui-Lin

2017-01-01

Cisplatin is one of the first-line drugs for urothelial bladder cancer (UBC) treatment. However, its considerable side effects and the emergence of drug resistance are becoming major limitations for its application. This study aimed to investigate whether matrine and cisplatin could present a synergistic anti-tumor effect on UBC cells. Cell viability assay was used to assess the suppressive effect of matrine and cisplatin on the proliferation of the UBC cells. Wound healing assay and transwell assay were applied respectively to determine the migration and invasion ability of the cells. The distribution of cell cycles, the generation of reactive oxygen species (ROS) and the apoptosis rate were detected by flow cytometry (FCM). The expressions of the relative proteins in apoptotic signal pathways and the epithelial-mesenchymal transition (EMT) related genes were surveyed by western blotting. The binding modes of the drugs within the proteins were detected by CDOCKER module in DS 2.5. Both matrine and cisplatin could inhibit the growth of the UBC cells in a time- and dose-dependent manner. When matrine combined with cisplatin at the ratio of 2000:1, they presented a synergistic inhibitory effect on the UBC cells. The combinative treatment could impair cell migration and invasion ability, arrest cell cycle in the G1 and S phases, increase the level of ROS, and induce apoptosis in EJ and T24 cells in a synergistic way. In all the treated groups, the expressions of E-cadherin, β-catenin, Bax, and Cleaved Caspase-3 were up-regulated, while the expressions of Fibronectin, Vimentin, Bcl-2, Caspase-3, p-Akt, p-PI3K, VEGFR2, and VEGF proteins were down-regulated, and among them, the combination of matrine and cisplatin showed the most significant difference. Molecular docking algorithms predicted that matrine and cisplatin could be docked into the same active sites and interact with different residues within the tested proteins. Our results suggested that the combination of matrine and cisplatin could synergistically inhibit the UBC cells' proliferation through down-regulating VEGF/PI3K/Akt signaling pathway, indicating that matrine may serve as a new option in the combinative therapy in the treatment of UBC.

A Non-SUMOylated Tax Protein Is Still Functional for NF-κB Pathway Activation

PubMed Central

Pène, Sabrina; Waast, Laetitia; Bonnet, Amandine; Bénit, Laurence

2014-01-01

ABSTRACT Whether NF-κB promoter transactivation by the human T-cell leukemia virus type 1 (HTLV-1) Tax protein requires Tax SUMOylation is still a matter of debate. In this study, we revisited the role of Tax SUMOylation using a strategy based on the targeting of Ubc9, the unique E2 SUMO-conjugating enzyme. We show that either a catalytically inactive form of Ubc9 (Ubc9-C93S) or Ubc9 small interfering RNA (siRNA) dramatically reduces Tax conjugation to endogenous SUMO-1 or SUMO-2/3, demonstrating that as expected, Tax SUMOylation is under the control of the catalytic activity of Ubc9. We further report that a non-SUMOylated Tax protein produced in 293T cells is still able to activate either a transfected or an integrated NF-κB reporter promoter and to induce expression of an NF-κB-regulated endogenous gene. Importantly, blocking Ubc9 activity in T cells also results in the production of a non-SUMOylated Tax that is still fully functional for the activation of a NF-κB promoter. These results provide the definitive evidence that Tax SUMOylation is not required for NF-κB-driven gene induction. IMPORTANCE Human T-cell leukemia virus type 1 is able to transform CD4+ T lymphocytes. The viral oncoprotein Tax plays a key role in this process by promoting cell proliferation and survival, mainly through permanent activation of the NF-κB pathway. Elucidating the molecular mechanisms involved in NF-κB pathway activation by Tax is therefore a key issue to understand HTLV-1-mediated transformation. Tax SUMOylation was initially proposed to be critical for Tax-induced NF-κB promoter activation, which was challenged by our later observation that a low-level-SUMOylated Tax mutant was still functional for activation of NF-κB promoters. To clarify the role of Tax SUMOylation, we set up a new approach based on the inhibition of the SUMOylation machinery in Tax-expressing cells. We show that blocking the SUMO-conjugating enzyme Ubc9 abolishes Tax SUMOylation and that a non-SUMOylated Tax still activates NF-κB promoters in either adherent cells or T cells. PMID:24991007

A non-SUMOylated tax protein is still functional for NF-κB pathway activation.

PubMed

Pène, Sabrina; Waast, Laetitia; Bonnet, Amandine; Bénit, Laurence; Pique, Claudine

2014-09-01

Whether NF-κB promoter transactivation by the human T-cell leukemia virus type 1 (HTLV-1) Tax protein requires Tax SUMOylation is still a matter of debate. In this study, we revisited the role of Tax SUMOylation using a strategy based on the targeting of Ubc9, the unique E2 SUMO-conjugating enzyme. We show that either a catalytically inactive form of Ubc9 (Ubc9-C93S) or Ubc9 small interfering RNA (siRNA) dramatically reduces Tax conjugation to endogenous SUMO-1 or SUMO-2/3, demonstrating that as expected, Tax SUMOylation is under the control of the catalytic activity of Ubc9. We further report that a non-SUMOylated Tax protein produced in 293T cells is still able to activate either a transfected or an integrated NF-κB reporter promoter and to induce expression of an NF-κB-regulated endogenous gene. Importantly, blocking Ubc9 activity in T cells also results in the production of a non-SUMOylated Tax that is still fully functional for the activation of a NF-κB promoter. These results provide the definitive evidence that Tax SUMOylation is not required for NF-κB-driven gene induction. Human T-cell leukemia virus type 1 is able to transform CD4(+) T lymphocytes. The viral oncoprotein Tax plays a key role in this process by promoting cell proliferation and survival, mainly through permanent activation of the NF-κB pathway. Elucidating the molecular mechanisms involved in NF-κB pathway activation by Tax is therefore a key issue to understand HTLV-1-mediated transformation. Tax SUMOylation was initially proposed to be critical for Tax-induced NF-κB promoter activation, which was challenged by our later observation that a low-level-SUMOylated Tax mutant was still functional for activation of NF-κB promoters. To clarify the role of Tax SUMOylation, we set up a new approach based on the inhibition of the SUMOylation machinery in Tax-expressing cells. We show that blocking the SUMO-conjugating enzyme Ubc9 abolishes Tax SUMOylation and that a non-SUMOylated Tax still activates NF-κB promoters in either adherent cells or T cells. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

Modified Glasgow Prognostic Score is Associated With Risk of Recurrence in Bladder Cancer Patients After Radical Cystectomy: A Multicenter Experience.

PubMed

Ferro, Matteo; De Cobelli, Ottavio; Buonerba, Carlo; Di Lorenzo, Giuseppe; Capece, Marco; Bruzzese, Dario; Autorino, Riccardo; Bottero, Danilo; Cioffi, Antonio; Matei, Deliu Victor; Caraglia, Michele; Borghesi, Marco; De Berardinis, Ettore; Busetto, Gian Maria; Giovannone, Riccardo; Lucarelli, Giuseppe; Ditonno, Pasquale; Perdonà, Sisto; Bove, Pierluigi; Castaldo, Luigi; Hurle, Rodolfo; Musi, Gennaro; Brescia, Antonio; Olivieri, Michele; Cimmino, Amelia; Altieri, Vincenzo; Damiano, Rocco; Cantiello, Francesco; Serretta, Vincenzo; De Placido, Sabino; Mirone, Vincenzo; Sonpavde, Guru; Terracciano, Daniela

2015-10-01

Recently, many studies explored the role of inflammation parameters in the prognosis of urinary cancers, but the results were not consistent. The modified Glasgow Prognostic Score (mGPS), a systemic inflammation marker, is a prognostic marker in various types of cancers. The aim of the present study was to investigate the usefulness of the preoperative mGPS as predictor of recurrence-free (RFS), overall (OS), and cancer-specific (CSS) survivals in a large cohort of urothelial bladder cancer (UBC) patients.A total of 1037 patients with UBC were included in this study with a median follow-up of 22 months (range 3-60 months). An mGPS = 0 was observed in 646 patients (62.3%), mGPS = 1 in 297 patients (28.6 %), and mGPS = 2 in 94 patients (9.1%).In our study cohort, subjects with an mGPS equal to 2 had a significantly shorter median RFS compared with subjects with mGPS equal to 1 (16 vs 19 months, hazard ratio [HR] 1.54, 95% CI 1.31-1.81, P < 0.001) or with subjects with mGPS equal to 0 (16 vs 29 months, HR 2.38, 95% CI 1.86-3.05, P < 0.001). The association between mGPS and RFS was confirmed by weighted multivariate Cox model. Although in univariate analysis higher mGPS was associated with lower OS and CSS, this association disappeared in multivariate analysis where only the presence of lymph node-positive bladder cancer and T4 stage were predictors of worse prognosis for OS and CSS.In conclusion, the mGPS is an easily measured and inexpensive prognostic marker that was significantly associated with RFS in UBC patients.

Modified Glasgow Prognostic Score is Associated With Risk of Recurrence in Bladder Cancer Patients After Radical Cystectomy

PubMed Central

Ferro, Matteo; De Cobelli, Ottavio; Buonerba, Carlo; Di Lorenzo, Giuseppe; Capece, Marco; Bruzzese, Dario; Autorino, Riccardo; Bottero, Danilo; Cioffi, Antonio; Matei, Deliu Victor; Caraglia, Michele; Borghesi, Marco; De Berardinis, Ettore; Busetto, Gian Maria; Giovannone, Riccardo; Lucarelli, Giuseppe; Ditonno, Pasquale; Perdonà, Sisto; Bove, Pierluigi; Castaldo, Luigi; Hurle, Rodolfo; Musi, Gennaro; Brescia, Antonio; Olivieri, Michele; Cimmino, Amelia; Altieri, Vincenzo; Damiano, Rocco; Cantiello, Francesco; Serretta, Vincenzo; De Placido, Sabino; Mirone, Vincenzo; Sonpavde, Guru; Terracciano, Daniela

2015-01-01

Abstract Recently, many studies explored the role of inflammation parameters in the prognosis of urinary cancers, but the results were not consistent. The modified Glasgow Prognostic Score (mGPS), a systemic inflammation marker, is a prognostic marker in various types of cancers. The aim of the present study was to investigate the usefulness of the preoperative mGPS as predictor of recurrence-free (RFS), overall (OS), and cancer-specific (CSS) survivals in a large cohort of urothelial bladder cancer (UBC) patients. A total of 1037 patients with UBC were included in this study with a median follow-up of 22 months (range 3–60 months). An mGPS = 0 was observed in 646 patients (62.3%), mGPS = 1 in 297 patients (28.6 %), and mGPS = 2 in 94 patients (9.1%). In our study cohort, subjects with an mGPS equal to 2 had a significantly shorter median RFS compared with subjects with mGPS equal to 1 (16 vs 19 months, hazard ratio [HR] 1.54, 95% CI 1.31–1.81, P < 0.001) or with subjects with mGPS equal to 0 (16 vs 29 months, HR 2.38, 95% CI 1.86–3.05, P < 0.001). The association between mGPS and RFS was confirmed by weighted multivariate Cox model. Although in univariate analysis higher mGPS was associated with lower OS and CSS, this association disappeared in multivariate analysis where only the presence of lymph node-positive bladder cancer and T4 stage were predictors of worse prognosis for OS and CSS. In conclusion, the mGPS is an easily measured and inexpensive prognostic marker that was significantly associated with RFS in UBC patients. PMID:26496339

From Exam to Education: The Math Exam/Education Resources

ERIC Educational Resources Information Center

Bruni, Carmen; Koch, Christina; Konrad, Bernhard; Lindstrom, Michael; Moyles, Iain; Thompson, Will

2016-01-01

The Math Exam/Education Resources (MER) is an open online learning resource hosted at The University of British Columbia (UBC), aimed at providing mathematics education resources for students and instructors at UBC. In this paper, there will be a discussion of the motivation for creating this resource on the MediaWiki platform, key features of the…

The Status of Physics 12 in BC: Reflections from UBC Science Teacher Candidates.

ERIC Educational Resources Information Center

Nashon, Samson Madera

As part of attempts to find out why few high school science students take Physics 12, this case study sought University of British Columbia (UBC) science teacher educators' perspectives on the topic. A survey method employing questionnaires and interviews as part of the study was used to elicit science teacher candidates' perspectives. Forty-five…

Combining Forces: Fostering Sustainability Collaboration between the City of Vancouver and the University of British Columbia

ERIC Educational Resources Information Center

Munro, Alison; Marcus, Jean; Dolling, Katie; Robinson, John; Wahl, Jennifer

2016-01-01

Purpose: This paper describes the sustainability partnership between the City of Vancouver and the University of British Columbia (UBC) and, in particular, the co-curricular Greenest City Scholars graduate student internship program, which has been developed by the two organizations. Through the program, UBC graduate students work on projects at…

Identification of a molecular recognition feature in the E1A oncoprotein that binds the SUMO conjugase UBC9 and likely interferes with polySUMOylation.

PubMed

Yousef, A F; Fonseca, G J; Pelka, P; Ablack, J N G; Walsh, C; Dick, F A; Bazett-Jones, D P; Shaw, G S; Mymryk, J S

2010-08-19

Hub proteins have central roles in regulating cellular processes. By targeting a single cellular hub, a viral oncogene may gain control over an entire module in the cellular interaction network that is potentially comprised of hundreds of proteins. The adenovirus E1A oncoprotein is a viral hub that interacts with many cellular hub proteins by short linear motifs/molecular recognition features (MoRFs). These interactions transform the architecture of the cellular protein interaction network and virtually reprogram the cell. To identify additional MoRFs within E1A, we screened portions of E1A for their ability to activate yeast pseudohyphal growth or differentiation. This identified a novel functional region within E1A conserved region 2 comprised of the sequence EVIDLT. This MoRF is necessary and sufficient to bind the N-terminal region of the SUMO conjugase UBC9, which also interacts with SUMO noncovalently and is involved in polySUMOylation. Our results suggest that E1A interferes with polySUMOylation, but not with monoSUMOylation. These data provide the first insight into the consequences of the interaction of E1A with UBC9, which was initially described in 1996. We further demonstrate that polySUMOylation regulates pseudohyphal growth and promyelocytic leukemia body reorganization by E1A. In conclusion, the interaction of the E1A oncogene with UBC9 mimics the normal binding between SUMO and UBC9 and represents a novel mechanism to modulate polySUMOylation.

Preschools for Science: The Child Study Centre at the University of British Columbia, 1960-1997

ERIC Educational Resources Information Center

Clark, Penney; Gleason, Mona; Petrina, Stephen

2012-01-01

The development of the Child Study Centre (CSC) at University of British Columbia (UBC) provides a unique perspective on the complex and often contradictory relationship between child study and preschool education in postwar Canada. In this article, the authors detail the development and eventual closure of the CSC at UBC, focusing on the uneasy…

E2~Ub conjugates regulate the kinase activity of Shigella effector OspG during pathogenesis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pruneda, Jonathan N.; Smith, F. Donelson; Daurie, Angela

Pathogenic bacteria introduce effector proteins directly into the cytosol of eukaryotic cells to promote invasion and colonization. OspG, a Shigella spp. effector kinase, plays a role in this process by helping to suppress the host inflammatory response. OspG has been reported to bind host E2 ubiquitin-conjugating enzymes activated with ubiquitin (E2~Ub), a key enzyme complex in ubiquitin transfer pathways. A cocrystal structure of the OspG/UbcH5c~Ub complex reveals that complex formation has important ramifications for the activity of both OspG and the UbcH5c~Ub conjugate. OspG is a minimal kinase domain containing only essential elements required for catalysis. UbcH5c~Ub binding stabilizes anmore » active conformation of the kinase, greatly enhancing OspG kinase activity. In contrast, interaction with OspG stabilizes an extended, less reactive form of UbcH5c~Ub. Recognizing conserved E2 features, OspG can interact with at least ten distinct human E2s~Ub. Mouse oral infection studies indicate that E2~Ub conjugates act as novel regulators of OspG effector kinase function in eukaryotic host cells.« less

Overexpression of SKI Oncoprotein Leads to p53 Degradation through Regulation of MDM2 Protein Sumoylation*

PubMed Central

Ding, Boxiao; Sun, Yin; Huang, Jiaoti

2012-01-01

Protooncogene Ski was identified based on its ability to transform avian fibroblasts in vitro. In support of its oncogenic activity, SKI was found to be overexpressed in a variety of human cancers, although the exact molecular mechanism(s) responsible for its oncogenic activity is not fully understood. We found that SKI can negatively regulate p53 by decreasing its level through up-regulation of MDM2 activity, which is mediated by the ability of SKI to enhance sumoylation of MDM2. This stimulation of MDM2 sumoylation is accomplished through a direct interaction of SKI with SUMO-conjugating enzyme E2, Ubc9, resulting in enhanced thioester bond formation and mono-sumoylation of Ubc9. A mutant SKI defective in transformation fails to increase p53 ubiquitination and is unable to increase MDM2 levels and to increase mono-sumoylation of Ubc9, suggesting that the ability of SKI to enhance Ubc9 activity is essential for its transforming function. These results established a detailed molecular mechanism that underlies the ability of SKI to cause cellular transformation while unraveling a novel connection between sumoylation and tumorigenesis, providing potential new therapeutic targets for cancer. PMID:22411991

S. pombe Uba1-Ubc15 Structure Reveals a Novel Regulatory Mechanism of Ubiquitin E2 Activity.

PubMed

Lv, Zongyang; Rickman, Kimberly A; Yuan, Lingmin; Williams, Katelyn; Selvam, Shanmugam Panneer; Woosley, Alec N; Howe, Philip H; Ogretmen, Besim; Smogorzewska, Agata; Olsen, Shaun K

2017-02-16

Ubiquitin (Ub) E1 initiates the Ub conjugation cascade by activating and transferring Ub to tens of different E2s. How Ub E1 cooperates with E2s that differ substantially in their predicted E1-interacting residues is unknown. Here, we report the structure of S. pombe Uba1 in complex with Ubc15, a Ub E2 with intrinsically low E1-E2 Ub thioester transfer activity. The structure reveals a distinct Ubc15 binding mode that substantially alters the network of interactions at the E1-E2 interface compared to the only other available Ub E1-E2 structure. Structure-function analysis reveals that the intrinsically low activity of Ubc15 largely results from the presence of an acidic residue at its N-terminal region. Notably, Ub E2 N termini are serine/threonine rich in many other Ub E2s, leading us to hypothesize that phosphorylation of these sites may serve as a novel negative regulatory mechanism of Ub E2 activity, which we demonstrate biochemically and in cell-based assays. Copyright © 2017 Elsevier Inc. All rights reserved.

Geological and geochemical aspects of uranium deposits: a selected, annotated bibliography. [474 references

DOE Office of Scientific and Technical Information (OSTI.GOV)

Thomas, J.M.; Garland, P.A.; White, M.B.

This bibliography, a compilation of 474 references, is the fourth in a series compiled from the National Uranium Resource Evaluation (NURE) Bibliographic Data Base. This data base was created for the Grand Junction Office of the Department of Energy's National Uranium Resource Evaluation Project by the Ecological Sciences Information Center, Oak Ridge National Laboratory. The references in the bibliography are arranged by subject category: (1) geochemistry, (2) exploration, (3) mineralogy, (4) genesis of deposits, (5) geology of deposits, (6) uranium industry, (7) geology of potential uranium-bearing areas, and (8) reserves and resources. The references are indexed by author, geographic location,more » quadrangle name, geoformational feature, and keyword.« less

Rationale and Roadmap for Moon Exploration

NASA Astrophysics Data System (ADS)

Foing, B. H.; ILEWG Team

We discuss the different rationale for Moon exploration. This starts with areas of scientific investigations: clues on the formation and evolution of rocky planets, accretion and bombardment in the inner solar system, comparative planetology processes (tectonic, volcanic, impact cratering, volatile delivery), records astrobiology, survival of organics; past, present and future life. The rationale includes also the advancement of instrumentation: Remote sensing miniaturised instruments; Surface geophysical and geochemistry package; Instrument deployment and robotic arm, nano-rover, sampling, drilling; Sample finder and collector. There are technologies in robotic and human exploration that are a drive for the creativity and economical competitivity of our industries: Mecha-electronics-sensors; Tele control, telepresence, virtual reality; Regional mobility rover; Autonomy and Navigation; Artificially intelligent robots, Complex systems, Man-Machine interface and performances. Moon-Mars Exploration can inspire solutions to global Earth sustained development: In-Situ Utilisation of resources; Establishment of permanent robotic infrastructures, Environmental protection aspects; Life sciences laboratories; Support to human exploration. We also report on the IAA Cosmic Study on Next Steps In Exploring Deep Space, and ongoing IAA Cosmic Studies, ILEWG/IMEWG ongoing activities, and we finally discuss possible roadmaps for robotic and human exploration, starting with the Moon-Mars missions for the coming decade, and building effectively on joint technology developments.

A Novel and Multivalent Role of Pax6 in Cerebellar Development

PubMed Central

Yeung, Joanna; Ha, Thomas J.; Swanson, Douglas J.

2016-01-01

Pax6 is a prominent gene in brain development. The deletion of Pax6 results in devastated development of eye, olfactory bulb, and cortex. However, it has been reported that the Pax6-null Sey cerebellum only has minor defects involving granule cells despite Pax6 being expressed throughout cerebellar development. The present work has uncovered a requirement of Pax6 in the development of all rhombic lip (RL) lineages. A significant downregulation of Tbr1 and Tbr2 expression is found in the Sey cerebellum, these are cell-specific markers of cerebellar nuclear (CN) neurons and unipolar brush cells (UBCs), respectively. The examination of Tbr1 and Lmx1a immunolabeling and Nissl staining confirmed the loss of CN neurons from the Sey cerebellum. CN neuron progenitors are produced in the mutant but there is an enhanced death of these neurons as shown by increased presence of caspase-3-positive cells. These data indicate that Pax6 regulates the survival of CN neuron progenitors. Furthermore, the analysis of experimental mouse chimeras suggests a cell-extrinsic role of Pax6 in CN neuron survival. For UBCs, using Tbr2 immunolabeling, these cells are significantly reduced in the Sey cerebellum. The loss of UBCs in the mutant is due partly to cell death in the RL and also to the reduced production of progenitors from the RL. These results demonstrate a critical role for Pax6 in regulating the generation and survival of UBCs. This and previous work from our laboratory demonstrate a seminal role of Pax6 in the development of all cerebellar glutamatergic neurons. SIGNIFICANCE STATEMENT Pax6 is a key molecule in development. Pax6 is best known as the master control gene in eye development with mutations causing aniridia in humans. Pax6 also plays important developmental roles in the cortex and olfactory bulb. During cerebellar development, Pax6 is robustly expressed in the germinal zone of all glutamatergic neurons [cerebellar nuclear (CN) neurons, granule cells, and unipolar brush cells (UBCs)]. Past work has not found abnormalities in the CN and UBC populations. Our study reveals that the Pax6-null mutation dramatically affects these cells and identifies Pax6 as a key regulator of cell survival in CN neurons and of cell production in UBCs. The present study shows how Pax6 is key to the development of glutamatergic cells in the cerebellum. PMID:27581449

Chronic tinnitus and unipolar brush cell alterations in the cerebellum and dorsal cochlear nucleus.

PubMed

Brozoski, Thomas; Brozoski, Daniel; Wisner, Kurt; Bauer, Carol

2017-07-01

Animal model research has shown that the central features of tinnitus, the perception of sound without an acoustic correlate, include elevated spontaneous and stimulus-driven activity, enhanced burst-mode firing, decreased variance of inter-spike intervals, and distortion of tonotopic frequency representation. Less well documented are cell-specific correlates of tinnitus. Unipolar brush cell (UBC) alterations in animals with psychophysical evidence of tinnitus has recently been reported. UBCs are glutamatergic interneurons that appear to function as local-circuit signal amplifiers. UBCs are abundant in the dorsal cochlear nucleus (DCN) and very abundant in the flocculus (FL) and paraflocculus (PFL) of the cerebellum. In the present research, two indicators of UBC structure and function were examined: Doublecortin (DCX) and epidermal growth factor receptor substrate 8 (Eps8). DCX is a protein that binds to microtubules where it can modify their assembly and growth. Eps8 is a cell-surface tyrosine kinase receptor mediating the response to epidermal growth factor; it appears to have a role in actin polymerization as well as cytoskeletal protein interactions. Both functions could contribute to synaptic remodeling. In the present research UBC Eps8 and DCX immunoreactivity (IR) were determined in 4 groups of rats distinguished by their exposure to high-level sound and psychophysical performance: Unexposed, exposed to high-level sound with behavioral evidence of tinnitus, and two exposed groups without behavioral evidence of tinnitus. Compared to unexposed controls, exposed animals with tinnitus had Eps8 IR elevated in their PFL; other structures were not affected, nor was DCX IR affected. This was interpreted as UBC upregulation in animals with tinnitus. Exposure that failed to produce tinnitus did not increase either Eps8 or DCX IR. Rather Eps8 IR was decreased in the FL and DCN of one subgroup (Least-Tinnitus), while DCX IR decreased in the FL of the other subgroup (No-Tinnitus). Neuron degeneration was also documented in the cochlear nucleus and PFL of exposed animals, both with and without tinnitus. Degeneration was not found in unexposed animals. Implications for tinnitus neuropathy are discussed in the context of synaptic remodeling and cerebellar sensory modulation. Copyright © 2017 Elsevier B.V. All rights reserved.

Mid- and long-term clinical results of surgical therapy in unicameral bone cysts

PubMed Central

2011-01-01

Background Unicameral (or simple) bone cysts (UBC) are benign tumours most often located in long bones of children and adolescents. Pathological fractures are common, and due to high recurrence rates, these lesions remain a challenge to treat. Numerous surgical procedures have been proposed, but there is no general consensus of the ideal treatment. The aim of this investigation therefore was to study the long-term outcome after surgical treatment in UBC. Methods A retrospective analysis of 46 patients surgically treated for UBC was performed for short and mid-term outcome. Clinical and radiological outcome parameters were studied according to a modified Neer classification system. Long-term clinical information was retrieved via a questionnaire at a minimum follow-up of 10 years after surgery. Results Forty-six patients (17 female, 29 male) with a mean age of 10.0 ± 4.8 years and with histopathologically confirmed diagnosis of UBC were included. Pathological fractures were observed in 21 cases (46%). All patients underwent surgery for UBC (35 patients underwent curettage and bone grafting as a primary therapy, 4 curettage alone, 3 received corticoid instillation and 4 decompression by cannulated screws). Overall recurrence rate after the first surgical treatment was 39% (18/46), second (17.4% of all patients) and third recurrence (4.3%) were frequently observed and were addressed by revision surgery. Recurrence was significantly higher in young and in male patients as well as in active cysts. After a mean of 52 months, 40 out of 46 cysts were considered healed. Prognosis was significantly better when recurrence was observed later than 30 months after therapy. After a mean follow-up of 15.5 ± 6.2 years, 40 patients acknowledged clinically excellent results, while five reported mild and casual pain. Only one patient reported a mild limitation of range of motion. Conclusions Our results suggest satisfactory overall long-term outcome for the surgical treatment of UBC, although short-and mid-term observation show a considerable rate of recurrence independent of the surgical technique. PMID:22165900

A Subset of Ubiquitin-Conjugating Enzymes Is Essential for Plant Immunity1[OPEN

PubMed Central

Connor, Richard A.

2017-01-01

Of the three classes of enzymes involved in ubiquitination, ubiquitin-conjugating enzymes (E2) have been often incorrectly considered to play merely an auxiliary role in the process, and few E2 enzymes have been investigated in plants. To reveal the role of E2 in plant innate immunity, we identified and cloned 40 tomato genes encoding ubiquitin E2 proteins. Thioester assays indicated that the majority of the genes encode enzymatically active E2. Phylogenetic analysis classified the 40 tomato E2 enzymes into 13 groups, of which members of group III were found to interact and act specifically with AvrPtoB, a Pseudomonas syringae pv tomato effector that uses its ubiquitin ligase (E3) activity to suppress host immunity. Knocking down the expression of group III E2 genes in Nicotiana benthamiana diminished the AvrPtoB-promoted degradation of the Fen kinase and the AvrPtoB suppression of host immunity-associated programmed cell death. Importantly, silencing group III E2 genes also resulted in reduced pattern-triggered immunity (PTI). By contrast, programmed cell death induced by several effector-triggered immunity elicitors was not affected on group III-silenced plants. Functional characterization suggested redundancy among group III members for their role in the suppression of plant immunity by AvrPtoB and in PTI and identified UBIQUITIN-CONJUGATING11 (UBC11), UBC28, UBC29, UBC39, and UBC40 as playing a more significant role in PTI than other group III members. Our work builds a foundation for the further characterization of E2s in plant immunity and reveals that AvrPtoB has evolved a strategy for suppressing host immunity that is difficult for the plant to thwart. PMID:27909045

A Subset of Ubiquitin-Conjugating Enzymes Is Essential for Plant Immunity.

PubMed

Zhou, Bangjun; Mural, Ravi V; Chen, Xuanyang; Oates, Matt E; Connor, Richard A; Martin, Gregory B; Gough, Julian; Zeng, Lirong

2017-02-01

Of the three classes of enzymes involved in ubiquitination, ubiquitin-conjugating enzymes (E2) have been often incorrectly considered to play merely an auxiliary role in the process, and few E2 enzymes have been investigated in plants. To reveal the role of E2 in plant innate immunity, we identified and cloned 40 tomato genes encoding ubiquitin E2 proteins. Thioester assays indicated that the majority of the genes encode enzymatically active E2. Phylogenetic analysis classified the 40 tomato E2 enzymes into 13 groups, of which members of group III were found to interact and act specifically with AvrPtoB, a Pseudomonas syringae pv tomato effector that uses its ubiquitin ligase (E3) activity to suppress host immunity. Knocking down the expression of group III E2 genes in Nicotiana benthamiana diminished the AvrPtoB-promoted degradation of the Fen kinase and the AvrPtoB suppression of host immunity-associated programmed cell death. Importantly, silencing group III E2 genes also resulted in reduced pattern-triggered immunity (PTI). By contrast, programmed cell death induced by several effector-triggered immunity elicitors was not affected on group III-silenced plants. Functional characterization suggested redundancy among group III members for their role in the suppression of plant immunity by AvrPtoB and in PTI and identified UBIQUITIN-CONJUGATING11 (UBC11), UBC28, UBC29, UBC39, and UBC40 as playing a more significant role in PTI than other group III members. Our work builds a foundation for the further characterization of E2s in plant immunity and reveals that AvrPtoB has evolved a strategy for suppressing host immunity that is difficult for the plant to thwart. © 2017 American Society of Plant Biologists. All Rights Reserved.

Prognostic Relevance of Urinary Bladder Cancer Susceptibility Loci

PubMed Central

Grotenhuis, Anne J.; Dudek, Aleksandra M.; Verhaegh, Gerald W.; Witjes, J. Alfred; Aben, Katja K.; van der Marel, Saskia L.; Vermeulen, Sita H.; Kiemeney, Lambertus A.

2014-01-01

In the last few years, susceptibility loci have been identified for urinary bladder cancer (UBC) through candidate-gene and genome-wide association studies. Prognostic relevance of most of these loci is yet unknown. In this study, we used data of the Nijmegen Bladder Cancer Study (NBCS) to perform a comprehensive evaluation of the prognostic relevance of all confirmed UBC susceptibility loci. Detailed clinical data concerning diagnosis, stage, treatment, and disease course of a population-based series of 1,602 UBC patients were collected retrospectively based on a medical file survey. Kaplan-Meier survival analyses and Cox proportional hazard regression were performed, and log-rank tests calculated, to evaluate the association between 12 confirmed UBC susceptibility variants and recurrence and progression in non-muscle invasive bladder cancer (NMIBC) patients. Among muscle-invasive or metastatic bladder cancer (MIBC) patients, association of these variants with overall survival was tested. Subgroup analyses by tumor aggressiveness and smoking status were performed in NMIBC patients. In the overall NMIBC group (n = 1,269), a statistically significant association between rs9642880 at 8q24 and risk of progression was observed (GT vs. TT: HR = 1.08 (95% CI: 0.76–1.54), GG vs. TT: HR = 1.81 (95% CI: 1.23–2.66), P for trend = 2.6×10−3). In subgroup analyses, several other variants showed suggestive, though non-significant, prognostic relevance for recurrence and progression in NMIBC and survival in MIBC. This study provides suggestive evidence that genetic loci involved in UBC etiology may influence disease prognosis. Elucidation of the causal variant(s) could further our understanding of the mechanism of disease, could point to new therapeutic targets, and might aid in improvement of prognostic tools. PMID:24586564

Transfer Credit Assessment for B.C. College Transfer Students Admitted to the University of British Columbia in the 1997/98 Session.

ERIC Educational Resources Information Center

Reh-Bosch, Susan; Atkins, Lorraine

This report assesses the transfer credit process for British Columbia (BC) college transfer applicants to the University of British Columbia (UBC). Results indicate that students are earning on average 49.7 credits from the BC college attended and are being granted an average of 42.2 credits when transferring to UBC. This translated into 84.9% of…

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hodge, Curtis D.; Ismail, Ismail H.; Edwards, Ross A.

DNA double strand break (DSB) responses depend on the sequential actions of the E3 ubiquitin ligases RNF8 and RNF168 plus E2 ubiquitin-conjugating enzyme Ubc13 to specifically generate histone Lys-63-linked ubiquitin chains in DSB signaling. In this paper, we defined the activated RNF8-Ubc13~ubiquitin complex by x-ray crystallography and its functional solution conformations by x-ray scattering, as tested by separation-of-function mutations imaged in cells by immunofluorescence. The collective results show that the RING E3 RNF8 targets E2 Ubc13 to DSB sites and plays a critical role in damage signaling by stimulating polyubiquitination through modulating conformations of ubiquitin covalently linked to the Ubc13more » active site. Structure-guided separation-of-function mutations show that the RNF8 E2 stimulating activity is essential for DSB signaling in mammalian cells and is necessary for downstream recruitment of 53BP1 and BRCA1. Chromatin-targeted RNF168 rescues 53BP1 recruitment involved in non-homologous end joining but not BRCA1 recruitment for homologous recombination. Finally, these findings suggest an allosteric approach to targeting the ubiquitin-docking cleft at the E2-E3 interface for possible interventions in cancer and chronic inflammation, and moreover, they establish an independent RNF8 role in BRCA1 recruitment.« less

Target sequencing and CRISPR/Cas editing reveal simultaneous loss of UTX and UTY in urothelial bladder cancer.

PubMed

Ahn, Jinwoo; Kim, Kwang Hyun; Park, Sanghui; Ahn, Young-Ho; Kim, Ha Young; Yoon, Hana; Lee, Ji Hyun; Bang, Duhee; Lee, Dong Hyeon

2016-09-27

UTX is a histone demethylase gene located on the X chromosome and is a frequently mutated gene in urothelial bladder cancer (UBC). UTY is a paralog of UTX located on the Y chromosome. We performed target capture sequencing on 128 genes in 40 non-metastatic UBC patients. UTX was the most frequently mutated gene (30%, 12/40). Of the genetic alterations identified, 75% were truncating mutations. UTY copy number loss was detected in 8 male patients (22.8%, 8/35). Of the 9 male patients with UTX mutations, 6 also had copy number loss (66.7%). To evaluate the functional roles of UTX and UTY in tumor progression, we designed UTX and UTY single knockout and UTX-UTY double knockout experiments using a CRISPR/Cas9 lentiviral system, and compared the proliferative capacities of two UBC cell lines in vitro. Single UTX or UTY knockout increased cell proliferation as compared to UTX-UTY wild-type cells. UTX-UTY double knockout cells exhibited greater proliferation than single knockout cells. These findings suggest both UTX and UTY function as dose-dependent suppressors of UBC development. While UTX escapes X chromosome inactivation in females, UTY may function as a male homologue of UTX, which could compensate for dosage imbalances.

Treated unicameral bone cysts.

PubMed

Weinman, J; Servaes, S; Anupindi, S A

2013-06-01

Unicameral bone cysts (UBCs) are a common benign entity involving the metaphysis of growing bone, occurring within the first two decades of life. Assessment of these lesions, both before and after surgery, is performed routinely utilizing radiographs. We present a review of UBCs at various stages of treatment, including both successful and incomplete healing, and describe the imaging findings throughout their postoperative course. Copyright © 2012 The Royal College of Radiologists. Published by Elsevier Ltd. All rights reserved.

SPIRE - combining SGI-110 with cisplatin and gemcitabine chemotherapy for solid malignancies including bladder cancer: study protocol for a phase Ib/randomised IIa open label clinical trial.

PubMed

Crabb, Simon; Danson, Sarah J; Catto, James W F; McDowell, Cathy; Lowder, James N; Caddy, Joshua; Dunkley, Denise; Rajaram, Jessica; Ellis, Deborah; Hill, Stephanie; Hathorn, David; Whitehead, Amy; Kalevras, Mihalis; Huddart, Robert; Griffiths, Gareth

2018-04-03

Urothelial bladder cancer (UBC) accounts for 10,000 new diagnoses and 5000 deaths annually in the UK (Cancer Research UK, http://www.cancerresearchuk.org/health-professional/cancer-statistics/statistics-by-cancer-type/bladder-cancer , Cancer Research UK, Accessed 26 Mar 2018). Cisplatin-based chemotherapy is standard of care therapy for UBC for both palliative first-line treatment of advanced/metastatic disease and radical neoadjuvant treatment of localised muscle invasive bladder cancer. However, cisplatin resistance remains a critical cause of treatment failure and a barrier to therapeutic advance in UBC. Based on supportive pre-clinical data, we hypothesised that DNA methyltransferase inhibition would circumvent cisplatin resistance in UBC and potentially other cancers. The addition of SGI-110 (guadecitabine, a DNA methyltransferase inhibitor) to conventional doublet therapy of gemcitabine and cisplatin (GC) is being tested within the phase Ib/IIa SPIRE clinical trial. SPIRE incorporates an initial, modified rolling six-dose escalation phase Ib design of up to 36 patients with advanced solid tumours followed by a 20-patient open-label randomised controlled dose expansion phase IIa component as neoadjuvant treatment for UBC. Patients are being recruited from UK secondary care sites. The dose escalation phase will determine a recommended phase II dose (RP2D, primary endpoint) of SGI-110, by subcutaneous injection, on days 1-5 for combination with GC at conventional doses (cisplatin 70 mg/m 2 , IV infusion, day 8; gemcitabine 1000 mg/m 2 , IV infusion, days 8 and 15) in every 21-day cycle. In the dose expansion phase, patients will be randomised 1:1 to GC with or without SGI-110 at the proposed RP2D. Secondary endpoints will include toxicity profiles, SGI-110 pharmacokinetics and pharmacodynamic biomarkers, and pathological complete response rates in the dose expansion phase. Analyses will not be powered for formal statistical comparisons and descriptive statistics will be used to describe rates of toxicity, efficacy and translational endpoints by treatment arm. SPIRE will provide evidence for whether SGI-110 in combination with GC chemotherapy is safe and biologically effective prior to future phase II/III trials as a neoadjuvant therapy for UBC and potentially in other cancers treated with GC. EudraCT Number: 2015-004062-29 (entered Dec 7, 2015) ISRCTN registry number: 16332228 (registered on Feb 3, 2016).

Selection of housekeeping genes for use in quantitative reverse transcription PCR assays on the murine cornea.

PubMed

Ren, Shengwei; Zhang, Feng; Li, Changyou; Jia, Changkai; Li, Siyuan; Xi, Haijie; Zhang, Hongbo; Yang, Lingling; Wang, Yiqiang

2010-06-11

To evaluate the suitability of common housekeeping genes (HKGs) for use in quantitative reverse transcription PCR (qRT-PCR) assays of the cornea in various murine disease models. CORNEAL DISEASE MODELS STUDIED WERE: 1) corneal neovascularization (CorNV) induced by suture or chemical burn, 2) corneal infection with Candida albicans or Aspergillus fumigatus by intrastromal injection of live spores, and 3) perforating corneal injury (PCI) in Balb/c mice or C57BL/6 mice. Expression of 8 HKGs (glyceraldehyde-3-phosphate dehydrogenase [GAPDH], beta-actin [ACTB], lactate dehydrogenase A [LDHA], ribosomal protein L5 [RPL5], ubiquitin C [UBC], peptidylprolyl isomerase A [PPIA], TATA-box binding protein [TBP1], and hypoxanthine guanine phosphoribosyl transferase [HPRT1]) in the cornea were measured at various time points by microarray hybridization or qRT-PCR and the data analyzed using geNorm and NormFinder. Microarray results showed that under the CorNV condition the expression stability of the 8 HKGs decreased in order of PPIA>RPL5>HPRT1>ACTB>UBC>TBP1>GAPDH>LDHA. qRT-PCR analyses demonstrated that expression of none of the 8 HKGs remained stable under all conditions, while GAPDH and ACTB were among the least stably expressed markers under most conditions. Both geNorm and NormFinder analyses proposed best HKGs or HKG combinations that differ between the various models. NormFinder proposed PPIA as best HKG for three CorNV models and PCI model, as well as UBC for two fungal keratitis models. geNorm analysis demonstrated that a similar model in different mice strains or caused by different stimuli may require different HKGs or HKG pairs for the best normalization. Namely, geNorm proposed PPIA and HRPT1 and PPIA and RPL5 pairs for chemical burn-induced CorNV in Balb/c and C57BL/6 mice, respectively, while UBC and HPRT1 and UBC and LDHA were best for Candida and Aspergillus induced keratitis in Balb/c mice, respectively. When qRT-PCR is designed for studies of gene expression in murine cornea, preselection of situation-specific reference genes is recommended. In the absence of knowledge about situation-specific HKGs, PPIA and UBC, either alone or in combination with HPRT1 or RPL5, can be employed.

Craniofacial asymmetry as a marker of socioeconomic status among undocumented Mexican immigrants in the United States.

PubMed

Weisensee, Katherine E; Spradley, M Katherine

2018-05-01

This study examines levels of fluctuating asymmetry (FA) in Mexican residents, U.S. residents, and undocumented border crossers (UBCs) from Mexico to the United States. Craniofacial structures develop symmetrically under ideal circumstances; however, during periods of developmental stress random deviations from perfect symmetry, or FA, can occur. It is hypothesized that the UBC sample would represent individuals of a lower socioeconomic status (SES) who experienced higher stress levels during development, and that these individuals would consequently have higher levels of FA. Three-dimensional cranial landmarks were collected from 509 individuals representing the three resident groups. Geometric morphometric methods were used to calculate an FA score for each individual. The FA score provides a distance measure that is a scalar measure of the magnitude of FA in each individual. The results show that the difference in the means of the FA scores between UBCs and U.S. residents is 0.43 (p = 0.02), with UBCs showing significantly higher levels of FA compared to U.S. residents. Moreover, Mexican residents' FA levels are intermediate between and not significantly different from the other two samples. These results suggest that levels of FA may prove useful for reconstructing individuals' social and economic circumstances, and that craniofacial asymmetry provides a suitable biological marker for analyzing differences in SES among different groups. Copyright © 2018 Elsevier B.V. All rights reserved.

Physicochemical variations in atmospheric aerosols recorded at sea onboard the Atlantic-Mediterranean 2008 Scholar Ship cruise (Part II): Natural versus anthropogenic influences revealed by PM 10 trace element geochemistry

NASA Astrophysics Data System (ADS)

Moreno, Teresa; Pérez, Noemi; Querol, Xavier; Amato, Fulvio; Alastuey, Andrés; Bhatia, Ravinder; Spiro, Baruch; Hanvey, Melanie; Gibbons, Wes

2010-07-01

The geochemistry of PM 10 filter samples collected at sea during the Scholar Ship Atlantic-Mediterranean 2008 research cruise reveals a constantly changing compositional mix of pollutants into the marine atmosphere. Source apportionment modelling using Positive Matrix Factorization identifies North African desert dust, sea spray, secondary inorganic aerosols, metalliferous carbon, and V-Ni-bearing combustion particles as the main PM 10 factors/sources. The least contaminated samples show an upper continental crust composition (UCC)-normalised geochemistry influenced by seawater chemistry, with marked depletions in Rb, Th and the lighter lanthanoid elements, whereas the arrival of desert dust intrusions imposes a more upper crustal signature enriched in "geological" elements such as Si, Al, Ti, Rb, Li and Sc. Superimposed on these natural background aerosol loadings are anthropogenic metal aerosols (e.g. Cu, Zn, Pb, V, and Mn) which allow identification of pollution sources such as fossil fuel combustion, biomass burning, metalliferous industries, and urban-industrial ports. A particularly sensitive tracer is La/Ce, which rises in response to contamination from coastal FCC oil refineries. The Scholar Ship database allows us to recognise seaborne pollution sourced from NW Africa, the Cape Verde and Canary islands, and European cities and industrial complexes, plumes which in extreme cases can produce a downwind deterioration in marine air quality comparable to that seen in many cities, and can persist hundreds of kilometres from land.

Successful treatment of unicameral bone cyst by single percutaneous injection of alpha-BSM.

PubMed

Thawrani, Dinesh; Thai, Chia Che; Welch, Robert D; Copley, Lawson; Johnston, Charles E

2009-01-01

Unicameral bone cyst (UBC) is a benign bone lesion, recognized for its high rate of recurrence and need for repeat procedures to achieve healing. We hypothesized that the osteoconductive material apatitic calcium phosphate (alpha-BSM) could be effective in filling and stimulating resolution of UBC. The purpose of this study was to evaluate clinical and radiographic outcomes of UBC treated by a single injection of alpha-BSM. Thirteen patients (6 male, 7 female) with a mean age of 10.5 years, underwent single percutaneous injection of alpha-BSM for presumed UBC. The aspiration of the cysts was followed by vigorous saline lavage using 2 wide bore needles to disrupt the cyst walls. alpha-BSM "paste" was then injected under fluoroscopic guidance. Radiographs were digitized to measure cystic area (millimeter squares) on 2 orthogonal views. Healing was rated according to a modified Neer outcome grading system. Nine of the 13 patients had had pathologic fractures in the past. Eleven of the 13 patients had had past unsuccessful treatment: multiple steroid injections in 6, curettage and bone grafting in 3, and bone marrow and demineralized bone matrix (Grafton) injection in 2. Five cysts were grade 1 (healed 100%), 6 grade 2 (healed >50%), 2 grade 3 (healed <50% with increased cortical thickness), and none grade 4 (recurrence/enlargement). The average resolution of cystic area in 11/13 cysts was 85.7% at final follow-up of 35.8 months (P=0.0001) with 2.8 mm of average gain in cortical thickness (P=0.0018). None of the 13 lesions required an additional procedure or repeat injection. All patients were clinically asymptomatic at latest follow-up. This is the first study quantifying cyst resolution objectively according to actual decrease in area (millimeter squares). A single injection of alpha-BSM is a safe, minimally invasive and efficacious method to treat UBC in the pediatric population.

Ultralife's polymer electrolyte rechargeable lithium-ion batteries for use in the mobile electronics industry

NASA Astrophysics Data System (ADS)

Cuellar, Edward A.; Manna, Michael E.; Wise, Ralph D.; Gavrilov, Alexei B.; Bastian, Matthew J.; Brey, Rufus M.; DeMatteis, Jeffrey

Ultralife Polymer™ brand batteries for cellular phones as made by Nokia Mobile Phones Incorporated were introduced in July 2000. Characteristics of the UBC443483 cell and UB750N battery are described and related to the power and battery requirements of these cellular phones and chargers. Current, power, and pulse capability are presented as functions of temperature, depth of discharge, and storage at the cell level. Safety protection devices and chargers are discussed at the battery pack level, as well as performance in cellular phones under various wireless communication protocols. Performance is competitive with liquid lithium-ion systems while offering opportunity for non-traditional form factors.

Low-Impact Exploration for Gold in the Scottish Caledonides.

NASA Astrophysics Data System (ADS)

Rice, Samuel; Cuthbert, Simon; Hursthouse, Andrew; Broetto, Gabriele

2017-04-01

The Caledonian orogenic belt of the northern British Isles hosts some significant gold deposits. However, gold mineralization in the region is underexplored. Some of the most prospective areas identified by rich alluvial gold anomalies are environmentally and culturally sensitive. Traditional mineral exploration methods can have a range of negative environmental, social and economic impacts. The regional tourism economy is dependent on outdoor activities, landscape quality, wildlife and industrial heritage and has the potential to be disrupted by mineral resource developments. Low-cost, low-impact exploration strategies are therefore, key to sustainably developing the mineral resource potential. Research currently in progress in part of the Scottish Caledonides aims to develop protocols for more sustainable exploration. We are using a range of geoscience techniques to characterize the mineral system, improve exploration targeting and reduce negative impacts. To do this we targeted an area with a large preexisting dataset (e.g. stream sediment geochemistry, geomorphology, structural geology, petrology, geophysics, mine data) that can be synthesized and analyzed in a GIS. Part of the work aims to develop and test a model for gold dispersion in the surface environment that accounts for climatic and anthropogenic influences in order to locate bedrock sources. This multidisciplinary approach aims to reduce the target areas for subsequent exploration activities such as soil sampling, excavation and drilling.

Project Introduction for SUBSEA: Systematic Underwater Biogeochemical Science and Exploration Analog

NASA Astrophysics Data System (ADS)

Nawotniak, S. E. K.; Lim, D. S. S.; German, C. R.; Shock, E. L.; Huber, J. A.; Breier, J. A.

2018-05-01

NASA SUBSEA studies low T, low P seamounts via integrated volcanology, geochemistry, and microbiology as an analog for Enceladus. Research done in telerobotic space exploration simulation. First cruise is Loihi in August 2018.

A Real-Time Non-invasive Auto-bioluminescent Urinary Bladder Cancer Xenograft Model.

PubMed

John, Bincy Anu; Xu, Tingting; Ripp, Steven; Wang, Hwa-Chain Robert

2017-02-01

The study was to develop an auto-bioluminescent urinary bladder cancer (UBC) xenograft animal model for pre-clinical research. The study used a humanized, bacteria-originated lux reporter system consisting of six (luxCDABEfrp) genes to express components required for producing bioluminescent signals in human UBC J82, J82-Ras, and SW780 cells without exogenous substrates. Immune-deficient nude mice were inoculated with Lux-expressing UBC cells to develop auto-bioluminescent xenograft tumors that were monitored by imaging and physical examination. Lux-expressing auto-bioluminescent J82-Lux, J82-Ras-Lux, and SW780-Lux cell lines were established. Xenograft tumors derived from tumorigenic Lux-expressing auto-bioluminescent J82-Ras-Lux cells allowed a serial, non-invasive, real-time monitoring by imaging of tumor development prior to the presence of palpable tumors in animals. Using Lux-expressing auto-bioluminescent tumorigenic cells enabled us to monitor the entire course of xenograft tumor development through tumor cell implantation, adaptation, and growth to visible/palpable tumors in animals.

[Simultaneous existence of unicameral bone cysts involving the femur and ischium].

PubMed

Makris, Vassilios; Papavasiliou, Kyriakos A; Bobos, Mattheos; Hytiroglou, Prodromos; Kirkos, John M; Kapetanos, George A

2009-01-01

We report a 30-year-old male patient with two unicameral bone cysts (UBC) simultaneously located in the proximal third of the right femur and ipsilateral ischium ramus, respectively. Fine needle biopsies were attempted for both lesions. Biopsy of the femoral lesion under local anesthesia was unsuccessful, so an open biopsy was performed which confirmed the diagnosis of UBC. Biopsy of the ischial lesion was not sufficient for diagnosis. Cytological examination of both specimens showed no other benign or malignant pathology. The femoral lesion was treated with intralesional (due to its large size) excision-curettage, bone grafting, and the introduction of a long gamma locking intramedullary nail to prevent the occurrence of a pathological fracture. The ischial lesion was left untreated and followed conservatively. The patient was free of any symptoms and complications three years postoperatively. This is the first report of an adult patient with UBCs simultaneously located both in a long tubular bone (femur) and a flat bone (ischium ramus).

Steroid injections in the treatment of humeral unicameral bone cysts: long-term follow-up and review of the literature.

PubMed

Pavone, V; Caff, G; Di Silvestri, C; Avondo, S; Sessa, G

2014-05-01

Retrospective evaluation of long-term effectiveness of the steroid injections treatment in patients with unicameral bone cysts (UBC). From January 1993 to April 2005, 23 children affected by proximal humeral UBC were evaluated according to the Neer-Cole classification system and treated with serial methylprednisolone acetate's injections. The patients were followed up at 1, 3, 6 and 12 months and then every year until the adolescence. After treatment, in 15 out of 23 patients (65.2%), the humeral cysts were referred, respectively, as Grade 1 and in four as Grade 2. In 4 patients, a refracture occurred. Statistical analysis showed an overall good response in 82.6% of patients at the end of the follow-up. Minor complication including skin discoloration accounted for 13.04%. The steroid injections showed to be an alternative excellent treatment for UBC, with complete healing of the lesions in the majority of cases. This procedure is not expensive, mini-invasive, with low surgical risk and short hospitalization.

Atomic structure of the APC/C and its mechanism of protein ubiquitination

PubMed Central

Yang, Jing; McLaughlin, Stephen H.; Barford, David

2015-01-01

The anaphase-promoting complex (APC/C) is a multimeric RING E3 ubiquitin ligase that controls chromosome segregation and mitotic exit. Its regulation by coactivator subunits, phosphorylation, the mitotic checkpoint complex, and interphase inhibitor Emi1 ensures the correct order and timing of distinct cell cycle transitions. Here, we used cryo-electron microscopy to determine atomic structures of APC/C-coactivator complexes with either Emi1 or a UbcH10-ubiquitin conjugate. These structures define the architecture of all APC/C subunits, the position of the catalytic module, and explain how Emi1 mediates inhibition of the two E2s UbcH10 and Ube2S. Definition of Cdh1 interactions with the APC/C indicates how they are antagonized by Cdh1 phosphorylation. The structure of the APC/C with UbcH10-ubiquitin reveals insights into the initiating ubiquitination reaction. Our results provide a quantitative framework for the design of experiments to further investigate APC/C functions in vivo. PMID:26083744

Reconstitution of the Recombinant RanBP2 SUMO E3 Ligase Complex.

PubMed

Ritterhoff, Tobias; Das, Hrishikesh; Hao, Yuqing; Sakin, Volkan; Flotho, Annette; Werner, Andreas; Melchior, Frauke

2016-01-01

One of the few proteins that have SUMO E3 ligase activity is the 358 kDa nucleoporin RanBP2 (Nup358). While small fragments of RanBP2 can stimulate SUMOylation in vitro, the physiologically relevant E3 ligase is a stable multi-subunit complex comprised of RanBP2, SUMOylated RanGAP1, and Ubc9. Here, we provide a detailed protocol to in vitro reconstitute the RanBP2 SUMO E3 ligase complex. With the exception of RanBP2, reconstitution involves untagged full-length proteins. We describe the bacterial expression and purification of all complex components, namely an 86 kDa His-tagged RanBP2 fragment, the SUMO E2-conjugating enzyme Ubc9, RanGAP1, and SUMO1, and we provide a protocol for quantitative SUMOylation of RanGAP1. Finally, we present details for the assembly and final purification of the catalytically active RanBP2/RanGAP1*SUMO1/Ubc9 complex.

Avoidance of APOBEC3B-induced mutation by error-free lesion bypass

PubMed Central

Hoopes, James I.; Hughes, Amber L.; Hobson, Lauren A.; Cortez, Luis M.; Brown, Alexander J.

2017-01-01

Abstract APOBEC cytidine deaminases mutate cancer genomes by converting cytidines into uridines within ssDNA during replication. Although uracil DNA glycosylases limit APOBEC-induced mutation, it is unknown if subsequent base excision repair (BER) steps function on replication-associated ssDNA. Hence, we measured APOBEC3B-induced CAN1 mutation frequencies in yeast deficient in BER endonucleases or DNA damage tolerance proteins. Strains lacking Apn1, Apn2, Ntg1, Ntg2 or Rev3 displayed wild-type frequencies of APOBEC3B-induced canavanine resistance (CanR). However, strains without error-free lesion bypass proteins Ubc13, Mms2 and Mph1 displayed respective 4.9-, 2.8- and 7.8-fold higher frequency of APOBEC3B-induced CanR. These results indicate that mutations resulting from APOBEC activity are avoided by deoxyuridine conversion to abasic sites ahead of nascent lagging strand DNA synthesis and subsequent bypass by error-free template switching. We found this mechanism also functions during telomere re-synthesis, but with a diminished requirement for Ubc13. Interestingly, reduction of G to C substitutions in Ubc13-deficient strains uncovered a previously unknown role of Ubc13 in controlling the activity of the translesion synthesis polymerase, Rev1. Our results highlight a novel mechanism for error-free bypass of deoxyuridines generated within ssDNA and suggest that the APOBEC mutation signature observed in cancer genomes may under-represent the genomic damage these enzymes induce. PMID:28334887

Locking plate and fibular strut-graft augmentation in the reconstruction of unicameral bone cyst of proximal femur in the paediatric population.

PubMed

Jamshidi, Khodamorad; Mirkazemi, Masoud; Izanloo, Azra; Mirzaei, Alireza

2018-01-01

Several therapeutic strategies have been used for managing unicameral bone cyst (UBC) of the proximal femur. However, there is insufficient evidence to support one treatment over another, and the optimal treatment is controversial. This study aims at describing our experience with surgical reconstruction of paediatric UBCs of the proximal femur using a proximal locking plate and fibular strut allograft. In total, 14 consecutive paediatric patients with Dormans types IB (four cases) and IIB (10 cases) UBC were assessed. Mean patient age was 8.6 ± 2.3 years, and mean follow-up period was 41.7 ± 29.8 months. Six patients (42.8%) were referred with a pathologic fracture. Clinical/radiological outcome and complication rates were evaluated at the final follow-up session. No cysts were Capanna's class III (recurrence) or IV (no response). Complete healing (Capanna's class I) was seen in ten cysts, while four other cysts healed with residual radiolucent areas (Capanna's class II). Mean healing period was 14.1 ± 5.1 (9-24 months). One patient had superficial infection, one heterotopic ossification, and one mild coxa vara, and mean Musculoskeletal Tumor Society (MSTS) score was 99.5%. According to our results, locking plate and fibular strut graft in Dormans classification types IB and IIB results in a favorable outcome in managing UBC of the proximal femur in the paediatric population.

Steroid receptor coactivator-3 regulates glucose metabolism in bladder cancer cells through coactivation of hypoxia inducible factor 1α.

PubMed

Zhao, Wei; Chang, Cunjie; Cui, Yangyan; Zhao, Xiaozhi; Yang, Jun; Shen, Lan; Zhou, Ji; Hou, Zhibo; Zhang, Zhen; Ye, Changxiao; Hasenmayer, Donald; Perkins, Robert; Huang, Xiaojing; Yao, Xin; Yu, Like; Huang, Ruimin; Zhang, Dianzheng; Guo, Hongqian; Yan, Jun

2014-04-18

Cancer cell proliferation is a metabolically demanding process, requiring high glycolysis, which is known as "Warburg effect," to support anabolic growth. Steroid receptor coactivator-3 (SRC-3), a steroid receptor coactivator, is overexpressed and/or amplified in multiple cancer types, including non-steroid targeted cancers, such as urinary bladder cancer (UBC). However, whether SRC-3 regulates the metabolic reprogramming for cancer cell growth is unknown. Here, we reported that overexpression of SRC-3 accelerated UBC cell growth, accompanied by the increased expression of genes involved in glycolysis. Knockdown of SRC-3 reduced the UBC cell glycolytic rate under hypoxia, decreased tumor growth in nude mice, with reduction of proliferating cell nuclear antigen and lactate dehydrogenase expression levels. We further revealed that SRC-3 could interact with hypoxia inducible factor 1α (HIF1α), which is a key transcription factor required for glycolysis, and coactivate its transcriptional activity. SRC-3 was recruited to the promoters of HIF1α-target genes, such as glut1 and pgk1. The positive correlation of expression levels between SRC-3 and Glut1 proteins was demonstrated in human UBC patient samples. Inhibition of glycolysis through targeting HK2 or LDHA decelerated SRC-3 overexpression-induced cell growth. In summary, overexpression of SRC-3 promoted glycolysis in bladder cancer cells through HIF1α to facilitate tumorigenesis, which may be an intriguing drug target for bladder cancer therapy.

Protein quality control at the inner nuclear membrane

PubMed Central

Khmelinskii, Anton; Blaszczak, Ewa; Pantazopoulou, Marina; Fischer, Bernd; Omnus, Deike J.; Le Dez, Gaëlle; Brossard, Audrey; Gunnarsson, Alexander; Barry, Joseph D.; Meurer, Matthias; Kirrmaier, Daniel; Boone, Charles; Huber, Wolfgang; Rabut, Gwenaël; Ljungdahl, Per O.; Knop, Michael

2015-01-01

The nuclear envelope is a double membrane that separates the nucleus from the cytoplasm. The inner nuclear membrane (INM) functions in essential nuclear processes including chromatin organization and regulation of gene expression1. The outer nuclear membrane is continuous with the endoplasmic reticulum (ER) and is the site of membrane protein synthesis. Protein homeostasis in this compartment is ensured by ER-associated protein degradation (ERAD) pathways that in yeast involve the integral membrane E3 ubiquitin ligases Hrd1 and Doa10 operating with the E2 ubiquitin-conjugating enzymes Ubc6 and Ubc72,3. However, little is known regarding protein quality control at the INM. Here we describe a protein degradation pathway at the INM mediated by the Asi complex consisting of the RING domain proteins Asi1 and Asi34. We report that the As complex functions together with the ubiquitin conjugating enzymes Ubc6andUbc7to degrade soluble and integral membrane proteins. Genetic evidence suggest that the Asi ubiquitin ligase defines a pathway distinct from but complementary to ERAD. Using unbiased screening with a novel genome-wide yeast library based on a tandem fluorescent protein timer (tFT)5, we identify more than 50 substrates of the Asi, Hrd1 and Doa10 E3 ubiquity ligases. We show that the Asi ubiquitin ligase is involved in degradation of mislocalised integral membrane proteins, thus acting to maintain and safeguard the identity of the INM. PMID:25519137

Geothermal Program Review XI: proceedings. Geothermal Energy - The Environmental Responsible Energy Technology for the Nineties

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1993-10-01

These proceedings contain papers pertaining to current research and development of geothermal energy in the USA. The seven sections of the document are: Overview, The Geysers, Exploration and Reservoir Characterization, Drilling, Energy Conversion, Advanced Systems, and Potpourri. The Overview presents current DOE energy policy and industry perspectives. Reservoir studies, injection, and seismic monitoring are reported for the geysers geothermal field. Aspects of geology, geochemistry and models of geothermal exploration are described. The Drilling section contains information on lost circulation, memory logging tools, and slim-hole drilling. Topics considered in energy conversion are efforts at NREL, condensation on turbines and geothermal materials.more » Advanced Systems include hot dry rock studies and Fenton Hill flow testing. The Potpourri section concludes the proceedings with reports on low-temperature resources, market analysis, brines, waste treatment biotechnology, and Bonneville Power Administration activities. Selected papers have been indexed separately for inclusion in the Energy Science and Technology Database.« less

Multisite Phosphorylation of Human Liver Cytochrome P450 3A4 Enhances Its gp78- and CHIP-mediated Ubiquitination

PubMed Central

Wang, YongQiang; Guan, Shenheng; Acharya, Poulomi; Liu, Yi; Thirumaran, Ranjit K.; Brandman, Relly; Schuetz, Erin G.; Burlingame, Alma L.; Correia, Maria Almira

2012-01-01

CYP3A4, an integral endoplasmic reticulum (ER)-anchored protein, is the major human liver cytochrome P450 enzyme responsible for the disposition of over 50% of clinically relevant drugs. Alterations of its protein turnover can influence drug metabolism, drug-drug interactions, and the bioavailability of chemotherapeutic drugs. Such CYP3A4 turnover occurs via a classical ER-associated degradation (ERAD) process involving ubiquitination by both UBC7/gp78 and UbcH5a/CHIP E2-E3 complexes for 26 S proteasomal targeting. These E3 ligases act sequentially and cooperatively in CYP3A4 ERAD because RNA interference knockdown of each in cultured hepatocytes results in the stabilization of a functionally active enzyme. We have documented that UBC7/gp78-mediated CYP3A4 ubiquitination requires protein phosphorylation by protein kinase (PK) A and PKC and identified three residues (Ser-478, Thr-264, and Ser-420) whose phosphorylation is required for intracellular CYP3A4 ERAD. We document herein that of these, Ser-478 plays a pivotal role in UBC7/gp78-mediated CYP3A4 ubiquitination, which is accelerated and enhanced on its mutation to the phosphomimetic Asp residue but attenuated on its Ala mutation. Intriguingly, CYP3A5, a polymorphically expressed human liver CYP3A4 isoform (containing Asp-478) is ubiquitinated but not degraded to a greater extent than CYP3A4 in HepG2 cells. This suggests that although Ser-478 phosphorylation is essential for UBC7/gp78-mediated CYP3A4 ubiquitination, it is not sufficient for its ERAD. Additionally, we now report that CYP3A4 protein phosphorylation by PKA and/or PKC at sites other than Ser-478, Thr-264, and Ser-420 also enhances UbcH5a/CHIP-mediated ubiquitination. Through proteomic analyses, we identify (i) 12 additional phosphorylation sites that may be involved in CHIP-CYP3A4 interactions and (ii) 8 previously unidentified CYP3A4 ubiquitination sites within spatially associated clusters of Asp/Glu and phosphorylatable Ser/Thr residues that may serve to engage each E2-E3 complex. Collectively, our findings underscore the interplay between protein phosphorylation and ubiquitination in ERAD and, to our knowledge, provide the very first example of gp78 substrate recognition via protein phosphorylation. PMID:22101235

Suitable Reference Genes for Accurate Gene Expression Analysis in Parsley (Petroselinum crispum) for Abiotic Stresses and Hormone Stimuli

PubMed Central

Li, Meng-Yao; Song, Xiong; Wang, Feng; Xiong, Ai-Sheng

2016-01-01

Parsley, one of the most important vegetables in the Apiaceae family, is widely used in the food, medicinal, and cosmetic industries. Recent studies on parsley mainly focus on its chemical composition, and further research involving the analysis of the plant's gene functions and expressions is required. qPCR is a powerful method for detecting very low quantities of target transcript levels and is widely used to study gene expression. To ensure the accuracy of results, a suitable reference gene is necessary for expression normalization. In this study, four software, namely geNorm, NormFinder, BestKeeper, and RefFinder were used to evaluate the expression stabilities of eight candidate reference genes of parsley (GAPDH, ACTIN, eIF-4α, SAND, UBC, TIP41, EF-1α, and TUB) under various conditions, including abiotic stresses (heat, cold, salt, and drought) and hormone stimuli treatments (GA, SA, MeJA, and ABA). Results showed that EF-1α and TUB were the most stable genes for abiotic stresses, whereas EF-1α, GAPDH, and TUB were the top three choices for hormone stimuli treatments. Moreover, EF-1α and TUB were the most stable reference genes among all tested samples, and UBC was the least stable one. Expression analysis of PcDREB1 and PcDREB2 further verified that the selected stable reference genes were suitable for gene expression normalization. This study can guide the selection of suitable reference genes in gene expression in parsley. PMID:27746803

Suitable Reference Genes for Accurate Gene Expression Analysis in Parsley (Petroselinum crispum) for Abiotic Stresses and Hormone Stimuli.

PubMed

Li, Meng-Yao; Song, Xiong; Wang, Feng; Xiong, Ai-Sheng

2016-01-01

Parsley, one of the most important vegetables in the Apiaceae family, is widely used in the food, medicinal, and cosmetic industries. Recent studies on parsley mainly focus on its chemical composition, and further research involving the analysis of the plant's gene functions and expressions is required. qPCR is a powerful method for detecting very low quantities of target transcript levels and is widely used to study gene expression. To ensure the accuracy of results, a suitable reference gene is necessary for expression normalization. In this study, four software, namely geNorm, NormFinder, BestKeeper, and RefFinder were used to evaluate the expression stabilities of eight candidate reference genes of parsley ( GAPDH, ACTIN, eIF-4 α, SAND, UBC, TIP41, EF-1 α, and TUB ) under various conditions, including abiotic stresses (heat, cold, salt, and drought) and hormone stimuli treatments (GA, SA, MeJA, and ABA). Results showed that EF-1 α and TUB were the most stable genes for abiotic stresses, whereas EF-1 α, GAPDH , and TUB were the top three choices for hormone stimuli treatments. Moreover, EF-1 α and TUB were the most stable reference genes among all tested samples, and UBC was the least stable one. Expression analysis of PcDREB1 and PcDREB2 further verified that the selected stable reference genes were suitable for gene expression normalization. This study can guide the selection of suitable reference genes in gene expression in parsley.

A Phase II Trial on the Effect of Low Dose versus High Dose Vitamin D Supplementation on Bone Mass in Adults with Neurofibromatosis 1 (NF1)

DTIC Science & Technology

2016-10-01

USAMRMC ORP HRPO. Ethics board approval from UBC has been approved by HRPO, and U of Cincinnati is under review. The University of Hamburg is working...UBC ethics committee approval was established, and USAMRMC ORP HRPO approval was provided October 20, 2015. Additional continuing review approval in...operations, and once translated to German will be submitted to its ethics committee. The CRFs have been translated into German and will be submitted

Prediction of BMI at age 11 in a longitudinal sample of the Ulm Birth Cohort Study

PubMed Central

Walter, Viola; Wabitsch, Martin; Rothenbacher, Dietrich; Brenner, Hermann; Schimmelmann, Benno G.

2017-01-01

Obesity is one of the greatest public health challenges in the world with childhood prevalence rates between 20–26% and numerous associated health risks. The aim of the current study was to analyze the 11-year follow-up data of the Ulm Birth Cohort Study (UBCS), to identify whether abnormal eating behavior patterns, especially restrained eating, predict body mass index (BMI) at 11 years of age and to explore other factors known to be longitudinally associated with it. Of the original UBCS, n = 422 children (~ 40% of the original sample) and their parents participated in the 11-year follow-up. BMI at age 8 and 11 as well as information on restrained eating, psychological problems, depressive symptoms, lifestyle, and IQ at age 8 were assessed. Partial Least Squares Structural Equation Modeling (PLS-SEM) was used to predict children’s BMI scores at age 11. PLS-SEM explained 68% of the variance of BMI at age 11, with BMI at age 8 being the most important predictor. Restrained eating, via BMI at age 8 as well as parental BMI, had further weak associations with BMI at age 11; no other predictor was statistically significant. Since established overweight at age 8 already predicts BMI scores at age 11 longitudinally, obesity interventions should be implemented in early childhood. PMID:28832593

Tripartite motif ligases catalyze polyubiquitin chain formation through a cooperative allosteric mechanism.

PubMed

Streich, Frederick C; Ronchi, Virginia P; Connick, J Patrick; Haas, Arthur L

2013-03-22

Ligation of polyubiquitin chains to proteins is a fundamental post-translational modification, often resulting in targeted degradation of conjugated proteins. Attachment of polyubiquitin chains requires the activities of an E1 activating enzyme, an E2 carrier protein, and an E3 ligase. The mechanism by which polyubiquitin chains are formed remains largely speculative, especially for RING-based ligases. The tripartite motif (TRIM) superfamily of ligases functions in many cellular processes including innate immunity, cellular localization, development and differentiation, signaling, and cancer progression. The present results show that TRIM ligases catalyze polyubiquitin chain formation in the absence of substrate, the rates of which can be used as a functional readout of enzyme function. Initial rate studies under biochemically defined conditions show that TRIM32 and TRIM25 are specific for the Ubc5 family of E2-conjugating proteins and, along with TRIM5α, exhibit cooperative kinetics with respect to Ubc5 concentration, with submicromolar [S]0.5 and Hill coefficients of 3-5, suggesting they possess multiple binding sites for their cognate E2-ubiquitin thioester. Mutation studies reveal a second, non-canonical binding site encompassing the C-terminal Ubc5α-helix. Polyubiquitin chain formation requires TRIM subunit oligomerization through the conserved coiled-coil domain, but can be partially replaced by fusing the catalytic domain to GST to promote dimerization. Other results suggest that TRIM32 assembles polyubiquitin chains as a Ubc5-linked thioester intermediate. These results represent the first detailed mechanistic study of TRIM ligase activity and provide a functional context for oligomerization observed in the superfamily.

A complex regulatory network coordinating cell cycles during C. elegans development is revealed by a genome-wide RNAi screen.

PubMed

Roy, Sarah H; Tobin, David V; Memar, Nadin; Beltz, Eleanor; Holmen, Jenna; Clayton, Joseph E; Chiu, Daniel J; Young, Laura D; Green, Travis H; Lubin, Isabella; Liu, Yuying; Conradt, Barbara; Saito, R Mako

2014-02-28

The development and homeostasis of multicellular animals requires precise coordination of cell division and differentiation. We performed a genome-wide RNA interference screen in Caenorhabditis elegans to reveal the components of a regulatory network that promotes developmentally programmed cell-cycle quiescence. The 107 identified genes are predicted to constitute regulatory networks that are conserved among higher animals because almost half of the genes are represented by clear human orthologs. Using a series of mutant backgrounds to assess their genetic activities, the RNA interference clones displaying similar properties were clustered to establish potential regulatory relationships within the network. This approach uncovered four distinct genetic pathways controlling cell-cycle entry during intestinal organogenesis. The enhanced phenotypes observed for animals carrying compound mutations attest to the collaboration between distinct mechanisms to ensure strict developmental regulation of cell cycles. Moreover, we characterized ubc-25, a gene encoding an E2 ubiquitin-conjugating enzyme whose human ortholog, UBE2Q2, is deregulated in several cancers. Our genetic analyses suggested that ubc-25 acts in a linear pathway with cul-1/Cul1, in parallel to pathways employing cki-1/p27 and lin-35/pRb to promote cell-cycle quiescence. Further investigation of the potential regulatory mechanism demonstrated that ubc-25 activity negatively regulates CYE-1/cyclin E protein abundance in vivo. Together, our results show that the ubc-25-mediated pathway acts within a complex network that integrates the actions of multiple molecular mechanisms to control cell cycles during development. Copyright © 2014 Roy et al.

Bone cysts: unicameral and aneurysmal bone cyst.

PubMed

Mascard, E; Gomez-Brouchet, A; Lambot, K

2015-02-01

Simple and aneurysmal bone cysts are benign lytic bone lesions, usually encountered in children and adolescents. Simple bone cyst is a cystic, fluid-filled lesion, which may be unicameral (UBC) or partially separated. UBC can involve all bones, but usually the long bone metaphysis and otherwise primarily the proximal humerus and proximal femur. The classic aneurysmal bone cyst (ABC) is an expansive and hemorrhagic tumor, usually showing characteristic translocation. About 30% of ABCs are secondary, without translocation; they occur in reaction to another, usually benign, bone lesion. ABCs are metaphyseal, excentric, bulging, fluid-filled and multicameral, and may develop in all bones of the skeleton. On MRI, the fluid level is evocative. It is mandatory to distinguish ABC from UBC, as prognosis and treatment are different. UBCs resolve spontaneously between adolescence and adulthood; the main concern is the risk of pathologic fracture. Treatment in non-threatening forms consists in intracystic injection of methylprednisolone. When there is a risk of fracture, especially of the femoral neck, surgery with curettage, filling with bone substitute or graft and osteosynthesis may be required. ABCs are potentially more aggressive, with a risk of bone destruction. Diagnosis must systematically be confirmed by biopsy, identifying soft-tissue parts, as telangiectatic sarcoma can mimic ABC. Intra-lesional sclerotherapy with alcohol is an effective treatment. In spinal ABC and in aggressive lesions with a risk of fracture, surgical treatment should be preferred, possibly after preoperative embolization. The risk of malignant transformation is very low, except in case of radiation therapy. Copyright © 2014 Elsevier Masson SAS. All rights reserved.

Mutually exclusive STAT1 modifications identified by Ubc9/substrate dimerization-dependent SUMOylation.

PubMed

Zimnik, Susan; Gaestel, Matthias; Niedenthal, Rainer

2009-03-01

Post-translational modifications control the physiological activity of the signal transducer and activator of transcription STAT1. While phosphorylation at tyrosine Y701 is a prerequisite for STAT1 dimerization, its SUMOylation represses the transcriptional activity. Recently, we have demonstrated that SUMOylation at lysine K703 inhibits the phosphorylation of nearby localized Y701 of STAT1. Here, we analysed the influence of phosphorylation of Y701 on SUMOylation of K703 in vivo. For that reason, an Ubc9/substrate dimerization-dependent SUMOylation (USDDS) system was developed, which consists of fusions of the SUMOylation substrate and of the SUMO-conjugating enzyme Ubc9 to the chemically activatable heterodimerization domains FKBP and FRB, respectively. When FKBP fusion proteins of STAT1, p53, CRSP9, FOS, CSNK2B, HES1, TCF21 and MYF6 are coexpressed with Ubc9-FRB, treatment of HEK293 cells with the rapamycin-related dimerizer compound AP21967 induces SUMOylation of these proteins in vivo. For STAT1-FKBP and p53-FKBP we show that this SUMOylation takes place at their specific SUMOylation sites in vivo. Using USDDS, we then demonstrate that STAT1 phosphorylation at Y701 induced by interferon-beta treatment inhibits SUMOylation of K703 in vivo. Thus, pY701 and SUMO-K703 of STAT1 represent mutually exclusive modifications, which prevent signal integration at this molecule and probably ensure the existence of differentially modified subpopulations of STAT1 necessary for its regulated nuclear cytoplasmic activation/inactivation cycle.

Sequential Poly-ubiquitylation by Specialized Conjugating Enzymes Expands the Versatility of a Quality Control Ubiquitin Ligase.

PubMed

Weber, Annika; Cohen, Itamar; Popp, Oliver; Dittmar, Gunnar; Reiss, Yuval; Sommer, Thomas; Ravid, Tommer; Jarosch, Ernst

2016-09-01

The Doa10 quality control ubiquitin (Ub) ligase labels proteins with uniform lysine 48-linked poly-Ub (K48-pUB) chains for proteasomal degradation. Processing of Doa10 substrates requires the activity of two Ub conjugating enzymes. Here we show that the non-canonical conjugating enzyme Ubc6 attaches single Ub molecules not only to lysines but also to hydroxylated amino acids. These Ub moieties serve as primers for subsequent poly-ubiquitylation by Ubc7. We propose that the evolutionary conserved propensity of Ubc6 to mount Ub on diverse amino acids augments the number of ubiquitylation sites within a substrate and thereby increases the target range of Doa10. Our work provides new insights on how the consecutive activity of two specialized conjugating enzymes facilitates the attachment of poly-Ub to very heterogeneous client molecules. Such stepwise ubiquitylation reactions most likely represent a more general cellular phenomenon that extends the versatility yet sustains the specificity of the Ub conjugation system. Copyright © 2016 Elsevier Inc. All rights reserved.

Sequence variant on 8q24 confers susceptibility to urinary bladder cancer

PubMed Central

Kiemeney, Lambertus A.; Thorlacius, Steinunn; Sulem, Patrick; Geller, Frank; Aben, Katja K.H.; Stacey, Simon N.; Gudmundsson, Julius; Jakobsdottir, Margret; Bergthorsson, Jon T.; Sigurdsson, Asgeir; Blondal, Thorarinn; Witjes, J. Alfred; Vermeulen, Sita H.; Hulsbergen-van de Kaa, Christina A.; Swinkels, Dorine W.; Ploeg, Martine; Cornel, Erik B.; Vergunst, Henk; Thorgeirsson, Thorgeir E.; Gudbjartsson, Daniel; Gudjonsson, Sigurjon A.; Thorleifsson, Gudmar; Kristinsson, Kari T.; Mouy, Magali; Snorradottir, Steinunn; Placidi, Donatella; Campagna, Marcello; Arici, Cecilia; Koppova, Kvetoslava; Gurzau, Eugene; Rudnai, Peter; Kellen, Eliane; Polidoro, Silvia; Guarrera, Simonetta; Sacerdote, Carlotta; Sanchez, Manuel; Saez, Berta; Valdivia, Gabriel; Ryk, Charlotta; de Verdier, Petra; Lindblom, Annika; Golka, Klaus; Bishop, D. Timothy; Knowles, Margaret A.; Nikulasson, Sigfus; Petursdottir, Vigdis; Jonsson, Eirikur; Geirsson, Gudmundur; Kristjansson, Baldvin; Mayordomo, Jose I.; Steineck, Gunnar; Porru, Stefano; Buntinx, Frank; Zeegers, Maurice P.; Fletcher, Tony; Kumar, Rajiv; Matullo, Giuseppe; Vineis, Paolo; Kiltie, Anne E.; Gulcher, Jeffrey R.; Thorsteinsdottir, Unnur; Kong, Augustine; Rafnar, Thorunn; Stefansson, Kari

2015-01-01

We conducted a genome wide SNP association study on 1,803 Urinary Bladder Cancer (UBC) cases and 34,336 controls from Iceland and the Netherlands and follow up studies in seven additional case control groups (2,165 cases and 3,800 controls). The strongest association was observed with allele T of rs9642880 on chromosome 8q24, 30kb upstream of the c-Myc gene (allele specific OR=1.22; P=9.34×10−12). Approximately 20% of individuals of European ancestry are homozygous for rs9642880 (T) and their estimated risk of developing UBC is 1.49 times that of non-carriers with population attributable risk (PAR) of 17%. No association was observed between UBC and the four 8q24 variants previously associated with prostate, colorectal and breast cancers, nor did rs9642880 associate with any of these three cancers. A weaker signal, but nonetheless of genome wide significance, was captured by rs710521 (A) located near the TP63 gene on chromosome 3q28 (allele specific OR=1.19; P=1. 15× 10−7). PMID:18794855

Transient inhibition of the ERK pathway prevents cerebellar developmental defects and improves long-term motor functions in murine models of neurofibromatosis type 1.

PubMed

Kim, Edward; Wang, Yuan; Kim, Sun-Jung; Bornhorst, Miriam; Jecrois, Emmanuelle S; Anthony, Todd E; Wang, Chenran; Li, Yi E; Guan, Jun-Lin; Murphy, Geoffrey G; Zhu, Yuan

2014-12-23

Individuals with neurofibromatosis type 1 (NF1) frequently exhibit cognitive and motor impairments and characteristics of autism. The cerebellum plays a critical role in motor control, cognition, and social interaction, suggesting that cerebellar defects likely contribute to NF1-associated neurodevelopmental disorders. Here we show that Nf1 inactivation during early, but not late stages of cerebellar development, disrupts neuronal lamination, which is partially caused by overproduction of glia and subsequent disruption of the Bergmann glia (BG) scaffold. Specific Nf1 inactivation in glutamatergic neuronal precursors causes premature differentiation of granule cell (GC) precursors and ectopic production of unipolar brush cells (UBCs), indirectly disrupting neuronal migration. Transient MEK inhibition during a neonatal window prevents cerebellar developmental defects and improves long-term motor performance of Nf1-deficient mice. This study reveals essential roles of Nf1 in GC/UBC migration by generating correct numbers of glia and controlling GC/UBC fate-specification/differentiation, identifying a therapeutic prevention strategy for multiple NF1-associcated developmental abnormalities.

Temporary Transfer of Firearms From the Home to Prevent Suicide: Legal Obstacles and Recommendations.

PubMed

McCourt, Alexander D; Vernick, Jon S; Betz, Marian E; Brandspigel, Sara; Runyan, Carol W

2017-01-01

The presence of firearms in the home increases the risk of suicide for residents. As a result, clinicians and professional organizations recommend counseling about temporary removal of firearms from the home of potentially suicidal individuals. In some states, however, firearm laws may affect the ability to easily transfer a gun temporarily to reduce suicide risk. In particular, universal background check (UBC) laws-which require a background check whenever a gun is transferred, even by non-gun dealers-may also apply to temporary transfers intended to reduce suicide risk. Clinicians have previously reported that confusion regarding state firearm laws and uncertainty over the legality of a temporary transfer have affected their ability to effectively counsel patients. We summarize the laws of all 50 states and specifically examine the relevant firearm laws of 3 representative states with UBCs and different approaches-Maryland, Colorado, and California. We identify both helpful and problematic aspects of state laws regarding temporary transfer of firearms. We provide recommendations for amending UBC laws to make it easier for clinicians and patients to temporarily transfer firearms.

Regulation of the nuclear factor (NF)-kappaB pathway by ISGylation.

PubMed

Minakawa, Miki; Sone, Takayuki; Takeuchi, Tomoharu; Yokosawa, Hideyoshi

2008-12-01

Post-translational modification with ISG15 (interferon-stimulated gene 15 kDa) (ISGylation) is mediated by a sequential reaction similar to ubiquitination, and various target proteins for ISGylation have been identified. We previously reported that ISGylation of the E2 ubiquitin-conjugating enzyme Ubc13 suppresses its E2 activity. Ubc13 forms a heterodimer with Uev1A, a ubiquitin-conjugating enzyme variant, and the Ubc13-Uev1A complex catalyzes the assembly of a Lys63-linked polyubiquitin chain, which plays a non-proteolytic role in the nuclear factor (NF)-kappaB pathway. In this study, we examined the effect of ISGylation on tumor necrosis factor receptor-associated factor (TRAF)-6/transforming growth factor beta-activated kinase (TAK)-1-dependent NF-kappaB activation. We found that expression of the ISGylation system suppresses NF-kappaB activation via TRAF6 and TAK1 and that the level of polyubiquitinated TRAF6 is reduced by expression of the ISGylation system. Taken together, the results suggest that the NF-kappaB pathway is negatively regulated by ISGylation.

The TFIIH subunit Tfb3 regulates cullin neddylation

PubMed Central

Rabut, Gwenaël; Le Dez, Gaëlle; Verma, Rati; Makhnevych, Taras; Knebel, Axel; Kurz, Thimo; Boone, Charles; Deshaies, Raymond J.; Peter, Matthias

2011-01-01

Summary Cullin proteins are scaffolds for the assembly of multi-subunit ubiquitin ligases, which ubiquitylate a large number of proteins involved in widely-varying cellular functions. Multiple mechanisms cooperate to regulate cullin activity, including neddylation of their C-terminal domain. Interestingly, we found that the yeast Cul4-type cullin Rtt101 is not only neddylated but also ubiquitylated, and both modifications promote Rtt101 function in vivo. Surprisingly, proper modification of Rtt101 neither correlated with catalytic activity of the RING-domain of Hrt1 nor did it require the Nedd8 ligase Dcn1. Instead, ubiquitylation of Rtt101 was dependent on the ubiquitin-conjugating enzyme Ubc4, while efficient neddylation involves the RING-domain protein Tfb3, a subunit of the transcription factor TFIIH. Tfb3 also controls Cul3 neddylation and activity in vivo, and physically interacts with Ubc4 and the Nedd8-conjugating enzyme Ubc12 as well as the Hrt1/Rtt101 complex. Together, these results suggest that the conserved RING-domain protein Tfb3 controls activation of a subset of cullins. PMID:21816351

Molecular mechanisms of pathogenesis in hepatocellular carcinoma revealed by RNA‑sequencing.

PubMed

Liu, Yao; Yang, Zhe; Du, Feng; Yang, Qiao; Hou, Jie; Yan, Xiaohong; Geng, Yi; Zhao, Yaning; Wang, Hua

2017-11-01

The present study aimed to explore the underlying molecular mechanisms of hepatocellular carcinoma (HCC). RNA‑sequencing profiles GSM629264 and GSM629265, from the GSE25599 data set, were downloaded from the Gene Expression Omnibus database and processed by quality evaluation. GSM629264 and GSM629265 were from HCC and adjacent non‑cancerous tissues, respectively. TopHat software was used for alignment analysis, followed by the detection of novel splicing sites. In addition, the Cufflinks software package was used to analyze gene expressions, and the Cuffdiff program was used to screen for differently expressed genes (DEGs) and differentially expressed splicing variants. Gene ontology functional enrichment and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses of DEGs were also performed. Transcription factors (TFs) and microRNAs (miRNAs) that regulate DEGs were identified, and a protein‑protein interaction (PPI) network was constructed. The hub node in the PPI network was obtained, and the TFs and miRNAs that regulated the hub node were further predicted. The quality of the sequencing data met the standards for analysis, and the clean reads were ~65%. Most sequencing reads mapped into coding sequence exons (CDS_exons), whereas other reads mapped into exon 3' untranslated regions (UTR_Exons), 5'UTR_Exons and Introns. Upregulated and downregulated DEGs between HCC and adjacent non‑cancerous tissues were screened. Genes of differentially expressed splicing variants were identified, including vesicle‑associated membrane protein 4, phosphatidylinositol glycan anchor biosynthesis class C, protein disulfide isomerase family A member 4 and growth arrest specific 5. Screened DEGs were enriched in the complement pathway. In the PPI network, ubiquitin C (UBC) was the hub node. UBC was predicted to be regulated by several TFs, including specificity protein 1 (SP1), FBJ murine osteosarcoma viral oncogene homolog (FOS), proto‑oncogene c‑JUN (JUN), FOS‑like antigen 2 (FOSL2) and SWI/SNF‑related, matrix‑associated, actin‑dependent regulator of chromatin, subfamily A, member 4 (SMARCA4), and several miRNAs, including miR‑30 and miR‑181. Results from the present study demonstrated that UBC, SP1, FOS, JUN, FOSL2, SMARCA4, miR‑30 and miR‑181 may participate in the development of HCC.

Progress in 1988 1990 with computer applications in the ``hard-rock'' arena: Geochemistry, mineralogy, petrology, and volcanology

NASA Astrophysics Data System (ADS)

Rock, Nicholas M. S.

This review covers rock, mineral and isotope geochemistry, mineralogy, igneous and metamorphic petrology, and volcanology. Crystallography, exploration geochemistry, and mineral exploration are excluded. Fairly extended comments on software availability, and on computerization of the publication process and of specimen collection indexes, may interest a wider audience. A proliferation of both published and commercial software in the past 3 years indicates increasing interest in what traditionally has been a rather reluctant sphere of geoscience computer activity. However, much of this software duplicates the same old functions (Harker and triangular plots, mineral recalculations, etc.). It usually is more efficient nowadays to use someone else's program, or to employ the command language in one of many general-purpose spreadsheet or statistical packages available, than to program a specialist operation from scratch in, say, FORTRAN. Greatest activity has been in mineralogy, where several journals specifically encourage publication of computer-related activities, and IMA and MSA Working Groups on microcomputers have been convened. In petrology and geochemistry, large national databases of rock and mineral analyses continue to multiply, whereas the international database IGBA grows slowly; some form of integration is necessary to make these disparate systems of lasting value to the global "hard-rock" community. Total merging or separate addressing via an intelligent "front-end" are both possibilities. In volcanology, the BBC's videodisk Volcanoes and the Smithsonian Institution's Global Volcanism Project use the most up-to-date computer technology in an exciting and innovative way, to promote public education.

USE OF STABLE ISOTOPES IN ENVIRONMENTAL AND FORENSIC GEOCHEMISTRY STUDIES

EPA Science Inventory

Stable carbon and hydrogen isotopes have been used for many decades in the petroleum industry, but the development of combined gas chromatography-isotope ratio mass spectrometry (GCIRMS) has led to a virtual explosion in application of this technique not only in petroleum explora...

Endogenous Reference Genes for Gene Expression Studies on Bicuspid Aortic Valve Associated Aortopathy in Humans.

PubMed

Harrison, Oliver J; Moorjani, Narain; Torrens, Christopher; Ohri, Sunil K; Cagampang, Felino R

2016-01-01

Bicuspid aortic valve (BAV) disease is the most common congenital cardiac abnormality and predisposes patients to life-threatening aortic complications including aortic aneurysm. Quantitative real-time reverse transcription PCR (qRT-PCR) is one of the most commonly used methods to investigate underlying molecular mechanisms involved in aortopathy. The accuracy of the gene expression data is dependent on normalization by appropriate housekeeping (HK) genes, whose expression should remain constant regardless of aortic valve morphology, aortic diameter and other factors associated with aortopathy. Here, we identified an appropriate set of HK genes to be used as endogenous reference for quantifying gene expression in ascending aortic tissue using a spin column-based RNA extraction method. Ascending aortic biopsies were collected intra-operatively from patients undergoing aortic valve and/or ascending aortic surgery. These patients had BAV or tricuspid aortic valve (TAV), and the aortas were either dilated (≥4.5cm) or undilated. The cohort had an even distribution of gender, valve disease and hypertension. The expression stability of 12 reference genes were investigated (ATP5B, ACTB, B2M, CYC1, EIF4A2, GAPDH, SDHA, RPL13A, TOP1, UBC, YWHAZ, and 18S) using geNorm software. The most stable HK genes were found to be GAPDH, UBC and ACTB. Both GAPDH and UBC demonstrated relative stability regardless of valve morphology, aortic diameter, gender and age. The expression of B2M and SDHA were found to be the least stable HK genes. We propose the use of GAPDH, UBC and ACTB as reference genes for gene expression studies of BAV aortopathy using ascending aortic tissue.

Evaluation of stability and validation of reference genes for RT-qPCR expression studies in rice plants under water deficit.

PubMed

Auler, Priscila Ariane; Benitez, Letícia Carvalho; do Amaral, Marcelo Nogueira; Vighi, Isabel Lopes; Dos Santos Rodrigues, Gabriela; da Maia, Luciano Carlos; Braga, Eugenia Jacira Bolacel

2017-05-01

Many studies use strategies that allow for the identification of a large number of genes expressed in response to different stress conditions to which the plant is subjected throughout its cycle. In order to obtain accurate and reliable results in gene expression studies, it is necessary to use reference genes, which must have uniform expression in the majority of cells in the organism studied. RNA isolation of leaves and expression analysis in real-time quantitative polymerase chain reaction (RT-qPCR) were carried out. In this study, nine candidate reference genes were tested, actin 11 (ACT11), ubiquitin conjugated to E2 enzyme (UBC-E2), glyceraldehyde-3-phosphate dehydrogenase (GAPDH), beta tubulin (β-tubulin), eukaryotic initiation factor 4α (eIF-4α), ubiquitin 10 (UBQ10), ubiquitin 5 (UBQ5), aquaporin TIP41 (TIP41-Like) and cyclophilin, in two genotypes of rice, AN Cambará and BRS Querência, with different levels of soil moisture (20%, 10% and recovery) in the vegetative (V5) and reproductive stages (period preceding flowering). Currently, there are different softwares that perform stability analyses and define the most suitable reference genes for a particular study. In this study, we used five different methods: geNorm, BestKeeper, ΔCt method, NormFinder and RefFinder. The results indicate that UBC-E2 and UBQ5 can be used as reference genes in all samples and softwares evaluated. The genes β-tubulin and eIF-4α, traditionally used as reference genes, along with GAPDH, presented lower stability values. The gene expression of basic leucine zipper (bZIP23 and bZIP72) was used to validate the selected reference genes, demonstrating that the use of an inappropriate reference can induce erroneous results.

Treatment of unicameral bone cysts in pediatric patients with an injectable regenerative graft: a preliminary report.

PubMed

Gentile, John V; Weinert, Carl R; Schlechter, John A

2013-01-01

Multiple treatment modalities exist for unicameral bone cysts (UBC), including steroid injection, autologous bone marrow injection, mechanical decompression, intramedullary fixation, curettage, and bone grafting. All have their own potential limitations such as high recurrence rates, cyst persistence, need for multiple procedures, and prolonged immobilization. A minimally invasive regimen consisting of curettage, decompression, and injection of a calcium sulfate-calcium phosphate (CaSO4-CaPO4) composite has been utilized at our institution in an attempt to obtain optimal results for the treatment of UBCs in the pediatric population. We retrospectively evaluated 16 patients with pathologically confirmed UBC who were treated with curettage, decompression, and injection of a calcium sulfate-calcium phosphate composite between April 2006 and August 2010 at a single institution. The average age of the patients at time of surgical intervention was 9.4 years of age (range, 3 to 16 y). Average follow-up was 16 months (range, 6 to 36 mo). Radiographic healing, clinical outcomes, and complications were evaluated. Final follow-up radiographs demonstrated healing in 93.7% (15 of 16) of patients after a single procedure. Complete healing was observed in 14 of 16 patients and partially healed with a defect in 1 of 16 patients. One patient had a persistent cyst but did not wish to receive further treatment. All patients returned to full activities including sports on average at 3.1 months (range, 1 to 6 mo) and were asymptomatic on most recent follow-up. No postoperative complications, including refracture, were observed. Curettage, decompression, and injection of a calcium sulfate-calcium phosphate composite for UBC in the pediatric population demonstrates encouraging results with low recurrence rates and complications compared with conventional methods. Case series, Level of Evidence IV.

Ubiquitin-conjugating enzyme complex Uev1A-Ubc13 promotes breast cancer metastasis through nuclear factor-кB mediated matrix metalloproteinase-1 gene regulation

PubMed Central

2014-01-01

Introduction UEV1A encodes a ubiquitin-conjugating enzyme variant (Ubc13), which is required for Ubc13-catalyzed Lys63-linked polyubiquitination of target proteins and nuclear factor κB (NF-кB) activation. Previous reports have correlated the level of UEV1A expression with tumorigenesis; however, the detailed molecular events leading to tumors particularly breast cancer and metastasis are unclear. This study is to investigate roles of different UEV1 splicing variants, and its close homolog MMS2, in promoting tumorigenesis and metastasis in breast cancer cells. Methods We experimentally manipulated the UEV1 and MMS2 levels in MDA-MB-231 breast cancer cells and monitored their effects on cell invasion and migration, as well as tumor formation and metastasis in xenograft mice. The underlying molecular mechanisms leading to metastasis were also examined. Results It was found that overexpression of UEV1A alone, but not UEV1C or MMS2, is sufficient to induce cell invasion in vitro and metastasis in vivo. This process is mediated by NF-κB activation and requires functional Ubc13. Our experimental data establish that among NF-κB target genes, UEV1A-regulated matrix metalloproteinase-1 (MMP1) expression plays a critical role in cell invasion and metastasis. Interestingly, experimental depletion of UEV1 in MDA-MB-231 cells reduces MMP1 expression and prevents tumor formation and metastasis in a xenograft mouse model, while overexpression of MMP1 overrides the metastasis effects in UEV1-depleted cells. Conclusions These results identify UEV1A as a potential therapeutic target in the treatment of metastasic breast cancers. PMID:25022892

Selection of housekeeping genes for gene expression studies in the adult rat submandibular gland under normal, inflamed, atrophic and regenerative states

PubMed Central

Silver, Nicholas; Cotroneo, Emanuele; Proctor, Gordon; Osailan, Samira; Paterson, Katherine L; Carpenter, Guy H

2008-01-01

Background Real-time PCR is a reliable tool with which to measure mRNA transcripts, and provides valuable information on gene expression profiles. Endogenous controls such as housekeeping genes are used to normalise mRNA levels between samples for sensitive comparisons of mRNA transcription. Selection of the most stable control gene(s) is therefore critical for the reliable interpretation of gene expression data. For the purpose of this study, 7 commonly used housekeeping genes were investigated in salivary submandibular glands under normal, inflamed, atrophic and regenerative states. Results The program NormFinder identified the suitability of HPRT to use as a single gene for normalisation within the normal, inflamed and regenerative states, and GAPDH in the atrophic state. For normalisation to multiple housekeeping genes, for each individual state, the optimal number of housekeeping genes as given by geNorm was: ACTB/UBC in the normal, ACTB/YWHAZ in the inflamed, ACTB/HPRT in the atrophic and ACTB/GAPDH in the regenerative state. The most stable housekeeping gene identified between states (compared to normal) was UBC. However, ACTB, identified as one of the most stably expressed genes within states, was found to be one of the most variable between states. Furthermore we demonstrated that normalising between states to ACTB, rather than UBC, introduced an approximately 3 fold magnitude of error. Conclusion Using NormFinder, our studies demonstrated the suitability of HPRT to use as a single gene for normalisation within the normal, inflamed and regenerative groups and GAPDH in the atrophic group. However, if normalising to multiple housekeeping genes, we recommend normalising to those identified by geNorm. For normalisation across the physiological states, we recommend the use of UBC. PMID:18637167

Reference gene selection for molecular studies of dormancy in wild oat (Avena fatua L.) caryopses by RT-qPCR method.

PubMed

Ruduś, Izabela; Kępczyński, Jan

2018-01-01

Molecular studies of primary and secondary dormancy in Avena fatua L., a serious weed of cereal and other crops, are intended to reveal the species-specific details of underlying molecular mechanisms which in turn may be useable in weed management. Among others, quantitative real-time PCR (RT-qPCR) data of comparative gene expression analysis may give some insight into the involvement of particular wild oat genes in dormancy release, maintenance or induction by unfavorable conditions. To assure obtaining biologically significant results using this method, the expression stability of selected candidate reference genes in different data subsets was evaluated using four statistical algorithms i.e. geNorm, NormFinder, Best Keeper and ΔCt method. Although some discrepancies in their ranking outputs were noticed, evidently two ubiquitin-conjugating enzyme homologs, AfUBC1 and AfUBC2, as well as one homolog of glyceraldehyde 3-phosphate dehydrogenase AfGAPDH1 and TATA-binding protein AfTBP2 appeared as more stably expressed than AfEF1a (translation elongation factor 1α), AfGAPDH2 or the least stable α-tubulin homolog AfTUA1 in caryopses and seedlings of A. fatua. Gene expression analysis of a dormancy-related wild oat transcription factor VIVIPAROUS1 (AfVP1) allowed for a validation of candidate reference genes performance. Based on the obtained results it can be recommended that the normalization factor calculated as a geometric mean of Cq values of AfUBC1, AfUBC2 and AfGAPDH1 would be optimal for RT-qPCR results normalization in the experiments comprising A. fatua caryopses of different dormancy status.

Geochemical Exploration of the Moon.

ERIC Educational Resources Information Center

Adler, Isidore

1984-01-01

Provides information based on explorations of the Apollo program about the geochemistry of the moon and its importance in developing an understanding of formation/evolution of the solar system. Includes description and some results of orbital remote sensing, lunar x-ray experiments, gamma-ray experiments, alpha-particle experiments, and the Apollo…

Book Review: Book review

NASA Astrophysics Data System (ADS)

Wang, Christina Yan

2017-02-01

The world class Ni-Cu-PGE sulfide deposits associated with the Sudbury Igneous Complex (SIC) are quite unique on earth in the sense that the energy source and origin were triggered by a large meteorite impact event. The ore deposits in the SIC make up one of the largest Ni-Cu-PGE sulfide deposit camps in the world and have now been mined for over 100 years. This is the first complete reference book that focuses entirely on the SIC and covers the fields of economic geology, petrology, geochemistry and geophysics. The purpose of this book is to explore the linkage between sulfide and silicate magmas generated by the 1.85 Ga Sudbury impact event and to unite an understanding of the process of crustal melt sheet evolution with the formation of the magmatic sulfide mineralization. The author, Peter Lightfoot, has been based in Sudbury for 25 years. As a top scientist on magmatic Ni-Cu-PGE sulfide deposits and a Chief Geologist with the Brownfield Exploration group at Vale Base Metals, Peter has been positioned to develop and assemble the ideas presented in this book, which are perfectly balanced between industry and academia.

Transient inhibition of the ERK pathway prevents cerebellar developmental defects and improves long-term motor functions in murine models of neurofibromatosis type 1

PubMed Central

Kim, Edward; Wang, Yuan; Kim, Sun-Jung; Bornhorst, Miriam; Jecrois, Emmanuelle S; Anthony, Todd E; Wang, Chenran; Li, Yi E; Guan, Jun-Lin; Murphy, Geoffrey G; Zhu, Yuan

2014-01-01

Individuals with neurofibromatosis type 1 (NF1) frequently exhibit cognitive and motor impairments and characteristics of autism. The cerebellum plays a critical role in motor control, cognition, and social interaction, suggesting that cerebellar defects likely contribute to NF1-associated neurodevelopmental disorders. Here we show that Nf1 inactivation during early, but not late stages of cerebellar development, disrupts neuronal lamination, which is partially caused by overproduction of glia and subsequent disruption of the Bergmann glia (BG) scaffold. Specific Nf1 inactivation in glutamatergic neuronal precursors causes premature differentiation of granule cell (GC) precursors and ectopic production of unipolar brush cells (UBCs), indirectly disrupting neuronal migration. Transient MEK inhibition during a neonatal window prevents cerebellar developmental defects and improves long-term motor performance of Nf1-deficient mice. This study reveals essential roles of Nf1 in GC/UBC migration by generating correct numbers of glia and controlling GC/UBC fate-specification/differentiation, identifying a therapeutic prevention strategy for multiple NF1-associcated developmental abnormalities. DOI: http://dx.doi.org/10.7554/eLife.05151.001 PMID:25535838

Unicameral bone cysts: comparison of percutaneous curettage, steroid, and autologous bone marrow injections.

PubMed

Canavese, Federico; Wright, James G; Cole, William G; Hopyan, Sevan

2011-01-01

The purpose of this study was to compare the outcome of percutaneous curettage with intralesional injection of methylprednisolone and bone marrow for unicameral bone cysts (UBCs). This was a retrospective review of 46 children and adolescents with UBC treated with autologous bone marrow injection, methylprednisolone acetate injection or percutaneous curettage alone. Inclusion criteria were a radiological diagnosis of UBC and at least 24 months follow-up from the last procedure. Healing was determined using Neer/Cole 4-grades rating scale. The 3 treatment groups were comparable with regard to age, sex, location of the cyst, and the number of procedures undertaken. At 2 years follow-up, the proportion of patients with satisfactory healing (Neer/Cole grades I and II) was greatest among those who underwent percutaneous curettage (70%) compared with bone marrow injection (21%) and methylprednisolone acetate injection (41%) (P = 0.03). We found no association between healing and age (P = 0.80) nor between healing and sex (P = 0.61). These results suggest that mechanical disruption of the cyst membrane may be helpful in healing of cysts and that this technique may be preferred to simple intralesional injections. Level III.

The RanBP2/RanGAP1*SUMO1/Ubc9 SUMO E3 ligase is a disassembly machine for Crm1-dependent nuclear export complexes

PubMed Central

Ritterhoff, Tobias; Das, Hrishikesh; Hofhaus, Götz; Schröder, Rasmus R.; Flotho, Annette; Melchior, Frauke

2016-01-01

Continuous cycles of nucleocytoplasmic transport require disassembly of transport receptor/Ran-GTP complexes in the cytoplasm. A basic disassembly mechanism in all eukaryotes depends on soluble RanGAP and RanBP1. In vertebrates, a significant fraction of RanGAP1 stably interacts with the nucleoporin RanBP2 at a binding site that is flanked by FG-repeats and Ran-binding domains, and overlaps with RanBP2's SUMO E3 ligase region. Here, we show that the RanBP2/RanGAP1*SUMO1/Ubc9 complex functions as an autonomous disassembly machine with a preference for the export receptor Crm1. We describe three in vitro reconstituted disassembly intermediates, which show binding of a Crm1 export complex via two FG-repeat patches, cargo-release by RanBP2's Ran-binding domains and retention of free Crm1 at RanBP2 after Ran-GTP hydrolysis. Intriguingly, all intermediates are compatible with SUMO E3 ligase activity, suggesting that the RanBP2/RanGAP1*SUMO1/Ubc9 complex may link Crm1- and SUMO-dependent functions. PMID:27160050

A 3' untranslated region polymorphism rs2304277 in the DNA repair pathway gene OGG1 is a novel risk modulator for urothelial bladder carcinoma.

PubMed

Ahmed, Tayyaba; Nawaz, Saira; Noreen, Rabia; Bangash, Kashif Sardar; Rauf, Abdur; Younis, Muhammad; Anwar, Khursheed; Khawaja, Muhammad Athar; Azam, Maleeha; Qureshi, Abid Ali; Akhter, Saeed; Kiemeney, Lambertus A; Qamar, Raheel; Ali, Syeda Hafiza Benish

2018-03-01

Altered DNA repair capacity may affect an individual's susceptibility to cancers due to compromised genomic integrity. This study was designed to elucidate the association of selected polymorphisms in DNA repair genes with urothelial bladder carcinoma (UBC). OGG1 rs1052133 and rs2304277, XRCC1 rs1799782 and rs25487, XRCC3 rs861539, XPC rs2228001, and XPD rs13181 were genotyped using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) in 200 UBC cases and 200 controls. We found association of OGG1 rs2304277 [odds ratio (OR) GG = 3.55, 95% confidence interval (CI) = 1.79-7.06] and XPC rs2228001 (OR AC = 2.38, 95% CI = 1.43-3.94) with UBC. In stratified analysis with respect to smoking status, OGG1 rs2304277 and XPC rs2228001 exhibited increased risk in smokers [(rs2304277 OR GG = 4.96, 95% CI = 1.51-16.30) (rs2228001 OR AC = 2.19, 95% CI = 1.02-4.72)] as well as nonsmokers [(rs2304277 OR GG = 2.95, 95% CI = 1.26-6.90) (rs2228001 OR AC = 2.57, 95% CI = 1.31-5.04)]. These polymorphisms were also associated with both low-grade [(rs2304277 OR GG = 3.73, 95% CI = 1.72-8.09) (rs2228001 OR AC = 2.18, 95% CI = 1.21-3.92)] and high-grade tumors [(rs2304277 OR GG = 3.45, 95% CI = 1.52-7.80) (rs2228001 OR AC = 2.81, 95% CI = 1.48-5.33)] as well as with non-muscle-invasive bladder cancer [(rs2304277 OR GG = 4.03, 95% CI = 1.87-8.67) (rs2228001 OR AC = 2.14, 95% CI = 1.20-3.81)] and muscle-invasive bladder cancer [(rs2304277 OR GG = 3.06, 95%CI = 1.31-7.13) (rs2228001 OR AC = 2.95, 95%CI = 1.51-5.75)]. This is the first study on DNA repair gene polymorphisms and UBC in the Pakistani population. It identifies OGG1 rs2304277 and replicates XPC rs2228001 as significant modulators of UBC susceptibility. © 2017 John Wiley & Sons Ltd/University College London.

STATISTICAL ANALYSIS OF GROUNDWATER GEOCHEMISTRY DATA FROM AREA 6, DOVER AIR FORCE BASE, DOVER, DELAWARE

EPA Science Inventory

The work described in this report is part of a project undertaken by the Bioremediation of Chlorinated Solvents Action Team of the Remediation Technologies Development Forum, a joint U.S. Federal agency-industry collaboration, to study the natural attenuation of chlorinated ethen...

The application of iodine and magnetic susceptibility surface geochemical surveys in the Lodgepole Play, Eastern Williston Basin, North Dakota

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tedesco, S.A.

1996-06-01

The use of surface geochemistry as a first pass exploration tool is becoming more prevalent in petroleum exploration. This is especially true due to the high cost of 2-D and 3-D surveys in defining small targets such as the Waulsortian mounds of the Lodgepole Formation. Surface geochemical surveys are very effective in pinpointing specific target areas for seismic surveying and thus reducing costs. Presented are examples of surface geochemical surveys utilizing magnetic susceptibility and iodine methods in delineating reservoirs in the Lodgepole, Mission Canyon and Red River formations. The types of surveys presented vary from reconnaissance to detail and examplesmore » of how to define a grid will be discussed. Surface geochemical surveys can be very effective when the areal extent of the target(s) and the purpose of the survey are clearly defined prior to implementation. By determining which areas have microseepage and which areas do not, surface geochemistry can be a very effective tool in focusing exploration efforts and maximizing exploration dollars.« less

Hydrocarbon Reservoir Identification in Volcanic Zone by using Magnetotelluric and Geochemistry Information

NASA Astrophysics Data System (ADS)

Firda, S. I.; Permadi, A. N.; Supriyanto; Suwardi, B. N.

2018-03-01

The resistivity of Magnetotelluric (MT) data show the resistivity mapping in the volcanic reservoir zone and the geochemistry information for confirm the reservoir and source rock formation. In this research, we used 132 data points divided with two line at exploration area. We used several steps to make the resistivity mapping. There are time series correction, crosspower correction, then inversion of Magnetotelluric (MT) data. Line-2 and line-3 show anomaly geological condition with Gabon fault. The geology structure from the resistivity mapping show the fault and the geological formation with the geological rock data mapping distribution. The geochemistry information show the maturity of source rock formation. According to core sample analysis information, we get the visual porosity for reservoir rock formation in several geological structure. Based on that, we make the geological modelling where the potential reservoir and the source rock around our interest area.

Purification of SUMO conjugating enzymes and kinetic analysis of substrate conjugation

PubMed Central

Yunus, Ali A.; Lima, Christopher D.

2009-01-01

SUMO conjugation to protein substrates requires the concerted action of a dedicated E2 ubiquitin conjugation enzyme (Ubc9) and associated E3 ligases. Although Ubc9 can directly recognize and modify substrate lysine residues that occur within a consensus site for SUMO modification, E3 ligases can redirect specificity and enhance conjugation rates during SUMO conjugation in vitro and in vivo. In this chapter, we will describe methods utilized to purify SUMO conjugating enzymes and model substrates which can be used for analysis of SUMO conjugation in vitro. We will also describe methods to extract kinetic parameters during E3-dependent or E3-independent substrate conjugation. PMID:19107417

Field-scale study of the influence of differing remediation strategies on trace metal geochemistry in metal mine tailings from the Irish Midlands.

PubMed

Perkins, William T; Bird, Graham; Jacobs, Suzanne R; Devoy, Cora

2016-03-01

Mine tailings represent a globally significant source of potentially harmful elements (PHEs) to the environment. The management of large volumes of mine tailings represents a major challenge to the mining industry and environmental managers. This field-scale study evaluates the impact of two highly contrasting remediation approaches to the management and stabilisation of mine tailings. The geochemistry of the tailings, overlying amendment layers and vegetation are examined in the light of the different management approaches. Pseudo-total As, Cd and Pb concentrations and solid-state partitioning (speciation), determined via sequential extraction, were established for two Tailings Management Facilities (TMFs) in Ireland subjected to the following: (1) a 'walk-away' approach (Silvermines) and (2) application of an amendment layer (Galmoy). PHE concentrations in roots and herbage of grasses growing on the TMFs were also determined. Results identify very different PHE concentration profiles with depth through the TMFs and the impact of remediation approach on concentrations and their potential bioavailability in the rooting zone of grass species. Data also highlight the importance of choice of grass species in remediation approaches and the benefits of relatively shallow-rooting Agrostis capillaris and Festuca rubra varieties. In addition, data from the Galmoy TMF indicate the importance of regional soil geochemistry for interpreting the influence of the PHE geochemistry of capping and amendment layers applied to mine tailings.

Selection of Suitable Reference Genes for RT-qPCR Normalization under Abiotic Stresses and Hormone Stimulation in Persimmon (Diospyros kaki Thunb)

PubMed Central

Wang, Peihong; Xiong, Aisheng; Gao, Zhihong; Yu, Xinyi; Li, Man; Hou, Yingjun; Sun, Chao; Qu, Shenchun

2016-01-01

The success of quantitative real-time reverse transcription polymerase chain reaction (RT-qPCR) to quantify gene expression depends on the stability of the reference genes used for data normalization. To date, systematic screening for reference genes in persimmon (Diospyros kaki Thunb) has never been reported. In this study, 13 candidate reference genes were cloned from 'Nantongxiaofangshi' using information available in the transcriptome database. Their expression stability was assessed by geNorm and NormFinder algorithms under abiotic stress and hormone stimulation. Our results showed that the most suitable reference genes across all samples were UBC and GAPDH, and not the commonly used persimmon reference gene ACT. In addition, UBC combined with RPII or TUA were found to be appropriate for the "abiotic stress" group and α-TUB combined with PP2A were found to be appropriate for the "hormone stimuli" group. For further validation, the transcript level of the DkDREB2C homologue under heat stress was studied with the selected genes (CYP, GAPDH, TUA, UBC, α-TUB, and EF1-α). The results suggested that it is necessary to choose appropriate reference genes according to the test materials or experimental conditions. Our study will be useful for future studies on gene expression in persimmon. PMID:27513755

Background Checks for all Gun Buyers and Gun Violence Restraining Orders: State Efforts to Keep Guns from High-Risk Persons.

PubMed

Vernick, Jon S; Alcorn, Ted; Horwitz, Joshua

2017-03-01

There were more than 36,000 firearm-related deaths in the U.S. in 2015. Under federal law, a background check is required only for gun purchases from licensed dealers. Research suggests that some persons prohibited from owning a gun turn to private sellers, including those identified online, to attempt to obtain a firearm. State-level approaches to make it more difficult for high-risk persons to purchase or possess firearms include universal background check (UBC) and gun violence restraining order (GVRO) laws. UBC laws, on the books in 18 states as of the end of 2016, can reduce both homicide and suicide rates. After Colorado adopted a UBC law in 2013, the number of background checks conducted by private sellers for sales occurring at places other than gun shows steadily increased. GVRO laws give law enforcement and families the authority to petition a court to temporarily remove firearms from an individual who presents a danger to himself or others during times of crisis, regardless of whether that person has been diagnosed with a mental illness. California enacted a GVRO law in 2014. Data are emerging to suggest the effectiveness of GVRO-type laws at averting suicides and providing an entryway to services.

Injection of Unicameral Bone Cysts with Bone Marrow Aspirate and Demineralized Bone Matrix Avoids Open Curettage and Bone Grafting in a Retrospective Cohort.

PubMed

Gundle, Kenneth R; Bhatt, Etasha M; Punt, Stephanie E; Bompadre, Viviana; Conrad, Ernest U

2017-01-01

Many treatment options exist for unicameral bone cysts (UBC), without clear evidence of superiority. Meta-analyses have been limited by small numbers of patients in specific anatomic and treatment subgroups. The purpose of this study was to report the outcomes of injecting bone marrow aspirate and demineralized bone matrix (BMA/DBM) for the treatment of proximal humerus UBC. Fifty-one patients with proximal humerus lesions treated by BMA/DBM injection were retrospectively reviewed from a single academic medical center. The mean number of injections performed per patient was 2.14 (range 1-5). Eleven patients underwent only one injection (22%), an additional 19 patients completed treatment after two injections (37%), four patients healed after three injections (8%), and one patient healed after four injections (2%). The cumulative success rate of serial BMA/DBM injections was 22% (11/51), 58% (30/51), 67% (34/51), and 69% (35/51). Eleven patients (22%) ultimately underwent open curettage and bone grafting, and five patients (10%) were treated with injection of calcium phosphate bone substitute. A BMA/DBM injection strategy avoided an open procedure in 78% of patients with a proximal humerus UBC. The majority of patients underwent at least 2 injection treatments. Level IV retrospective cohort study.

Development of a high-throughput screen to detect inhibitors of TRPS1 sumoylation.

PubMed

Brandt, Martin; Szewczuk, Lawrence M; Zhang, Hong; Hong, Xuan; McCormick, Patricia M; Lewis, Tia S; Graham, Taylor I; Hung, Sunny T; Harper-Jones, Amber D; Kerrigan, John J; Wang, Da-Yuan; Dul, Edward; Hou, Wangfang; Ho, Thau F; Meek, Thomas D; Cheung, Mui H; Johanson, Kyung O; Jones, Christopher S; Schwartz, Benjamin; Kumar, Sanjay; Oliff, Allen I; Kirkpatrick, Robert B

2013-06-01

Small ubiquitin-like modifier (SUMO) belongs to the family of ubiquitin-like proteins (Ubls) that can be reversibly conjugated to target-specific lysines on substrate proteins. Although covalently sumoylated products are readily detectible in gel-based assays, there has been little progress toward the development of robust quantitative sumoylation assay formats for the evaluation of large compound libraries. In an effort to identify inhibitors of ubiquitin carrier protein 9 (Ubc9)-dependent sumoylation, a high-throughput fluorescence polarization assay was developed, which allows detection of Lys-1201 sumoylation, corresponding to the major site of functional sumoylation within the transcriptional repressor trichorhino-phalangeal syndrome type I protein (TRPS1). A minimal hexapeptide substrate peptide, TMR-VVK₁₂₀₁TEK, was used in this assay format to afford high-throughput screening of the GlaxoSmithKline diversity compound collection. A total of 728 hits were confirmed but no specific noncovalent inhibitors of Ubc9 dependent trans-sumoylation were found. However, several diaminopyrimidine compounds were identified as inhibitors in the assay with IC₅₀ values of 12.5 μM. These were further characterized to be competent substrates which were subject to sumoylation by SUMO-Ubc9 and which were competitive with the sumoylation of the TRPS1 peptide substrates.

Exercise behaviour and attitudes among fourth-year medical students at the University of British Columbia.

PubMed

Holtz, Kaila A; Kokotilo, Kristen J; Fitzgerald, Barbara E; Frank, Erica

2013-01-01

To describe the physical activity (PA) levels and counseling attitudes of Canadian undergraduate medical students. Online or paper survey. The University of British Columbia (UBC). Fourth-year medical students at UBC from 2007 to 2010. Physical activity levels, relationship between exercise behaviour and attitudes toward counseling, and student perception of training in the area of exercise prescription. A total of 546 out of 883 students participated in the survey (62% response rate). Sixty-four percent of students met the Canadian Society for Exercise Physiology 2011 recommendations for PA. Attitudes toward healthy living were related to PA levels, but the rate of counseling patients about exercise was not; however, students who engaged in more strenuous PA were more likely to perceive exercise counseling as being highly relevant to future clinical practice (P = .018). Overall, 69% of students perceived exercise counseling to be highly relevant to clinical practice, but 86% thought that their training in this area was less than extensive. Fourth-year UBC medical students engage in more strenuous PA than average age-matched Canadians, which affects their attitudes toward perceived future counseling practices. Encouraging more student participation in strenuous PA and encouraging academic training in the area of exercise counseling might be important next steps in preparing future physicians to effectively prescribe exercise to their patients.

Molecular basis of APC/C regulation by the spindle assembly checkpoint

PubMed Central

Zhang, Ziguo; Yang, Jing; Maslen, Sarah; Skehel, Mark; Barford, David

2016-01-01

In the dividing eukaryotic cell the spindle assembly checkpoint (SAC) ensures each daughter cell inherits an identical set of chromosomes. The SAC coordinates the correct attachment of sister chromatid kinetochores to the mitotic spindle with activation of the anaphase-promoting complex/cyclosome (APC/C), the E3 ubiquitin ligase that initiates chromosome separation. In response to unattached kinetochores, the SAC generates the mitotic checkpoint complex (MCC), a multimeric assembly that inhibits the APC/C, delaying chromosome segregation. Here, using cryo-electron microscopy we determined the near-atomic resolution structure of an APC/C-MCC complex (APC/CMCC). We reveal how degron-like sequences of the MCC subunit BubR1 block degron recognition sites on Cdc20, the APC/C coactivator subunit (Cdc20APC/C) responsible for substrate interactions. BubR1 also obstructs binding of UbcH10 (APC/C’s initiating E2) to repress APC/C ubiquitination activity. Conformational variability of the complex allows for UbcH10 association, and we show from a structure of APC/CMCC in complex with UbcH10 how the Cdc20 subunit intrinsic to the MCC (Cdc20MCC) is ubiquitinated, a process that results in APC/C reactivation when the SAC is silenced. PMID:27509861

Investigating a potential biological treatment to prevent pathological fractures caused by unicameral bone cysts in children under 8 years.

PubMed

Ramos-Pascua, Luis R; Sánchez-Herraéz, Sergio; Casas-Ramos, Paula; Molnar Fuentes, Sebastián; Santos Sánchez, José Ángel

2014-10-01

There is no consensus on when and how to treat unicameral bone cysts (UBCs), partly because of a lack of knowledge of the aetiology. To review the different treatment techniques for UBCs and to describe our results with a single injection of autogenous bone marrow (BM) mixed with demineralised bone matrix (DBM) in very young children. We reviewed five patients under the age of 8 years with UBCs treated by percutaneous aspiration and a single injection of BM associated with DBM. The cyst was located in the proximal humerus in four patients and in the proximal femur in one patient. Assessment of the need for surgery was based on the clinical and radiographic suspicion of new pathological fractures. The administration of a second injection, when necessary, was based on the surgeon's judgement regarding the risk of fracture. The mean follow-up after first injection was 41 months. There were no complications related to the procedure, except a non-displaced fracture, which healed without problems. All patients were pain free and progressively resumed their activities without restriction until a new fracture occurred in two cases. According to Capanna's classification, only one case healed completely (grade 1), one lesion was classified as grade 2, and there were three recurrences at 11, 12 and 27 months after initial treatment (grade 3). The final outcome was treatment failure for three out of the five patients. Two patients were treated with a second injection and one patient is waiting for surgery. A single injection of aspirated autogenous BM mixed with DBM in very young children with active UBCs at risk of fracture is very simple, comfortable and safe. Nevertheless, the results seem to be unpredictable and are probably more dependent on the natural evolution of the cyst than on the treatment. Further comparative studies with larger sample numbers are needed.

Percutaneous intramedullary decompression, curettage, and grafting with medical-grade calcium sulfate pellets for unicameral bone cysts in children: a new minimally invasive technique.

PubMed

Dormans, John P; Sankar, Wudbhav N; Moroz, Leslie; Erol, Bülent

2005-01-01

Several treatment options exist for unicameral bone cysts (UBCs), including observation, steroid injection, bone marrow injection, and curettage and bone grafting. These are all associated with high recurrence rates, persistence, and occasional complications. Newer techniques have been described, most with variable success and only short follow-up reported. Because of these factors, a new minimally invasive percutaneous technique was developed for the treatment of UBCs in children. Twenty-eight children with UBCs who underwent percutaneous intramedullary decompression, curettage, and grafting with medical-grade calcium sulfate (MGCS) pellets by the senior author (J.P.D.) between April 2000 and April 2003 were analyzed as part of a pediatric musculoskeletal tumor registry at a large tertiary children's hospital. Four patients were lost to follow-up, and the remaining 24 patients had an average follow-up of 21.9 months (range 4-48 months). Twelve patients were followed for at least 24 months. Six of the 24 children had received previous treatment of their UBC, most often at an outside institution. Follow-up was performed through clinical evaluation and radiographic review. Postoperative radiographs at most recent follow-up showed complete healing, defined as more than 95% opacification, in 22 of 24 patients (91.7%). One patient (4.2%) demonstrated partial healing, defined as 80% to 95% opacification. One patient had less than 80% radiographic healing (4.2%). All 24 patients returned to full activities and were asymptomatic at most recent follow-up. The only complication noted was a superficial suture abscess that occurred in one patient; this resolved with local treatment measures. The new minimally invasive technique of percutaneous intramedullary decompression, curettage, and grafting with MGCS pellets demonstrates favorable results with low complication and recurrence rates compared with conventional techniques. The role of intramedullary decompression as a part of this percutaneous technique is discussed.

Biochemical function of typical and variant Arabidopsis thaliana U-box E3 ubiquitin-protein ligases.

PubMed

Wiborg, Jakob; O'Shea, Charlotte; Skriver, Karen

2008-08-01

The variance of the U-box domain in 64 Arabidopsis thaliana (thale cress) E3s (ubiquitin-protein ligases) was used to examine the interactions between E3s and E2s (ubiquitin-conjugating enzymes). E2s and E3s are components of the ubiquitin protein degradation pathway. Seven U-box proteins were analysed for their ability to ubiquitinate proteins in vitro in co-operation with different E2s. All U-box domains exhibited ubiquitination activity and interacted productively with UBC4/5-type E2s. Three and four of the U-box domains mediated ubiquitin addition in the presence of UBC13 and UBC7 E2s respectively, but no productive interaction was observed with the UBC15 E2 tested. The activity of AtPUB54 [Arabidopsis thaliana (thale cress) plant U-box 54 protein] was dependent on Trp(266) in the E2-binding cleft, and the E2 selectivity was changed by substitution of this position. The function of the distant U-box protein, AtPUB49, representing a large family of eukaryotic proteins containing a U-box linked to a cyclophilin-like peptidyl-prolyl cis-trans isomerase domain, was characterized biochemically. AtPUB49 functioned both as a prolyl isomerase and a chaperone by catalysing cis-trans isomerization of peptidyl-prolyl bonds and dissolving protein aggregates. In conclusion, both typical and atypical Arabidopsis U-box proteins were active E3s. The overlap in the E3/E2 selectivity suggests that in vivo specificity is not determined only by the E3-E2 interactions, but also by other parameters, e.g. co-existence or interactions with additional domains. The biochemical functions of AtPUB49 suggest that the protein can be involved in folding or degradation of protein substrates. Similar functions can also be retained within a protein complex with separate chaperone and U-box proteins.

Effect of cellular ubiquitin levels on the regulation of oxidative stress response and proteasome function via Nrf1

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lee, Donghee; Ryu, Kwon-Yul

The polyubiquitin genes Ubb and Ubc are upregulated under oxidative stress induced by arsenite [As(III)]. However, the role of ubiquitin (Ub) under As(III) exposure is not known in detail. In a previous study, we showed that the reduced viability observed in Ubc{sup −/−} mouse embryonic fibroblasts under As(III) exposure was not due to dysregulation of the Nrf2–Keap1 pathway, which prompted us to investigate another NFE2 family protein, nuclear factor erythroid 2-related factor 1 (Nrf1). In this study, we found that Ub deficiency due to Ubc knockdown in N2a cells reduced cell viability and proteasome activity under As(III) exposure. Furthermore, mRNAmore » levels of the proteasome subunit Psma1 were also reduced. In addition, Ub deficiency led to the nuclear accumulation of the p65 isoform of Nrf1 under As(III) exposure. Interestingly, the overexpression of p65-Nrf1 recapitulated the phenotypes of Ub-deficient N2a cells under As(III) exposure. On the other hand, Nrf1 knockdown suppressed the death of Ub-deficient N2a cells upon exposure to As(III). Therefore, the levels of p65-Nrf1 may play an important role in the maintenance of cell viability under oxidative stress induced by As(III). - Highlights: • N2a cells exhibit reduced viability upon exposure to As(III) via Ubc knockdown. • As(III)-induced proteasomal regulation is impaired in Ub-deficient N2a cells. • Ub deficiency leads to the nuclear accumulation of p65-Nrf1 under As(III) exposure. • p65 expression recapitulates As(III)-induced phenotypes of Ub-deficient N2a cells. • Nrf1 knockdown suppressed As(III)-induced death of Ub-deficient N2a cells.« less

Non-native Conformers of Cystic Fibrosis Transmembrane Conductance Regulator NBD1 Are Recognized by Hsp27 and Conjugated to SUMO-2 for Degradation.

PubMed

Gong, Xiaoyan; Ahner, Annette; Roldan, Ariel; Lukacs, Gergely L; Thibodeau, Patrick H; Frizzell, Raymond A

2016-01-22

A newly identified pathway for selective degradation of the common mutant of the cystic fibrosis transmembrane conductance regulator (CFTR), F508del, is initiated by binding of the small heat shock protein, Hsp27. Hsp27 collaborates with Ubc9, the E2 enzyme for protein SUMOylation, to selectively degrade F508del CFTR via the SUMO-targeted ubiquitin E3 ligase, RNF4 (RING finger protein 4) (1). Here, we ask what properties of CFTR are sensed by the Hsp27-Ubc9 pathway by examining the ability of NBD1 (locus of the F508del mutation) to mimic the disposal of full-length (FL) CFTR. Similar to FL CFTR, F508del NBD1 expression was reduced 50-60% by Hsp27; it interacted preferentially with the mutant and was modified primarily by SUMO-2. Mutation of the consensus SUMOylation site, Lys(447), obviated Hsp27-mediated F508del NBD1 SUMOylation and degradation. As for FL CFTR and NBD1 in vivo, SUMO modification using purified components in vitro was greater for F508del NBD1 versus WT and for the SUMO-2 paralog. Several findings indicated that Hsp27-Ubc9 targets the SUMOylation of a transitional, non-native conformation of F508del NBD1: (a) its modification decreased as [ATP] increased, reflecting stabilization of the nucleotide-binding domain by ligand binding; (b) a temperature-induced increase in intrinsic fluorescence, which reflects formation of a transitional NBD1 conformation, was followed by its SUMO modification; and (c) introduction of solubilizing or revertant mutations to stabilize F508del NBD1 reduced its SUMO modification. These findings indicate that the Hsp27-Ubc9 pathway recognizes a non-native conformation of mutant NBD1, which leads to its SUMO-2 conjugation and degradation by the ubiquitin-proteasome system. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

Unrelated Umbilical Cord Blood (UBC)Transplantation

ClinicalTrials.gov

2018-05-25

Chronic Myelogenous Leukemia (CML); Acute Myelogenous Leukemia (AML); Myelodysplastic Syndrome; Multiple Myeloma; Hodgkin Lymphoma; Non-Hodgkin Lymphoma; Chronic Lymphocytic Leukemia (CLL); Acute Lymphocytic Leukemia (ALL); Severe Aplastic Anemia

Introduction to the special issue on ‘Frontiers in gas geochemistry’

USGS Publications Warehouse

Hilton, David R.; Fischer, Tobias P.; Kulongoski, Justin T.

2013-01-01

The study of the geochemistry of gases pervades the Earth and Environmental Sciences. This is due in no small measure to the well-established thermodynamic properties of gases which allow their application to a variety of processes occurring over a wide spectrum of natural conditions. In this respect, both major and associated minor gases have been proven useful: indeed, the trace gases have been particularly important given their role as sensitive geochemical tracers. Examples where gas geochemistry places key constraints on geochemical processes include the degassing history of the solid Earth to form the atmosphere and oceans, the origin and migration characteristics of hydrocarbon deposits, the scale of climate variability, the P–T characteristics of geothermal reservoirs, and the dynamics of the earthquake cycle and volcanic activity, to name but a few. This volume continues this rich tradition with an eclectic selection of papers aimed at exploring and exploiting gas geochemistry over a myriad set of research themes.

Chem I Supplement: The Geochemistry of Coal: I. The Classification and Origin of Coal.

ERIC Educational Resources Information Center

Schobert, Harold H.

1989-01-01

Discusses the composition and properties of various types of coal. Follows the origin of coal and amounts available in the ground. Explores the anaerobic decay needed to produce coal. Touches upon the greenhouse effect. (MVL)

Twenty-fourth Lunar and Planetary Science Conference. Part 1: A-F

NASA Technical Reports Server (NTRS)

1993-01-01

The topics covered include the following: petrology, petrography, meteoritic composition, planetary geology, atmospheric composition, astronomical spectroscopy, lunar geology, Mars (planet), Mars composition, Mars surface, volcanology, Mars volcanoes, Mars craters, lunar craters, mineralogy, mineral deposits, lithology, asteroids, impact melts, planetary composition, planetary atmospheres, planetary mapping, cosmic dust, photogeology, stratigraphy, lunar craters, lunar exploration, space exploration, geochronology, tectonics, atmospheric chemistry, astronomical models, and geochemistry.

Aspects of Hydrological Modelling In The Punjab Himalayan and Karakoram Ranges, Pakistan

NASA Astrophysics Data System (ADS)

Loukas, A.; Khan, M. I.; Quick, M. C.

Various aspects of hydrologic modelling of high mountainous basins in the Punjab Hi- malayan and Karakoram ranges of Northern Pakistan were studied. The runoff from three basins in this region was simulated using the U.B.C. watershed model, which re- quires limited meteorological data of minimum and maximum daily temperature and precipitation. The structure of the model is based on the concept that the hydrolog- ical behavior is a function of elevation and thus, a watershed is conceptualized as a number of elevational zones. A simplified energy budget approach, which is based on daily maximum and minimum temperature and can account for forested and open areas, and aspect and latitude, is used in the U.B.C. model for the estimation of the snowmelt and glacier melt. The studied basins have different hydrological responses and limited data. The runoff from the first basin, the Astore basin, is mainly gener- ated by snowmelt. In the second basin, the Kunhar basin, the runoff is generated by snowmelt but significant redistribution of snow, caused by snow avalanches, affect the runoff generation. The third basin, the Hunza basin, is a highly glacierized basin and its runoff is mainly generated by glacier melt. The application of the U.B.C. watershed model to these three basins showed that the model could estimate reasonably well the runoff generated by the different components.

The Defective Nuclear Lamina in Hutchinson-Gilford Progeria Syndrome Disrupts the Nucleocytoplasmic Ran Gradient and Inhibits Nuclear Localization of Ubc9▿

PubMed Central

Kelley, Joshua B.; Datta, Sutirtha; Snow, Chelsi J.; Chatterjee, Mandovi; Ni, Li; Spencer, Adam; Yang, Chun-Song; Cubeñas-Potts, Caelin; Matunis, Michael J.; Paschal, Bryce M.

2011-01-01

The mutant form of lamin A responsible for the premature aging disease Hutchinson-Gilford progeria syndrome (termed progerin) acts as a dominant negative protein that changes the structure of the nuclear lamina. How the perturbation of the nuclear lamina in progeria is transduced into cellular changes is undefined. Using patient fibroblasts and a variety of cell-based assays, we determined that progerin expression in Hutchinson-Gilford progeria syndrome inhibits the nucleocytoplasmic transport of several factors with key roles in nuclear function. We found that progerin reduces the nuclear/cytoplasmic concentration of the Ran GTPase and inhibits the nuclear localization of Ubc9, the sole E2 for SUMOylation, and of TPR, the nucleoporin that forms the basket on the nuclear side of the nuclear pore complex. Forcing the nuclear localization of Ubc9 in progerin-expressing cells rescues the Ran gradient and TPR import, indicating that these pathways are linked. Reducing nuclear SUMOylation decreases the nuclear mobility of the Ran nucleotide exchange factor RCC1 in vivo, and the addition of SUMO E1 and E2 promotes the dissociation of RCC1 and Ran from chromatin in vitro. Our data suggest that the cellular effects of progerin are transduced, at least in part, through reduced function of the Ran GTPase and SUMOylation pathways. PMID:21670151

The defective nuclear lamina in Hutchinson-gilford progeria syndrome disrupts the nucleocytoplasmic Ran gradient and inhibits nuclear localization of Ubc9.

PubMed

Kelley, Joshua B; Datta, Sutirtha; Snow, Chelsi J; Chatterjee, Mandovi; Ni, Li; Spencer, Adam; Yang, Chun-Song; Cubeñas-Potts, Caelin; Matunis, Michael J; Paschal, Bryce M

2011-08-01

The mutant form of lamin A responsible for the premature aging disease Hutchinson-Gilford progeria syndrome (termed progerin) acts as a dominant negative protein that changes the structure of the nuclear lamina. How the perturbation of the nuclear lamina in progeria is transduced into cellular changes is undefined. Using patient fibroblasts and a variety of cell-based assays, we determined that progerin expression in Hutchinson-Gilford progeria syndrome inhibits the nucleocytoplasmic transport of several factors with key roles in nuclear function. We found that progerin reduces the nuclear/cytoplasmic concentration of the Ran GTPase and inhibits the nuclear localization of Ubc9, the sole E2 for SUMOylation, and of TPR, the nucleoporin that forms the basket on the nuclear side of the nuclear pore complex. Forcing the nuclear localization of Ubc9 in progerin-expressing cells rescues the Ran gradient and TPR import, indicating that these pathways are linked. Reducing nuclear SUMOylation decreases the nuclear mobility of the Ran nucleotide exchange factor RCC1 in vivo, and the addition of SUMO E1 and E2 promotes the dissociation of RCC1 and Ran from chromatin in vitro. Our data suggest that the cellular effects of progerin are transduced, at least in part, through reduced function of the Ran GTPase and SUMOylation pathways.

Injection of Unicameral Bone Cysts with Bone Marrow Aspirate and Demineralized Bone Matrix Avoids Open Curettage and Bone Grafting in a Retrospective Cohort

PubMed Central

Gundle, Kenneth R.; Bhatt, Etasha M.; Punt, Stephanie E.; Bompadre, Viviana; Conrad, Ernest U.

2017-01-01

Background: Many treatment options exist for unicameral bone cysts (UBC), without clear evidence of superiority. Meta-analyses have been limited by small numbers of patients in specific anatomic and treatment subgroups. The purpose of this study was to report the outcomes of injecting bone marrow aspirate and demineralized bone matrix (BMA/DBM) for the treatment of proximal humerus UBC. Methods: Fifty-one patients with proximal humerus lesions treated by BMA/DBM injection were retrospectively reviewed from a single academic medical center. Results: The mean number of injections performed per patient was 2.14 (range 1-5). Eleven patients underwent only one injection (22%), an additional 19 patients completed treatment after two injections (37%), four patients healed after three injections (8%), and one patient healed after four injections (2%). The cumulative success rate of serial BMA/DBM injections was 22% (11/51), 58% (30/51), 67% (34/51), and 69% (35/51). Eleven patients (22%) ultimately underwent open curettage and bone grafting, and five patients (10%) were treated with injection of calcium phosphate bone substitute. Conclusion: A BMA/DBM injection strategy avoided an open procedure in 78% of patients with a proximal humerus UBC. The majority of patients underwent at least 2 injection treatments. Level of Evidence: Level IV retrospective cohort study. PMID:28694887

Selection of reference genes for quantitative real-time RT-PCR assays in different morphological forms of dimorphic zygomycetous fungus Benjaminiella poitrasii.

PubMed

Pathan, Ejaj K; Ghormade, Vandana; Deshpande, Mukund V

2017-01-01

Benjaminiella poitrasii, a dimorphic non-pathogenic zygomycetous fungus, exhibits a morphological yeast (Y) to hypha (H) reversible transition in the vegetative phase, sporangiospores (S) in the asexual phase and zygospores (Z) in the sexual phase. To study the gene expression across these diverse morphological forms, suitable reference genes are required. In the present study, 13 genes viz. ACT, 18S rRNA, eEF1α, eEF-Tu,eIF-1A, Tub-α, Tub-b, Ubc, GAPDH, Try, WS-21, NADGDH and NADPGDH were evaluated for their potential as a reference, particularly for studying gene expression during the Y-H reversible transition and also for other asexual and sexual life stages of B. poitrasii. Analysis of RT-qPCR data using geNorm, normFinder and BestKeeper software revealed that genes such as Ubc, 18S rRNA and WS-21 were expressed at constant levels in each given subset of RNA samples from all the morphological phases of B. poitrasii. Therefore, these reference genes can be used to elucidate the role of morpho-genes in B. poitrasii. Further, use of the two most stably expressed genes (Ubc and WS-21) to normalize the expression of the ornithine decarboxylase gene (Bpodc) in different morphological forms of B. poitrasii, generated more reliable results, indicating that our selection of reference genes was appropriate.

Effect of cellular ubiquitin levels on the regulation of oxidative stress response and proteasome function via Nrf1.

PubMed

Lee, Donghee; Ryu, Kwon-Yul

2017-04-01

The polyubiquitin genes Ubb and Ubc are upregulated under oxidative stress induced by arsenite [As(III)]. However, the role of ubiquitin (Ub) under As(III) exposure is not known in detail. In a previous study, we showed that the reduced viability observed in Ubc -/- mouse embryonic fibroblasts under As(III) exposure was not due to dysregulation of the Nrf2-Keap1 pathway, which prompted us to investigate another NFE2 family protein, nuclear factor erythroid 2-related factor 1 (Nrf1). In this study, we found that Ub deficiency due to Ubc knockdown in N2a cells reduced cell viability and proteasome activity under As(III) exposure. Furthermore, mRNA levels of the proteasome subunit Psma1 were also reduced. In addition, Ub deficiency led to the nuclear accumulation of the p65 isoform of Nrf1 under As(III) exposure. Interestingly, the overexpression of p65-Nrf1 recapitulated the phenotypes of Ub-deficient N2a cells under As(III) exposure. On the other hand, Nrf1 knockdown suppressed the death of Ub-deficient N2a cells upon exposure to As(III). Therefore, the levels of p65-Nrf1 may play an important role in the maintenance of cell viability under oxidative stress induced by As(III). Copyright © 2017 Elsevier Inc. All rights reserved.

Defining a Closed-Loop U.S. Aluminum Can Supply Chain Through Technical Design and Supply Chain Innovation

NASA Astrophysics Data System (ADS)

Buffington, Jack; Peterson, Ray

2013-08-01

The purpose of this study is to conduct a supply chain material flow analysis (MFA) for the U.S. aluminum can market, consistent with studies conducted for the overall worldwide aluminum industry. A technical definition of the use of alloys 5182 and 3104 is conducted by metallurgists for use in the "aluminum can" MFA. Four propositions are created: technical, economic, and supply chain factors are as important to secondary aluminum recycling in an aluminum can as higher recycling rates (P1); the development of a unialloy aluminum can will increase reuse rates, but recycling rates must increase for this to happen (P2); a closed-loop aluminum can supply chain is not able to be fully realized in today's environment but is very useful for understanding improvement through both supply and demand (P3); and UBC supply can improve through a "voluntary deposit-refund system" approach (P4).

Proposed method of hydrogeochemical exploration for salt deposits using ClBr ratios, Eastern Province, Kingdom of Saudi Arabia

USGS Publications Warehouse

Smith, C.L.

1991-01-01

Despite the value of the salt (NaCl) and brine used by the chemical industry, geochemical prospecting techniques are not customarily employed in the search for these raw materials. In this study, Br geochemistry is used as the basis for a proposed hydrogeochemical prospecting technique that was designed to search for shallow halite beds in the Eastern Province of the Kingdom of Saudi Arabia. Near-surface brine samples were collected at Sabkhah Jayb Uwayyid, both directly above and distant from a buried salt bed. Brine samples collected both directly above and offset to the north-west of the salt bed had ClBr ratios > 8000. The regional background ClBr ratio of fresh nonmarime ground water is ???300. The large range in ClBr ratios and the association of high ClBr ratios with the buried salt body suggest that the ratio can be useful in hydrogeochemical prospecting for sibakh-associated, shallow salt bodies. ?? 1991.

The GEOTREF program, a new approach for geothermal investigation

NASA Astrophysics Data System (ADS)

Gérard, Frédéric; Viard, Simon; Garcia, Michel

2017-04-01

The GEOTREF is an R&D program supported by the ADEME, French environmental agency and by the «Investissement d'Avenir », a French government program to found innovative projects. The GEOTREF program aims to develop an integrated analysis of high temperature geothermal reservoir in volcanic context. It is a collaborative program between nine research laboratories and two industrial partners. This program is supported for four years and funds 12 PhDs and 5 post-doctoral grants in various fields: geology, petrography, petrophysics, geophysics, geochemistry, reservoir modelling. The first three years are dedicated to the exploration phases that will lead to the drilling implantation. The project has two main objectives. 1.- Developing innovative and interactive methods and workflows leading to develop prospection and exploration in per volcanic geothermal target. This objective implicates: Optimization of the targeting to mitigate financial risks Adapting oil and gas exploration methods to geothermal energy, especially in peri-volcanic context. 2.- Applying this concept to different prospects in the Caribbean and South America The first target zone is located in Guadeloupe, an island of the active arc of the subduction zone where the Atlantic plate subducts under the Caribbean one. The GEOTREF prospect zone is on the Basse Terre Island in its south part closed to the Soufriere volcano, the active volcanic system. On the same island a geothermal field is exploited in Bouillante, just northward from the GEOTREF targeting area.

Twenty-Fourth Lunar and Planetary Science Conference. Part 2: G-M

NASA Technical Reports Server (NTRS)

1993-01-01

The topics covered include the following: meteorites, meteoritic composition, geochemistry, planetary geology, planetary composition, planetary craters, the Moon, Mars, Venus, asteroids, planetary atmospheres, meteorite craters, space exploration, lunar geology, planetary surfaces, lunar surface, lunar rocks, lunar soil, planetary atmospheres, lunar atmosphere, lunar exploration, space missions, geomorphology, lithology, petrology, petrography, planetary evolution, Earth surface, planetary surfaces, volcanology, volcanos, lava, magma, mineralogy, minerals, ejecta, impact damage, meteoritic damage, tectonics, etc.

Proceedings of GeoTech 85: Personal computers in geology conference

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1985-01-01

This book presents the papers given at a conference which considered the use of microprocessors in the exploration of petroleum and natural gas deposits. Topics covered at the conference included seismic surveys, geochemistry, expert systems, artificial intelligence, data base management systems, a portable exploration work station, open pit planning on a microcomputer, well logging, fracture analysis, production scheduling of open pit mines, resistivity logging, and coal washability.

GIS prospectivity mapping and 3D modeling validation for potential uranium deposit targets in Shangnan district, China

NASA Astrophysics Data System (ADS)

Xie, Jiayu; Wang, Gongwen; Sha, Yazhou; Liu, Jiajun; Wen, Botao; Nie, Ming; Zhang, Shuai

2017-04-01

Integrating multi-source geoscience information (such as geology, geophysics, geochemistry, and remote sensing) using GIS mapping is one of the key topics and frontiers in quantitative geosciences for mineral exploration. GIS prospective mapping and three-dimensional (3D) modeling can be used not only to extract exploration criteria and delineate metallogenetic targets but also to provide important information for the quantitative assessment of mineral resources. This paper uses the Shangnan district of Shaanxi province (China) as a case study area. GIS mapping and potential granite-hydrothermal uranium targeting were conducted in the study area combining weights of evidence (WofE) and concentration-area (C-A) fractal methods with multi-source geoscience information. 3D deposit-scale modeling using GOCAD software was performed to validate the shapes and features of the potential targets at the subsurface. The research results show that: (1) the known deposits have potential zones at depth, and the 3D geological models can delineate surface or subsurface ore-forming features, which can be used to analyze the uncertainty of the shape and feature of prospectivity mapping at the subsurface; (2) single geochemistry anomalies or remote sensing anomalies at the surface require combining the depth exploration criteria of geophysics to identify potential targets; and (3) the single or sparse exploration criteria zone with few mineralization spots at the surface has high uncertainty in terms of the exploration target.

Unicameral bone cyst of the proximal tibia in a five year old girl.

PubMed

Tahririan, Mohammadali; Motiffard, Mehdi

2012-01-01

Unicameral bone cysts (UBCs) are benign, osteolytic lesions which are often asymptomatic and are commonly seen in the proximal of humerus and femur. The average age at diagnosis is 9-11 years and there is a male preponderance with a male-to-female ratio of approximately 2-2.5 to 1. We describe a case of 5-year-old girl who presented to orthopedic clinic with a 4-month history of painful limping. Plain radiography of the right knee demonstrated a well-defined lytic lesion in the proximal of the tibia. Open biopsy and then curettage and bone grafting with bone- substitute was performed. The diagnosis of this condition requires a high index of suspicion. This report demonstrates that all UBCs do not have the same clinical patterns and with adequate attention good results can be achieved.

Negative regulation of protein phosphatase 2Cbeta by ISG15 conjugation.

PubMed

Takeuchi, Tomoharu; Kobayashi, Takayasu; Tamura, Shinri; Yokosawa, Hideyoshi

2006-08-07

ISG15, an interferon-upregulated ubiquitin-like protein, is covalently conjugated to various cellular proteins (ISGylation). In this study, we found that protein phosphatase 2Cbeta (PP2Cbeta), which functions in the nuclear factor kappaB (NF-kappaB) pathway via dephosphorylation of TGF-beta-activated kinase, was ISGylated, and analysis by NF-kappaB luciferase reporter assay revealed that PP2Cbeta activity was suppressed by co-expression of ISG15, UBE1L, and UbcH8. We determined the ISGylation sites of PP2Cbeta and constructed its ISGylation-resistant mutant. In contrast to the wild type, this mutant suppressed the NF-kappaB pathway even in the presence of ISG15, UBE1L, and UbcH8. Thus, we propose that ISGylation negatively regulates PP2Cbeta activity.

Exploring the role of social capital in supporting a regional medical education campus.

PubMed

Toomey, Patricia; Hanlon, Neil; Bates, Joanna; Poole, Gary; Lovato, Chris Y

2011-01-01

To help address physician shortages in the underserved community of Prince George, Canada, the University of British Columbia (UBC) and various partners created the Northern Medical Program (NMP), a regional distributed site of UBC's medical doctor undergraduate program. Early research on the impacts of the NMP revealed a high degree of social connectedness. The objective of the present study was to explore the role of social capital in supporting the regional training site and the benefits accrued to a broad range of stakeholders and network partners. In this qualitative study, 23 semi-structured interviews were conducted with community leaders in 2007. A descriptive content analysis based on analytic induction technique was employed. Carpiano's Bourdieu-based framework of 'neighbourhood' social capital was adapted to empirically describe how social capital was produced and mobilized within and among networks during the planning and implementation of the NMP. Results from this study reveal that the operation of social capital and the related concept of social cohesion are multifaceted, and that benefits extend in many directions, resulting in somewhat unanticipated benefits for other key stakeholders and network partners of this medical education program. Participants described four aspects of social capital: (i) social cohesion; (ii) social capital resources; (iii) access to social capital; and (iv) outcomes of social capital. The findings of this study suggest that the partnerships and networks formed in the NMP planning and implementation phases were the foundation for social capital mobilization. The use of Carpiano's spatially-bounded model of social capital was useful in this context because it permitted the characterization of relations and networks of a tight-knit community body. The students, faculty and administrators of the NMP have benefitted greatly from access to the social capital mobilized to make the NMP operational. Taking account of the dynamic and multifaceted operation of social capital helps one move beyond a view of geographic communities as simply containers or sinks of capital investment, and to appreciate the degree to which they may act as a platform for productive network formation and expansion.

Bioceramic bone graft substitute for treatment of unicameral bone cysts.

PubMed

Fillingham, Y A; Cvetanovich, G L; Haughom, B D; Erickson, B J; Gitelis, S

2016-08-01

To review the outcome of 12 patients who underwent debridement and injection of bioceramic for unicameral bone cyst (UBC). The resorption rate of the bioceramic was estimated by both traditional and novel methods. Records of 10 males and 2 females aged 6 to 34 years who underwent debridement and injection of bioceramic for UBC and were followed up for a mean of 41 (range, 26-57) months were reviewed. Functional outcome was assessed using the selfcompleted Musculoskeletal Tumor Society (MSTS) questionnaire. Radiological outcome was assessed using both original and modified Neer Outcome Rating System. The resorption rate of the bioceramic was estimated using both traditional and novel (ImageJ) methods. The mean MSTS score was 29.7 (range, 28-30) indicating excellent functional outcome. Of the 12 patients, 9 achieved complete healing and 3 had a residual cyst of 1%, 11%, and 52%. The last was considered a local recurrence, and the patient underwent repeat percutaneous injection of the bioceramic 1.5 years later and remained disease-free 4 years later. The mean resorption rate was 29% faster when estimated using the traditional rather than the ImageJ method (0.47 vs. 0.33 cm3/day, p=0.02). In the patient with recurrence, the resorption rate was faster than the average (0.68 vs. 0.33 cm3/day). A single percutaneous injection of the bioceramic for UBC achieved good functional and radiological outcome while avoiding donor-site morbidity.

The genetic difference between Western and Chinese urothelial cell carcinomas: infrequent FGFR3 mutation in Han Chinese patients.

PubMed

Yuan, Xiaotian; Liu, Cheng; Wang, Kun; Liu, Li; Liu, Tiantian; Ge, Nan; Kong, Feng; Yang, Liu; Björkholm, Magnus; Fan, Yidong; Zhao, Shengtian; Xu, Dawei

2016-05-03

Urothelial cell carcinoma (UCC) includes urothelial bladder carcinoma (UBC), renal pelvic carcinoma (RPC) and ureter carcinoma (UC), and its incidence varies dependent on geographical areas and tumor locations, which indicates different oncogenic mechanisms and/or different genetic susceptibility/environment exposure. The activating mutations of the fibroblast growth factor receptor 3 (FGFR3) gene and telomerase reverse transcriptase (TERT) promoter are the most frequent genetic events in UCCs. These mutations have clinical utilities in UCC initial diagnostics, prognosis, recurrence monitoring and management. However, the vast majority of the results are obtained from studies of UCC patients in Western countries, and little has been known about these in Han Chinese patients. In the present study, we screened the FGFR3 gene and TERT promoter for mutations in 116 UBC, 91 RPC and 115 UC tumors from Han Chinese patients by using Sanger Sequencing. TERT promoter mutations occurred at a high frequency in these UCC patients, comparable with that seen in Western patients, however, the FGFR3 mutation was surprisingly lower, only 9.4% for UBCs, 8.8% for RPCs and 2.6% for UCs, respectively. Taken together, the FGFR3 gene is an infrequent target in the pathogenesis of Han Chinese UCCs, and its mutation detection and targeted therapy have limited clinical utility in these patients. Our results underscore the need for extensive characterization of cancer genomes from diverse patient populations, thereby contributing to precision medicine for cancer treatment and prevention.

European genome-wide association study identifies SLC14A1 as a new urinary bladder cancer susceptibility gene

PubMed Central

Rafnar, Thorunn; Vermeulen, Sita H.; Sulem, Patrick; Thorleifsson, Gudmar; Aben, Katja K.; Witjes, J. Alfred; Grotenhuis, Anne J.; Verhaegh, Gerald W.; Hulsbergen-van de Kaa, Christina A.; Besenbacher, Soren; Gudbjartsson, Daniel; Stacey, Simon N.; Gudmundsson, Julius; Johannsdottir, Hrefna; Bjarnason, Hjordis; Zanon, Carlo; Helgadottir, Hafdis; Jonasson, Jon Gunnlaugur; Tryggvadottir, Laufey; Jonsson, Eirikur; Geirsson, Gudmundur; Nikulasson, Sigfus; Petursdottir, Vigdis; Bishop, D. Timothy; Chung-Sak, Sei; Choudhury, Ananya; Elliott, Faye; Barrett, Jennifer H.; Knowles, Margaret A.; de Verdier, Petra J.; Ryk, Charlotta; Lindblom, Annika; Rudnai, Peter; Gurzau, Eugene; Koppova, Kvetoslava; Vineis, Paolo; Polidoro, Silvia; Guarrera, Simonetta; Sacerdote, Carlotta; Panadero, Angeles; Sanz-Velez, José I.; Sanchez, Manuel; Valdivia, Gabriel; Garcia-Prats, Maria D.; Hengstler, Jan G.; Selinski, Silvia; Gerullis, Holger; Ovsiannikov, Daniel; Khezri, Abdolaziz; Aminsharifi, Alireza; Malekzadeh, Mahyar; van den Berg, Leonard H.; Ophoff, Roel A.; Veldink, Jan H.; Zeegers, Maurice P.; Kellen, Eliane; Fostinelli, Jacopo; Andreoli, Daniele; Arici, Cecilia; Porru, Stefano; Buntinx, Frank; Ghaderi, Abbas; Golka, Klaus; Mayordomo, José I.; Matullo, Giuseppe; Kumar, Rajiv; Steineck, Gunnar; Kiltie, Anne E.; Kong, Augustine; Thorsteinsdottir, Unnur; Stefansson, Kari; Kiemeney, Lambertus A.

2011-01-01

Three genome-wide association studies in Europe and the USA have reported eight urinary bladder cancer (UBC) susceptibility loci. Using extended case and control series and 1000 Genomes imputations of 5 340 737 single-nucleotide polymorphisms (SNPs), we searched for additional loci in the European GWAS. The discovery sample set consisted of 1631 cases and 3822 controls from the Netherlands and 603 cases and 37 781 controls from Iceland. For follow-up, we used 3790 cases and 7507 controls from 13 sample sets of European and Iranian ancestry. Based on the discovery analysis, we followed up signals in the urea transporter (UT) gene SLC14A. The strongest signal at this locus was represented by a SNP in intron 3, rs17674580, that reached genome-wide significance in the overall analysis of the discovery and follow-up groups: odds ratio = 1.17, P = 7.6 × 10−11. SLC14A1 codes for UTs that define the Kidd blood group and are crucial for the maintenance of a constant urea concentration gradient in the renal medulla and, through this, the kidney's ability to concentrate urine. It is speculated that rs17674580, or other sequence variants in LD with it, indirectly modifies UBC risk by affecting urine production. If confirmed, this would support the ‘urogenous contact hypothesis’ that urine production and voiding frequency modify the risk of UBC. PMID:21750109

Proceedings of the 38th Lunar and Planetary Science Conference

NASA Technical Reports Server (NTRS)

2007-01-01

The sessions in the conference include: Titan, Mars Volcanism, Mars Polar Layered Deposits, Early Solar System Isotopes, SPECIAL SESSION: Mars Reconnaissance Orbiter: New Ways of Studying the Red Planet, Achondrites: Exploring Oxygen Isotopes and Parent-Body Processes, Solar System Formation and Evolution, SPECIAL SESSION: SMART-1, . Impact Cratering: Observations and Experiments, SPECIAL SESSION: Volcanism and Tectonism on Saturnian Satellites, Solar Nebula Composition, Mars Fluvial Geomorphology, Asteroid Observations: Spectra, Mostly, Mars Sediments and Geochemistry: View from the Surface, Mars Tectonics and Crustal Dichotomy, Stardust: Wild-2 Revealed, Impact Cratering from Observations and Interpretations, Mars Sediments and Geochemistry: The Map View, Chondrules and Their Formation, Enceladus, Asteroids and Deep Impact: Structure, Dynamics, and Experiments, Mars Surface Process and Evolution, Martian Meteorites: Nakhlites, Experiments, and the Great Shergottite Age Debate, Stardust: Mainly Mineralogy, Astrobiology, Wind-Surface Interactions on Mars and Earth, Icy Satellite Surfaces, Venus, Lunar Remote Sensing, Space Weathering, and Impact Effects, Interplanetary Dust/Genesis, Mars Cratering: Counts and Catastrophes?, Chondrites: Secondary Processes, Mars Sediments and Geochemistry: Atmosphere, Soils, Brines, and Minerals, Lunar Interior and Differentiation, Mars Magnetics and Atmosphere: Core to Ionosphere, Metal-rich Chondrites, Organics in Chondrites, Lunar Impacts and Meteorites, Presolar/Solar Grains, Topics for Print Only papers are: Outer Planets/Satellites, Early Solar System, Interplanetary Dust, Comets and Kuiper Belt Objects, Asteroids and Meteoroids, Chondrites, Achondrites, Meteorite Related, Mars Reconnaissance Orbiter, Mars, Astrobiology, Planetary Differentiation, Impacts, Mercury, Lunar Samples and Modeling, Venus, Missions and Instruments, Global Warming, Education and Public Outreach, Poster sessions are: Asteroids/Kuiper Belt Objects, Galilean Satellites: Geology and Mapping, Titan, Volcanism and Tectonism on Saturnian Satellites, Early Solar System, Achondrite Hodgepodge, Ordinary Chondrites, Carbonaceous Chondrites, Impact Cratering from Observations and Interpretations, Impact Cratering from Experiments and Modeling, SMART-1, Planetary Differentiation, Mars Geology, Mars Volcanism, Mars Tectonics, Mars: Polar, Glacial, and Near-Surface Ice, Mars Valley Networks, Mars Gullies, Mars Outflow Channels, Mars Sediments and Geochemistry: Spirit and Opportunity, Mars Reconnaissance Orbiter: New Ways of Studying the Red Planet, Mars Reconnaissance Orbiter: Geology, Layers, and Landforms, Oh, My!, Mars Reconnaissance Orbiter: Viewing Mars Through Multicolored Glasses; Mars Science Laboratory, Phoenix, and ExoMars: Science, Instruments, and Landing Sites; Planetary Analogs: Chemical and Mineral, Planetary Analogs: Physical, Planetary Analogs: Operations, Future Mission Concepts, Planetary Data, Imaging, and Cartography, Outer Solar System, Presolar/Solar Grains, Stardust Mission; Interplanetary Dust, Genesis, Asteroids and Comets: Models, Dynamics, and Experiments, Venus, Mercury, Laboratory Instruments, Methods, and Techniques to Support Planetary Exploration; Instruments, Techniques, and Enabling Techologies for Planetary Exploration; Lunar Missions and Instruments, Living and Working on the Moon, Meteoroid Impacts on the Moon, Lunar Remote Sensing, Lunar Samples and Experiments, Lunar Atmosphere, Moon: Soils, Poles, and Volatiles, Lunar Topography and Geophysics, Lunar Meteorites, Chondrites: Secondary Processes, Chondrites, Martian Meteorites, Mars Cratering, Mars Surface Processes and Evolution, Mars Sediments and Geochemistry: Regolith, Spectroscopy, and Imaging, Mars Sediments and Geochemistry: Analogs and Mineralogy, Mars: Magnetics and Atmosphere, Mars Aeolian Geomorphology, Mars Data Processing and Analyses, Astrobiology, Engaging Student Educators and the Public in Planetary Science,

Use of Geochemistry Data Collected by the Mars Exploration Rover Spirit in Gusev Crater to Teach Geomorphic Zonation through Principal Components Analysis

ERIC Educational Resources Information Center

Rodrigue, Christine M.

2011-01-01

This paper presents a laboratory exercise used to teach principal components analysis (PCA) as a means of surface zonation. The lab was built around abundance data for 16 oxides and elements collected by the Mars Exploration Rover Spirit in Gusev Crater between Sol 14 and Sol 470. Students used PCA to reduce 15 of these into 3 components, which,…

Aqueous organic geochemistry at high temperature/high pressure

NASA Technical Reports Server (NTRS)

Simoneit, Bernd R. T.

1992-01-01

A description of the fate and chemical alterations of organic matter under hydrothermal conditions is given, with a brief overview of the geographic localities where these processes have been investigated to date. Two major aspects are examined: (1) alteration and degradation processes and reactions, both reductive and oxidative; and (2) synthesis processes and reactions which are primarily reductive. Examples of industrial applications of the related supercritical fluid technology are discussed.

Catalog of Canadian Industrial Capabilities.

DTIC Science & Technology

1981-09-01

corporation. Capability: Barringer has undertaken research projects primarily in the earth sciences in the disciplines of geology, geochemistry, electro...GASPEC concept is also to be used in the ERBS ( Earth Radiation Budget Satellite) wherein it will detect HF, HCI, CH4 and NO by looking at the rising...anechoic shielded enclosure. Experience: BNR carries out some R&D for groups other than their owners. They estimate their business with the US Military

The Treatment of Vaginismus

PubMed Central

Szasz, George; Stuart, Freida; Maurice, William L.; Garry, Matthew

1977-01-01

The treatment of vaginismus was the subject of grand rounds in the Department of Obstetrics and Gynecology at Vancouver General Hospital. Staff members of the UBC Sex Therapy Unit participated in the presentation of a case of unconsummated marriage. PMID:21304871

The Mojave Subsurface Bio-Geochemistry Explorer (MOSBE)

NASA Technical Reports Server (NTRS)

Guerrero, J.; Beegle, L.; Abbey, W.; Bhartia, R.; Kounaves, S.; Russell, M.; Towles, D.

2012-01-01

The MOSBE Team has developed a terrestrial field campaign to explore two subsurface biological habitats under the Mojave Desert. This field campaign will not only help us understand terrestrial desert biology, but also will develop methodologies and strategies for potential future Mars missions that would seek to explore the Martian subsurface. We have proposed to the ASTEP program to integrate a suite of field demonstrated instruments with a 20 m subsurface drill as a coherent unit, the Mojave Subsurface Bio-geochemistry Explorer. The ATK Space Modular Planetary Drill System (MPDS) requires no drilling fluid, which allows aseptic sampling, can penetrate lithic ground up to 20 meters of depth, and utilizes less than 100 Watts throughout the entire depth. The drill has been developed and demonstrated in field testing to a depth of 10 meters in Arizona, December 2002. In addition to caching a continuous core throughout the drilling depth, it also generates and caches cuttings and fines that are strata-graphically correlated with the core. As a core segment is brought to the surface, it will be analyzed for texture and structure by a color microscopic imager and for relevant chemistry and mineralogy with a UV fluorescence/Raman spectrometer. Organic and soluble ionic species will be identified through two instruments -- a microcapillary electrophoresis, and an ion trap mass spectrometer that have been developed under PIDDP, ASTID and MIDP funding.

Unicameral bone cyst of the proximal tibia in a five year old girl

PubMed Central

Tahririan, Mohammadali; Motiffard, Mehdi

2012-01-01

Unicameral bone cysts (UBCs) are benign, osteolytic lesions which are often asymptomatic and are commonly seen in the proximal of humerus and femur. The average age at diagnosis is 9-11 years and there is a male preponderance with a male-to-female ratio of approximately 2-2.5 to 1. We describe a case of 5-year-old girl who presented to orthopedic clinic with a 4-month history of painful limping. Plain radiography of the right knee demonstrated a well-defined lytic lesion in the proximal of the tibia. Open biopsy and then curettage and bone grafting with bone- substitute was performed. The diagnosis of this condition requires a high index of suspicion. This report demonstrates that all UBCs do not have the same clinical patterns and with adequate attention good results can be achieved. PMID:23248665

Identification and Herc5-mediated ISGylation of novel target proteins.

PubMed

Takeuchi, Tomoharu; Inoue, Satoshi; Yokosawa, Hideyoshi

2006-09-22

ISG15, a protein containing two ubiquitin-like domains, is an interferon-stimulated gene product that functions in antiviral response and is conjugated to various cellular proteins (ISGylation) upon interferon stimulation. ISGylation occurs via a pathway similar to the pathway for ubiquitination that requires the sequential action of E1/E2/E3: the E1 (UBE1L), E2 (UbcH8), and E3 (Efp/Herc5) enzymes for ISGylation have been hitherto identified. In this study, we identified six novel candidate target proteins for ISGylation by a proteomic approach. Four candidate target proteins were demonstrated to be ISGylated in UBE1L- and UbcH8-dependent manners, and ISGylation of the respective target proteins was stimulated by Herc5. In addition, Herc5 was capable of binding with the respective target proteins. Thus, these results suggest that Herc5 functions as a general E3 ligase for protein ISGylation.

Data on subsurface storage of liquid waste near Pensacola, Florida, 1963-1980

USGS Publications Warehouse

Hull, R.W.; Martin, J.B.

1982-01-01

Since 1963, when industrial waste was first injected into the subsurface in northwest Florida, considerable data have been collected relating to the geochemistry of subsurface waste storage. This report presents hydrogeologic data on two subsurface waste storage. This report presents hydrogeologic data on two subsurface storage systems near Pensacola, Fla., which inject liquid industrial waste through deep wells into a saline aquifer. Injection sites are described giving a history of well construction, injection, and testing; geologic data from cores and grab samples; hydrographs of injection rates, volume, pressure, and water levels; and chemical and physical data from water-quality samples collected from injection and monitor wells. (USGS)

Evaluation of reference genes for quantitative real-time RT-PCR analysis of gene expression in Nile tilapia (Oreochromis niloticus).

PubMed

Yang, Chang Geng; Wang, Xian Li; Tian, Juan; Liu, Wei; Wu, Fan; Jiang, Ming; Wen, Hua

2013-09-15

Quantitative real-time reverse-transcriptase polymerase chain reaction (RT-qPCR) has been used frequently to study gene expression related to fish immunology. In such studies, a stable reference gene should be selected to correct the expression of the target gene. In this study, seven candidate reference genes (glyceraldehyde-3-phosphate dehydrogenase (GADPH), ubiquitin-conjugating enzyme (UBCE), 18S ribosomal RNA (18S rRNA), beta-2-microglobulin (B2M), elongation factor 1 alpha (EF1A), tubulin alpha chain-like (TUBA) and beta actin (ACTB)), were selected to analyze their stability and normalization in seven tissues (liver, spleen, kidney, brain, heart, muscle and intestine) of Nile tilapia (Oreochromis niloticus) challenged with Streptococcus agalactiae or Streptococcus iniae, respectively. The results showed that all the candidate reference genes exhibited tissue-dependent transcriptional variations. With PBS injection as a control, UBCE was the most stable and suitable single reference gene in the intestine, liver, brain, kidney, and spleen after S. iniae infection, and in the liver, kidney, and spleen after S. agalactiae infection. EF1A was the most suitable in heart and muscle after S. iniae or S. agalactiae infection. GADPH was the most suitable gene in intestine and brain after S. agalactiae infection. In normal conditions, UBCE and 18S rRNA were the most stably expressed genes across the various tissues. These results showed that for RT-qPCR analysis of tilapia, selecting two or more reference genes may be more suitable for cross-tissue analysis of gene expression. Copyright © 2013 Elsevier B.V. All rights reserved.

Selection of Suitable Internal Control Genes for Accurate Normalization of Real-Time Quantitative PCR Data of Buffalo (Bubalus bubalis) Blastocysts Produced by SCNT and IVF.

PubMed

Sood, Tanushri Jerath; Lagah, Swati Viviyan; Sharma, Ankita; Singla, Suresh Kumar; Mukesh, Manishi; Chauhan, Manmohan Singh; Manik, Radheysham; Palta, Prabhat

2017-10-01

We evaluated the suitability of 10 candidate internal control genes (ICGs), belonging to different functional classes, namely ACTB, EEF1A1, GAPDH, HPRT1, HMBS, RPS15, RPS18, RPS23, SDHA, and UBC for normalizing the real-time quantitative polymerase chain reaction (qPCR) data of blastocyst-stage buffalo embryos produced by hand-made cloning and in vitro fertilization (IVF). Total RNA was isolated from three pools, each of cloned and IVF blastocysts (n = 50/pool) for cDNA synthesis. Two different statistical algorithms geNorm and NormFinder were used for evaluating the stability of these genes. Based on gene stability measure (M value) and pairwise variation (V value), calculated by geNorm analysis, the most stable ICGs were RPS15, HPRT1, and ACTB for cloned blastocysts, HMBS, UBC, and HPRT1 for IVF blastocysts and RPS15, GAPDH, and HPRT1 for both the embryo types analyzed together. RPS18 was the least stable gene for both cloned and IVF blastocysts. Following NormFinder analysis, the order of stability was RPS15 = HPRT1>GAPDH for cloned blastocysts, HMBS = UBC>RPS23 for IVF blastocysts, and HPRT1>GAPDH>RPS15 for cloned and IVF blastocysts together. These results suggest that despite overlapping of the three most stable ICGs between cloned and IVF blastocysts, the panel of ICGs selected for normalization of qPCR data of cloned and IVF blastocyst-stage embryos should be different.

Foraminiferal Stable Isotope Geochemistry At The Micrometer Scale: Is It A Dream Or Reality?

NASA Astrophysics Data System (ADS)

Misra, S.; Shuttleworth, S.; Lloyd, N. S.; Sadekov, A.; Elderfield, H.

2012-12-01

Over last few decades trace metals and stable isotope compositions of foraminiferal shells became one of the major tools to study past oceans and associated climate change. Empirical calibrations of δ11B, δ18O, Mg/Ca, Cd/Ca, Ba/Ca shells compositions have linked them to various environmental parameters such as seawater pH, temperature, salinity and productivity. Despite their common use as proxies, little is known about mechanisms of trace metals incorporation into foraminiferal calcite. Trace metals partition coefficients for foraminiferal calcite is significantly different from inorganic calcite precipitates underlining strong biological control on metal transport to the calcification sites and their incorporation into the calcite. Microscale distribution of light elements isotopes (e.g. Li, B, Mg) could potentially provide unique inside into these biomineralization processes improving our understanding of foraminiferal geochemistry. In this work we explore potentials of using recent advances in analytical geochemistry by employing laser ablation and multi-collector ICP-MS to study microscale distribution of Mg isotopes across individual foraminiferal shells and δ11B, and δ7Li analyses of individual shell chambers. The analytical setup includes an Analyte.G2 193nm excimer laser ablation system with two volume ablation cell connected to a Thermo Scientific NEPTUNE Plus MC-ICP-MS with Jet Interface option. We will discuss method limitations and advantages for foraminiferal geochemistry as well as our data on Mg isotopes distribution within shells of planktonic foraminifera.

History of the recognition of organic geochemistry in geoscience

USGS Publications Warehouse

Kvenvolden, K.A.

2002-01-01

The discipline of organic geochemistry is an outgrowth of the application of the principles and methods of organic chemistry to sedimentary geology. Its origin goes back to the last part of the nineteenth century and the first part of the twentieth century concurrent with the evolution of the applied discipline of petroleum geochemistry. In fact, organic geochemistry was strongly influenced by developments in petroleum geochemistry. Now, however, organic geochemistry is considered an umbrella geoscience discipline of which petroleum geochemistry is an important component.

Geochemistry for Chemists.

ERIC Educational Resources Information Center

Hostettler, John D.

1985-01-01

A geochemistry course for chemists is described. Includes: (1) general course information; (2) subject matter covered; and (3) a consideration of the uses of geochemistry in a chemistry curriculum, including geochemical "real world" examples, geochemistry in general chemistry, and geochemistry as an elective. (JN)

Workshop on Viability of Halophilic Bacteria in Salt Deposits

NASA Technical Reports Server (NTRS)

1997-01-01

The significance of finding viable extreme halophiles in halites associated with Permian-aged sedimentary deposits is considered. Issues related to the microbiology and geochemistry of the halite environment are addressed. Recommendations that related the significance of this phenomenon to NASA's interest in planetary exploration and the early evolution of life are provided.

Sedimentary Rocks and Methane - Southwest Arabia Terra

NASA Technical Reports Server (NTRS)

Allen, Carlton C.; Oehler, Dorothy Z.; Venechuk, Elizabeth M.

2006-01-01

We propose to land the Mars Science Laboratory in southwest Arabia Terra to study two key aspects of martian history the extensive record of sedimentary rocks and the continuing release of methane. The results of this exploration will directly address the MSL Scientific Objectives regarding biological potential, geology and geochemistry, and past habitability.

MESSENGER, MErcury: Surface, Space ENvironment, GEochemistry, and Ranging; A Mission to Orbit and Explore the Planet Mercury

NASA Technical Reports Server (NTRS)

1999-01-01

MESSENGER is a scientific mission to Mercury. Understanding this extraordinary planet and the forces that have shaped it is fundamental to understanding the processes that have governed the formation, evolution, and dynamics of the terrestrial planets. MESSENGER is a MErcury Surface, Space ENvironment, GEochemistry and Ranging mission to orbit Mercury for one Earth year after completing two flybys of that planet following two flybys of Venus. The necessary flybys return significant new data early in the mission, while the orbital phase, guided by the flyby data, enables a focused scientific investigation of this least-studied terrestrial planet. Answers to key questions about Mercury's high density, crustal composition and structure, volcanic history, core structure, magnetic field generation, polar deposits, exosphere, overall volatile inventory, and magnetosphere are provided by an optimized set of miniaturized space instruments. Our goal is to gain new insight into the formation and evolution of the solar system, including Earth. By traveling to the inner edge of the solar system and exploring a poorly known world, MESSENGER fulfills this quest.

Over-accumulation of nuclear IGF-1 receptor in tumor cells requires elevated expression of the receptor and the SUMO-conjugating enzyme Ubc9

DOE Office of Scientific and Technical Information (OSTI.GOV)

Deng, Hua; Lin, Yingbo; Badin, Margherita

2011-01-14

Research highlights: {yields} SUMOylation mediates nuclear translocation of IGF-1R which activates transcription. {yields} Here we show that nuclear IGF-1R over-accumulates in tumor cells. {yields} This requires overexpression of the receptor that is a common feature in tumor cells. {yields} An increased expression of the SUMO ligase Ubc9 seems to be an involved mechanism too. -- Abstract: The insulin-like growth factor 1 receptor (IGF-1R) plays crucial roles in tumor cell growth and is overexpressed in many cancers. IGF-1R's trans-membrane kinase signaling pathways have been well characterized. Very recently, we showed that SUMOylation mediates nuclear translocation of the IGF-1R, and that nuclearmore » IGF-1R (nIGF-1R) binds to enhancer regions and activates transcription. We identified three lysine residues in the {beta}-subunit of the receptor and that mutation of these blocks nuclear translocation and gene activation. Furthermore, accumulation of nIGF-1R was proven strongly dependent on the specific SUMO-conjugating enzyme Ubc9. Here we show that nIGF-1R originates solely from the cell membrane and that phosphorylation of the core tyrosine residues of the receptor kinase is crucial for nuclear accumulation. We also compared the levels of nIGF-1R, measured as nuclear/membrane ratios, in tumor and normal cells. We found that the breast cancer cell line MCF-7 has 13-fold higher amounts of nIGF-1R than breast epithelial cells (IME) which showed only a small amount of nIGF-1R. In comparison, the total expression of IGF-1R was only 3.7- higher in MCF-7. Comparison of several other tumor and normal cell lines showed similar tumor cell over-accumulation of nIGF-1R, exceeding the total receptor expression substantially. Ectopic overexpression (>10-fold) of the receptor increased nIGF-1R in IME cells but not to that high level as in wild type MCF-7. The levels of Ubc9 were higher in all tumor cell lines, compared to the normal cells, and this probably contributes to over-accumulation of nIGF-1R. Over-accumulation of nIGF-1R may contribute to deregulated gene expression and therewith play a pathophysiological role in cancer cells.« less

[Pathologic proximal femoral fractures in children in an unicameral bone cyst].

PubMed

Havránek, P; Pesl, T; Bartonícek, J

2005-01-01

Proximal femoral fractures in children are rare, pathologic fractures being extremely rare. Despite many meanings these fractures are still "unsolved" there are some definite rules for treatment of true accidental injuries. Pathologic fractures are outstanding with their extremely rare incidence. The aim of the study is to overview a large clinical material, find out the incidence of this pathologic fracture, the extent and shape of the unicameral bone cyst (UBC), specific therapeutic approach, technical problems of eventual osteosynthesis, number of reoperations and sequels. Altogether 49 children with 50 accidental and pathologic fractures of proximal part of the femur treated in the Regional Pediatric Trauma Centre of the Department of Pediatric and Trauma Surgery, 3rd Faculty of Medicine, Charles University, Prague. Retrospective and prospective study of children (0 to 15 years of age) treated with proximal femoral accidental and pathologic fractures during the 20 year period (from August 1984 to November 2004). Classification of fractures according to Delbet and Colonna. Diagnosis of bone cyst with plain X-rays, eventually CT scans. During the 20 years period (August 1984 to November 2004) 49 children with 50 proximal femoral fractures were treated in the Department. Four patients sustained a pathologic fracture through an unicameral bone cyst. Two of these latter children were treated by an open reduction and osteosynthesis with the use of the proximal femoral AO-ASIF angled-plate and two children nonoperatively using skeletal traction because of impossibility of insertion of the osteosynthetic material without a damage of the growth plate. Subsequent operations of the UBC were necessary in these two children. All four patients recovered well without sequels. Pathologic fractures in UBC are usually treated nonoperatively and the cyst itself is treated after fracture healing. Proximal femoral impairment is the exception from this rule because of weigh bearing necessity. However, there may be problems with insertion of the implant when the cyst is very near to capital physis and traction treatment is then the method of choice with a delay of operative treatment of the cyst. Pathologic proximal femoral fractures in UBC are extremely rare and need individual approach. Some of them should be operated on the others primarily treated by traction with secondary operation of the cyst. Complications can be frequent.

HTLV-1 Tax Stimulates Ubiquitin E3 Ligase, Ring Finger Protein 8, to Assemble Lysine 63-Linked Polyubiquitin Chains for TAK1 and IKK Activation.

PubMed

Ho, Yik-Khuan; Zhi, Huijun; Bowlin, Tara; Dorjbal, Batsukh; Philip, Subha; Zahoor, Muhammad Atif; Shih, Hsiu-Ming; Semmes, Oliver John; Schaefer, Brian; Glover, J N Mark; Giam, Chou-Zen

2015-08-01

Human T lymphotropic virus type 1 (HTLV-1) trans-activator/oncoprotein, Tax, impacts a multitude of cellular processes, including I-κB kinase (IKK)/NF-κB signaling, DNA damage repair, and mitosis. These activities of Tax have been implicated in the development of adult T-cell leukemia (ATL) in HTLV-1-infected individuals, but the underlying mechanisms remain obscure. IKK and its upstream kinase, TGFβ-activated kinase 1 (TAK1), contain ubiquitin-binding subunits, NEMO and TAB2/3 respectively, which interact with K63-linked polyubiquitin (K63-pUb) chains. Recruitment to K63-pUb allows cross auto-phosphorylation and activation of TAK1 to occur, followed by TAK1-catalyzed IKK phosphorylation and activation. Using cytosolic extracts of HeLa and Jurkat T cells supplemented with purified proteins we have identified ubiquitin E3 ligase, ring finger protein 8 (RNF8), and E2 conjugating enzymes, Ubc13:Uev1A and Ubc13:Uev2, to be the cellular factors utilized by Tax for TAK1 and IKK activation. In vitro, the combination of Tax and RNF8 greatly stimulated TAK1, IKK, IκBα and JNK phosphorylation. In vivo, RNF8 over-expression augmented while RNF8 ablation drastically reduced canonical NF-κB activation by Tax. Activation of the non-canonical NF-κB pathway by Tax, however, is unaffected by the loss of RNF8. Using purified components, we further demonstrated biochemically that Tax greatly stimulated RNF8 and Ubc13:Uev1A/Uev2 to assemble long K63-pUb chains. Finally, co-transfection of Tax with increasing amounts of RNF8 greatly induced K63-pUb assembly in a dose-dependent manner. Thus, Tax targets RNF8 and Ubc13:Uev1A/Uev2 to promote the assembly of K63-pUb chains, which signal the activation of TAK1 and multiple downstream kinases including IKK and JNK. Because of the roles RNF8 and K63-pUb chains play in DNA damage repair and cytokinesis, this mechanism may also explain the genomic instability of HTLV-1-transformed T cells and ATL cells.

HTLV-1 Tax Stimulates Ubiquitin E3 Ligase, Ring Finger Protein 8, to Assemble Lysine 63-Linked Polyubiquitin Chains for TAK1 and IKK Activation

PubMed Central

Ho, Yik-Khuan; Zhi, Huijun; Bowlin, Tara; Dorjbal, Batsukh; Philip, Subha; Zahoor, Muhammad Atif; Shih, Hsiu-Ming; Semmes, Oliver John; Schaefer, Brian; Glover, J. N. Mark; Giam, Chou-Zen

2015-01-01

Human T lymphotropic virus type 1 (HTLV-1) trans-activator/oncoprotein, Tax, impacts a multitude of cellular processes, including I-κB kinase (IKK)/NF-κB signaling, DNA damage repair, and mitosis. These activities of Tax have been implicated in the development of adult T-cell leukemia (ATL) in HTLV-1-infected individuals, but the underlying mechanisms remain obscure. IKK and its upstream kinase, TGFβ-activated kinase 1 (TAK1), contain ubiquitin-binding subunits, NEMO and TAB2/3 respectively, which interact with K63-linked polyubiquitin (K63-pUb) chains. Recruitment to K63-pUb allows cross auto-phosphorylation and activation of TAK1 to occur, followed by TAK1-catalyzed IKK phosphorylation and activation. Using cytosolic extracts of HeLa and Jurkat T cells supplemented with purified proteins we have identified ubiquitin E3 ligase, ring finger protein 8 (RNF8), and E2 conjugating enzymes, Ubc13:Uev1A and Ubc13:Uev2, to be the cellular factors utilized by Tax for TAK1 and IKK activation. In vitro, the combination of Tax and RNF8 greatly stimulated TAK1, IKK, IκBα and JNK phosphorylation. In vivo, RNF8 over-expression augmented while RNF8 ablation drastically reduced canonical NF-κB activation by Tax. Activation of the non-canonical NF-κB pathway by Tax, however, is unaffected by the loss of RNF8. Using purified components, we further demonstrated biochemically that Tax greatly stimulated RNF8 and Ubc13:Uev1A/Uev2 to assemble long K63-pUb chains. Finally, co-transfection of Tax with increasing amounts of RNF8 greatly induced K63-pUb assembly in a dose-dependent manner. Thus, Tax targets RNF8 and Ubc13:Uev1A/Uev2 to promote the assembly of K63-pUb chains, which signal the activation of TAK1 and multiple downstream kinases including IKK and JNK. Because of the roles RNF8 and K63-pUb chains play in DNA damage repair and cytokinesis, this mechanism may also explain the genomic instability of HTLV-1-transformed T cells and ATL cells. PMID:26285145

Conceptual models in exploration geochemistry-The Basin and Range Province of the Western United States and Northern Mexico

USGS Publications Warehouse

Lovering, T.G.; McCarthy, J.H.

1978-01-01

This summary of geochemical exploration in the Basin and Range Province is another in the series of reviews of geochemical-exploration applications covering a large region; this series began in 1975 with a summary for the Canadian Cordillera and Canadian Shield, and was followed in 1976 by a similar summary for Scandinavia (Norden). Rather than adhering strictly to the type of conceptual models applied in those papers, we have made use of generalized landscape geochemistry models related to the nature of concealment of ore deposits. This study is part of a continuing effort to examine and evaluate geochemical-exploration practices in different areas of the world. Twenty case histories of the application of geochemical exploration in both district and regional settings illustrate recent developments in techniques and approaches. Along with other published reports these case histories, exemplifying generalized models of concealed deposits, provide data used to evaluate geochemical-exploration programs and specific sample media. Because blind deposits are increasingly sought in the Basin and Range Province, the use of new sample media or anomaly-enhancement techniques is a necessity. Analysis of vapors or gases emanating from blind deposits is a promising new technique. Certain fractions of stream sediments show anomalies that are weak or not detected in conventional minus 80-mesh fractions. Multi-element analysis of mineralized bedrock may show zoning patterns that indicate depth or direction of ore. Examples of the application of these and other, more conventional methods are indicated in the case histories. The final section of this paper contains a brief evaluation of the applications of all types of sample media to geochemical exploration in the arid environment of the Basin and Range Province. ?? 1978.

Summary of the mineral- and energy-resource endowment, BLM roswell resource area, east-central New Mexico

USGS Publications Warehouse

Bartsch-Winkler, S.; Sutphin, D.M.; Ball, M.M.; Korzeb, S.L.; Kness, R.F.; Dutchover, J.T.

1993-01-01

In this summary of two comprehensive resource reports produced by the U.S. Bureau of Mines and the U.S. Geological Survey for the U.S. Bureau of Land Management, we discuss the mineral- and energyresource endowment of the 14-millon-acre Roswell Resource Area, New Mexico, managed by the Bureau of Land Management. The Bureau and Survey reports result from separate studies that are compilations of published and unpublished data and integrate new findings on the geology, geochemistry, geophysics, mineral, industrial, and energy commodities, and resources for the seven-county area. The reports have been used by the Bureau of Land Management in preparation of the Roswell Resource Area Resource Management Plan, and will have future use in nationwide mineral- and energy-resource inventories and assessments, as reference and training documents, and as public-information tools. In the Roswell Resource Area, many metals, industrial mineral commodities, and energy resources are being, or have been, produced or prospected. These include metals and high-technology materials, such as copper, gold, silver, thorium, uranium and/or vanadium, rare-earth element minerals, iron, manganese, tungsten, lead, zinc, and molybdenum; industrial mineral resources, including barite, limestone/dolomite, caliche, clay, fluorspar, gypsum, scoria, aggregate, and sand and gravel; and fuels and associated resources, such as oil, gas, tar sand and heavy oil, coal, and gases associated with hydrocarbons. Other commodities that have yet to be identified in economic concentrations include potash, halite, polyhalite, anhydrite, sulfur, feldspar, building stone and decorative rock, brines, various gases associated with oil and gas exploration, and carbon dioxide. ?? 1993 Oxford University Press.

Postural loading assessment in assembly workers of an Iranian telecommunication manufacturing company.

PubMed

Kamalinia, Mojtaba; Nasl Saraji, Gebreal; Kee, Dohyung; Hosseini, Mostafa; Choobineh, Alireza

2013-01-01

Changes in industries and work practices have coincided with work-related musculoskeletal disorders (MSDs). This study was conducted to determine the prevalence of MSDs and to assess postural loading in assembly workers of an Iranian telecommunication manufacturing company. Data were collected from 193 randomly selected workers in 4 units of the company. The Nordic musculoskeletal disorders questionnaire and the UBC ergonomic checklist were used as data collection tools. Loading on the upper body assessment (LUBA) was used to assess postural loading. Lower back symptoms were the most prevalent problems among the workers (67.9%). LUBA showed that most assembly workers (94.3%) had experienced considerable and high postural loading (postural load index, PLI > 5). Regression analyses revealed that lighting, rotation, contact stress, repetition, gender and age were factors associated with symptoms. Work-related MSDs occurred at a high rate among workers. Postural loading requires consideration. Any ergonomic intervention should focus on eliminating ergonomic factors associated with symptoms.

The Importance of Chemosynthetic Communities and 'Seep-Hunting' to Deepwater Oil and Gas Exploration

NASA Astrophysics Data System (ADS)

McConnell, D.; Gharib, J. J.; Orange, D.; Henderson, J.; Danque, H.; Digby, A.

2007-12-01

Seafloor surveying techniques have often evolved as the industry's needs have evolved. Oil and gas exploration costs have escalated over the last several years, both as a result of increasing offshore overhead costs as well as the increased demand being met by offshore service-related companies. Consequently, more companies are prospecting using inexpensive techniques that rely on scientific expertise, such as seep-hunting, as a means of identifying reservoirs, and the past few years have seen several large-scale industrial deepwater surveys with locating hydrocarbon seeps as a primary goal. The identification of seeps is also a necessity for many pre-drilling operations, as many potential developers must conform to local regulations protecting chemosynthetic communities (eg MMS NTL 2000-G20 for Gulf of Mexico development). In addition to identifying chemosynthetic communities for permitting issues, as prospecting has moved into deeper water the ability to identify seep-related drilling hazards, such as hardgrounds or shallow gas (and hydrates) has also increased in importance. The specialized field of identifying seeps, and related chemosynthetics, hardgrounds, etc., is rapidly growing, aided by advances in mapping technology, such as multibeam backscatter and interferometry, among others. Today all of the geophysical data can be brought into a common interpretation environment providing multiple perspectives, different data overlays, and/or 3D visualizations. Using these techniques, high resolution multibeam and/or side-scan surveys rapidly cover large swaths of seafloor and identify potential seeps in real- time. These targets can then be examined geochemically with a coring program, potentially working simultaneously with the multibeam program. Modern USBL navigation can position a deepwater core in <10m diameter targets. Much of the geochemistry can be analyzed in near-real time at sea (eg headspace/interstitial gas, trace/minor/major ions in porefluids, etc; only isotopic analyses are restricted to better equipped research vessels). The advantages of integrating these data are considerable, and they can be obtained for a fraction of the cost of exploratory drilling or submersible operations. This presentation intends to outline the recent history of the industry's approach to seep-hunting, its increasing importance to oil prospectivity, and future trends in industrial applications and how this might affect academic study in this field (especially related to the advances in seep-hunting technology and software that are becoming industry-standards).

Twenty-Fourth Lunar and Planetary Science Conference. Part 2: G-M

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1993-01-01

The topics covered include the following: meteorites, meteoritic composition, geochemistry, planetary geology, planetary composition, planetary craters, the Moon, Mars, Venus, asteroids, planetary atmospheres, meteorite craters, space exploration, lunar geology, planetary surfaces, lunar surface, lunar rocks, lunar soil, planetary atmospheres, lunar atmosphere, lunar exploration, space missions, geomorphology, lithology, petrology, petrography, planetary evolution, Earth surface, planetary surfaces, volcanology, volcanos, lava, magma, mineralogy, minerals, ejecta, impact damage, meteoritic damage, tectonics, etc. Separate abstracts have been prepared for articles from this report.

Manual on Bibliographic Control.

ERIC Educational Resources Information Center

International Federation of Library Associations, The Hague (Netherlands).

This manual outlines objectives, functions, and methods for establishing national bibliographic control as part of the development of a worldwide system for the control and exchange of bibliographic information. Chapters cover: (1) definitions of bibliographic control and related concepts including Universal Bibliographic Control (UBC) and…

75 FR 5350 - Investigations Regarding Certifications of Eligibility To Apply for Worker Adjustment Assistance

Federal Register 2010, 2011, 2012, 2013, 2014

2010-02-02

... 73028 TRW Automotive (Wkrs)...... Galesville, WI........ 12/07/09 10/11/09 73029 Faurecia Exhaust... Taconite Plant, Keewatin, MN 12/08/09 12/07/09 U.S. Steel Corporation (State). 73048 Mohawk Flush Door (UBC...

The ubiquitin conjugating enzyme UbcH7, controls cell migration

USDA-ARS?s Scientific Manuscript database

Post translational modification by ubiquitination can target proteins for degradation, allow the interaction of proteins to form complexes or direct relocalization of proteins to different subcellular compartments. As such, ubiquitin controls a variety of essential cellular processes. Previously we ...

Coal emissions adverse human health effects associated with ultrafine/nano-particles role and resultant engineering controls.

PubMed

Oliveira, Marcos L S; Navarro, Orlando G; Crissien, Tito J; Tutikian, Bernardo F; da Boit, Kátia; Teixeira, Elba C; Cabello, Juan J; Agudelo-Castañeda, Dayana M; Silva, Luis F O

2017-10-01

There are multiple elements which enable coal geochemistry: (1) boiler and pollution control system design parameters, (2) temperature of flue gas at collection point, (3) feed coal and also other fuels like petroleum coke, tires and biomass geochemistry and (4) fuel feed particle size distribution homogeneity distribution, maintenance of pulverisers, etc. Even though there is a large number of hazardous element pollutants in the coal-processing industry, investigations on micrometer and nanometer-sized particles including their aqueous colloids formation reactions and their behaviour entering the environment are relatively few in numbers. X-ray diffraction (XRD), High Resolution-Transmission Electron microscopy (HR-TEM)/ (Energy Dispersive Spectroscopy) EDS/ (selected-area diffraction pattern) SAED, Field Emission-Scanning Electron Microscopy (FE-SEM)/EDS and granulometric distribution analysis were used as an integrated characterization techniques tool box to determine both geochemistry and nanomineralogy for coal fly ashes (CFAs) from Brazil´s largest coal power plant. Ultrafine/nano-particles size distribution from coal combustion emissions was estimated during the tests. In addition the iron and silicon content was determined as 54.6% of the total 390 different particles observed by electron bean, results aimed that these two particles represent major minerals in the environment particles normally. These data may help in future investigations to asses human health actions related with nano-particles. Copyright © 2017 Elsevier Inc. All rights reserved.

Using social media to promote international student partnerships.

PubMed

Garrett, Bernard M; Cutting, Roger

2012-11-01

This paper describes a project to establish and evaluate online study partnerships, using social networking applications, between final year Canadian nursing students at the University of British Columbia (UBC) and second year undergraduate science education students at the University of Plymouth (UoP) in the UK. The project took place between 2009 and 2010 and evaluated the use of social networking applications with international interdisciplinary partnerships between Canadian and UK students. A multi-method evaluation strategy incorporating questionnaires, online focus groups and web analytics was used to explore the value of social media to promote the exchange of ideas and discussion of scientific philosophy in different contexts, between students working in disciplines with differing philosophical perspectives principally modern/post-modern, quantitative/qualitative, empirical/theoretical. This project resulted in a very successful collaborative partnership between UK and Canadian students. Copyright © 2012 Elsevier Ltd. All rights reserved.

Organic geochemistry - A retrospective of its first 70 years

USGS Publications Warehouse

Kvenvolden, K.A.

2006-01-01

Organic geochemistry had its origin in the early part of the 20th century when organic chemists and geologists realized that detailed information on the organic materials in sediments and rocks was scientifically interesting and of practical importance. The generally acknowledged "father" of organic geochemistry is Alfred E. Treibs (1899-1983), who discovered and described, in 1936, porphyrin pigments in shale, coal, and crude oil, and traced the source of these molecules to their biological precursors. Thus, the year 1936 marks the beginning of organic geochemistry. However, formal organization of organic geochemistry dates from 1959 when the Organic Geochemistry Division (OGD) of The Geochemical Society was founded in the United States, followed 22 years later (1981) by the establishment of the European Association of Organic Geochemists (EAOG). Organic geochemistry (1) has its own journal, Organic Geochemistry (beginning in 1979) which, since 1988, is the official journal of the EAOG, (2) convenes two major conferences [International Meeting on Organic Geochemistry (IMOG), since 1962, and Gordon Research Conferences on Organic Geochemistry (GRC), since 1968] in alternate years, and (3) is the subject matter of several textbooks. Organic geochemistry is now a widely recognized geoscience in which organic chemistry has contributed significantly not only to geology (i.e., petroleum geochemistry, molecular stratigraphy) and biology (i.e., biogeochemistry), but also to other disciplines, such as chemical oceanography, environmental science, hydrology, biochemical ecology, archaeology, and cosmochemistry.

75 FR 5150 - Investigations Regarding Certifications of Eligibility To Apply for Worker Adjustment Assistance

Federal Register 2010, 2011, 2012, 2013, 2014

2010-02-01

... Automotive (Wkrs)...... Galesville, WI........ 12/07/09 10/11/09 73029 Faurecia Exhaust Systems, Troy, OH 12... Taconite Plant, Keewatin, MN 12/08/09 12/07/09 U.S. Steel Corporation (State). 73048 Mohawk Flush Door (UBC...

Appropriate sampling strategy and analytical methodology to address contamination by industry. Part 2: Geochemistry and speciation analysis

NASA Astrophysics Data System (ADS)

Shtiza, Aurela; Swennen, Rudy

2011-03-01

The degree of contamination in soils, sediments and dusts can be assessed based on knowledge of a variety of factors, such as industrialization, type of contaminants, deposition conditions, contamination-control techniques, along with the characteristics of the recipient environmental compartments, which include pathways for contamination transport, depth of infiltration, and degree of groundwater contamination. The impact of contaminants also depends on the quantity, mobility and speciation of contaminants/wastes as well as on the sensitivity of the recipient compartments. With sufficient knowledge of these factors, a number of conclusions can be drawn concerning the status of contamination in industrialized areas. This literature review aims to scrutinize some of the methods used to analyse the occurrence, speciation, mobility, bioavailability and likely the toxic effects of contaminants in the environment.

Serial urinary IL-2, IL-6, IL-8, TNFalpha, UBC, CYFRA 21-1 and NMP22 during follow-up of patients with bladder cancer receiving intravesical BCG.

PubMed

Sanchez-Carbayo, M; Urrutia, M; Romani, R; Herrero, M; Gonzalez de Buitrago, J M; Navajo, J A

2001-01-01

We evaluated the potential role of serial preinstillation levels of several interleukins, TNFalpha and urinary tumor markers to monitor patients with bladder cancer receiving intravesical BCG. 121 urine samples were collected from: patients with bladder cancer treated with BCG (group 1); patients with bladder cancer receiving other intravesical treatment (group 2) and patients with urinary tract infections (group 3). Cytokines [IL-2, IL6 and [L8] and TNFalpha and urinary tumor markers [UBC, CYFRA 21-1 and NMP22] were measured by immunoassays. In 3 out of 15 BCG non-responders that recurred over the period of the study, no cytokine peak for IL-2, IL-6 or TNFa were detected. Urinary tumor markers increased in 2 out of 3 of these patients earlier than scheduled cystoscopies. Cytokine measurement was heterogeneous among 12 out of 15 BCG-responding patients: there were low levels of IL-6 and TNFalpha and peaks of IL-2 and IL-8 in 10 out of 12 and 4 out of 12 patients, respectively. During responding patients' follow-up we observed false-positive results in 7 out of 65 urine samples for UBC, 8 out of 65 for CYFRA 21-1 and 20 out of 65 for NMP22. Urinary tract infections were the main factor associated with non-specific elevations of IL-6 and IL-8 and urinary tumor markers in all groups of patients. Although larger series are required to confirn our preliminary observations, our data argue for a potential predictive role for IL-2 of favourable response to BCG therapy. Monitoring BCG with urinary tumor markers could early detect recurrence in non-responding patients.

GeoSci: Practices to Collaboratively Build Online Resources for Geophysics Education

NASA Astrophysics Data System (ADS)

Heagy, L. J.; Cockett, R.; Oldenburg, D.

2016-12-01

What happens when you apply best practices of software development to the development of educational resources? GeoSci (http://geosci.xyz) is our experiment examining this question. In 2007, a web-based "textbook" resource: Geophysics for Practicing Geoscientists (GPG, https://www.eoas.ubc.ca/courses/eosc350/content/index.htm) was created to serve as the primary resource for an undergraduate applied geophysics course at UBC taken primarily by non-geophysics majors. The web-based resource, allowed students to navigate through the concepts in a nonlinear way using hyperlinks, and enabled interactive content to be embedded. Subsequent to the web-based release for our UBC course, this resource has also seen widespread international use across the geophysical community. The available resources and best practices have advanced significantly since 2007. The format in which the GPG was originally developed (raw html and css) hindered improvements and thus maintenance and development of the resource was essentially reduced to correcting typos. Bringing this resource to sustainable state in which it can be built upon, edited and adapted has required looking to other disciplines such as software maintenance and development. By applying leading practices from open source software development, including versioning, testing, automated deployment as well as open development practices, such as issue tracking and employing creative commons licensing, we have worked to create a revamped GPG (http://gpg.geosci.xyz) that can be collaborated on and extended. The GPG and a companion resource for electromagnetics have been worked on by over 25 people, with much of the development happening in parallel. In this presentation, we will share our experience, identify what we see as some of the key learnings that have enabled collaboration in resource development, and present a vision for how we see these resources being sustained in the future.

Polyubiquitination events mediate polymethylmethacrylate (PMMA) particle activation of NF-kappaB pathway.

PubMed

Yamanaka, Yasuhiro; Karuppaiah, Kannan; Abu-Amer, Yousef

2011-07-08

The pathologic response to implant wear-debris constitutes a major component of inflammatory osteolysis and remains under intense investigation. Polymethylmethacrylate (PMMA) particles, which are released during implant wear and loosening, constitute a major culprit by virtue of inducing inflammatory and osteolytic responses by macrophages and osteoclasts, respectively. Recent work by several groups has identified important cellular entities and secreted factors that contribute to inflammatory osteolysis. In previous work, we have shown that PMMA particles contribute to inflammatory osteolysis through stimulation of major pathways in monocytes/macrophages, primarily NF-κB and MAP kinases. The former pathway requires assembly of large IKK complex encompassing IKK1, IKK2, and IKKγ/NEMO. We have shown recently that interfering with the NF-κB and MAPK activation pathways, through introduction of inhibitors and decoy molecules, impedes PMMA-induced inflammation and osteolysis in mouse models of experimental calvarial osteolysis and inflammatory arthritis. In this study, we report that PMMA particles activate the upstream transforming growth factor β-activated kinase-1 (TAK1), which is a key regulator of signal transduction cascades leading to activation of NF-κB and AP-1 factors. More importantly, we found that PMMA particles induce TAK1 binding to NEMO and UBC13. In addition, we show that PMMA particles induce TRAF6 and UBC13 binding to NEMO and that lack of TRAF6 significantly attenuates NEMO ubiquitination. Altogether, these observations suggest that PMMA particles induce ubiquitination of NEMO, an event likely mediated by TRAF6, TAK1, and UBC13. Our findings provide important information for better understanding of the mechanisms underlying PMMA particle-induced inflammatory responses.

SUMO regulates p21Cip1 intracellular distribution and with p21Cip1 facilitates multiprotein complex formation in the nucleolus upon DNA damage.

PubMed

Brun, Sonia; Abella, Neus; Berciano, Maria T; Tapia, Olga; Jaumot, Montserrat; Freire, Raimundo; Lafarga, Miguel; Agell, Neus

2017-01-01

We previously showed that p21Cip1 transits through the nucleolus on its way from the nucleus to the cytoplasm and that DNA damage inhibits this transit and induces the formation of p21Cip1-containing intranucleolar bodies (INoBs). Here, we demonstrate that these INoBs also contain SUMO-1 and UBC9, the E2 SUMO-conjugating enzyme. Furthermore, whereas wild type SUMO-1 localized in INoBs, a SUMO-1 mutant, which is unable to conjugate with proteins, does not, suggesting the presence of SUMOylated proteins at INoBs. Moreover, depletion of the SUMO-conjugating enzyme UBC9 or the sumo hydrolase SENP2 changed p21Cip1 intracellular distribution. In addition to SUMO-1 and p21Cip1, cell cycle regulators and DNA damage checkpoint proteins, including Cdk2, Cyclin E, PCNA, p53 and Mdm2, and PML were also detected in INoBs. Importantly, depletion of UBC9 or p21Cip1 impacted INoB biogenesis and the nucleolar accumulation of the cell cycle regulators and DNA damage checkpoint proteins following DNA damage. The impact of p21Cip1 and SUMO-1 on the accumulation of proteins in INoBs extends also to CRM1, a nuclear exportin that is also important for protein translocation from the cytoplasm to the nucleolus. Thus, SUMO and p21Cip1 regulate the transit of proteins through the nucleolus, and that disruption of nucleolar export by DNA damage induces SUMO and p21Cip1 to act as hub proteins to form a multiprotein complex in the nucleolus.

SUMO regulates p21Cip1 intracellular distribution and with p21Cip1 facilitates multiprotein complex formation in the nucleolus upon DNA damage

PubMed Central

Brun, Sonia; Abella, Neus; Berciano, Maria T.; Tapia, Olga; Jaumot, Montserrat; Freire, Raimundo; Lafarga, Miguel

2017-01-01

We previously showed that p21Cip1 transits through the nucleolus on its way from the nucleus to the cytoplasm and that DNA damage inhibits this transit and induces the formation of p21Cip1-containing intranucleolar bodies (INoBs). Here, we demonstrate that these INoBs also contain SUMO-1 and UBC9, the E2 SUMO-conjugating enzyme. Furthermore, whereas wild type SUMO-1 localized in INoBs, a SUMO-1 mutant, which is unable to conjugate with proteins, does not, suggesting the presence of SUMOylated proteins at INoBs. Moreover, depletion of the SUMO-conjugating enzyme UBC9 or the sumo hydrolase SENP2 changed p21Cip1 intracellular distribution. In addition to SUMO-1 and p21Cip1, cell cycle regulators and DNA damage checkpoint proteins, including Cdk2, Cyclin E, PCNA, p53 and Mdm2, and PML were also detected in INoBs. Importantly, depletion of UBC9 or p21Cip1 impacted INoB biogenesis and the nucleolar accumulation of the cell cycle regulators and DNA damage checkpoint proteins following DNA damage. The impact of p21Cip1 and SUMO-1 on the accumulation of proteins in INoBs extends also to CRM1, a nuclear exportin that is also important for protein translocation from the cytoplasm to the nucleolus. Thus, SUMO and p21Cip1 regulate the transit of proteins through the nucleolus, and that disruption of nucleolar export by DNA damage induces SUMO and p21Cip1 to act as hub proteins to form a multiprotein complex in the nucleolus. PMID:28582471

The geochemistry of deep-sea coral skeletons: a review of vital effects and applications for palaeoceanography

USGS Publications Warehouse

Robinson, Laura F.; Adkins, Jess F.; Frank, Norbert; Gagon, Alexander C.; Prouty, Nancy G.; Roark, E. Brendan; van de Flierdt, Tina

2014-01-01

Deep-sea corals were discovered over a century ago, but it is only over recent years that focused efforts have been made to explore the history of the oceans using the geochemistry of their skeletal remains. They offer a promising archive of past oceanic environments given their global distribution, layered growth patterns, longevity and preservation as well as our ability to date them using radiometric techniques. This paper provides an overview of the current state-of-the-art in terms of geochemical approaches to using deep-sea coral skeletons to explore the history of the ocean. Deep-sea coral skeletons have a wide array of morphologies (e.g. solitary cup corals, branching colonial corals) and materials (calcite, aragonite and proteins). As such their biomineralization strategies are diverse, leading to complex geochemistry within coral skeletons. Notwithstanding these complications, progress has been made on developing methods for reconstructing the oceanographic environment in the past using trace elements and isotopic methods. Promising approaches within certain coral groups include clumped isotopes and Mg/Li for temperature reconstructions, boron isotopes and radiocarbon for carbon cycling, εNd, and radiocarbon for circulation studies and δ15N, P/Ca and Ba/Ca for nutrient tracer studies. Likewise there is now a range of techniques for dating deep-sea corals skeletons (e.g. U-series, radiocarbon), and determining their growth rates (e.g. radiocarbon and 210Pb). Dating studies on historic coral populations in the Atlantic, Southern Ocean and Pacific point to climate and environmental changes being dominant controls on coral populations over millennial and orbital timescales. This paper provides a review of a range of successes and promising approaches. It also highlights areas in which further research would likely provide new insights into biomineralization, palaeoceanography and distribution of past coral populations.

41 CFR 128-1.8005 - Seismic safety standards.

Code of Federal Regulations, 2013 CFR

2013-07-01

... the model building codes that the Interagency Committee on Seismic Safety in Construction (ICSSC...) Uniform Building Code (UBC); (2) The 1992 Supplement to the Building Officials and Code Administrators International (BOCA) National Building Code (NBC); and (3) The 1992 Amendments to the Southern Building Code...

41 CFR 128-1.8005 - Seismic safety standards.

Code of Federal Regulations, 2012 CFR

2012-01-01

... the model building codes that the Interagency Committee on Seismic Safety in Construction (ICSSC...) Uniform Building Code (UBC); (2) The 1992 Supplement to the Building Officials and Code Administrators International (BOCA) National Building Code (NBC); and (3) The 1992 Amendments to the Southern Building Code...

41 CFR 128-1.8005 - Seismic safety standards.

Code of Federal Regulations, 2014 CFR

2014-01-01

... the model building codes that the Interagency Committee on Seismic Safety in Construction (ICSSC...) Uniform Building Code (UBC); (2) The 1992 Supplement to the Building Officials and Code Administrators International (BOCA) National Building Code (NBC); and (3) The 1992 Amendments to the Southern Building Code...

41 CFR 128-1.8005 - Seismic safety standards.

Code of Federal Regulations, 2011 CFR

2011-01-01

... the model building codes that the Interagency Committee on Seismic Safety in Construction (ICSSC...) Uniform Building Code (UBC); (2) The 1992 Supplement to the Building Officials and Code Administrators International (BOCA) National Building Code (NBC); and (3) The 1992 Amendments to the Southern Building Code...

Spool assembly support analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Norman, B.F.

1994-10-07

This document provides the wind/seismic analysis and evaluation for the pump pit spool assemblies. Hand calculations were used for the analysis. UBC, AISC, and load factors were used in this evaluation. The results show that the actual loads are under the allowable loads and all requirements are met.

Influence of additives on the increase of the heating value of Bayah’s coal with upgrading brown coal (UBC) method

DOE Office of Scientific and Technical Information (OSTI.GOV)

Heriyanto, Heri; Widya Ernayati, K.; Umam, Chairul

UBC (upgrading brown coal) is a method of improving the quality of coal by using oil as an additive. Through processing in the oil media, not just the calories that increase, but there is also water repellent properties and a decrease in the tendency of spontaneous combustion of coal products produced. The results showed a decrease in the water levels of natural coal bayah reached 69%, increase in calorific value reached 21.2%. Increased caloric value and reduced water content caused by the water molecules on replacing seal the pores of coal by oil and atoms C on the oil thatmore » is bound to increase the percentage of coal carbon. As a result of this experiment is, the produced coal has better calorific value, the increasing of this new calorific value up to 23.8% with the additive waste lubricant, and the moisture content reduced up to 69.45%.« less

Steel selection for UBC steel bridge

NASA Astrophysics Data System (ADS)

Liu, Haoyu

2018-03-01

This report conducts a material selection of different types of steel for UBC Steel Bridge Team. I am a third-year material engineering student, so the result from this material selection can only be taken into consideration but not fully adopted. As part of my academic journey, it is possible for technical mistakes in this material selection process. The mechanic properties are the most effective category of properties, making it necessary to be justified from the steel bridge design and chosen in accordance with the objective of the team. An introduction for currently-used steel properties and the expected steel properties is provided. The examination focus on how different alloy compositions of steel changes its properties. The properties of the steel are examined in three main aspects: hardness, strength, and toughness. The results suggest that more nickel, manganese, and chromium in the steel provide better steel for the team to use. Further research is needed if a more precise material selection is required.

The University of British Columbia model of interprofessional education.

PubMed

Charles, Grant; Bainbridge, Lesley; Gilbert, John

2010-01-01

The College of Health Disciplines, at the University of British Columbia (UBC) has a long history of developing interprofessional learning opportunities for students and practitioners. Historically, many of the courses and programmes were developed because they intuitively made sense or because certain streams of funding were available at particular times. While each of them fit generally within our understanding of interprofessional education in the health and human service education programs, they were not systematically developed within an educational or theoretical framework. This paper discusses the model we have subsequently developed at the College for conceptualizing the various types of interprofessional experiences offered at UBC. It has been developed so that we can offer the broadest range of courses and most effective learning experiences for our students. Our model is based on the premise that there are optimal learning times for health and human services students (and practitioners) depending upon their stage of development as professionals in their respective disciplines and their readiness to learn and develop new perspectives on professional interaction.

A geological basis for the exploration of the planets: Introduction

NASA Technical Reports Server (NTRS)

Greeley, R.; Carr, M. H.

1976-01-01

The geological aspects of solar-system exploration were considered by first showing how geologic data are related to space science in general, and, second, by discussing the approach used in planetary geology. The origin, evolution, and distribution of matter condensed in the form of planets, satellites, comets, and asteroids were studied. Terrestrial planets, comets, and asteroids, and the solid satellites of the outer planets are discussed. Jupiter and Saturn, in particular, have satellites of prime importance. Geophysics, geochemistry, geodesy, cartography, and other disciplines concerned with the solid planets were all included.

Introduction to special section: China shale gas and shale oil plays

USGS Publications Warehouse

Jiang, Shu; Zeng, Hongliu; Zhang, Jinchuan; Fishman, Neil; Bai, Baojun; Xiao, Xianming; Zhang, Tongwei; Ellis, Geoffrey S.; Li, Xinjing; Richards-McClung, Bryony; Cai, Dongsheng; Ma, Yongsheng

2015-01-01

Even though China shale gas and shale oil exploration is still in an early stage, limited data are already available. We are pleased to have selected eight high-quality papers from fifteen submitted manuscripts for this timely section on the topic of China shale gas and shale oil plays. These selected papers discuss various subject areas including regional geology, resource potentials, integrated and multidisciplinary characterization of China shale reservoirs (geology, geophysics, geochemistry, and petrophysics) China shale property measurement using new techniques, case studies for marine, lacustrine, and transitional shale deposits in China, and hydraulic fracturing. One paper summarizes the regional geology and different tectonic and depositional settings of the major prospective shale oil and gas plays in China. Four papers concentrate on the geology, geochemistry, reservoir characterization, lithologic heterogeneity, and sweet spot identification in the Silurian Longmaxi marine shale in the Sichuan Basin in southwest China, which is currently the primary focus of shale gas exploration in China. One paper discusses the Ordovician Salgan Shale in the Tarim Basin in northwest China, and two papers focus on the reservoir characterization and hydraulic fracturing of Triassic lacustrine shale in the Ordos Basin in northern China. Each paper discusses a specific area.

Simulation of liquefaction-induced damage of the Port of Long Beach using the UBC3DPLM Model.

DOT National Transportation Integrated Search

2016-12-31

In the past decades, expansion projects of port facilities in California, USA, have been completed by placing hydraulic fills. These loose manmade : fills and even their subjacent natural estuarine and marine deposits, have shown to be susceptible to...

EMSL Geochemistry, Biogeochemistry and Subsurface Science-Science Theme Advisory Panel Meeting

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brown, Gordon E.; Chaka, Anne; Shuh, David K.

2011-08-01

This report covers the topics of discussion and the recommendations of the panel members. On December 8 and 9, 2010, the Geochemistry, Biogeochemistry, and Subsurface Science (GBSS) Science Theme Advisory Panel (STAP) convened for a more in-depth exploration of the five Science Theme focus areas developed at a similar meeting held in 2009. The goal for the fiscal year (FY) 2011 meeting was to identify potential topical areas for science campaigns, necessary experimental development needs, and scientific members for potential research teams. After a review of the current science in each of the five focus areas, the 2010 STAP discussionsmore » successfully led to the identification of one well focused campaign idea in pore-scale modeling and five longer-term potential research campaign ideas that would likely require additional workshops to identify specific research thrusts. These five campaign areas can be grouped into two categories: (1) the application of advanced high-resolution, high mass accuracy experimental techniques to elucidate the interplay between geochemistry and microbial communities in terrestrial ecosystems and (2) coupled computation/experimental investigations of the electron transfer reactions either between mineral surfaces and outer membranes of microbial cells or between the outer and inner membranes of microbial cells.« less

Key Strengths of an Innovative Volunteer Training Workshop

ERIC Educational Resources Information Center

Sellick, Angelika; Bournot-Trites, Monique; Reeder, Ken; Scales, Andrew; Smith, Mark; Zappa-Hollman, Sandra

2011-01-01

The study involved 14 volunteer facilitators, four UBC staff members, and the researcher as participant; the data collected were observation notes, questionnaires, results from focus groups, and interviews. The study revealed that the key strengths of the training workshop lay in its approach to training, its focus on confidence and capacity…

Continuing Education Activities of the University of British Columbia, 1978-1979.

ERIC Educational Resources Information Center

British Columbia Univ., Vancouver. Center for Continuing Education.

Continuing education opportunities offered by the University of British Columbia (UBC) are summarized in this third comprehensive annual report for the year September 1978 to August 1979. The university administers a decentralized program encompassing several university offices, community resource centers, and individual faculty members. Evening,…

Teaching Introductory Physics with an Environmental Focus

ERIC Educational Resources Information Center

Martinuk, Mathew; Moll, Rachel F.; Kotlicki, Andrzej

2010-01-01

Throughout North America the curriculum of introductory physics courses is nearly standardized. In 1992, Tobias wrote that four texts dominate 90% of the introductory physics market and current physics education research is focusing on how to sustain educational reforms. The instructional team at the University of British Columbia (UBC) recently…

Ubiquitin control of S phase: a new role for the ubiquitin conjugating enzyme, UbcH7

USDA-ARS?s Scientific Manuscript database

Events within and transitions between the phases of the eukaryotic cell cycle are tightly controlled by transcriptional and post-translational processes. Prominent among them is a profound role for the ubiquitin proteasome proteolytic pathway. The timely degradation of proteins balances the increase...

Designing, installing and operating low NOx combustion systems in power plants

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lazzeri, L.; Santis, R. de

1997-09-01

Ansaldo Energia, in strict cooperation with the Italian Electricity Board (ENEL), has developed and implemented innovative technologies for in furnace NOx control which have been applied, both in italy and abroad, on over 20,000 MWe boilers of every kind (Tangentially Fired, Front Fired, Opposite Fired) and for different fuels like oil, gas, coal and ORIMULSION{reg_sign}. Taking advantage of innovative low NOx burners and of optimized air and fuel staging techniques NOx reductions up to 85% have been obtained with no significant impact on boiler efficiency. The paper describes: characteristics and industrial application of TEA{reg_sign} oil/gas LNB which is now capablemore » of attaining NOx reductions up to 60% in respect to original circular burners; development and industrial applications of the TEA C{reg_sign} (oil/coal) LNB, capable of attaining NOx reductions up to 50% with contemporary control of unburned carbon levels (typical values less than 300 ppm NOx corrected to 6% O{sub 2} and less than 7% UBC); application of reburning oil over oil and gas over oil for both tangential and front-opposite fired boilers rated up 660 MWe; and information on the CEE THERMIE projects of gas over coal reburning in a 600 MWe Scottish Power boiler and oil over coal and coal over coal reburning in the ENEL plant of Vado Ligure unit 4, rated 320 MWe.« less

Spatial variability of organic matter molecular composition and elemental geochemistry in surface sediments of a small boreal Swedish lake

NASA Astrophysics Data System (ADS)

Tolu, Julie; Rydberg, Johan; Meyer-Jacob, Carsten; Gerber, Lorenz; Bindler, Richard

2017-04-01

The composition of sediment organic matter (OM) exerts a strong control on biogeochemical processes in lakes, such as those involved in the fate of carbon, nutrients and trace metals. While between-lake spatial variability of OM quality is increasingly investigated, we explored in this study how the molecular composition of sediment OM varies spatially within a single lake and related this variability to physical parameters and elemental geochemistry. Surface sediment samples (0-10 cm) from 42 locations in Härsvatten - a small boreal forest lake with a complex basin morphometry - were analyzed for OM molecular composition using pyrolysis gas chromatography mass spectrometry for the contents of 23 major and trace elements and biogenic silica. We identified 162 organic compounds belonging to different biochemical classes of OM (e.g., carbohydrates, lignin and lipids). Close relationships were found between the spatial patterns of sediment OM molecular composition and elemental geochemistry. Differences in the source types of OM (i.e., terrestrial, aquatic plant and algal) were linked to the individual basin morphometries and chemical status of the lake. The variability in OM molecular composition was further driven by the degradation status of these different source pools, which appeared to be related to sedimentary physicochemical parameters (e.g., redox conditions) and to the molecular structure of the organic compounds. Given the high spatial variation in OM molecular composition within Härsvatten and its close relationship with elemental geochemistry, the potential for large spatial variability across lakes should be considered when studying biogeochemical processes involved in the cycling of carbon, nutrients and trace elements or when assessing lake budgets.

Publications - GMC 279 | Alaska Division of Geological & Geophysical

Science.gov Websites

DGGS GMC 279 Publication Details Title: Geochemistry of oil show intervals from ARCO Alaska Inc. Fiord #3 and Fiord #3A Authors: Piggott, Neil, and LGC Geochemistry Publication Date: 1998 Publisher , and LGC Geochemistry, 1998, Geochemistry of oil show intervals from ARCO Alaska Inc. Fiord #3 and

Relation between organic-wastewater compounds, groundwater geochemistry, and well characteristics for selected wells in Lansing, Michigan

USGS Publications Warehouse

Haack, Sheridan K.; Luukkonen, Carol L.

2013-01-01

In 2010, groundwater from 20 Lansing Board of Water and Light (BWL) production wells was tested for 69 organic-wastewater compounds (OWCs). The OWCs detected in one-half of the sampled wells are widely used in industrial and environmental applications and commonly occur in many wastes and stormwater. To identify factors that contribute to the occurrence of these constituents in BWL wells, the U.S. Geological Survey (USGS) interpreted the results of these analyses and related detections of OWCs to local characteristics and groundwater geochemistry. Analysis of groundwater-chemistry data collected by the BWL during routine monitoring from 1969 to 2011 indicates that the geochemistry of the BWL wells has changed over time, with the major difference being an increase in sodium and chloride. The concentrations of sodium and chloride were positively correlated to frequency of OWC detections. The BWL wells studied are all completed in the Saginaw aquifer, which consists of water-bearing sandstones of Pennsylvanian age. The Saginaw aquifer is underlain by the Parma-Bayport aquifer, and overlain by the Glacial aquifer. Two possible sources of sodium and chloride were evaluated: basin brines by way of the Parma-Bayport aquifer, and surficial sources by way of the Glacial aquifer. To determine if water from the underlying aquifer had influenced well-water geochemistry over time, the total dissolved solids concentration and changes in major ion concentrations were examined with respect to well depth, age, and pumping rate. To address a possible surficial source of sodium and chloride, 25 well, aquifer, or hydrologic characteristics, and 2 groundwater geochemistry variables that might influence whether, or the rate at which, water from the land surface could reach each well were compared to OWC detections and well chemistry. The statistical tests performed during this study, using available variables, indicated that reduced time of travel of water from the land surface to the well opening was significantly correlated with detections of OWCs. No specific well or aquifer characteristic was correlated with OWC detections; however, wells with detections tended to have less modeled confining material thickness (as simulated in the regional groundwater flow model), which is an estimate of the amount of clay or shale between the Glacial and Saginaw aquifers. Additional analyses and collection of other data would be required to more conclusively identify the source and to determine the potential vulnerability of other wells because each BWL well may have a somewhat unique set of characteristics that governs its response to pumping. Therefore, it is possible that a relevant explanatory variable was not included in this analysis. The current patterns of geochemistry, and the relation between these patterns and volume of pumpage for the BWL wells, indicates other wells may be susceptible to OWCs in the future.

Use of local statistics to reveal hidden information of pollution hotspots in urban soil geochemistry

NASA Astrophysics Data System (ADS)

Zhang, Chaosheng

2017-04-01

The identification of pollution hotspots is an important approach for a better understanding of spatial distribution patterns and the exploration for their influencing factors in environmental studies. One of the most often asked questions in an environmental investigation is: Where are the pollution hotspots? This presentation explains one of the popularly used methodologies called local index of spatial association (LISA) and its applications in urban geochemical studies in Galway, Ireland and London of the UK. The LISA is a useful tool for identifying pollution hotspots and classifying them into spatial clusters and spatial outliers. The results were affected by the definition of weight function, data transformation and existence of extreme values, and it is suggested that all these influencing factors should be considered until reasonable and reliable results are obtained. This method has been applied to identify Pb pollution in Galway, polluted areas in bonfires sites, elevated P and REE concentrations in London. Hotspots in identified in urban soils are related to locations of high road density, traditional festival bonfires, industries and other human activities. The results of hotspots analysis provide useful information for the management of urban soils.

Principles and Applications of Geochemistry, 2nd Edition

NASA Astrophysics Data System (ADS)

Marcantonio, Franco

Many academic geology departments do not include geochemistry in their undergraduate core curriculums. The second edition of Principles and Applications of Geochemistry demonstrates why this should change. Gunter Faure's book clearly shows the important role played by quantitative geochemical analysis in our understanding of Earth processes, both natural and anthropogenic. Intended as an introductory inorganic geochemistry text for senior undergraduates or first-year graduate students, the book makes even the most difficult concepts readily understandable. Beyond its lucid technical explanations, it also includes engaging discussions of the history of geochemistry as a science.

Peer Review: Structured, Informal, Confidential, Helpful!

ERIC Educational Resources Information Center

Cassidy, Alice; Lee, Jack

2011-01-01

This paper describes an introductory workshop, Preparing to be a Peer Reviewer, presented at the University of British Columbia (UBC) to give hands-on practice to faculty members and others in order to provide formative peer review upon request. This workshop, which was designed at the request of a faculty member, is complemented by an Advanced…

Performance Logic in Simulation Research at the University of British Columbia.

ERIC Educational Resources Information Center

Boyd, Marcia A.

Advantages of the performance simulation setting are considered, along with what can be studied or developed within this setting. Experiences at the University of British Columbia (UBC) and views on future development and research opportunities in the performance simulation setting are also discussed. The benefits of simulating the clinical…

Simulation of liquefaction-induced damage of the Port of Long Beach using the UBC3D-PLM model : final report.

DOT National Transportation Integrated Search

2016-12-31

In the past decades, expansion projects of port in USA, have been completed by placing hydraulic fills. These loose man-made fills and even their subjacent natural estuarine and marine deposits, have shown to be susceptible to liquefaction. The case ...

A New Paradigm for Teaching Histology Laboratories in Canada's First Distributed Medical School

ERIC Educational Resources Information Center

Pinder, Karen E.; Ford, Jason C.; Ovalle, William K.

2008-01-01

To address the critical problem of inadequate physician supply in rural British Columbia, The University of British Columbia (UBC) launched an innovative, expanded and distributed medical program in 2004-2005. Medical students engage in a common curriculum at three geographically distinct sites across B.C.: in Vancouver, Prince George and…

Crystal structure of the PRC1 ubiquitylation module bound to the nucleosome

PubMed Central

McGinty, Robert K.; Henrici, Ryan C.; Tan, Song

2014-01-01

The Polycomb group of epigenetic enzymes represses expression of developmentally regulated genes in higher eukaryotes. This group includes the Polycomb repressive complex 1 (PRC1), which ubiquitylates nucleosomal histone H2A Lys119 using its E3 ubiquitin ligase subunits, Ring1B and Bmi1, together with an E2 ubiquitin-conjugating enzyme, UbcH5c. However, the molecular mechanism of nucleosome substrate recognition by PRC1 or other chromatin enzymes is unclear. Here we present the crystal structure of the Ring1B/Bmi1/UbcH5c E3-E2 complex (the PRC1 ubiquitylation module) bound to its nucleosome core particle substrate. The structure shows how a chromatin enzyme achieves substrate specificity by interacting with multiple nucleosome surfaces spatially distinct from the site of catalysis. Our structure further reveals an unexpected role for the ubiquitin E2 enzyme in substrate recognition, and provides insight into how the related histone H2A E3 ligase, BRCA1, interacts with and ubiquitylates the nucleosome. PMID:25355358

Sumoylation Dynamics During Keratinocyte Differentiation

PubMed Central

Deyrieux, Adeline F.; Rosas-Acosta, Germán; Ozbun, Michelle A.; Wilson, Van G.

2012-01-01

Summary SUMO modification regulates the activity of numerous transcription factors that have a direct role in cell cycle progression, apoptosis, cellular proliferation, and development, but its role in differentiation processes is less clear. Keratinocyte differentiation requires the coordinated activation of a series of transcription factors, and as several critical keratinocyte transcription factors are known to be SUMO substrates, we investigated the role of sumoylation in keratinocyte differentiation. In a human keratinocyte cell line model (HaCaT cells), calcium-induced differentiation led to the transient and coordinated transcriptional activation of the genes encoding critical sumoylation system components, including SAE1, SAE2, Ubc9, SENP1, Miz-1 (PIASxβ), SUMO2, and SUMO3. The increased gene expression resulted in higher levels of the respective proteins and changes in the pattern of sumoylated substrate proteins during the differentiation process. Similar to the HaCaT results, stratified human foreskin keratinocytes showed an upregulation of Ubc9 in the suprabasal layers. Lastly, abrogation of sumoylation by Gam1 expression severely disrupted normal HaCaT differentiation, consistent with an important role for sumoylation in the proper progression of this biological process. PMID:17164289

Continuous decompression with intramedullary nailing for the treatment of unicameral bone cysts.

PubMed

Masquijo, Julio Javier; Baroni, Eduardo; Miscione, Horacio

2008-08-01

To evaluate the efficacy of decompression of unicameral bone cysts (UBCs) of the long bones with intramedullary nailing and to compare responses to treatment according to location. We evaluated 48 consecutive patients treated between January 1988 and June 2000. Mean age was 10.3 years. Mean follow-up was 9.8 years. Evaluation was performed according to the radiographic criteria of Capanna. UBCs were located in the proximal humerus (n = 24), humeral shaft (n = 2), proximal femur (n = 19), distal tibia (n = 2) and fibula (n = 1). A total of 62.5% presented a pathological fracture. Successful results were observed in 89.5% (26 total healing, 17 healing with residual radiolucent areas), and there were four recurrences and, in one case, no response to treatment. There was more healing in the humerus than in the femur (92.3% versus 84.2%), and more tendency to restitution ad integrum, although the difference was not statistically significant (P = 0.1499). Intramedullary nailing is a minimally invasive method, which permits early stability and decompresses the cyst allowing healing. Significant differences were not observed among results from different locations.

Simple Bone Cyst of Metacarpal: Rare Lesion with Unique Treatment

PubMed Central

Patwardhan, Sandeep; Shah, Kunal; Shyam, Ashok; Sancheti, Parag

2014-01-01

Introduction: Simple bone cyst or unicameral bone cyst (UBC) are benign cystic lesions commonly found in femur and humerus. However hand is a very rare site of occurrence. Treatment described for UBC of hand commonly involves curettage and bone grafting. Case Report: A 7 year old right hand dominant girl presented to us with chief complaints of pain and swelling in right 4th metacarpal since 2 month. On imaging, plain radiographs of right hand showed expansile lytic lesion on Metaphyseal-diaphyseal region of 4th metacarpal with pathological fracture. MRI showed cystic lesions with internal loculations and fluid-fluid levels (Fig 2). There was minimal soft tissue extension. We performed aspiration which showed serosanguinous fluid with haemorrhagic tinge. With the diagnosis of unicameral bone cyst in mind we performed and closed intramedullary nail with k wire. The cyst healed up completely within 2 months. There was no recurrence at 18 month follow up. Conclusion: In conclusion simple bone cyst is very rare in metacarpal bone. However it should be considered as important differential since it warrants simple treatment and extensive procedures should be avoided. PMID:27298987

Evaluation of Reference Genes for Quantitative Real-Time PCR Analysis of the Gene Expression in Laticifers on the Basis of Latex Flow in Rubber Tree (Hevea brasiliensis Muell. Arg.)

PubMed Central

Chao, Jinquan; Yang, Shuguang; Chen, Yueyi; Tian, Wei-Min

2016-01-01

Latex exploitation-caused latex flow is effective in enhancing latex regeneration in laticifer cells of rubber tree. It should be suitable for screening appropriate reference gene for analysis of the expression of latex regeneration-related genes by quantitative real-time PCR (qRT-PCR). In the present study, the expression stability of 23 candidate reference genes was evaluated on the basis of latex flow by using geNorm and NormFinder algorithms. Ubiquitin-protein ligase 2a (UBC2a) and ubiquitin-protein ligase 2b (UBC2b) were the two most stable genes among the selected candidate references in rubber tree clones with differential duration of latex flow. The two genes were also high-ranked in previous reference gene screening across different tissues and experimental conditions. By contrast, the transcripts of latex regeneration-related genes fluctuated significantly during latex flow. The results suggest that screening reference gene during latex flow should be an efficient and effective clue for selection of reference genes in qRT-PCR. PMID:27524995

A MUB E2 structure reveals E1 selectivity between cognate ubiquitin E2s in eukaryotes

NASA Astrophysics Data System (ADS)

Lu, Xiaolong; Malley, Konstantin R.; Brenner, Caitlin C.; Koroleva, Olga; Korolev, Sergey; Downes, Brian P.

2016-08-01

Ubiquitin (Ub) is a protein modifier that controls processes ranging from protein degradation to endocytosis, but early-acting regulators of the three-enzyme ubiquitylation cascade are unknown. Here we report that the prenylated membrane-anchored ubiquitin-fold protein (MUB) is an early-acting regulator of subfamily-specific E2 activation. An AtMUB3:AtUBC8 co-crystal structure defines how MUBs inhibit E2~Ub formation using a combination of E2 backside binding and a MUB-unique lap-bar loop to block E1 access. Since MUBs tether Arabidopsis group VI E2 enzymes (related to HsUbe2D and ScUbc4/5) to the plasma membrane, and inhibit E2 activation at physiological concentrations, they should function as potent plasma membrane localized regulators of Ub chain synthesis in eukaryotes. Our findings define a biochemical function for MUB, a family of highly conserved Ub-fold proteins, and provide an example of selective activation between cognate Ub E2s, previously thought to be constitutively activated by E1s.

Yeast Pah1p Phosphatidate Phosphatase Is Regulated by Proteasome-mediated Degradation*

PubMed Central

Pascual, Florencia; Hsieh, Lu-Sheng; Soto-Cardalda, Aníbal; Carman, George M.

2014-01-01

Yeast PAH1-encoded phosphatidate phosphatase is the enzyme responsible for the production of the diacylglycerol used for the synthesis of triacylglycerol that accumulates in the stationary phase of growth. Paradoxically, the growth phase-mediated inductions of PAH1 and phosphatidate phosphatase activity do not correlate with the amount of Pah1p; enzyme abundance declined in a growth phase-dependent manner. Pah1p from exponential phase cells was a relatively stable protein, and its abundance was not affected by incubation with an extract from stationary phase cells. Recombinant Pah1p was degraded upon incubation with the 100,000 × g pellet fraction of stationary phase cells, although the enzyme was stable when incubated with the same fraction of exponential phase cells. MG132, an inhibitor of proteasome function, prevented degradation of the recombinant enzyme. Endogenously expressed and plasmid-mediated overexpressed levels of Pah1p were more abundant in the stationary phase of cells treated with MG132. Pah1p was stabilized in mutants with impaired proteasome (rpn4Δ, blm10Δ, ump1Δ, and pre1 pre2) and ubiquitination (hrd1Δ, ubc4Δ, ubc7Δ, ubc8Δ, and doa4Δ) functions. The pre1 pre2 mutations that eliminate nearly all chymotrypsin-like activity of the 20 S proteasome had the greatest stabilizing effect on enzyme levels. Taken together, these results supported the conclusion that Pah1p is subject to proteasome-mediated degradation in the stationary phase. That Pah1p abundance was stabilized in pah1Δ mutant cells expressing catalytically inactive forms of Pah1p and dgk1Δ mutant cells with induced expression of DGK1-encoded diacylglycerol kinase indicated that alteration in phosphatidate and/or diacylglycerol levels might be the signal that triggers Pah1p degradation. PMID:24563465

Identifying Stable Reference Genes for qRT-PCR Normalisation in Gene Expression Studies of Narrow-Leafed Lupin (Lupinus angustifolius L.).

PubMed

Taylor, Candy M; Jost, Ricarda; Erskine, William; Nelson, Matthew N

2016-01-01

Quantitative Reverse Transcription PCR (qRT-PCR) is currently one of the most popular, high-throughput and sensitive technologies available for quantifying gene expression. Its accurate application depends heavily upon normalisation of gene-of-interest data with reference genes that are uniformly expressed under experimental conditions. The aim of this study was to provide the first validation of reference genes for Lupinus angustifolius (narrow-leafed lupin, a significant grain legume crop) using a selection of seven genes previously trialed as reference genes for the model legume, Medicago truncatula. In a preliminary evaluation, the seven candidate reference genes were assessed on the basis of primer specificity for their respective targeted region, PCR amplification efficiency, and ability to discriminate between cDNA and gDNA. Following this assessment, expression of the three most promising candidates [Ubiquitin C (UBC), Helicase (HEL), and Polypyrimidine tract-binding protein (PTB)] was evaluated using the NormFinder and RefFinder statistical algorithms in two narrow-leafed lupin lines, both with and without vernalisation treatment, and across seven organ types (cotyledons, stem, leaves, shoot apical meristem, flowers, pods and roots) encompassing three developmental stages. UBC was consistently identified as the most stable candidate and has sufficiently uniform expression that it may be used as a sole reference gene under the experimental conditions tested here. However, as organ type and developmental stage were associated with greater variability in relative expression, it is recommended using UBC and HEL as a pair to achieve optimal normalisation. These results highlight the importance of rigorously assessing candidate reference genes for each species across a diverse range of organs and developmental stages. With emerging technologies, such as RNAseq, and the completion of valuable transcriptome data sets, it is possible that other potentially more suitable reference genes will be identified for this species in future.

Identifying Stable Reference Genes for qRT-PCR Normalisation in Gene Expression Studies of Narrow-Leafed Lupin (Lupinus angustifolius L.)

PubMed Central

Erskine, William; Nelson, Matthew N.

2016-01-01

Quantitative Reverse Transcription PCR (qRT-PCR) is currently one of the most popular, high-throughput and sensitive technologies available for quantifying gene expression. Its accurate application depends heavily upon normalisation of gene-of-interest data with reference genes that are uniformly expressed under experimental conditions. The aim of this study was to provide the first validation of reference genes for Lupinus angustifolius (narrow-leafed lupin, a significant grain legume crop) using a selection of seven genes previously trialed as reference genes for the model legume, Medicago truncatula. In a preliminary evaluation, the seven candidate reference genes were assessed on the basis of primer specificity for their respective targeted region, PCR amplification efficiency, and ability to discriminate between cDNA and gDNA. Following this assessment, expression of the three most promising candidates [Ubiquitin C (UBC), Helicase (HEL), and Polypyrimidine tract-binding protein (PTB)] was evaluated using the NormFinder and RefFinder statistical algorithms in two narrow-leafed lupin lines, both with and without vernalisation treatment, and across seven organ types (cotyledons, stem, leaves, shoot apical meristem, flowers, pods and roots) encompassing three developmental stages. UBC was consistently identified as the most stable candidate and has sufficiently uniform expression that it may be used as a sole reference gene under the experimental conditions tested here. However, as organ type and developmental stage were associated with greater variability in relative expression, it is recommended using UBC and HEL as a pair to achieve optimal normalisation. These results highlight the importance of rigorously assessing candidate reference genes for each species across a diverse range of organs and developmental stages. With emerging technologies, such as RNAseq, and the completion of valuable transcriptome data sets, it is possible that other potentially more suitable reference genes will be identified for this species in future. PMID:26872362

In silico modeling of the cryptic E2∼ubiquitin-binding site of E6-associated protein (E6AP)/UBE3A reveals the mechanism of polyubiquitin chain assembly.

PubMed

Ronchi, Virginia P; Kim, Elizabeth D; Summa, Christopher M; Klein, Jennifer M; Haas, Arthur L

2017-11-03

To understand the mechanism for assembly of Lys 48 -linked polyubiquitin degradation signals, we previously demonstrated that the E6AP/UBE3A ligase harbors two functionally distinct E2∼ubiquitin-binding sites: a high-affinity Site 1 required for E6AP Cys 820 ∼ubiquitin thioester formation and a canonical Site 2 responsible for subsequent chain elongation. Ordered binding to Sites 1 and 2 is here revealed by observation of UbcH7∼ubiquitin-dependent substrate inhibition of chain formation at micromolar concentrations. To understand substrate inhibition, we exploited the PatchDock algorithm to model in silico UbcH7∼ubiquitin bound to Site 1, validated by chain assembly kinetics of selected point mutants. The predicted structure buries an extensive solvent-excluded surface bringing the UbcH7∼ubiquitin thioester bond within 6 Å of the Cys 820 nucleophile. Modeling onto the active E6AP trimer suggests that substrate inhibition arises from steric hindrance between Sites 1 and 2 of adjacent subunits. Confirmation that Sites 1 and 2 function in trans was demonstrated by examining the effect of E6APC820A on wild-type activity and single-turnover pulse-chase kinetics. A cyclic proximal indexation model proposes that Sites 1 and 2 function in tandem to assemble thioester-linked polyubiquitin chains from the proximal end attached to Cys 820 before stochastic en bloc transfer to the target protein. Non-reducing SDS-PAGE confirms assembly of the predicted Cys 820 -linked 125 I-polyubiquitin thioester intermediate. Other studies suggest that Glu 550 serves as a general base to generate the Cys 820 thiolate within the low dielectric binding interface and Arg 506 functions to orient Glu 550 and to stabilize the incipient anionic transition state during thioester exchange. © 2017 by The American Society for Biochemistry and Molecular Biology, Inc.

Fifty years of IMOG (International Meetings on Organic Geochemistry)

USGS Publications Warehouse

Kvenvolden, Keith A.

2012-01-01

IMOG2011 is the 25th of a series of international meetings on organic geochemistry that began in 1962. Thus, this 25th meeting marks the 50th anniversary year of IMOG, which has (a) had a rich history with meetings taking place in 11 different countries, (b) published Proceedings, titled “Advances in Organic Geochemistry,” from each meeting that now number 24 volumes totaling almost 18,000 pages, and (c) documented the content and development of the science of organic geochemistry. IMOG2011 adds a new milestone to the progress of organic geochemistry through time.

Beryllium in the environment: a review.

PubMed

Taylor, Tammy P; Ding, Mei; Ehler, Deborah S; Foreman, Trudi M; Kaszuba, John P; Sauer, Nancy N

2003-02-01

Beryllium is an important industrial metal because of its unusual material properties: it is lighter than aluminum and six times stronger than steel. Often alloyed with other metals such as copper, beryllium is a key component of materials used in the aerospace and electronics industries. Beryllium has a small neutron cross-section, which makes it useful in the production of nuclear weapons and in sealed neutron sources. Unfortunately, beryllium is one of the most toxic elements in the periodic table. It is responsible for the often-fatal lung disease, Chronic Beryllium Disease (CBD) or berylliosis, and is listed as a Class A EPA carcinogen. Coal-fired power plants, industrial manufacturing and nuclear weapons production and disposal operations have released beryllium to the environment. This contamination has the potential to expose workers and the public to beryllium. Despite the increasing use of beryllium in industry, there is surprisingly little published information about beryllium fate and transport in the environment. This information is crucial for the development of strategies that limit worker and public exposure. This review summarizes the current understanding of beryllium health hazards, current regulatory mandates, environmental chemistry, geochemistry and environmental contamination.

Geochemistry.

ERIC Educational Resources Information Center

Fyfe, William S.

1979-01-01

Techniques in geochemistry continue to improve in sensitivity and scope. The exciting areas of geochemistry still include the classical fields of the origin of the elements and objects in space, but environmental crisis problems are important as well. (Author/BB)

Aftershocks of Chile's Earthquake for an Ongoing, Large-Scale Experimental Evaluation

ERIC Educational Resources Information Center

Moreno, Lorenzo; Trevino, Ernesto; Yoshikawa, Hirokazu; Mendive, Susana; Reyes, Joaquin; Godoy, Felipe; Del Rio, Francisca; Snow, Catherine; Leyva, Diana; Barata, Clara; Arbour, MaryCatherine; Rolla, Andrea

2011-01-01

Evaluation designs for social programs are developed assuming minimal or no disruption from external shocks, such as natural disasters. This is because extremely rare shocks may not make it worthwhile to account for them in the design. Among extreme shocks is the 2010 Chile earthquake. Un Buen Comienzo (UBC), an ongoing early childhood program in…

Raising FLAGS: Renewing Core French at the Pre-Service Teacher Level

ERIC Educational Resources Information Center

Carr, Wendy

2010-01-01

A new program for core French teacher candidates called FLAGS (French Language and Global Studies) was established at the University of British Columbia (UBC) in 2007. The program is intended for those who are keen to teach core French and possess rudimentary proficiency in the language but may not necessarily have the same proficiency or prior…

Use of Research-Based Instructional Strategies: How to Avoid Faculty Quitting

ERIC Educational Resources Information Center

Wieman, Carl; Deslauriers, Louis; Gilley, Brett

2013-01-01

We have examined the teaching practices of faculty members who adopted research-based instructional strategies (RBIS) as part of the Carl Wieman Science Education Initiative (CWSEI) at the University of British Columbia (UBC). Of the 70 that adopted such strategies with the support of the CWSEI program, only one subsequently stopped using these…

Geochemical background/baseline values in top soils of Campania region: assessment of the toxic elements threat to ecosystem and human health

NASA Astrophysics Data System (ADS)

de Vivo, B.; Lima, A.; Albanese, S.; Bove, M.; Cicchella, D.; Civitillo, D.; Cosenza, A.; Grezzi, G.

2009-04-01

In the late years an intense geochemical prospecting activity on the whole territory of Campania region (Southern Italy) has been carried aiming at the definition of the geochemical backgrounds/baselines at both regional and local scale. At the end of 2003 the first edition of an atlas containing 200 maps showing the distribution patterns of 40 chemical elements on the whole regional territory was published (De Vivo et al., 2003, 2006a; Albanese et al., 2007a). The atlas provided a base knowledge of environmental status of the region and allowed to individuate some critical areas to be further investigated by topsoils sampling follow up activity; the topsoils are considered as the best media in order to examine closely the sources and the distribution patterns of harmful elements at a local scale. The topsoils sampling was mainly focused on anthropized areas (at urban and metropolitan scale), industrial settlments, brownfields and intensely cultivated zones, aimed at: • showing the distribution of concentration values and to determine baseline values (or backgrounds, depending on local conditions) of each analyzed element (38) in the top soils; • assessing harmful elements pollution levels and their geographic distribution; • providing reliable analytical data for assessment of toxic element pollution threat to ecosystem and human health; • creating a sound basis for policy makers and legislators who need to address the public concerns regarding environmental pollution. Five atlases (De Vivo et al., 2006b; Albanese et al., 2007b; Lima et al., 2007; Fedele et al., 2007 Cicchella et al., 2009) were produced reporting soil geochemical maps compiled using 1620 samples collected both in the metropolitan and provincial area of Napoli and in the cities of Avellino, Benevento, Caserta and Salerno. Further studies were also carried out taking into account Pb isotopes (Cicchella et al., 2008a), PGE's (Cicchella et al., 2003; 2008b) and bioavailability of harmful elements (Albanese, 2008) distributions to better discriminate the influence of human activities on urban environment. A detailed analysis of harmful elements distribution and some organic compounds (PCB and PAH's) was also completed for the Bagnoli brownfield area, in the western sector of the city of Napoli (Tarzia et al., 2002; De Vivo and Lima, 2008; Albanese et al, in press). Since Bagnoli is located inside an active volcanic field (Campi Flegrei) characterized by a strong geothermal activity that generates hydrothermal fluids, the definition of the anthropic impact on environment for this area was complicated by the presence of two main contamination sources, one natural (originating from the hydrothermal activity) and one anthropogenic (from the industrial activity). At present, a geochemical prospecting based on soil and water sampling is also being completed on two contiguous areas mainly devoted to agriculture in correspondence of the north-western coastal sector of Campania Region territory (Domitio-Flegreo Littoral e Agro Aversano). The latter studies aim at defining the impact of agricultural activities (including the use of fertilizers) on soil and deep waters. All the geochemical data obtained for the whole territory of Campania have been also spatially compared with cancer mortality data distribution (Montella et al., 1996) to individuate, at least, some spatial correspondences between high concentration levels of harmful elements and mortality incidence (Albanese et al., 2008). An interesting overlapping has been found for the Napoli metropolitan area for some elements and cancer types: Zn-Cd-rich areas overlap with areas of high prostate-cancer mortality; bladder and pancreatic cancer are correlated with Pb-Sb-rich areas, whereas, bronchial-tracheal-lung cancer is correlated with As-, Cd- and Pb-rich areas. References ALBANESE, S., DE VIVO, B., LIMA, A. & CICCHELLA, D. 2007a. J. Geoch. Expl., 93, 21-34. ALBANESE, S., LIMA, A., DE VIVO, B. & CICCHELLA, D. 2007b. Geochemical Environmental Atlas of the Soils of Avellino. Aracne Editrice, Roma. ALBANESE, S. 2008. Geochemistry: Expl., Env., Anal., 8, 49-57. ALBANESE S., DE LUCA M. L., DE VIVO B., LIMA A. and GREZZI G., 2008. In: Environmental Geochemistry: Site characterization, Data analysis and Case histories (De Vivo B., Belkin H. E. and Lima A., Eds). Elsevier, Amsterdam, 391-404. ALBANESE, S., CIVITILLO, D., COSENZA, A., DE VIVO, B., & LIMA., A., J. Geoch. Explor.. In press. CICCHELLA, D., DE VIVO, B. & LIMA, A. 2003. Science of the Total Environment, 308 (1-3), 121-131. CICCHELLA, D., DE VIVO, B. & LIMA, A. 2005. Geochemistry: Expl., Env., Anal., 5, 29-40. CICCHELLA, D., DE VIVO, B., LIMA, A., ALBANESE, S., MCGILL, R.A.R. & PARRISH, R.R. 2008a. Geochemistry: Expl.,. Env., Ana.s, 8, 103-112. CICCHELLA, D., FEDELE, L., DE VIVO, B., ALBANESE, S. & LIMA, A. 2008b. Geochemistry: Expl., Env., Anal., 8, 31-40. CICCHELLA, D., ALBANESE, S., DE VIVO, B., LIMA, A., GREZZI, G. & ZUPPETTA, A. 2009. Geochemical Environmental Atlas of the soils of Benevento. Aracne Editrice, Roma. DE VIVO B. and LIMA A., 2008. In: Environmental Geochemistry: Site characterization, Data analysis and Case histories (De Vivo B., Belkin H. E. and Lima A., Eds). Elsevier, Amsterdam, 355-385. DE VIVO, B., LIMA, A., ALBANESE, S. & CICCHELLA, D. 2003. Geochemical Environmental Atlas of Campania Region. De Frede Editore, Napoli. DE VIVO, B., LIMA, A., ALBANESE, S. & CICCHELLA, D. 2006a. Geochemical Environmental Atlas of Campania Region. Aracne Editrice, Roma. DE VIVO, B., CICCHELLA, D., LIMA, A. & ALBANESE, S. 2006b. Geochemical Environmental Atlas of the Urban and Provincial Soils of Napoli. Aracne Editrice, Roma. FEDELE, L., DE VIVO, B., LIMA, A., CICCHELLA, D. & ALBANESE, S. 2007. Geochemical Environmental Atlas of the Soils of Salerno. Aracne Editrice, Roma. LIMA, A., DE VIVO, B., GREZZI, G., ALBANESE, S. & CICCHELLA, D. 2007. Geochemical Environmental Atlas of the Soils of Caserta. Aracne Editrice, Roma. MONTELLA, M., BIDOLI, E., DE MARCO, M. R., REDIVO, A., AND FRANCESCI, S. 1996. Atlante della mortalita` per tumori nella Regione campania, 1998-92. Lega Italiana per la Lotta contro i Tumori, Istituto Nazionale Tumori, Napoli. TARZIA, M., DE VIVO, B., SOMMA, R., AYUSO, R.A., MCGILL, R.A.R. & PARRISH, R.R. 2002. Anthropogenic versus natural pollution: an environmental study of an industrial site under remediation (Naples, Italy). Geochemistry: Expl., Env., Anal., 2, 45-56.

Microbial Paleontology, Mineralogy and Geochemistry of Modern and Ancient Thermal Spring Deposits and Their Recognition on the Early Earth and Mars"

NASA Technical Reports Server (NTRS)

Farmer, Jack D.

2004-01-01

The vision of this project was to improve our understanding of the processes by which microbiological information is captured and preserved in rapidly mineralizing sedimentary environments. Specifically, the research focused on the ways in which microbial mats and biofilms influence the sedimentology, geochemistry and paleontology of modem hydrothermal spring deposits in Yellowstone national Park and their ancient analogs. Toward that goal, we sought to understand how the preservation of fossil biosignatures is affected by 1) taphonomy- the natural degradation processes that affect an organism from the time of its death, until its discovery as a fossil and 2) diagenesis- longer-term, post-depositional processes, including cementation and matrix recrystallization, which collectively affect the mineral matrix that contains fossil biosignature information. Early objectives of this project included the development of observational frameworks (facies models) and methods (highly-integrated, interdisciplinary approaches) that could be used to explore for hydrothermal deposits in ancient terranes on Earth, and eventually on Mars.

Analysis of DGGE profiles to explore the relationship between prokaryotic community composition and biogeochemical processes in deep subseafloor sediments from the Peru Margin.

PubMed

Fry, John C; Webster, Gordon; Cragg, Barry A; Weightman, Andrew J; Parkes, R John

2006-10-01

The aim of this work was to relate depth profiles of prokaryotic community composition with geochemical processes in the deep subseafloor biosphere at two shallow-water sites on the Peru Margin in the Pacific Ocean (ODP Leg 201, sites 1228 and 1229). Principal component analysis of denaturing gradient gel electrophoresis banding patterns of deep-sediment Bacteria, Archaea, Euryarchaeota and the novel candidate division JS1, followed by multiple regression, showed strong relationships with prokaryotic activity and geochemistry (R(2)=55-100%). Further correlation analysis, at one site, between the principal components from the community composition profiles for Bacteria and 12 other variables quantitatively confirmed their relationship with activity and geochemistry, which had previously only been implied. Comparison with previously published cell counts enumerated by fluorescent in situ hybridization with rRNA-targeted probes confirmed that these denaturing gradient gel electrophoresis profiles described an active prokaryotic community.

Eleventh Annual V. M. Goldschmidt Conference

NASA Technical Reports Server (NTRS)

2001-01-01

This CD-ROM contains the abstracts and associated files for the Eleventh Annual V.M Goldschmidt Conference. Topics include: Organic Geochemistry; Metamorphic Processes; Igneous Processes; Stable and Radiogenic Isotopes; Planetary Geochemistry and Mineralogy; Mineralogy and Crystallography; Ore Deposits; and Aqueous Geochemistry.

Teaching Mineralogy, Petrology and Geochemistry in the 21st Century: Instructional Resources for Geoscience Faculty

NASA Astrophysics Data System (ADS)

Mogk, D. W.; Beane, R. J.; Whitney, D. L.; Nicolaysen, K. E.; Panero, W. R.; Peck, W. H.

2011-12-01

Mineralogy, petrology and geochemistry (MPG) are pillars of the geoscience curriculum because of their relevance in interpreting Earth history and processes, application to geo-hazards, resources, and environmental issues, and contributions to emerging fields such as geology and human health. To keep faculty current in scientific advances in these fields, and in modern instructional methods, the On the Cutting Edge program convened a workshop at the University of Minnesota in August, 2011. This workshop builds on the previous 15 year's work that has been focused on identifying, aggregating, and developing high-quality collections of teaching activities and related resources, and in building a community of scholars in support of excellence in instruction in MPG courses. The goals of the workshop were to: a) develop an integrated, comprehensive and reviewed curriculum for MPG courses, and to seek ways to make connections with the larger geoscience curriculum; b) to explore emerging topics in MPG such as geobiology and climate change; c) demonstrate effective methods in teaching MPG in the context of Earth system science; d) share effective teaching activities and strategies for the classroom, laboratory and field including advances in pedagogy, assessments and research on learning; e) keep faculty current on recent advances in mineralogy, petrology and geochemistry research and to apply these findings to our teaching; f) explore and utilize current societal and global issues that intersect mineralogy, petrology and geochemistry to heighten the relevancy of course content for students; and h) meet colleagues and foster future teaching and research collaborations. A significant outcome of this workshop is a peer reviewed of collection of 300+ existing teaching activities, and a gap analysis to identify teaching activities needed to make these collections comprehensive and coherent. In addition, a series of thematic collections were developed to assist high priority areas of teaching MPG (e.g. MPG in Introductory Geoscience Courses-Beyond "Rocks in a Box"; thermobarometry programs). All demonstrations and presentations made at the workshop are accessible from the workshop webpage, including a wide variety of active learning exercises and demonstrations of modern computer applications (e.g. SHAPE, ATOMS, CrystalMaker, MELTS, Theriak-Domino, Perplex, TWQ, Google Earth and Gigapans, and PHREEQC). A post-workshop field trip to the Precambrian rocks of northern Minnesota focused on effective teaching and learning in the field. We encourage the geoscience community to use these online resources, and please consider contributing additional teaching activities and resources to these collections.

The Learning Exchange: A Shared Space for the University of British Columbia and Vancouver's Downtown Eastside Communities

ERIC Educational Resources Information Center

Towle, Angela; Leahy, Kathleen

2016-01-01

The Learning Exchange was established by the University of British Columbia (UBC) in 1999 in Vancouver's Downtown Eastside (DTES). The challenge has been to create a shared space for learning exchanges between two very different communities: a research-intensive university and an inner city area most commonly depicted as a place of hopelessness.…

Native Indian Youth in Museums: Success in Education at the U.B.C. Museum of Anthropology.

ERIC Educational Resources Information Center

Rowan, Madeline Bronsdon

In 1979, the Native Indian Youth in Museums project began placing Musqueam teenagers in the University of British Columbia's Museum of Anthropology to teach them about traditional coastal Indian culture, and train them to share this information with museum visitors. Co-sponsored by the Native Indian Youth Advisory Society and the Native Youth…

A Resource for Using Real-World Examples in the Physics Classroom

ERIC Educational Resources Information Center

Van Dongen, Janelle; Rieger, Georg

2013-01-01

Physics Teaching for the 21st Century (://c21.phas.ubc.ca) is a free online resource for teachers who are interested in teaching physics concepts in real-world contexts. The materials on this site were developed by a team of physics faculty and graduate and undergraduate students at the Department of Physics & Astronomy, University of British…

BRISK--research-oriented storage kit for biology-related data.

PubMed

Tan, Alan; Tripp, Ben; Daley, Denise

2011-09-01

In genetic science, large-scale international research collaborations represent a growing trend. These collaborations have demanding and challenging database, storage, retrieval and communication needs. These studies typically involve demographic and clinical data, in addition to the results from numerous genomic studies (omics studies) such as gene expression, eQTL, genome-wide association and methylation studies, which present numerous challenges, thus the need for data integration platforms that can handle these complex data structures. Inefficient methods of data transfer and access control still plague research collaboration. As science becomes more and more collaborative in nature, the need for a system that adequately manages data sharing becomes paramount. Biology-Related Information Storage Kit (BRISK) is a package of several web-based data management tools that provide a cohesive data integration and management platform. It was specifically designed to provide the architecture necessary to promote collaboration and expedite data sharing between scientists. The software, documentation, Java source code and demo are available at http://genapha.icapture.ubc.ca/brisk/index.jsp. BRISK was developed in Java, and tested on an Apache Tomcat 6 server with a MySQL database. denise.daley@hli.ubc.ca.

CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs.

PubMed

Arenillas, David J; Forrest, Alistair R R; Kawaji, Hideya; Lassmann, Timo; Wasserman, Wyeth W; Mathelier, Anthony

2016-09-15

With the emergence of large-scale Cap Analysis of Gene Expression (CAGE) datasets from individual labs and the FANTOM consortium, one can now analyze the cis-regulatory regions associated with gene transcription at an unprecedented level of refinement. By coupling transcription factor binding site (TFBS) enrichment analysis with CAGE-derived genomic regions, CAGEd-oPOSSUM can identify TFs that act as key regulators of genes involved in specific mammalian cell and tissue types. The webtool allows for the analysis of CAGE-derived transcription start sites (TSSs) either provided by the user or selected from ∼1300 mammalian samples from the FANTOM5 project with pre-computed TFBS predicted with JASPAR TF binding profiles. The tool helps power insights into the regulation of genes through the study of the specific usage of TSSs within specific cell types and/or under specific conditions. The CAGEd-oPOSUM web tool is implemented in Perl, MySQL and Apache and is available at http://cagedop.cmmt.ubc.ca/CAGEd_oPOSSUM CONTACTS: anthony.mathelier@ncmm.uio.no or wyeth@cmmt.ubc.ca Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press.

The predictive value of 53BP1 and BRCA1 mRNA expression in advanced non-small-cell lung cancer patients treated with first-line platinum-based chemotherapy

PubMed Central

Bonanno, Laura; Costa, Carlota; Majem, Margarita; Sanchez, Jose Javier; Gimenez-Capitan, Ana; Rodriguez, Ignacio; Vergenegre, Alain; Massuti, Bartomeu; Favaretto, Adolfo; Rugge, Massimo; Pallares, Cinta; Taron, Miquel; Rosell, Rafael

2013-01-01

Platinum-based chemotherapy is the standard first-line treatment for non-oncogene-addicted non-small cell lung cancers (NSCLCs) and the analysis of multiple DNA repair genes could improve current models for predicting chemosensitivity. We investigated the potential predictive role of components of the 53BP1 pathway in conjunction with BRCA1. The mRNA expression of BRCA1, MDC1, CASPASE3, UBC13, RNF8, 53BP1, PIAS4, UBC9 and MMSET was analyzed by real-time PCR in 115 advanced NSCLC patients treated with first-line platinum-based chemotherapy. Patients expressing low levels of both BRCA1 and 53BP1 obtained a median progression-free survival of 10.3 months and overall survival of 19.3 months, while among those with low BRCA1 and high 53BP1 progression-free survival was 5.9 months (P <0.0001) and overall survival was 8.2 months (P=0.001). The expression of 53BP1 refines BRCA1-based predictive modeling to identify patients most likely to benefit from platinum-based chemotherapy. PMID:24197907

Innate immune signaling in Drosophila is regulated by transforming growth factor β (TGFβ)-activated kinase (Tak1)-triggered ubiquitin editing

PubMed Central

Chen, Li; Paquette, Nicholas; Mamoor, Shahan; Rus, Florentina; Nandy, Anubhab; Leszyk, John; Shaffer, Scott A.; Silverman, Neal

2017-01-01

Coordinated regulation of innate immune responses is necessary in all metazoans. In Drosophila the Imd pathway detects Gram-negative bacterial infections through recognition of diaminopimelic acid (DAP)-type peptidoglycan and activation of the NF-κB precursor Relish, which drives robust antimicrobial peptide gene expression. Imd is a receptor-proximal adaptor protein homologous to mammalian RIP1 that is regulated by proteolytic cleavage and Lys-63-polyubiquitination. However, the precise events and molecular mechanisms that control the post-translational modification of Imd remain unclear. Here, we demonstrate that Imd is rapidly Lys-63-polyubiquitinated at lysine residues 137 and 153 by the sequential action of two E2 enzymes, Ubc5 and Ubc13-Uev1a, in conjunction with the E3 ligase Diap2. Lys-63-ubiquitination activates the TGFβ-activated kinase (Tak1), which feeds back to phosphorylate Imd, triggering the removal of Lys-63 chains and the addition of Lys-48 polyubiquitin. This ubiquitin-editing process results in the proteasomal degradation of Imd, which we propose functions to restore homeostasis to the Drosophila immune response. PMID:28377500

The E2-25K Ubiquitin-associated (UBA) Domain Aids in Polyubiquitin Chain Synthesis and Linkage Specificity

PubMed Central

WILSON, Randall C.; EDMONDSON, Stephen P.; FLATT, Justin W.; HELMS, Kimberli; TWIGG, Pamela D.

2011-01-01

E2-25K is an ubiquitin-conjugating enzyme with the ability to synthesize Lys48-linked polyubiquitin chains. E2-25K and its homologues represent the only known E2 enzymes which contain a C-terminal ubiquitin-associated (UBA) domain as well as the conserved catalytic ubiquitin-conjugating (UBC) domain. As an additional non-covalent binding surface for ubiquitin, the UBA domain must provide some functional specialization. We mapped the protein-protein interface involved in the E2-25K UBA/ubiquitin complex by solution nuclear magnetic resonance (NMR) spectroscopy and subsequently modeled the structure of the complex. Domain-domain interactions between the E2-25K catalytic UBC domain and the UBA domain do not induce significant structural changes in the UBA domain or alter the affinity of the UBA domain for ubiquitin. We determined that one of the roles of the C-terminal UBA domain, in the context of E2-25K, is to increase processivity in Lys48-linked polyubiquitin chain synthesis, possibly through increased binding to the ubiquitinated substrate. Additionally, we see evidence that the UBA domain directs specificity in polyubiquitin chain linkage. PMID:21281599

Active unicameral bone cysts in the upper limb are at greater risk of fracture.

PubMed

Tey, Inn Kuang; Mahadev, Arjandas; Lim, Kevin Boon Leong; Lee, Eng Hin; Nathan, Saminathan Suresh

2009-08-01

To elucidate the natural history of unicameral bone cyst (UBC) and risk factors for pathological fracture. 14 males and 8 females (mean age, 9 years) diagnosed with UBC were reviewed. Cyst location, symptoms, and whether there was any fracture or surgery were recorded. Cyst parameters were measured on radiographs, and included (1) the cyst index, (2) the ratio of the widest cyst diameter to the growth plate diameter, and (3) the adjusted distance of the cyst border from the growth plate. There were 11 upper- and 11 lower-limb cysts. 13 patients had pathological fractures and 9 did not. 20 patients were treated conservatively with limb immobilisation; 2 underwent curettage and bone grafting (one resolved and one did not). Seven cysts resolved (5 had fractures and 2 did not). The risk of fracture was higher in the upper than lower limbs (100% vs 18%, p<0.001). Fractured cysts were larger than unfractured cysts (mean cyst index, 4.5 vs. 2.2, p=0.07). Active cysts were more likely to fracture. Conservative management had a 30% resolution rate. Surgery should be considered for large active cysts in the upper limbs in order to minimise the fracture risk.

CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs

PubMed Central

Arenillas, David J.; Forrest, Alistair R. R.; Kawaji, Hideya; Lassmann, Timo; Wasserman, Wyeth W.; Mathelier, Anthony

2016-01-01

With the emergence of large-scale Cap Analysis of Gene Expression (CAGE) datasets from individual labs and the FANTOM consortium, one can now analyze the cis-regulatory regions associated with gene transcription at an unprecedented level of refinement. By coupling transcription factor binding site (TFBS) enrichment analysis with CAGE-derived genomic regions, CAGEd-oPOSSUM can identify TFs that act as key regulators of genes involved in specific mammalian cell and tissue types. The webtool allows for the analysis of CAGE-derived transcription start sites (TSSs) either provided by the user or selected from ∼1300 mammalian samples from the FANTOM5 project with pre-computed TFBS predicted with JASPAR TF binding profiles. The tool helps power insights into the regulation of genes through the study of the specific usage of TSSs within specific cell types and/or under specific conditions. Availability and Implementation: The CAGEd-oPOSUM web tool is implemented in Perl, MySQL and Apache and is available at http://cagedop.cmmt.ubc.ca/CAGEd_oPOSSUM. Contacts: anthony.mathelier@ncmm.uio.no or wyeth@cmmt.ubc.ca Supplementary information: Supplementary data are available at Bioinformatics online. PMID:27334471

The mineral resource potential of the Wadi Habawnah and Najran quadrangles, sheets 17/44A and 17/44C, Kingdom of Saudi Arabia

USGS Publications Warehouse

Fenton, Michael D.

1983-01-01

The metallic resource potential of the Wadi Habawnah and Najran quadrangles in the southern Precambrian Arabian Shield has been determined primarily by reconnaissance rock geochemistry, limited wadi-sediment and colluvium geochemistry, and gossanous and ferruginous outcrop geochemistry. These surveys were guided by geological information acquired during previous reconnaissance mapping. Locally anomalous areas in alkalic and calc-alkalic granitic terrane are possible sources of niobium-zirconiumthorium-fluorite, tin-tungsten, and copper-molybdenum, although the potential of these areas does not appear to be outstanding. The reconnaissance geochemistry of the layered volcanic terrane and the geochemistry of gossanous and ferruginous outcrops indicate that the potential for stratiform base metal sulfide deposits is low.

Regional geochemistry Bandung Quadrangle West Java: for environmental and resources studies

NASA Astrophysics Data System (ADS)

Sendjaja, Purnama; Baharuddin

2017-06-01

Geochemical mapping based on the stream sediment method has been carried out in the whole of Java Region by the Centre for Geological Survey. The Regional Geochemistry Bandung Quadrangle as part of West Java Region has been mapped in 1:100.000 scale map, base on the Geological Map of Bandung Quadrangle. About 82 stream sediment samples collected and sieved in the 80 mesh sieve fraction during the field work session at 2011. This fraction was prepared and analysed for 30 elements by X-ray fluorescence spectrometry at the Centre for Geological Survey Laboratory. There are some elements indicating significant anomaly in this region, and it is important to determine the present abundance and spatial distribution of the elements for presuming result from natural product or derived from human activities. The volcanic products (Tangkuban Perahu Volcano, Volcanic Rock Complex and Quarternary Volcanic-Alluvial Deposit) are clearly identified on the distribution of As, Ba, Cl, Cu, Zr and La elements. However Mn, Zn, V and Sr are related to precipitation in the Tertiary Sediments, while the influence of human activities are showing from a geochemical map of Cl, Cr, Cu, Pb and Zn that show scattered anomalies localized close to the cities, farming and industries.

Aquifers of Arkansas: protection, management, and hydrologic and geochemical characteristics of groundwater resources in Arkansas

USGS Publications Warehouse

Kresse, Timothy M.; Hays, Phillip D.; Merriman, Katherine R.; Gillip, Jonathan A.; Fugitt, D. Todd; Spellman, Jane L.; Nottmeier, Anna M.; Westerman, Drew A.; Blackstock, Joshua M.; Battreal, James L.

2014-01-01

The Interior Highlands of western Arkansas has less reported groundwater use than other areas of the State, reflecting a combination of factors. These factors include prevalent and increasing use of surface water, less intensive agricultural uses, lower population and industry densities, lesser potential yield of the resource, and lack of detailed reporting. The overall low yields of aquifers of the Interior Highlands result in domestic supply as the dominant use, with minor industrial, public, and commercial-supply use. Where greater volumes are required for growth of population and industry, surface water is the greatest supplier of water needs in the Interior Highlands. The various aquifers of the Interior Highlands generally occur in shallow, fractured, well-indurated, structurally modified bedrock of this mountainous region of the State, as compared to the relatively flat-lying, unconsolidated sediments of the Coastal Plain. In terms of age from youngest to oldest, the aquifers of the Interior Highlands include: the Arkansas River Valley alluvial aquifer, the Ouachita Mountains aquifer, the Western Interior Plains confining system, the Springfield Plateau aquifer, and the Ozark aquifer. Spatial trends in groundwater geochemistry in the Interior Highlands differ greatly from trends noted for aquifers of the Coastal Plain. In the Coastal Plain, the prevalence of long regional flow paths results in regionally predictable and mappable geochemical changes along the flow paths. In the Interior Highlands, short, topographically controlled flow paths (from hilltops to valleys) within small watersheds represent the predominant groundwater-flow system. As such, dense data coverage from numerous wells would be required to effectively characterize these groundwater basins and define small-scale geochemical changes along any given flow path for aquifers of the Interior Highlands. Changes in geochemistry generally were related to rock type and residence time along individual flow paths. Dominant changes in geochemistry for the Ouachita Mountains aquifer and the Western Interior Plains confining system are attributed to rock/water interaction and changes in redox zonation along the flow path. In these areas, groundwater evolves along flow paths from a calcium- to a sodium-bicarbonate water type with increasing reducing conditions resulting in denitrification, elevated iron and manganese concentrations, and production of methane in the more geochemically evolved and strongest reducing conditions. In the Ozark and Springfield Plateau aquifers, rapid influx of surface-derived contaminants, especially nitrogen, coupled with few to no attenuation processes was attributed to the karst landscape developed on Mississippian- and Ordovician-age carbonate rocks of the Ozark Plateaus. Increasing nitrate concentrations are related to increasing agricultural land use, and areas of mature karst development result in higher nitrate concentrations than areas with less karst features.

Exploration Gap Assessment (FY13 Update)

DOE Data Explorer

Dan Getman

2013-09-30

This submission contains an update to the previous Exploration Gap Assessment funded in 2012, which identify high potential hydrothermal areas where critical data are needed (gap analysis on exploration data). The uploaded data are contained in two data files for each data category: A shape (SHP) file containing the grid, and a data file (CSV) containing the individual layers that intersected with the grid. This CSV can be joined with the map to retrieve a list of datasets that are available at any given site. A grid of the contiguous U.S. was created with 88,000 10-km by 10-km grid cells, and each cell was populated with the status of data availability corresponding to five data types: 1. well data 2. geologic maps 3. fault maps 4. geochemistry data 5. geophysical data

Research of Helium Isotopes in Taiwan: The Legacy of Dr. Tsanyao Frank Yang

NASA Astrophysics Data System (ADS)

Yang, Tsanyao Frank; Lan, Tefang; Lee, Hsiao-Fen; Fu, Ching-Chou; Chuang, Pei-Chuan; Hong, Wei-Li; Walia, Vivek; Chen, Hsuan-Wen; Wen, Hsin-Yi; Chen, Ai-Ti; Chen, Hsiao-Chi; Chiu, Chun-Ming; Cheng, Chun-Yuan; Wu, Nian-Ru; Cheng, Yu-Chen; Chuang, Jin-Lun; Kao, Li-Hsin; Chen, Cheng-Hong; Sano, Yuji

2016-04-01

Helium isotope systematics is a powerful proxy to distinguish fluid origins and conveys fruitful geological information. In the past several decades, this robust isotope systematics had offered pivotal knowledge on many key issues in Earth and planetary sciences. It revealed essential geological information of Taiwan as well. Taiwan is located on the junction of two subduction systems-Ryukyu Arc and Luzon Arc. The geotectonic setting is complex and intriguing. Dr. Tsanyao Frank Yang was the pioneer of gas geochemistry studies in Taiwan. He established the first gas geochemistry laboratory in National Taiwan University in 1998 and started exploring all possible research topics on and around this tectonic-active island. In the past two decades, his research covered volcanic/hydrothermal gas studies, volcanic activity monitoring, gas hydrate exploration, soil gas as a tool to locate fault traces, soil gas flux measurement, earthquake precursory, mud volcanoes, low-temperature geochronology and many more. He died of pancreas cancer in March 2015. He was a warm and enthusiastic mentor, a prolific scientist and a great friend. He will always be remembered. Here we present Dr. Yang's achievement on helium isotopes studies in Taiwan throughout his research career. We integrate all the research results from his team and summarize the observations. We will show the distribution of helium isotope ratios in Taiwan and its implications on tectonic settings.

Bedrock composition regulates mountain ecosystems and landscape evolution

PubMed Central

Hahm, W. Jesse; Riebe, Clifford S.; Lukens, Claire E.; Araki, Sayaka

2014-01-01

Earth’s land surface teems with life. Although the distribution of ecosystems is largely explained by temperature and precipitation, vegetation can vary markedly with little variation in climate. Here we explore the role of bedrock in governing the distribution of forest cover across the Sierra Nevada Batholith, California. Our sites span a narrow range of elevations and thus a narrow range in climate. However, land cover varies from Giant Sequoia (Sequoiadendron giganteum), the largest trees on Earth, to vegetation-free swaths that are visible from space. Meanwhile, underlying bedrock spans nearly the entire compositional range of granitic bedrock in the western North American cordillera. We explored connections between lithology and vegetation using measurements of bedrock geochemistry and forest productivity. Tree-canopy cover, a proxy for forest productivity, varies by more than an order of magnitude across our sites, changing abruptly at mapped contacts between plutons and correlating with bedrock concentrations of major and minor elements, including the plant-essential nutrient phosphorus. Nutrient-poor areas that lack vegetation and soil are eroding more than two times slower on average than surrounding, more nutrient-rich, soil-mantled bedrock. This suggests that bedrock geochemistry can influence landscape evolution through an intrinsic limitation on primary productivity. Our results are consistent with widespread bottom-up lithologic control on the distribution and diversity of vegetation in mountainous terrain. PMID:24516144

10 CFR 960.4-2-2 - Geochemistry.

Code of Federal Regulations, 2011 CFR

2011-01-01

... 10 Energy 4 2011-01-01 2011-01-01 false Geochemistry. 960.4-2-2 Section 960.4-2-2 Energy DEPARTMENT OF ENERGY GENERAL GUIDELINES FOR THE PRELIMINARY SCREENING OF POTENTIAL SITES FOR A NUCLEAR WASTE REPOSITORY Postclosure Guidelines § 960.4-2-2 Geochemistry. (a) Qualifying condition. The present and...

Geothermal potential of Caledonian granites underlying Upper Palaeozoic sedimentary basins astride the Iapetus Suture Zone in Ireland

NASA Astrophysics Data System (ADS)

Fritschle, Tobias; Daly, J. Stephen; Whitehouse, Martin J.; McConnell, Brian; Buhre, Stephan

2014-05-01

Upper Palaeozoic sedimentary basins in Ireland overlie crystalline rocks within the Caledonian Iapetus Suture Zone. Beneath these basins, Lower Palaeozoic rocks, formed and deformed during the Caledonian orogenic cycle, were intruded by c. 420-390 Ma late-tectonic granites at various tectonic levels. These include the subsurface Kentstown and Glenamaddy granites discovered by mineral exploration drilling. While these granites comprise actual targets for Enhanced Geothermal System (EGS) exploration, several others likely exist based on geophysical considerations. In order to test the regional geothermal potential, the buried granites as well as analogue exposed rocks are being investigated geochemically. The geothermal potential of the intrusives depends on their heat production rate (HPR), which is calculated using rock density and concentrations of the heat producing elements (HPE) uranium, thorium and potassium. In spite of their close spacing and similar ages, the whole-rock geochemistry of the granites varies significantly, but with no obvious geographical control (Fritschle et al., 2013; 2014). The granite HPR values range from 1.4 μW/m3 for the Dhoon Granite (Isle of Man) to 4.9 μW/m3 for the Drogheda Granite (Ireland). This compares with the average HPR for a 'typical' granite of 2.7 μW/m3 (Goldstein et al., 2009). It is demonstrated that an elevated HPR of a granite can be related to enrichment in one of the HPE alone (e.g., uranium-enrichment in the Foxdale Granite (Isle of Man), or thorium-enrichment in the Drogheda Granite). Enrichment in HPE in a granite may occur due to different reasons including hydrothermal (re-) distribution of uranium, or the assimilation of thorium-rich wall-rocks. Hence, the distribution of the HPE in particular minerals, veins and source lithologies, along with the petrophysical characteristics of the sedimentary basins and the granites' petrogenesis, are currently being investigated as possible mechanisms controlling their heat production budget. Fritschle, T., Daly, J.S., Whitehouse, M.J., McConnell, B., Buhre, S., 2013. U-Pb Zircon Ages from Granites in the Iapetus Suture Zone in Ireland and the Isle of Man. Mineralogical Magazine, 77(5): 1115. Fritschle, T., Daly, J.S., Whitehouse, M.J., McConnell, B., Buhre, S., 2014. Zircon geochronology and Hf-O isotope geochemistry from granites in the Iapetus Suture Zone in Ireland and the Isle of Man. This issue. Goldstein, B.A., Hill, A.J., Long, A., Budd, A.R., Ayling, B., Malavazos, M., 2009. Hot rocks down under - evolution of a new energy industry. Geothermal Resources Council Transactions, 33: 185-198.

Genetically-Encoded Reporters of Signal Transduction

DTIC Science & Technology

2006-07-17

modification patterns during the process of mammalian cell division. An increase in FRET was observed in an H3 phosphorylation reporter localized to the...Hayashi (MIT) and Alaa EI-Husseini (UBC) to gain insight into the molecular mechanisms of glutamate receptor and neuroligin trafficking in the processes ...trafficking and their roles in important processes such as synaptic plasticity (crucial in learning and memory), new synapse formation, and nutrient uptake

Proteasome, but Not Autophagy, Disruption Results in Severe Eye and Wing Dysmorphia: A Subunit- and Regulator-Dependent Process in Drosophila

PubMed Central

Pantazi, Asimina D.; Mpakou, Vassiliki E.; Zervas, Christos G.; Papassideri, Issidora S.; Stravopodis, Dimitrios J.

2013-01-01

Proteasome-dependent and autophagy-mediated degradation of eukaryotic cellular proteins represent the two major proteostatic mechanisms that are critically implicated in a number of signaling pathways and cellular processes. Deregulation of functions engaged in protein elimination frequently leads to development of morbid states and diseases. In this context, and through the utilization of GAL4/UAS genetic tool, we herein examined the in vivo contribution of proteasome and autophagy systems in Drosophila eye and wing morphogenesis. By exploiting the ability of GAL4-ninaE. GMR and P{GawB}BxMS1096 genetic drivers to be strongly and preferentially expressed in the eye and wing discs, respectively, we proved that proteasomal integrity and ubiquitination proficiency essentially control fly’s eye and wing development. Indeed, subunit- and regulator-specific patterns of severe organ dysmorphia were obtained after the RNAi-induced downregulation of critical proteasome components (Rpn1, Rpn2, α5, β5 and β6) or distinct protein-ubiquitin conjugators (UbcD6, but not UbcD1 and UbcD4). Proteasome deficient eyes presented with either rough phenotypes or strongly dysmorphic shapes, while transgenic mutant wings were severely folded and carried blistered structures together with loss of vein differentiation. Moreover, transgenic fly eyes overexpressing the UBP2-yeast deubiquitinase enzyme were characterized by an eyeless-like phenotype. Therefore, the proteasome/ubiquitin proteolytic activities are undoubtedly required for the normal course of eye and wing development. In contrast, the RNAi-mediated downregulation of critical Atg (1, 4, 7, 9 and 18) autophagic proteins revealed their non-essential, or redundant, functional roles in Drosophila eye and wing formation under physiological growth conditions, since their reduced expression levels could only marginally disturb wing’s, but not eye’s, morphogenetic organization and architecture. However, Atg9 proved indispensable for the maintenance of structural integrity of adult wings in aged flies. In toto, our findings clearly demonstrate the gene-specific fundamental contribution of proteasome, but not autophagy, in invertebrate eye and wing organ development. PMID:24282550

Safety and Efficacy of Durvalumab (MEDI4736), an Anti-Programmed Cell Death Ligand-1 Immune Checkpoint Inhibitor, in Patients With Advanced Urothelial Bladder Cancer.

PubMed

Massard, Christophe; Gordon, Michael S; Sharma, Sunil; Rafii, Saeed; Wainberg, Zev A; Luke, Jason; Curiel, Tyler J; Colon-Otero, Gerardo; Hamid, Omid; Sanborn, Rachel E; O'Donnell, Peter H; Drakaki, Alexandra; Tan, Winston; Kurland, John F; Rebelatto, Marlon C; Jin, Xiaoping; Blake-Haskins, John A; Gupta, Ashok; Segal, Neil H

2016-09-10

To investigate the safety and efficacy of durvalumab, a human monoclonal antibody that binds programmed cell death ligand-1 (PD-L1), and the role of PD-L1 expression on clinical response in patients with advanced urothelial bladder cancer (UBC). A phase 1/2 multicenter, open-label study is being conducted in patients with inoperable or metastatic solid tumors. We report here the results from the UBC expansion cohort. Durvalumab (MEDI4736, 10 mg/kg every 2 weeks) was administered intravenously for up to 12 months. The primary end point was safety, and objective response rate (ORR, confirmed) was a key secondary end point. An exploratory analysis of pretreatment tumor biopsies led to defining PD-L1-positive as ≥ 25% of tumor cells or tumor-infiltrating immune cells expressing membrane PD-L1. A total of 61 patients (40 PD-L1-positive, 21 PD-L1-negative), 93.4% of whom received one or more prior therapies for advanced disease, were treated (median duration of follow-up, 4.3 months). The most common treatment-related adverse events (AEs) of any grade were fatigue (13.1%), diarrhea (9.8%), and decreased appetite (8.2%). Grade 3 treatment-related AEs occurred in three patients (4.9%); there were no treatment-related grade 4 or 5 AEs. One treatment-related AE (acute kidney injury) resulted in treatment discontinuation. The ORR was 31.0% (95% CI, 17.6 to 47.1) in 42 response-evaluable patients, 46.4% (95% CI, 27.5 to 66.1) in the PD-L1-positive subgroup, and 0% (95% CI, 0.0 to 23.2) in the PD-L1-negative subgroup. Responses are ongoing in 12 of 13 responding patients, with median duration of response not yet reached (range, 4.1+ to 49.3+ weeks). Durvalumab demonstrated a manageable safety profile and evidence of meaningful clinical activity in PD-L1-positive patients with UBC, many of whom were heavily pretreated. © 2016 by American Society of Clinical Oncology.

Safety and Efficacy of Durvalumab (MEDI4736), an Anti–Programmed Cell Death Ligand-1 Immune Checkpoint Inhibitor, in Patients With Advanced Urothelial Bladder Cancer

PubMed Central

Massard, Christophe; Gordon, Michael S.; Sharma, Sunil; Rafii, Saeed; Wainberg, Zev A.; Luke, Jason; Curiel, Tyler J.; Colon-Otero, Gerardo; Hamid, Omid; Sanborn, Rachel E.; O’Donnell, Peter H.; Drakaki, Alexandra; Tan, Winston; Kurland, John F.; Rebelatto, Marlon C.; Jin, Xiaoping; Blake-Haskins, John A.; Gupta, Ashok

2016-01-01

Purpose To investigate the safety and efficacy of durvalumab, a human monoclonal antibody that binds programmed cell death ligand-1 (PD-L1), and the role of PD-L1 expression on clinical response in patients with advanced urothelial bladder cancer (UBC). Methods A phase 1/2 multicenter, open-label study is being conducted in patients with inoperable or metastatic solid tumors. We report here the results from the UBC expansion cohort. Durvalumab (MEDI4736, 10 mg/kg every 2 weeks) was administered intravenously for up to 12 months. The primary end point was safety, and objective response rate (ORR, confirmed) was a key secondary end point. An exploratory analysis of pretreatment tumor biopsies led to defining PD-L1–positive as ≥ 25% of tumor cells or tumor-infiltrating immune cells expressing membrane PD-L1. Results A total of 61 patients (40 PD-L1–positive, 21 PD-L1–negative), 93.4% of whom received one or more prior therapies for advanced disease, were treated (median duration of follow-up, 4.3 months). The most common treatment-related adverse events (AEs) of any grade were fatigue (13.1%), diarrhea (9.8%), and decreased appetite (8.2%). Grade 3 treatment-related AEs occurred in three patients (4.9%); there were no treatment-related grade 4 or 5 AEs. One treatment-related AE (acute kidney injury) resulted in treatment discontinuation. The ORR was 31.0% (95% CI, 17.6 to 47.1) in 42 response-evaluable patients, 46.4% (95% CI, 27.5 to 66.1) in the PD-L1–positive subgroup, and 0% (95% CI, 0.0 to 23.2) in the PD-L1–negative subgroup. Responses are ongoing in 12 of 13 responding patients, with median duration of response not yet reached (range, 4.1+ to 49.3+ weeks). Conclusion Durvalumab demonstrated a manageable safety profile and evidence of meaningful clinical activity in PD-L1–positive patients with UBC, many of whom were heavily pretreated. PMID:27269937

Proteasome, but not autophagy, disruption results in severe eye and wing dysmorphia: a subunit- and regulator-dependent process in Drosophila.

PubMed

Velentzas, Panagiotis D; Velentzas, Athanassios D; Pantazi, Asimina D; Mpakou, Vassiliki E; Zervas, Christos G; Papassideri, Issidora S; Stravopodis, Dimitrios J

2013-01-01

Proteasome-dependent and autophagy-mediated degradation of eukaryotic cellular proteins represent the two major proteostatic mechanisms that are critically implicated in a number of signaling pathways and cellular processes. Deregulation of functions engaged in protein elimination frequently leads to development of morbid states and diseases. In this context, and through the utilization of GAL4/UAS genetic tool, we herein examined the in vivo contribution of proteasome and autophagy systems in Drosophila eye and wing morphogenesis. By exploiting the ability of GAL4-ninaE. GMR and P{GawB}Bx(MS1096) genetic drivers to be strongly and preferentially expressed in the eye and wing discs, respectively, we proved that proteasomal integrity and ubiquitination proficiency essentially control fly's eye and wing development. Indeed, subunit- and regulator-specific patterns of severe organ dysmorphia were obtained after the RNAi-induced downregulation of critical proteasome components (Rpn1, Rpn2, α5, β5 and β6) or distinct protein-ubiquitin conjugators (UbcD6, but not UbcD1 and UbcD4). Proteasome deficient eyes presented with either rough phenotypes or strongly dysmorphic shapes, while transgenic mutant wings were severely folded and carried blistered structures together with loss of vein differentiation. Moreover, transgenic fly eyes overexpressing the UBP2-yeast deubiquitinase enzyme were characterized by an eyeless-like phenotype. Therefore, the proteasome/ubiquitin proteolytic activities are undoubtedly required for the normal course of eye and wing development. In contrast, the RNAi-mediated downregulation of critical Atg (1, 4, 7, 9 and 18) autophagic proteins revealed their non-essential, or redundant, functional roles in Drosophila eye and wing formation under physiological growth conditions, since their reduced expression levels could only marginally disturb wing's, but not eye's, morphogenetic organization and architecture. However, Atg9 proved indispensable for the maintenance of structural integrity of adult wings in aged flies. In toto, our findings clearly demonstrate the gene-specific fundamental contribution of proteasome, but not autophagy, in invertebrate eye and wing organ development.

How do IMGs compare with Canadian medical school graduates in a family practice residency program?

PubMed Central

Andrew, Rodney F.

2010-01-01

ABSTRACT OBJECTIVE To compare international medical graduates (IMGs) with Canadian medical school graduates in a family practice residency program. DESIGN Analysis of the results of the in-training evaluation reports (ITERs) and the Certification in Family Medicine (CCFP) examination results for 2 cohorts of IMGs and Canadian-trained graduates between the years 2006 and 2008. SETTING St Paul’s Hospital (SPH) in Vancouver, BC, a training site of the University of British Columbia (UBC) Family Practice Residency Program. PARTICIPANTS In-training evaluation reports were examined for 12 first-year and 9 second-year Canadian-trained residents at the SPH site, and 12 first-year and 12 second-year IMG residents at the IMG site at SPH; CCFP examination results were reviewed for all UBC family practice residents who took the May 2008 examination and disclosed their results. MAIN OUTCOME MEASURES Pass or fail rates on the CCFP examination; proportions of evaluations in each group of residents given each of the following designations: exceeds expectations, meets expectations, or needs improvement. The May 2008 CCFP examination results were reviewed. RESULTS Compared with the second-year IMGs, the second-year SPH Canadian-trained residents had a greater proportion of exceeds expectations designations than the IMGs. For the first-year residents, both the SPH Canadian graduates and IMGs had similar results in all 3 categories. Combining the results of the 2 cohorts, the Canadian-trained residents had 310 (99%) ITERs that were designated as either exceeds expectations or meets expectations, and only 3 (1%) ITERs were in the needs improvement category. The IMG results were 362 (97.6%) ITERs in the exceeds expectations or meets expectations categories; 9 (2%) were in the needs improvement category. Statistically these are not significant differences. Seven of the 12 (58%) IMG candidates passed the CCFP examination compared with 59 of 62 (95%) of the UBC family practice residents. CONCLUSION The IMG residents compared favourably with their Canadian-trained colleagues when comparing ITERs but not in passing the CCFP examination. Further research is needed to elucidate these results. PMID:20841570

WD40 domain of Apc1 is critical for the coactivator-induced allosteric transition that stimulates APC/C catalytic activity.

PubMed

Li, Qiuhong; Chang, Leifu; Aibara, Shintaro; Yang, Jing; Zhang, Ziguo; Barford, David

2016-09-20

The anaphase-promoting complex/cyclosome (APC/C) is a large multimeric cullin-RING E3 ubiquitin ligase that orchestrates cell-cycle progression by targeting cell-cycle regulatory proteins for destruction via the ubiquitin proteasome system. The APC/C assembly comprises two scaffolding subcomplexes: the platform and the TPR lobe that together coordinate the juxtaposition of the catalytic and substrate-recognition modules. The platform comprises APC/C subunits Apc1, Apc4, Apc5, and Apc15. Although the role of Apc1 as an APC/C scaffolding subunit has been characterized, its specific functions in contributing toward APC/C catalytic activity are not fully understood. Here, we report the crystal structure of the N-terminal domain of human Apc1 (Apc1N) determined at 2.2-Å resolution and provide an atomic-resolution description of the architecture of its WD40 (WD40 repeat) domain (Apc1(WD40)). To understand how Apc1(WD40) contributes to APC/C activity, a mutant form of the APC/C with Apc1(WD40) deleted was generated and evaluated biochemically and structurally. We found that the deletion of Apc1(WD40) abolished the UbcH10-dependent ubiquitination of APC/C substrates without impairing the Ube2S-dependent ubiquitin chain elongation activity. A cryo-EM structure of an APC/C-Cdh1 complex with Apc1(WD40) deleted showed that the mutant APC/C is locked into an inactive conformation in which the UbcH10-binding site of the catalytic module is inaccessible. Additionally, an EM density for Apc15 is not visible. Our data show that Apc1(WD40) is required to mediate the coactivator-induced conformational change of the APC/C that is responsible for stimulating APC/C catalytic activity by promoting UbcH10 binding. In contrast, Ube2S activity toward APC/C substrates is not dependent on the initiation-competent conformation of the APC/C.

WD40 domain of Apc1 is critical for the coactivator-induced allosteric transition that stimulates APC/C catalytic activity

PubMed Central

Li, Qiuhong; Chang, Leifu; Aibara, Shintaro; Yang, Jing; Zhang, Ziguo; Barford, David

2016-01-01

The anaphase-promoting complex/cyclosome (APC/C) is a large multimeric cullin–RING E3 ubiquitin ligase that orchestrates cell-cycle progression by targeting cell-cycle regulatory proteins for destruction via the ubiquitin proteasome system. The APC/C assembly comprises two scaffolding subcomplexes: the platform and the TPR lobe that together coordinate the juxtaposition of the catalytic and substrate-recognition modules. The platform comprises APC/C subunits Apc1, Apc4, Apc5, and Apc15. Although the role of Apc1 as an APC/C scaffolding subunit has been characterized, its specific functions in contributing toward APC/C catalytic activity are not fully understood. Here, we report the crystal structure of the N-terminal domain of human Apc1 (Apc1N) determined at 2.2-Å resolution and provide an atomic-resolution description of the architecture of its WD40 (WD40 repeat) domain (Apc1WD40). To understand how Apc1WD40 contributes to APC/C activity, a mutant form of the APC/C with Apc1WD40 deleted was generated and evaluated biochemically and structurally. We found that the deletion of Apc1WD40 abolished the UbcH10-dependent ubiquitination of APC/C substrates without impairing the Ube2S-dependent ubiquitin chain elongation activity. A cryo-EM structure of an APC/C–Cdh1 complex with Apc1WD40 deleted showed that the mutant APC/C is locked into an inactive conformation in which the UbcH10-binding site of the catalytic module is inaccessible. Additionally, an EM density for Apc15 is not visible. Our data show that Apc1WD40 is required to mediate the coactivator-induced conformational change of the APC/C that is responsible for stimulating APC/C catalytic activity by promoting UbcH10 binding. In contrast, Ube2S activity toward APC/C substrates is not dependent on the initiation-competent conformation of the APC/C. PMID:27601667

DOE workshop: Sedimentary systems, aqueous and organic geochemistry

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1993-07-01

A DOE workshop on sedimentary systems, aqueous and organic geochemistry was held July 15-16, 1993 at Lawrence Berkeley Laboratory. Papers were organized into several sections: Fundamental Properties, containing papers on the thermodynamics of brines, minerals and aqueous electrolyte solutions; Geochemical Transport, covering 3-D imaging of drill core samples, hydrothermal geochemistry, chemical interactions in hydrocarbon reservoirs, fluid flow model application, among others; Rock-Water Interactions, with presentations on stable isotope systematics of fluid/rock interaction, fluid flow and petotectonic evolution, grain boundary transport, sulfur incorporation, tracers in geologic reservoirs, geothermal controls on oil-reservoir evolution, and mineral hydrolysis kinetics; Organic Geochemistry covered new methodsmore » for constraining time of hydrocarbon migration, kinetic models of petroleum formation, mudstones in burial diagenesis, compound-specific carbon isotope analysis of petroleums, stability of natural gas, sulfur in sedimentary organic matter, organic geochemistry of deep ocean sediments, direct speciation of metal by optical spectroscopies; and lastly, Sedimentary Systems, covering sequence stratigraphy, seismic reflectors and diagenetic changes in carbonates, geochemistry and origin of regional dolomites, and evidence of large comet or asteroid impacts at extinction boundaries.« less

NASA SSERVI Contributions to Lunar Science and Exploration

NASA Technical Reports Server (NTRS)

Pendleton, Yvonne J.

2015-01-01

NASA's Solar System Exploration Research Virtual Institute (SSERVI) represents a close collaboration between science, technology and exploration that will enable deeper understanding of the Moon and other airless bodies as we move further out of low-Earth orbit. The new Solar System Exploration Research Virtual Institute (SSERVI) will focus on the scientific aspects of exploration as they pertain to the Moon, Near Earth Asteroids (NEAs) and the moons of Mars. The Institute focuses on interdisciplinary, exploration-related science centered around all airless bodies targeted as potential human destinations. Areas of study reported here will represent the broad spectrum of lunar, NEA, and Martian moon sciences encompassing investigations of the surface, interior, exosphere, and near-space environments as well as science uniquely enabled from these bodies. We will provide a detailed look at research being conducted by each of the 9 domestic US teams as well as our 7 international partners. The research profile of the Institute integrates investigations of plasma physics, geology/geochemistry, technology integration, solar system origins/evolution, regolith geotechnical properties, analogues, volatiles, ISRU and exploration potential of the target bodies.

Complete Subsurface Elemental Composition Measurements With PING

NASA Technical Reports Server (NTRS)

Parsons, A. M.

2012-01-01

The Probing In situ with Neutrons and Gamma rays (PING) instrument will measure the complete bulk elemental composition of the subsurface of Mars as well as any other solid planetary body. PING can thus be a highly effective tool for both detailed local geochemistry science investigations and precision measurements of Mars subsurface reSOurces in preparation for future human exploration. As such, PING is thus fully capable of meeting a majority of both ncar and far term elements in Challenge #1 presented for this conference. Measuring the ncar subsurface composition of Mars will enable many of the MEPAG science goals and will be key to filling an important Strategic Knowledge Gap with regard to In situ Resources Utilization (ISRU) needs for human exploration. [1, 2] PING will thus fill an important niche in the Mars Exploration Program.

Application of cluster analysis to the geochemistry zonation of the estuary waters in the Tinto and Odiel rivers (Huelva, Spain).

PubMed

Grande, José Antonio; Borrego, José; de la Torre, Maria Luisa; Sáinz, A

2003-06-01

The combination of acid water from mines, industrial effluents and sea water plays a determining role in the evolutionary process of the chemical makeup of the water in the estuary of the Tinto and Odiel rivers. This estuary is in the southwest of the Iberian Peninsula and is one of the estuarine systems on the northwest coast of the Gulf of Cádiz. From the statistical treatment of data obtained by analyzing samples of water from this system, which is affected by industrial and mining pollution processes, we can see how the sampling points studied form two large groups depending on whether they receive tidal or fluvial influences. Fluvial input contributes acid water with high concentrations of heavy metal, whereas industrial effluents are responsible for the presence of phosphates, silica and other nutrients. The estuarine system of the Tinto and Odiel Rivers can be divided into three areas--the Tinto estuary, the Odiel estuary and the area of confluence--based on the physical--chemical characteristics of the water.

Exploring Computer Technology. The Illinois Plan for Industrial Education.

ERIC Educational Resources Information Center

Illinois State Univ., Normal.

This guide, which is one in the "Exploration" series of curriculum guides intended to assist junior high and middle school industrial educators in helping their students explore diverse industrial situations and technologies used in industry, deals with exploring computer technology. The following topics are covered in the individual…

Amoeba-Inspired Heuristic Search Dynamics for Exploring Chemical Reaction Paths.

PubMed

Aono, Masashi; Wakabayashi, Masamitsu

2015-09-01

We propose a nature-inspired model for simulating chemical reactions in a computationally resource-saving manner. The model was developed by extending our previously proposed heuristic search algorithm, called "AmoebaSAT [Aono et al. 2013]," which was inspired by the spatiotemporal dynamics of a single-celled amoeboid organism that exhibits sophisticated computing capabilities in adapting to its environment efficiently [Zhu et al. 2013]. AmoebaSAT is used for solving an NP-complete combinatorial optimization problem [Garey and Johnson 1979], "the satisfiability problem," and finds a constraint-satisfying solution at a speed that is dramatically faster than one of the conventionally known fastest stochastic local search methods [Iwama and Tamaki 2004] for a class of randomly generated problem instances [ http://www.cs.ubc.ca/~hoos/5/benchm.html ]. In cases where the problem has more than one solution, AmoebaSAT exhibits dynamic transition behavior among a variety of the solutions. Inheriting these features of AmoebaSAT, we formulate "AmoebaChem," which explores a variety of metastable molecules in which several constraints determined by input atoms are satisfied and generates dynamic transition processes among the metastable molecules. AmoebaChem and its developed forms will be applied to the study of the origins of life, to discover reaction paths for which expected or unexpected organic compounds may be formed via unknown unstable intermediates and to estimate the likelihood of each of the discovered paths.

Temporal Genetic Modifications after Controlled Cortical Impact—Understanding Traumatic Brain Injury through a Systematic Network Approach

PubMed Central

Wong, Yung-Hao; Wu, Chia-Chou; Wu, John Chung-Che; Lai, Hsien-Yong; Chen, Kai-Yun; Jheng, Bo-Ren; Chen, Mien-Cheng; Chang, Tzu-Hao; Chen, Bor-Sen

2016-01-01

Traumatic brain injury (TBI) is a primary injury caused by external physical force and also a secondary injury caused by biological processes such as metabolic, cellular, and other molecular events that eventually lead to brain cell death, tissue and nerve damage, and atrophy. It is a common disease process (as opposed to an event) that causes disabilities and high death rates. In order to treat all the repercussions of this injury, treatment becomes increasingly complex and difficult throughout the evolution of a TBI. Using high-throughput microarray data, we developed a systems biology approach to explore potential molecular mechanisms at four time points post-TBI (4, 8, 24, and 72 h), using a controlled cortical impact (CCI) model. We identified 27, 50, 48, and 59 significant proteins as network biomarkers at these four time points, respectively. We present their network structures to illustrate the protein–protein interactions (PPIs). We also identified UBC (Ubiquitin C), SUMO1, CDKN1A (cyclindependent kinase inhibitor 1A), and MYC as the core network biomarkers at the four time points, respectively. Using the functional analytical tool MetaCore™, we explored regulatory mechanisms and biological processes and conducted a statistical analysis of the four networks. The analytical results support some recent findings regarding TBI and provide additional guidance and directions for future research. PMID:26861311

HTLV-1 Tax Functions as a Ubiquitin E3 Ligase for Direct IKK Activation via Synthesis of Mixed-Linkage Polyubiquitin Chains.

PubMed

Wang, Chong; Long, Wenying; Peng, Chao; Hu, Lin; Zhang, Qiong; Wu, Ailing; Zhang, Xiaoqing; Duan, Xiaotao; Wong, Catherine C L; Tanaka, Yuetsu; Xia, Zongping

2016-04-01

The HTLV-1 oncoprotein Tax plays a key role in CD4+ T cell transformation by promoting cell proliferation and survival, mainly through permanent activation of the NK-κB pathway and induction of many NF-κB target genes. Elucidating the underlying molecular mechanism is therefore critical in understanding HTLV-1-mediated transformation. Current studies have suggested multiple but controversial mechanisms regarding Tax-induced IKK activation mainly due to blending of primary Tax-induced IKK activation events and secondary IKK activation events induced by cytokines secreted by the primary Tax-induced IKK-NF-κB activation events. We reconstituted Tax-stimulated IKK activation in a cell-free system to dissect the essential cellular components for primary IKK activation by Tax and studied the underlying biochemical mechanism. We found that Tax is a putative E3 ubiquitin ligase, which, together with UbcH2, UhcH5c, or UbcH7, catalyzes the assembly of free mixed-linkage polyubiquitin chains. These free mixed-linkage polyubiquitin chains are then responsible for direct IKK activation by binding to the NEMO subunit of IKK. Our studies revealed the biochemical function of Tax in the process of IKK activation, which utilizes the minimal cellular ubiquitination components for NF-κB activation.

HTLV-1 Tax Functions as a Ubiquitin E3 Ligase for Direct IKK Activation via Synthesis of Mixed-Linkage Polyubiquitin Chains

PubMed Central

Wang, Chong; Long, Wenying; Peng, Chao; Hu, Lin; Zhang, Qiong; Wu, Ailing; Zhang, Xiaoqing; Duan, Xiaotao; Wong, Catherine C. L.; Tanaka, Yuetsu; Xia, Zongping

2016-01-01

The HTLV-1 oncoprotein Tax plays a key role in CD4+ T cell transformation by promoting cell proliferation and survival, mainly through permanent activation of the NK-κB pathway and induction of many NF-κB target genes. Elucidating the underlying molecular mechanism is therefore critical in understanding HTLV-1-mediated transformation. Current studies have suggested multiple but controversial mechanisms regarding Tax-induced IKK activation mainly due to blending of primary Tax-induced IKK activation events and secondary IKK activation events induced by cytokines secreted by the primary Tax-induced IKK-NF-κB activation events. We reconstituted Tax-stimulated IKK activation in a cell-free system to dissect the essential cellular components for primary IKK activation by Tax and studied the underlying biochemical mechanism. We found that Tax is a putative E3 ubiquitin ligase, which, together with UbcH2, UhcH5c, or UbcH7, catalyzes the assembly of free mixed-linkage polyubiquitin chains. These free mixed-linkage polyubiquitin chains are then responsible for direct IKK activation by binding to the NEMO subunit of IKK. Our studies revealed the biochemical function of Tax in the process of IKK activation, which utilizes the minimal cellular ubiquitination components for NF-κB activation. PMID:27082114

Sumoylation of the net inhibitory domain (NID) is stimulated by PIAS1 and has a negative effect on the transcriptional activity of Net.

PubMed

Wasylyk, Christine; Criqui-Filipe, Paola; Wasylyk, Bohdan

2005-01-27

Net (Elk-3, Sap-2, Erp) and the related ternary complex factors Elk-1 and Sap-1 are effectors of multiple signalling pathways at the transcriptional level and play a key role in the dynamic regulation of gene expression. Net is distinct from Elk-1 and Sap-1, in that it is a strong repressor of transcription that is converted to an activator by the Ras/Erk signalling pathway. Two autonomous repression domains of Net, the NID and the CID, mediate repression. We have previously shown that the co-repressor CtBP is implicated in repression by the CID. In this report we show that repression by the NID involves a different pathway, sumoylation by Ubc9 and PIAS1. PIAS1 interacts with the NID in the two-hybrid assay and in vitro. Ubc9 and PIAS1 stimulate sumoylation in vivo of lysine 162 in the NID. Sumoylation of lysine 162 increases repression by Net and decreases the positive activity of Net. These results increase our understanding of how one of the ternary complex factors regulates transcription, and contribute to the understanding of how different domains of a transcription factor participate in the complexity of regulation of gene expression.

Regional soil geochemistry in the Ojailen Valley: a realm dominated by the industrial and mining city of Puertollano (South Central Spain)

NASA Astrophysics Data System (ADS)

López-Berdonces, Miguel; Fernandez-Calderón, Sergio; Higueras, Pablo; María Esbrí, Jose; Gonzalez-Corrochano, Beatríz; García-Noguero, Eva Mª; Martínez-Coronado, Alba; García-Noguero, Carolina

2013-04-01

Regional soil geochemistry in the Ojailén Valley: a realm dominated by the industrial and mining city of Puertollano (South Central Spain). Authors: Miguel A. López-Berdonces¹; Sergio Fernández Calderón¹; Pablo Higueras¹; José María Esbrí¹; Beatriz González-Corrochano¹; Eva Mª García-Noguero¹; Alba Martínez-Coronado¹; Carolina García Noguero¹ ¹Instituto de Geología Aplicada, Universidad de Castilla La Mancha, Almadén 13400 (Spain). Ojailén Valley is situated in South Central of Spain, an area where livestock, agriculture, mining and industry coexist. This work tries to assess the relationships between these activities and local environmental compartments: water, soils and heavy metal contents, and establish the most appropriate methodology of sample treatment and analytical techniques that can be employed on this kind of studies. For soil geochemistry, 152 samples were taken at two different depths, one at surface layer and another at 20 cm depth, and establish relationships between them and the possible sources. For this purpose, we determine soil parameters (pH, conductivity and organic matter) and total metal contents by Energy Dispersion of X Ray Fluorescence (EDXRF). Samples with higher nickel contents were analyzed with Inductive Coupled Plasma Spectroscopy (ICP-OES) after acid digestion. The study of surface waters includes 18 samples along the river and tributaries near mining and industrial areas. Water analysis was performed by ICP-OES. Soil samples shows pH between 6 and 8.5, highest located near on the east part of the valley, in the vicinity of petrochemical complex. Conductivity values show higher levels (1600 µS cm¯¹) in the vicinity of Puertollano and the industrial sites. Local reference value (LRV) for contaminated soils were determined according to the methodology proposed by Jimenez-Ballesta et al. (2010), using the equation: LRV=GM + 2SD, where LRV: Local Reference Value, GM: Geometric Mean, SD: Standard Deviation. Trace metals values are significantly higher than calculated LRV, especially for Zn, Pb, (Average content: 230 mg kg¯¹ and 249.9 mg kg¯¹ respectively), probable due to Pb-Zn mining in the nearest Alcudia valley. Other elements seem to be influenced by petrochemical industry (Ni, V, and Cu) with LRV: 199.9 mg kg¯¹, 39.2 mg kg¯¹ and 184.2 mg kg¯¹ respectively. Most water samples have metal contents higher than levels for drinking water (WHO, 2006), especially Fe and Pb with 20 µg l¯¹ and 10 µg l¯¹ respectively. Higher metal contents were located on three different sites: downstream an open-pit coal mine, in stagnant water where we can find an old sewage treatment plant, and downstream a photovoltaic plant built in 2008. We can consider that Ojailén Valley is not an area with high contents in heavy metals in the environment, but Puertollano and its petrochemical complex have contents in Pb, Zn, Cu, As, Ni above the LRV. A comparison of results obtained by ICP-MS and XRF related to Pb, Zn, Cr, Ni in thirty-four selected samples, we can conclude that both techniques are qualitatively agree, although XRF cannot be considered suitable for establishing reference legal limits. References Jiménez-Ballesta, R; Conde-Bueno,P; Martin-Rubí,J.A.; García-Jímenez,R. 2010. Geochemical baseline contents levels and soil quality reference values of trace elements in soils from the Mediterranean (Castilla-La Mancha, Spain). Central European Journal of Geosciences 2, 441-454. WHO2006. Guidelines for drinking- water quality, Vol.1, 3rd edition incorporating 1st and 2nd addenda. (http//www.who.int/entity/water_sanitation_health/dwq/fulltext.pdf) Geneve, Suiza.

Geochemical Analysis of Parasequences within the Productive Middle Member of the Eagle Ford Formation at Lozier Canyon near Del Rio, Texas

NASA Astrophysics Data System (ADS)

Shane, Timothy E.

The middle member of the Eagle Ford formation is a heterogeneous, carbonate-shale unit that is a focus of unconventional oil and gas exploration in southern Texas. Exploration results have been mixed because of the apparent heterogeneity of the member. In this study, the extent of heterogeneities in the Eagle Ford on the "bedding-scale" were examined by evaluating changes in organic and inorganic geochemistry. Samples were collected vertically in outcrop covering four non-consecutive parasequences. These samples were analyzed using a Rock Eval 6 Analyzer(TM) to determine source rock generative potential and a Niton(TM) XRF to evaluate inorganic geochemistry to identify changes in paleoredox conditions, paleoproductivity, and clastic influx. From pyrolysis data, it is determined that Parasequence 1 potentially displays an increase in source rock potential, Parasequence 2 potentially displays a constant source rock potential, and Parasequences 3 and 4 potentially display overall decreases in source rock potential during deposition. From the inferred paleoredox conditions, paleoproductivity, and clastic influx, it is determined that Parasequence 1 experienced a potential increase in oxygen abundance, Parasequence 2 experienced a potential decrease in oxygen abundance, and Parasequences 3 and 4 potentially experienced increases in oxygen abundance during deposition. It is concluded that geochemical heterogeneities do exist on a bedding scale within the parasequences of the middle member of the Eagle Ford. Additional comprehensive sampling and analysis is recommended in the future in order to tie these data to subsurface data for economic application.

Multispectral color photography for mineral exploration by the remote sensing of biogeochemical anomalies

NASA Technical Reports Server (NTRS)

Yost, E.

1975-01-01

Selected band multispectral photography was evaluated as a mineral exploration tool by detecting stress on trees caused by underground mineralization. Ground truth consisted of two test sites in the Prescott National Forest within which the mineralization had been established by a drilling program. Species of trees were categorized as background, intermediate, and anomalous based upon where they grew with respect to this underlying mineralization. Soil geochemistry and the metal content of ashed samples of the trees were studied in relation to the inferred locus of mineralization. Computer analysis of the reflectance spectra of mineralized trees confirmed that the relative percent reflectance differences of trees growing in anomalous areas was less than that of the same tree species growing in background areas.

Alaska Geothermal Sites Map and Database: Bringing together legacy and new geothermal data for research, exploration and development

NASA Astrophysics Data System (ADS)

Clough, J. G.; Harun, N. T.; Hughes, C. A.; Weakland, J. R.; Cameron, C. E.

2013-12-01

Geothermal exploration activities in Alaska from the late 1970s into the 1980s generated vast quantities of scientific data that currently is in unpublished, forgotten and obscure, as well as published formats. Alaska has 61 hot springs (hotter than 50°C) and 34 'warm to cool springs' (cooler than 50°C). Thirty-seven thermal springs are located within the Aleutian and Alaska Peninsula volcanic arc into and are related to elevated heat flows in areas of arc volcanism as well as crustal scale faults associated with accretionary tectonism. The central interior belt that extends from the Seward Peninsula to Circle Hot Springs contains 37 thermal springs that formed due to mostly extensional tectonic forces. An additional 17 thermal springs are in southeast Alaska and 4 are in the Wrangell Mountains. A new cycle of geothermal exploration is underway in Alaska and is producing a wealth of new geothermal data. The Alaska Division of Geological and Geophysical Surveys (ADGGS), funded by the National Geothermal Data System, is compiling both new and legacy geothermal data into a comprehensive database accessible on the ADGGS website. ADGGS has created a new ';Geothermal Sites of Alaska Map' and associated database that includes data on geothermal hot springs, direct use of geothermal resources, volcanic vents, aqueous geochemistry, borehole temperatures, core descriptions, rock chemistry, earthquakes in proximity to hot springs, and active faults. Geothermal hot springs includes locality, temperature, flow rate, sources and related resources. Direct use of geothermal resources contains facilities, capacity, energy use, temperature, flow rate and contact information from geothermal hot springs that are or have recently been used for recreational use, space heating, agricultural or energy use. Volcanic vents records 395 volcanic vents and fumaroles throughout the state that are Holocene or younger. It includes their age, location, elevation, geologic history, composition, and information source. Aqueous geochemistry, a compilation of aqueous chemistry, free gas and isotopes analyses. Aqueous geochemical analyses consist of 407 aqueous geochemical analyses from 85 geothermal sites throughout Alaska. This template also includes 106 free gas analyses from 31 geothermal sites. Isotopic analyses (285) of waters from 42 geothermal sites are also contained in this geochemical data. Borehole temperature data from geothermal, and oil and gas wells are presented along with thermal depth profiles where available. Earthquakes in proximity to hot springs consists of 1,975 earthquakes that are within 5 km of thermal hot springs and may be used to detect underground movement of thermal waters. Active faults comprises active faults across Alaska (1,527) including fault type, location, orientation and slip rate. Additionally, a new comprehensive and searchable Alaska geothermal bibliography, with links to downloadable reference sources was created during this study. The completed Alaska geothermal sites map and database will be accessible to the public and industry and will enable research and development of geothermal sites in Alaska.

Exploring Solar Energy. The Illinois Plan for Industrial Education.

ERIC Educational Resources Information Center

Illinois State Univ., Normal.

This packet is one in the "Exploration" series of curriculum materials developed for junior high and middle school industrial educators. The Exploration Series is intended to help them provide seventh- and eighth-grade students an opportunity to explore a wide range of industrial situations as well as some of the technologies used in the industry.…

The Effect of Automation on Job Duties, Classifications, Staffing Patterns, and Labor Costs in the UBC Library's Cataloguing Divisions: A Comparison of 1973 and 1986.

ERIC Educational Resources Information Center

de Bruijn, Erik

This report discusses an ex post facto study that was done to examine the effect that the implementation of automated systems has had on libraries and support staff, labor costs, and productivity in the cataloging divisions of the library of the University of British Columbia. A comparison was made between two years: 1973, a pre-automated period…

Analytical/Experimental Investigation of Corpuscular Radiation Detectors

DTIC Science & Technology

1985-09-15

exchange of charged intermediate vector bosons but he could only speculate that neutral vector bosons might also contribute. Today we know from high energy...large value of the neutral-current cross section due to coherence indicates a detector would be relatively light and suggests the possibility of a...more PC (best IBM compatible with STD bus). An important element in the UBC program is possibility to use facilities of Canadian Meson Factory - Triumf

Multi-filter spectrophotometry simulations

NASA Technical Reports Server (NTRS)

Callaghan, Kim A. S.; Gibson, Brad K.; Hickson, Paul

1993-01-01

To complement both the multi-filter observations of quasar environments described in these proceedings, as well as the proposed UBC 2.7 m Liquid Mirror Telescope (LMT) redshift survey, we have initiated a program of simulated multi-filter spectrophotometry. The goal of this work, still very much in progress, is a better quantitative assessment of the multiband technique as a viable mechanism for obtaining useful redshift and morphological class information from large scale multi-filter surveys.

BC University Outcomes for Direct Entry and Transfer Students: Comparison of the Class of 2000 and Class of 1996 Five Years after Graduation. Research Results

ERIC Educational Resources Information Center

Karlinski, Jean

2007-01-01

The University of British Columbia's Planning and Institutional Research office prepared a research report for the BC Council on Admissions and Transfer (BCCAT) on the BC university graduating class of 1996 five years later. The report compared the outcomes for those students who were admitted to SFU, UBC, UNBC, and UVic as BC direct entry with…

Geo-Coding for the Mapping of Documents and Social Media Messages

DTIC Science & Technology

2013-08-22

O.L. (2007). UBC-ALM: Combining KNN with SVD for WSD. Proceedings of the 4th International Workshop on Semantic Evaluations (SemEval-2007), Prague...and Yarowsky, D. (1992). One sense per discourse. In Proceedings of the 4th DARPA Speech and Natural Language Workshop. pp. 233-237, 1992. Retrieved...Part-of- Speech Tagging for Twitter: Annotation, Features, and Experiments. Proceedings of the Annual Meeting of the Association for Computational

Peacekeeping: A Selected Bibliography

DTIC Science & Technology

2009-07-01

Rwanda. New York: Carroll & Graf, 2005. 562pp. (DT450.435 .D14 2005) Dawson, Grant. “Here Is Hell”: Canada‟ s Engagement in Somalia. Vancouver: UBC...5c. PROGRAM ELEMENT NUMBER 6. AUTHOR( S ) Jeanette Moyer 5d. PROJECT NUMBER 5e. TASK NUMBER 5f. WORK UNIT NUMBER 7. PERFORMING ORGANIZATION NAME... S ) AND ADDRESS(ES) U.S. Army War College ,122 Forbes Ave.,Carlisle,PA,17013-5220 8. PERFORMING ORGANIZATION REPORT NUMBER 9. SPONSORING/MONITORING

Exploration review

USGS Publications Warehouse

Wilburn, D.R.; Vasil, R.L.; Nolting, A.

2011-01-01

This summary of international mineral exploration activities for the year 2010 draws upon available information from industry sources, published literature and U.S. Geological Survey (USGS) specialists. The summary provides data on exploration budgets by region and mineral commodity, identifies significant mineral discoveries and areas of mineral exploration, discusses government programs affecting the mineral exploration industry and presents analyses of exploration activities performed by the mineral industry.

Impact of Phosphogypsum waste on the Geochemistry of the coastal water of Ghannouche -Gabes (SE of Tunisia).

NASA Astrophysics Data System (ADS)

Ben Amor, R.; Fathallah, S.; Gueddari, M.

2009-04-01

Impact of Phosphogypsum waste on the Geochemistry of the coastal water of Ghannouche -Gabes (SE of Tunisia). R. Ben Amor, S. Fathallah, M. Gueddari (R.U. of Geochemistry and of Environmental Geology, Faculty of Sciences of Tunis, Department of Geology, 2092 Manar I) Corresponding author: R. Ben Amor; E-mail:magba_rim@yahoo.fr The littoral Ghannouche - Gabes (SE of Tunisia), has been known since the 1970's, an important industrialization especially after the installation of the chemical complex for the treatment of phosphates. These industries are at the origin of various waste materials, the most significant one is phosphogypsum (PG) which is released into the sea. The aim of this paper is to identify and to analyze the different entropic and natural factors, which govern the chemical composition in major elements, dissolved oxygen, pH and temperature of Ghannouche -Gabes coastal water, while studying, in particular, the impact of PG waste on the spatial distribution of these parameters. The result of the chemical analyses of the samples taken in June 2003, show that Na, K and Cl are conserved in solution and they evolve with constant Na/Cl and K/Cl ratio. The values of these ratios are similar to sea water average. The concentration of the other elements are controlled, first, by processes of precipitation or dissolution of the carbonated (Ca, Mg and HCO3) or sulphated (Ca and SO4) minerals, and second, by dilution or evaporation phenomena and by the phosphogypsum waste. The spatial distribution of these elements, of the pH, the dissolved oxygen and the temperature and the result of the saturation index with respect to calcite, gypsum and fluorite, by using of the PhreeqC program, show that the zone, located at north of the study area, between the commercial and the fishing port, is highly influenced by the PG waste. In this area, where the PG is released and which is relatively sheltered by the dams of the commercial and fishing port, waters are characterised by the highest temperatures values, and the lowest pH and the dissolved oxygen values. This water is supersaturated with respect to the fluorite, under saturated with respect to CaCO3 and gypsum. In this zone, the poured gypsum undergoes a quasi-total dissolution. This dissolution would be supported by the acidity of water and the highest temperature values. Keywords: Major ions - Sea water - Phosphogypsum - Saturation indices - Gulf of Gabes - Tunisia.

Hydrocarbon Source Rocks in the Deep River and Dan River Triassic Basins, North Carolina

USGS Publications Warehouse

Reid, Jeffrey C.; Milici, Robert C.

2008-01-01

This report presents an interpretation of the hydrocarbon source rock potential of the Triassic sedimentary rocks of the Deep River and Dan River basins, North Carolina, based on previously unpublished organic geochemistry data. The organic geochemical data, 87 samples from 28 drill holes, are from the Sanford sub-basin (Cumnock Formation) of the Deep River basin, and from the Dan River basin (Cow Branch Formation). The available organic geochemical data are biased, however, because many of the samples collected for analyses by industry were from drill holes that contained intrusive diabase dikes, sills, and sheets of early Mesozoic age. These intrusive rocks heated and metamorphosed the surrounding sediments and organic matter in the black shale and coal bed source rocks and, thus, masked the source rock potential that they would have had in an unaltered state. In places, heat from the intrusives generated over-mature vitrinite reflectance (%Ro) profiles and metamorphosed the coals to semi-anthracite, anthracite, and coke. The maximum burial depth of these coal beds is unknown, and depth of burial may also have contributed to elevated thermal maturation profiles. The organic geochemistry data show that potential source rocks exist in the Sanford sub-basin and Dan River basin and that the sediments are gas prone rather than oil prone, although both types of hydrocarbons were generated. Total organic carbon (TOC) data for 56 of the samples are greater than the conservative 1.4% TOC threshold necessary for hydrocarbon expulsion. Both the Cow Branch Formation (Dan River basin) and the Cumnock Formation (Deep River basin, Sanford sub-basin) contain potential source rocks for oil, but they are more likely to have yielded natural gas. The organic material in these formations was derived primarily from terrestrial Type III woody (coaly) material and secondarily from lacustrine Type I (algal) material. Both the thermal alteration index (TAI) and vitrinite reflectance data (%Ro) indicate levels of thermal maturity suitable for generation of hydrocarbons. The genetic potential of the source rocks in these Triassic basins is moderate to high and many source rock sections have at least some potential for hydrocarbon generation. Some data for the Cumnock Formation indicate a considerably higher source rock potential than the basin average, with S1 + S2 data in the mid-20 mg HC/g sample range, and some hydrocarbons have been generated. This implies that the genetic potential for all of these strata may have been higher prior to the igneous activity. However, the intergranular porosity and permeability of the Triassic strata are low, which makes fractured reservoirs more attractive as drilling targets. In some places, gravity and magnetic surveys that are used to locate buried intrusive rock may identify local thermal sources that have facilitated gas generation. Alternatively, awareness of the distribution of large intrusive igneous bodies at depth may direct exploration into other areas, where thermal maturation is less than the limits of hydrocarbon destruction. Areas prospective for natural gas also contain large surficial clay resources and any gas discovered could be used as fuel for local industries that produce clay products (principally brick), as well as fuel for other local industries.

Geochemistry of groundwater in the Beaver and Camas Creek drainage basins, eastern Idaho

USGS Publications Warehouse

Rattray, Gordon W.; Ginsbach, Michael L.

2014-01-01

The U.S. Geological Survey (USGS), in cooperation with the U.S. Department of Energy, is studying the fate and transport of waste solutes in the eastern Snake River Plain (ESRP) aquifer at the Idaho National Laboratory (INL) in eastern Idaho. This effort requires an understanding of the natural and anthropogenic geochemistry of groundwater at the INL and of the important physical and chemical processes controlling the geochemistry. In this study, the USGS applied geochemical modeling to investigate the geochemistry of groundwater in the Beaver and Camas Creek drainage basins, which provide groundwater recharge to the ESRP aquifer underlying the northeastern part of the INL. Data used in this study include petrology and mineralogy from 2 sediment and 3 rock samples, and water-quality analyses from 4 surface-water and 18 groundwater samples. The mineralogy of the sediment and rock samples was analyzed with X-ray diffraction, and the mineralogy and petrology of the rock samples were examined in thin sections. The water samples were analyzed for field parameters, major ions, silica, nutrients, dissolved organic carbon, trace elements, tritium, and the stable isotope ratios of hydrogen, oxygen, carbon, sulfur, and nitrogen. Groundwater geochemistry was influenced by reactions with rocks of the geologic terranes—carbonate rocks, rhyolite, basalt, evaporite deposits, and sediment comprised of all of these rocks. Agricultural practices near and south of Dubois and application of road anti-icing liquids on U.S. Interstate Highway 15 were likely sources of nitrate, chloride, calcium, and magnesium to groundwater. Groundwater geochemistry was successfully modeled in the alluvial aquifer in Camas Meadows and the ESRP fractured basalt aquifer using the geochemical modeling code PHREEQC. The primary geochemical processes appear to be precipitation or dissolution of calcite and dissolution of silicate minerals. Dissolution of evaporite minerals, associated with Pleistocene Lake Terreton, is an important contributor of solutes in the Mud Lake-Dubois area. Oxidation-reduction reactions are important influences on the chemistry of groundwater at Camas Meadows and the Camas National Wildlife Refuge. In addition, mixing of different groundwaters or surface water with groundwater appears to be an important physical process influencing groundwater geochemistry in much of the study area, and evaporation may be an important physical process influencing the groundwater geochemistry of the Camas National Wildlife Refuge. The mass-balance modeling results from this study provide an explanation of the natural geochemistry of groundwater in the ESRP aquifer northeast of the INL, and thus provide a starting point for evaluating the natural and anthropogenic geochemistry of groundwater at the INL.

Exploring Electricity/Electronics. The Illinois Plan for Industrial Education.

ERIC Educational Resources Information Center

Illinois State Univ., Normal.

This guide, which is one in the "Exploration" series of curriculum guides intended to assist junior high and middle school industrial educators in helping their students explore diverse industrial situations and technologies used in industry, deals with electricity and electronics. The following topics are covered in the individual lessons: the…

Exploration

USGS Publications Warehouse

Wilburn, D.R.

1997-01-01

This summary of international nonfuel mineral exploration activities for 1996 uses available data from literature, industry, and US Geological Survey (USGS) specialists. Data on exploration budgets by region and commodity are reported, significant mineral discoveries and exploration target areas are identified and government programs affecting the mineral exploration industry are discussed. Inferences and observations on minerals industry direction are drawn from these data.

Exploration

USGS Publications Warehouse

Wilburn, D.R.; Porter, K.E.

1999-01-01

This summary of international nonfuel mineral exploration activities for 1998 draws on available data from literature, industry and US Geological Survey (USGS) specialists. Data on exploration budgets by region and commodity are reported, significant mineral discoveries and exploration target areas are identified and government programs affecting the mineral exploration industry are discussed. Inferences and observations on mineral industry direction are drawn from these data and discussions.

Exploration

USGS Publications Warehouse

Wilburn, D.R.

1998-01-01

This summary of international nonfuel mineral exploration activities for 1997 draws upon available data from literature, industry and US Geological Sulvey (USGS) specialists. Data on exploration budgets by region and commodity are reported, significant mineral discoveries and exploration target areas are identified and government programs affecting the mineral exploration industry are discussed. Inferences and observations on mineral industry direction are drawn from these data and discussions.

Selection and Validation of Appropriate Reference Genes for Quantitative Real-Time PCR Analysis of Gene Expression in Lycoris aurea

PubMed Central

Ma, Rui; Xu, Sheng; Zhao, Yucheng; Xia, Bing; Wang, Ren

2016-01-01

Lycoris aurea (L' Hér.) Herb, a perennial grass species, produces a unique variety of pharmacologically active Amaryllidaceae alkaloids. However, the key enzymes and their expression pattern involved in the biosynthesis of Amaryllidaceae alkaloids (especially for galanthamine) are far from being fully understood. Quantitative real-time polymerase chain reaction (qRT-PCR), a commonly used method for quantifying gene expression, requires stable reference genes to normalize its data. In this study, to choose the appropriate reference genes under different experimental conditions, 14 genes including YLS8 (mitosis protein YLS8), CYP2 (Cyclophilin 2), CYP 1 (Cyclophilin 1), TIP41 (TIP41-like protein), EXP2 (Expressed protein 2), PTBP1 (Polypyrimidine tract-binding protein 1), EXP1 (Expressed protein 1), PP2A (Serine/threonine-protein phosphatase 2A), β-TUB (β-tubulin), α-TUB (α-tubulin), EF1-α (Elongation factor 1-α), UBC (Ubiquitin-conjugating enzyme), ACT (Actin) and GAPDH (Glyceraldehyde 3-phosphate dehydrogenase) were selected from the transcriptome datasets of L. aurea. And then, expressions of these genes were assessed by qRT-PCR in various tissues and the roots under different treatments. The expression stability of the 14 candidates was analyzed by three commonly used software programs (geNorm, NormFinder, and BestKeeper), and their results were further integrated into a comprehensive ranking based on the geometric mean. The results show the relatively stable genes for each subset as follows: (1) EXP1 and TIP41 for all samples; (2) UBC and EXP1 for NaCl stress; (3) PTBP1 and EXP1 for heat stress, polyethylene glycol (PEG) stress and ABA treatment; (4) UBC and CYP2 for cold stress; (5) PTBP1 and PP2A for sodium nitroprusside (SNP) treatment; (6) CYP1 and TIP41 for methyl jasmonate (MeJA) treatment; and (7) EXP1 and TIP41 for various tissues. The reliability of these results was further enhanced through comparison between part qRT-PCR result and RNA sequencing (RNA-seq) data. In summary, our results identified appropriate reference genes for qRT-PCR in L. aurea, and will facilitate gene expression studies under these conditions. PMID:27200013

Geochemistry

ERIC Educational Resources Information Center

Ailin-Pyzik, Iris B.; Sommer, Sheldon E.

1977-01-01

Enumerates some of the research findings in geochemistry during the last year, including X-ray analysis of the Mars surface, trace analysis of fresh and esterarine waters, and analysis of marine sedements. (MLH)

Diamonds: Exploration, mines and marketing

NASA Astrophysics Data System (ADS)

Read, George H.; Janse, A. J. A. (Bram)

2009-11-01

The beauty, value and mystique of exceptional quality diamonds such as the 603 carat Lesotho Promise, recovered from the Letseng Mine in 2006, help to drive a multi-billion dollar diamond exploration, mining and marketing industry that operates in some 45 countries across the globe. Five countries, Botswana, Russia, Canada, South Africa and Angola account for 83% by value and 65% by weight of annual diamond production, which is mainly produced by four major companies, De Beers, Alrosa, Rio Tinto and BHP Billiton (BHPB), which together account for 78% by value and 72% by weight of annual diamond production for 2007. During the last twelve years 16 new diamond mines commenced production and 4 re-opened. In addition, 11 projects are in advanced evaluation and may begin operations within the next five years. Exploration for diamondiferous kimberlites was still energetic up to the last quarter of 2008 with most work carried out in Canada, Angola, Democratic Republic of the Congo (DRC) and Botswana. Many kimberlites were discovered but no new economic deposits were outlined as a result of this work, except for the discovery and possible development of the Bunder project by Rio Tinto in India. Exploration methods have benefitted greatly from improved techniques of high resolution geophysical aerial surveying, new research into the geochemistry of indicator minerals and further insights into the formation of diamonds and the relation to tectonic/structural events in the crust and mantle. Recent trends in diamond marketing indicate that prices for rough diamonds and polished goods were still rising up to the last quarter of 2008 and subsequently abruptly sank in line with the worldwide financial crisis. Most analysts predict that prices will rise again in the long term as the gap between supply and demand will widen because no new economic diamond discoveries have been made recently. The disparity between high rough and polished prices and low share prices of publicly traded diamond companies may be due to investors losing patience with the slow pace or absence of new promising discoveries and switching into shares of base metals and fertilizers for agriculture (potash and phosphates).

Origins of organic geochemistry

USGS Publications Warehouse

Kvenvolden, K.A.

2008-01-01

When organic geochemistry actually began as a recognized geoscience is a matter of definition and perspective. Constraints on its beginning are placed by the historical development of its parent disciplines, geology and organic chemistry. These disciplines originated independently and developed in parallel, starting in the latter half of the 18th century and flourishing thereafter into the 21st century. Organic geochemistry began sometime between 1860 and 1983; I argue that 1930 is the best year to mark its origin.

Geochemistry of Surface and Ground Water in Cement Creek from Gladstone to Georgia Gulch and in Prospect Gulch, San Juan County, Colorado

USGS Publications Warehouse

Johnson, Raymond H.; Wirt, Laurie; Manning, Andrew H.; Leib, Kenneth J.; Fey, David L.; Yager, Douglas B.

2007-01-01

In San Juan County, Colo., the effects of historical mining continue to contribute metals to ground water and surface water. Previous research by the U.S. Geological Survey identified ground-water discharge as a significant pathway for the loading of metals to surface water in the upper Animas River watershed from both acid-mine drainage and acid-rock drainage. In support of this ground-water research effort, Prospect Gulch was selected for further study and the geochemistry of surface and ground water in the area was analyzed as part of four sampling plans: (1) ten streamflow and geochemistry measurements at five stream locations (four locations along Cement Creek plus the mouth of Prospect Gulch from July 2004 through August 2005), (2) detailed stream tracer dilution studies in Prospect Gulch and in Cement Creek from Gladstone to Georgia Gulch in early October 2004, (3) geochemistry of ground water through sampling of monitoring wells, piezometers, mine shafts, and springs, and (4) samples for noble gases and tritium/helium for recharge temperatures (recharge elevation) and ground-water age dating. This report summarizes all of the surface and ground-water data that was collected and includes: (1) all sample collection locations, (2) streamflow and geochemistry, (3) ground-water geochemistry, and (4) noble gas and tritium/helium data.

Exploration

USGS Publications Warehouse

Wilburn, D.R.

2000-01-01

This summary of international nonfuel mineral exploration activities for 1999 draws upon available data from literature, industry and US Geological Survey (USGS) specialists. The report documents data on exploration budgets by region and commodity and identifies significant mineral discoveries and exploration target areas. It also discusses government programs affecting the mineral exploration industry. And it presents inferences and observations on mineral industry direction based on these data and discussions.

Conception of the Natural World.

PubMed

Bruno, Andy

2016-09-01

Thoroughly a product of imperial Russia’s aristocratic culture, the mineralogist and geochemist Aleksandr Fersman rose to the top of the country’s scientific establishment after the Bolsheviks took control. He then remained a staunch supporter of various industrial projects through much of the Stalinist period. This essay puts Fersman’s thinking about the natural world in conversation with a quite distinctive mode of intellectual inquiry that developed contemporaneously. Eurasianism was a philosophical doctrine of a group of Russian émigrés who emphasized Russia’s unique status straddling Europe and Asia. While Fersman did not belong to this group of thinkers, a number of his ideas drew on specific experiences in the environments of the Eurasian landmass. Indeed, the article argues that Fersman’s dualistic understanding of nature, his advocacy for the field of geochemistry, his definition of deserts, and a scheme he proposed for industrial operations owed much to the Eurasian settings of the science he practiced. Furthermore, this case of a Eurasian mineralogist illuminates novel aspects of the interplay between national and global sciences.

Geochemistry of coalbed gas - a review

USGS Publications Warehouse

Clayton, J.L.

1998-01-01

Coals are both sources and reservoirs of large amounts of gas that has received increasing attention in recent years as a largely untapped potential energy resource. Coal mining operations, such as ventilation of coalbed gas from underground mines, release coalbed CH4 into the atmosphere, an important greehouse gas whose concentration in the atmosphere is increasing. Because of these energy and environmental issues, increased research attention has been focused on the geochemistry of coalbed gas in recent years. This paper presents a summary review of the main aspects of coalbed gas geochemistry and current research advances.Coals are both sources and reservoirs of large amounts of gas that has received increasing attention in recent years as a largely untapped potential energy resource. Coal mining operations, such as ventilation of coalbed gas from underground mines, release coalbed CH4 into the atmosphere, an important greenhouse gas whose concentration in the atmosphere is increasing. Because of these energy and environmental issues, increased research attention has been focused on the geochemistry of coalbed gas in recent years. This paper presents a summary review of the main aspects of coalbed gas geochemistry and current research advances.

Geology and surface geochemistry of the Roosevelt Springs Known Geothermal Resource Area, Utah

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lovell, J.S.; Meyer, W.T.; Atkinson, D.J.

1980-01-01

Available data on the Roosevelt area were synthesized to determine the spatial arrangement of the rocks, and the patterns of mass and energy flow within them. The resulting model lead to a new interpretation of the geothermal system, and provided ground truth for evaluating the application of soil geochemistry to exploration for concealed geothermal fields. Preliminary geochemical studies comparing the surface microlayer to conventional soil sampling methods indicated both practical and chemical advantages for the surface microlayer technique, which was particularly evident in the case of As, Sb and Cs. Subsequent multi-element analyses of surface microlayer samples collected over anmore » area of 100 square miles were processed to produce single element contour maps for 41 chemical parameters. Computer manipulation of the multi-element data using R-mode factor analysis provided the optimum method of interpretation of the surface microlayer data. A trace element association of As, Sb and Cs in the surface microlayer provided the best indication of the leakage of geothermal solutions to the surface, while regional mercury trends may reflect the presence of a mercury vapour anomaly above a concealed heat source.« less

Protection by Purines in Toxin Models of Parkinson’s Disease

DTIC Science & Technology

2013-07-01

non- fat dry milk in Tris buffered saline, 0.1% TWEEN-20). To detect urate transporter expression membranes were probed overnight with the following...11-1-0150 Annual Report (Year 2) 7 Fig 2. UOx protein in UBC-cre UOxflox/flox and control NTg UOxflox/flox mice treated with...UOx protein in liver was detected by Western blot. Band density was analyzed using Image J. Results were expressed as relative density to loading

Myrciaria dubia, an Amazonian fruit: population structure and its implications for germplasm conservation and genetic improvement.

PubMed

Nunes, C F; Setotaw, T A; Pasqual, M; Chagas, E A; Santos, E G; Santos, D N; Lima, C G B; Cançado, G M A

2017-03-22

Myrciaria dubia (camu-camu) is an Amazon tree that produces a tart fruit with high vitamin C content. It is probably the fruit with the highest vitamin C content among all Brazilian fruit crops and it can be used to supplement daily vitamin C dose. This property has attracted the attention of consumers and, consequently, encouraged fruit farmers to produce it. In order to identify and select potential accessions for commercial exploitation and breeding programs, M. dubia has received considerable research attention. The identification and characterization of genetic diversity, as well as identification of the population structure of accessions preserved in germplasm banks are fundamental for the success of any breeding program. The objective of this study was to evaluate the genetic variability of 10 M. dubia populations obtained from the shores of Reis Lake, located in the municipality of Caracaraí, Roraima, Brazil. Fourteen polymorphic inter simple sequence repeat (ISSR) markers were used to study the population genetic diversity, which resulted in 108 identified alleles. Among the 14 primers, GCV, UBC810, and UBC827 produced the highest number of alleles. The study illustrated the suitability and efficiency of ISSR markers to study the genetic diversity of M. dubia accessions. We also revealed the existence of high genetic variability among both accessions and populations that can be exploited in future breeding programs and conservation activities of this species.

Sumoylation of the Tumor Suppressor Promyelocytic Leukemia Protein Regulates Arsenic Trioxide-Induced Collagen Synthesis in Osteoblasts.

PubMed

Xu, Wen-Xiao; Liu, Sheng-Zhi; Wu, Di; Qiao, Guo-Fen; Yan, Jinglong

2015-01-01

Promyelocytic leukemia (PML) protein is a tumor suppressor that fuses with retinoic acid receptor-α (PML-RARα) to contribute to the initiation of acute promyelocytic leukemia (APL). Arsenic trioxide (ATO) upregulates expression of TGF-β1, promoting collagen synthesis in osteoblasts, and ATO binds directly to PML to induce oligomerization, sumoylation, and ubiquitination. However, how ATO upregulates TGF-β1 expression is uncertain. Thus, we suggested that PML sumoylation is responsible for regulation of TGF-β1 protein expression. Kunming mice were treated with ATO, and osteoblasts were counted under scanning electron microscopy. Masson's staining was used to quantify collagen content. hFOB1.19 cells were transfected with siRNA against UBC9 or RNF4, and then treated with ATO or FBS. TGF-β1, PML expression, and sumoylation were quantified with Western blot, and collagen quantified via immunocytochemistry. ATO enhanced osteoblast accumulation, collagen synthesis, and PML-NB formation in vivo. Knocking down UBC9 in hFOB1.19 cells inhibited ATO- and FBS-induced PML sumoylation, TGF-β1 expression, and collagen synthesis. Conversely, knocking down RNF4 enhanced ATO- and FBS-induced PML sumoylation, TGF-β1 expression, and collagen synthesis. These data suggest that PML sumoylation is required for ATO-induced collagen synthesis in osteoblasts. © 2015 S. Karger AG, Basel.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhu Shanshan; Zhang Hong; Matunis, Michael J.

SUMOs (small ubiquitin-related modifiers) are eukaryotic proteins that are covalently conjugated to other proteins and thereby regulate a wide range of important cellular processes. The molecular mechanisms by which SUMO modification influences the functions of most target proteins and cellular processes, however, remain poorly defined. A major obstacle to investigating the effects of SUMO modification is the availability of a system for selectively inducing the modification or demodification of an individual protein. To address this problem, we have developed a procedure using the rapamycin heterodimerizer system. This procedure involves co-expression of rapamycin-binding domain fusion proteins of SUMO and candidate SUMOmore » substrates in living cells. Treating cells with rapamycin induces a tight association between SUMO and a single SUMO substrate, thereby allowing specific downstream effects to be analyzed. Using RanGAP1 as a model SUMO substrate, the heterodimerizer system was used to investigate the molecular mechanism by which SUMO modification targets RanGAP1 from the cytoplasm to nuclear pore complexes (NPCs). Our results revealed a dual role for Ubc9 in targeting RanGAP1 to NPCs: In addition to conjugating SUMO-1 to RanGAP1, Ubc9 is also required to form a stable ternary complex with SUMO-1 modified RanGAP1 and Nup358. As illustrated by our studies, the rapamycin heterodimerizer system represents a novel tool for studying the molecular effects of SUMO modification.« less

Temporal Geochemistry Data from Five Springs in the Cement Creek Watershed, San Juan County, Colorado

USGS Publications Warehouse

Johnson, Raymond H.; Wirt, Laurie; Leib, Kenneth J.

2008-01-01

Temporal data from five springs in the Cement Creek watershed, San Juan County, Colorado provide seasonal geochemical data for further research in the formation of ferricretes. In addition, these data can be used to help understand the ground-water flow system. The resulting data demonstrate the difficulty in gathering reliable seasonal data from springs, show the unique geochemistry of each spring due to local geology, and provide seasonal trends in geochemistry for Tiger Iron Spring.

Crystal Chemistry and Magnetism of Ternary Actinoid Boron Carbides UB 1- xC 1+ x and U 1- xMxB 2C with M = Sc, Lu, and Th

NASA Astrophysics Data System (ADS)

Rogl, P.; Rupp, B.; Felner, I.; Fischer, P.

1993-06-01

Within the homogeneous range of uranium monocarbide UB 1- xC 1+ x, the crystal structures of stoichiometric UBC and of the carbon-rich solid solution UB 0.78C 1.22, have been refined from single-crystal X-ray counter data. From X-ray analysis crystal symmetry in both cases is consistent with the centro-symmetric space group Cmcm and there are no indications of superstructure formation. In contrast to the fully ordered atom arrangement revealed for stoichiometric UBC ( a = 0.35899(4), b = 1.19781(12), c = 0.33474(3) nm), random occupation by boron and carbon atoms is observed for the boron site in UB 0.78C 1.22 ( a = 0.35752(4), b = 1.18584(3), c = 0.33881(4) nm). For 279(278) reflections (|F 0| > 3σ) the obtained reliability factors R x = ∑|ΔF|/∑| F0| were R x = 0.069 for UBC and R x = 0.050 for UB 0.78C 1.22. Neutron powder diffraction experiments at 9 and 295 K unambiguously revealed full occupancy by the nonmetal atoms in UB 0.78C 1.22 and prove the statistical occupation of B and C atoms in the B-sites. For the orthorhombic symmetry Cmcm, refinement was not better than R1 = 0.044. A model calculation in monoclinic symmetry C12/ m1, however, resulted in a significant reduction of the residual value to R1 = 0.030, releasing spatial constraints on the boron atoms. Thus the boron-boron chain in Cmcm (B-B = 0.1874 nm) is dissolved into boron pairs (B-B = 0.1706 nm) which are loosely bound at a distance of 0.2043 nm. The formation of C-B-B-C groups corresponds to the structure types of ThBC and Th 3B 2C 3. The magnetic behavior has been investigated in the temperature range from 4.2 K to 1000 K for UB 1- xC 1+ x (UBC-type) and U 1- xMxB 2C (ThB 2C-type for the high temperature modification and 1-UB 2C-type for the low temperature modification) with U partially substituted by Th or Sc, Lu. From magnetic susceptibilities, the alloys UB 1- xC 1+ x reveal temperature independent paramagnetism with typical intermediate valence fluctuation behavior ( TSF ˜ 350 K). ThB 2C and 1-UB 2C both are temperature independent paramagnets, whereas h-UB 2C is a ferromagnet with the rather high Curie temperature TM = 80(2) K. TM and the saturation magnetiziation per U atom both successively decrease on substitution of U by Th, Sc, or Lu in UB 2C, whereas the U-moments remain practically unchanged at μ eff(U) ˜ 1.9 μ B. Uranium L 3-XANES (X-ray Absorption Near Edge Structure) spectroscopy revealed increased d-band localization, comparable to uranium-transition metal alloys, in nonmagnetic UB 1- xC 1+ x ( x = 0, 0.22). No superconductivity was observed down to 1.5 K; no hydrogen uptake was observed for UB 2C and ThB 2C even under hydrogen pressures as high as 7 × 10 7 Pa at 670 K.

Exploration Review

USGS Publications Warehouse

Wilburn, D.R.; Stanley, K.A.

2013-01-01

This summary of international mineral exploration activities for 2012 draws upon information from industry sources, published literature and U.S. Geological Survey (USGS) specialists. The summary provides data on exploration budgets by region and mineral commodity, identifies significant mineral discoveries and areas of mineral exploration, discusses government programs affecting the mineral exploration industry and presents analyses of exploration activities performed by the mineral industry. Three sources of information are reported and analyzed in this annual review of international exploration for 2012: 1) budgetary statistics expressed in U.S. nominal dollars provided by SNL Metals Economics Group (MEG) of Halifax, Nova Scotia; 2) regional and site-specific exploration activities that took place in 2012 as compiled by the USGS and 3) regional events including economic, social and political conditions that affected exploration activities, which were derived from published sources and unpublished discussions with USGS and industry specialists.

CO 2 Saline Storage Demonstration in Colorado Sedimentary Basins. Applied Studies in Reservoir Assessment and Dynamic Processes Affecting Industrial Operations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nummedal, Dag; Doran, Kevin; Sitchler, Alexis

2012-09-30

This multitask research project was conducted in anticipation of a possible future increase in industrial efforts at CO 2 storage in Colorado sedimentary basins. Colorado is already the home to the oldest Rocky Mountain CO 2 storage site, the Rangely Oil Field, where CO 2-EOR has been underway since the 1980s. The Colorado Geological Survey has evaluated storage options statewide, and as part of the SW Carbon Sequestration Partnership the Survey, is deeply engaged in and committed to suitable underground CO 2 storage. As a more sustainable energy industry is becoming a global priority, it is imperative to explore themore » range of technical options available to reduce emissions from fossil fuels. One such option is to store at least some emitted CO 2 underground. In this NETL-sponsored CO 2 sequestration project, the Colorado School of Mines and our partners at the University of Colorado have focused on a set of the major fundamental science and engineering issues surrounding geomechanics, mineralogy, geochemistry and reservoir architecture of possible CO 2 storage sites (not limited to Colorado). Those are the central themes of this final report and reported below in Tasks 2, 3, 4, and 6. Closely related to these reservoir geoscience issues are also legal, environmental and public acceptance concerns about pore space accessibility—as a precondition for CO 2 storage. These are addressed in Tasks 1, 5 and 7. Some debates about the future course of the energy industry can become acrimonius. It is true that the physics of combustion of hydrocarbons makes it impossible for fossil energy to attain a carbon footprint anywhere nearly as low as that of renewables. However, there are many offsetting benefits, not the least that fossil energy is still plentiful, it has a global and highly advanced distribution system in place, and the footprint that the fossil energy infrastructure occupies is orders of magnitude smaller than renewable energy facilities with equivalent energy capacity. Finally, inexpensive natural gas here in North America is pushing coal for electricity generation off the market, thus reducing US CO 2 emissions faster than any other large industrialized nation. These two big factors argue for renewed efforts to find technology solutions to reduce the carbon footprint (carbon dioxide as well as methane and trace gases) of conventional and unconventional oil and gas. One major such technology component is likely to be carbon capture, utilization and storage.« less

A Phase 2 Trial on the Effect of Low-Dose Versus High-Dose Vitamin D Supplementation on Bone Mass in Adults with Neurofibromatosis 1 (NF1)

DTIC Science & Technology

2015-10-01

shipment directly from Ddrops, but UBC and CIN are still negotiating. The research pharmacist at UTA is prepared to receive shipment for all...documented in CFR format and are kept in a secured area for duration of the study.  Pharmacist review is required: a licensed pharmacist checks off...Investigational Pharmacist and contact information: Investigational Pharmacy Service University of Utah Hospitals & Clinics Huntsman Cancer Hospital, 1950

Additional Analysis of the ESTCP Discrimination Study Data at Camp Sibert, Alabama. Project 200504: Practical Discrimination Strategies for Application to Live Sites

DTIC Science & Technology

2008-10-20

Dr. Stephen Billings Dr. Leonard Pasion Sky Research, Inc) Laurens Beran UBC-GIF Approved for public release; distribution...Sites 5. FUNDING NUMBERS Contract # W912HQ-05-C-0018 6. AUTHOR(S) Dr. Stephen Billings, Dr. Leonard Pasion (Sky Research, Inc.) Laurens Beran...representative of the test datasets. ESTCP MM-0504: Additional Analysis of Camp Sibert Data Sky Research Inc October 2008 References [1] L.R. Pasion , N

Evaluating the Genetic, Hormonal, and Exogenous Factors Affecting Somatic Copy Number Variation in Breast Cancer

DTIC Science & Technology

2016-10-01

progress in subaim 1a, substantially improving the design of our proposed transgenic animal, the “deletion reporter mouse”, and are finalizing cloning...of necessary components. We expect to submit embryonic stem cells to the transgenic facility within the next few months. Furthermore, subaim 1b is...different mammary epithelial subpopulations. We will breed the reporter mouse created in aim 1 (or the CAG/UBC-GFP mouse) with BRCA1+/- and ATM+/- mutant

Regulation of MDM2 Activity by Nucleolin

DTIC Science & Technology

2006-06-01

UbcH5), p53 (1 ml produced in a wheat germ transcription-coupled in vitro translation system (Pro- mega)), GST-Mdm2 (400 ng) and 10 mg ubiquitin (Sigma... Acids Res. 28, 446 (2000). 22. V. Sirri, P. Roussel, M. C. Gendron, D. Hernandez-Verdun, Cytometry 28, 147 (1997). 23. J. Bartkova et al., Nature...DO-1). Immunoprecipitation and GST-pulldown Transfected cells were lysed in 20mM N-2-hydroxyethylpiper- azine-N0-2-ethanesulfonic acid , pH 7.4, 100mM

Review of progress in understanding the fluid geochemistry of the Cerro Prieto Geothermal System

DOE Office of Scientific and Technical Information (OSTI.GOV)

Truesdell, A.H.; Nehring, N.L.; Thompson, J.M.

1982-08-10

Fluid geochemistry has played a major role in the authors present understanding of the Cerro Prieto geothermal system. Fluid chemical and isotopic compositions have been used to indicate the origin of water, salts, and gases, original subsurface temperature and fluid flow, fluid-production mechanims, and production-induced aquifer boiling and cold-water entry. The extensive geochemical data and interpretation for Cerro Prieto published from 1964 to 1981 are reviewed and discussed. Fluid geochemistry must continue to play an important role in the further development of the Cerro Prieto field.

Petrology and Geochemistry of the NWA 3368 Eucrite

NASA Astrophysics Data System (ADS)

Gardner, K. G.; Lauretta, D. S.; Hill, D. H.; Goreva, J. S.; Domanik, K. J.; Franchi, I. A.; Drake, M. J.

2006-03-01

We report the petrology and geochemistry of NWA 3368, a new non-cumulate, monomict eucrite breccia with a variety of clast sizes and a pink-tinted matrix. Analytical techniques include electron microprobe, INAA, and ICP-MS.

The geochemistry of carbonatites revisited: Two major types of continental carbonatites and their trace-element signatures

NASA Astrophysics Data System (ADS)

Chakhmouradian, A.

2009-04-01

There have been several attempts to systematize the geochemistry of carbonatites, most recently by Samoilov (1984), Nelson et al. (1988), Woolley and Kempe (1989), and Rass (1998). These studies revealed a number of important geochemical characteristics that can be used to track the evolutionary history of these rocks, distinguish them from modally similar metamorphic parageneses, and aid in mineral exploration for rare earths, niobium and other resources commonly associated with carbonatites. Important breakthroughs in the understanding of carbonatite petrogenesis and numerous reports of new carbonatite localities made in the past two decades lay the ground for a critical re-assessment of the geochemistry of these rocks. A new representative database of whole-rock carbonatite analyses was compiled from the post-1988 literature and various unpublished sources. The database contains 820 analyses encompassing calcio-, magnesio- and ferrocarbonatites from 174 localities (ca. one-third of the total number of carbonatites known worldwide) reduced to ca. 350 analyses following the approach of Woolley and Kempe (1989). Carbonatites emplaced in oceanic settings (e.g., Cape Verde), ophiolite belts (e.g., Oman), or those of uncertain tectonic affinity (e.g., El Picacho in Mexico) were not included. Two major types of continental carbonatites can be distinguished on the basis of their geological setting and trace-element geochemistry: (1) carbonatites emplaced in rifts and smaller-scale extensional structures developed in stable Archean cratons or paleo-orogenic belts, and (2) carbonatites emplaced in collisional settings following the orogenesis. In both settings, the most common and best-studied type of carbonatite is calcite carbonatite (predominantly intrusive with a small percentage of extrusive occurrences), which accounts for 62% of the analyses included in the database. Both types of carbonatite are typically associated with alkaline silicate lithologies (meleigites, nepheline syenites, etc.), but those associated with type-1 rocks are typically Na-rich and silica-undersaturated, whereas type-2 carbonatites are associated with K-rich silica-saturated to undersaturated syenites. Type-1 carbonatites are notably different from their type-2 counterparts in showing higher abundances of high-field-strength elements (HFSE = Ti, Zr, Hf, Nb, Ta), Rb, U and V, but lower levels of Sr, Ba, Pb, rare-earth elements, F and S. Key element ratios are also different in the two carbonatite types; in particular, Rb/K, Nb/Ta, Zr/Hf and Ga/Al values are consistently higher in type-1 samples. Notably, some element ratios (e.g., Co/Ni and Y/Ho) are very similar in both groups. Type-2 carbonatites commonly show a 13C-depleted signature relative to the "primary carbonatite" range (Deines, 1989). The observed differences in geological setting and geochemistry indicate the existence of two distinct carbonatite sources in the subcontinental lithosphere: amphibole-bearing lherzolite producing type-1 rocks (cf. Chakhmouradian, 2006), and subducted oceanic crust (rutile-bearing eclogite?) yielding type-2 melts depleted in HFSE, but enriched in light carbon, large-ion-incompatible elements, F and S. References: Chakhmouradian, A.R. (2006) High-field-strength elements in carbonatitic rocks: Geochemistry, crystal chemistry and significance for constraining the sources of carbonatites. Chem. Geol., 235, 138-160. Deines, P. (1989) Stable isotope variations in carbonatites. In: Carbonatites: Genesis and Evolution (K. Bell, Ed.). Unwin Hyman, London, 301-359. Nelson, D.R., Chivas, A.R., Chappell, B.V. and McCulloch, M.T. (1988) Geochemical and isotopic systematic in carbonatites and implications for the evolution of ocean-island sources. Geochim. Cosmochim. Acta, 52, 1-17. Rass, I.T. (1998) Geochemical features of carbonatite indicative of the composition, evolution, and differentiation of their mantle magmas. Geochem. Int., 36, 107-116. Samoilov, V.S. (1984) Geochemistry of Carbonatites. Nauka, Moscow (in Russ.). Woolley, A.R. and Kempe, D.R.C. (1989) Carbonatites: nomenclature, average chemical compositions, and element distribution. In: Carbonatites: Genesis and Evolution (K. Bell, Ed.). Unwin Hyman, London, 1-14.

Relating salt marsh pore water geochemistry patterns to vegetation zones and hydrologic influences

NASA Astrophysics Data System (ADS)

Moffett, Kevan B.; Gorelick, Steven M.

2016-03-01

Physical, chemical, and biological factors influence vegetation zonation in salt marshes and other wetlands, but connections among these factors could be better understood. If salt marsh vegetation and marsh pore water geochemistry coorganize, e.g., via continuous plant water uptake and persistently unsaturated sediments controlling vegetation zone-specific pore water geochemistry, this could complement known physical mechanisms of marsh self-organization. A high-resolution survey of pore water geochemistry was conducted among five salt marsh vegetation zones at the same intertidal elevation. Sampling transects were arrayed both parallel and perpendicular to tidal channels. Pore water geochemistry patterns were both horizontally differentiated, corresponding to vegetation zonation, and vertically differentiated, relating to root influences. The geochemical patterns across the site were less broadly related to marsh hydrology than to vegetation zonation. Mechanisms contributing to geochemical differentiation included: root-induced oxidation and nutrient (P) depletion, surface and creek-bank sediment flushing by rainfall or tides, evapotranspiration creating aerated pore space for partial sediment flushing in some areas while persistently saturated conditions hindered pore water renewal in others, and evapoconcentration of pore water solutes overall. The concentrated pore waters draining to the tidal creeks accounted for 41% of ebb tide solutes (median of 14 elements), including being a potentially toxic source of Ni but a slight sink for Zn, at least during the short, winter study period in southern San Francisco Bay. Heterogeneous vegetation effects on pore water geochemistry are not only significant locally within the marsh but may broadly influence marsh-estuary solute exchange and ecology.

POLLUTION PREVENTION OPPORTUNITY ASSESSMENT - GEOCHEMISTRY LABORATORY AT SANDIA NATIONAL LABORATORIES

EPA Science Inventory

These reports summarize pollution prevention opportunity assessments conducted jointly by EPA and DOE at the Geochemistry Laboratory and the Manufacturing and Fabrication Repair Laboratory at the Department of Energy's Sandia National Laboratories facility in Albuquerque, New Mex...

Publications - PDF 98-39 | Alaska Division of Geological & Geophysical

Science.gov Websites

content DGGS PDF 98-39 Publication Details Title: Rock geochemistry from the Manley mining district ., Bundtzen, T.K., Newberry, R.J., Dover, J.H., and Blodgett, R.B., 1998, Rock geochemistry from the Manley

Incorporating Cutting Edge Scientific Results from the Margins-Geoprisms Program into the Undergraduate Curriculum: The Subduction Factory

NASA Astrophysics Data System (ADS)

Penniston-Dorland, S.; Stern, R. J.; Edwards, B. R.; Kincaid, C. R.

2014-12-01

The NSF-MARGINS Program funded a decade of research on continental margin processes. The NSF-GeoPRISMS Mini-lesson Project, funded by NSF-TUES, is designed to integrate fundamental results from the MARGINS program into open-source college-level curriculum. Three Subduction Factory (SubFac) mini-lessons were developed as part of this project. These include hands-on examinations of data sets representing 3 key components of the subduction zone system: 1) Heat transfer in the subducted slab; 2) Metamorphic processes happening at the plate interface; and 3) Typical magmatic products of arc systems above subduction zones. Module 1: "Slab Temperatures Control Melting in Subduction Zones, What Controls Slab Temperature?" allows students to work in groups using beads rolling down slopes as an analog for the mathematics of heat flow. Using this hands-on, exploration-based approach, students develop an intuition for the mathematics of heatflow and learn about heat conduction and advection in the subduction zone environment. Module 2: "Subduction zone metamorphism" introduces students to the metamorphic rocks that form as the subducted slab descends and the mineral reactions that characterize subduction-related metamorphism. This module includes a suite of metamorphic rocks available for instructors to use in a lab, and exercises in which students compare pressure-temperature estimates obtained from metamorphic rocks to predictions from thermal models. Module 3: "Central American Arc Volcanoes, Petrology and Geochemistry" introduces students to basic concepts in igneous petrology using the Central American volcanic arc, a MARGINS Subduction Factory focus site, as an example. The module relates data from two different volcanoes - basaltic Cerro Negro (Nicaragua) and andesitic Ilopango (El Salvador) including hand sample observations and major element geochemistry - to explore processes of mantle and crustal melting and differentiation in arc volcanism.

Ultra-barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA.

PubMed

Kane, Nolan; Sveinsson, Saemundur; Dempewolf, Hannes; Yang, Ji Yong; Zhang, Dapeng; Engels, Johannes M M; Cronk, Quentin

2012-02-01

To reliably identify lineages below the species level such as subspecies or varieties, we propose an extension to DNA-barcoding using next-generation sequencing to produce whole organellar genomes and substantial nuclear ribosomal sequence. Because this method uses much longer versions of the traditional DNA-barcoding loci in the plastid and ribosomal DNA, we call our approach ultra-barcoding (UBC). We used high-throughput next-generation sequencing to scan the genome and generate reliable sequence of high copy number regions. Using this method, we examined whole plastid genomes as well as nearly 6000 bases of nuclear ribosomal DNA sequences for nine genotypes of Theobroma cacao and an individual of the related species T. grandiflorum, as well as an additional publicly available whole plastid genome of T. cacao. All individuals of T. cacao examined were uniquely distinguished, and evidence of reticulation and gene flow was observed. Sequence variation was observed in some of the canonical barcoding regions between species, but other regions of the chloroplast were more variable both within species and between species, as were ribosomal spacers. Furthermore, no single region provides the level of data available using the complete plastid genome and rDNA. Our data demonstrate that UBC is a viable, increasingly cost-effective approach for reliably distinguishing varieties and even individual genotypes of T. cacao. This approach shows great promise for applications where very closely related or interbreeding taxa must be distinguished.

A new paradigm for teaching histology laboratories in Canada's first distributed medical school.

PubMed

Pinder, Karen E; Ford, Jason C; Ovalle, William K

2008-01-01

To address the critical problem of inadequate physician supply in rural British Columbia, The University of British Columbia (UBC) launched an innovative, expanded and distributed medical program in 2004-2005. Medical students engage in a common curriculum at three geographically distinct sites across B.C.: in Vancouver, Prince George and Victoria. The distribution of the core Histology course required a thorough revision of our instructional methodology. We here report our progress and address the question "How does one successfully distribute Histology teaching to remote sites while maintaining the highest of educational standards?" The experience at UBC points to three specific challenges in developing a distributed Histology curriculum: (i) ensuring equitable student access to high quality histological images, (ii) designing and implementing a reliable, state-of-the-art technological infrastructure that allows for real-time teaching and interactivity across geographically separate sites and (iii) ensuring continued student access to faculty content expertise. High quality images--available through any internet connection--are provided within a new virtual slide box library of 300 light microscopic and 190 electron microscopic images. Our technological needs are met through a robust and reliable videoconference system that allows for live, simultaneous communication of audio/visual materials across the three sites. This system also ensures student access to faculty content expertise during all didactic teaching sessions. Student examination results and surveys demonstrate that the distribution of our Histology curriculum has been successful. (c) 2008 American Association of Anatomists.

Teaching Environmental Geochemistry: An Authentic Inquiry Approach

ERIC Educational Resources Information Center

Koretsky, Carla M.; Petcovic, Heather L.; Rowbotham, Katherine L.

2012-01-01

A field-based environmental geochemistry course was developed at Western Michigan University for undergraduate geosciences and environmental studies students to (1) improve student understanding of complex environmental systems, specifically targeting lake systems; (2) facilitate student development of professional-level, field- and…

Publications - PDF 97-29G | Alaska Division of Geological & Geophysical

Science.gov Websites

content DGGS PDF 97-29G Publication Details Title: Rock geochemistry from the Rampart mining district , K.H., Bundtzen, T.K., Newberry, R.J., Dover, J.H., and Blodgett, R.B., 1997, Rock geochemistry from

International SUSMIN-project aims at sustainable gold mining in EU

NASA Astrophysics Data System (ADS)

Backnäs, Soile; Neitola, Raisa; Turunen, Kaisa; Lima, Alexandre; Fiúza, António; Szlachta, Malgorzata; Wójtowicz, Patryk; Maftei, Raluca; Munteanu, Marian; Alakangas, Lena; Baciu, Calin; Fernández, Dámaris

2015-04-01

Although the gold demand has been constantly increasing in past years, the commodity findings have been decreasing and the extraction of gold has complicated due to increasing complexity and decreasing grade of the ores. Additionally, even gold mining could increase economical development, it has also challenges in eco-efficiency and extraction methods (e.g. cyanide). Thus, the novel energy and resource-efficient methods and technologies for mineral processing should be developed to concentrate selectively different gold bearing minerals. Furthermore, technologies for efficient treatment of mine waters, sustainable management of wastes, and methods to diminish environmental and social impacts of mining are needed. These problems will be addressed by the three year long project SUSMIN. The SUSMIN-project identifies and evaluates environmental impacts and economical challenges of gold mining within EU. The objective of the project is to increase the transnational cooperation and to support environmentally, socially and economically sustainable viable gold production. The focus is to develop and test geophysical techniques for gold exploration, eco-efficient ore beneficiation methods and alternatives for cyanide leaching. Additionally, the research will improve treatment methods for mine waters by the development and testing of advanced adsorbents. The research on socio-economic issues pursues to develop tools for enhancing the mechanisms of the corporate social responsibility as well as community engagement and management of the relations with the stakeholders. Moreover, with the environmental risk assessment and better knowledge of the geochemistry and long-term transformation of the contaminants in mining wastes and mine waters, the mining companies are able to predict and prevent the impacts to the surrounding environment, resulting in an improved environmental management solution. The SUSMIN consortium led by Geological Survey of Finland (GTK) includes seven research partners from six EU member states Finland, Sweden, Portugal, Romania, Poland and Ireland. Additionally eight globally on mining industry working industry partners will contribute in the SUSMIN consortium, so implementation of results from the project will translate into direct and significant economic benefits.

Geochemistry and petrology of selected coal samples from Sumatra, Kalimantan, Sulawesi, and Papua, Indonesia

USGS Publications Warehouse

Belkin, H.E.; Tewalt, S.J.; Hower, J.C.; Stucker, J.D.; O'Keefe, J.M.K.

2009-01-01

Indonesia has become the world's largest exporter of thermal coal and is a major supplier to the Asian coal market, particularly as the People's Republic of China is now (2007) and perhaps may remain a net importer of coal. Indonesia has had a long history of coal production, mainly in Sumatra and Kalimantan, but only in the last two decades have government and commercial forces resulted in a remarkable coal boom. A recent assessment of Indonesian coal-bed methane (CBM) potential has motivated active CBM exploration. Most of the coal is Paleogene and Neogene, low to moderate rank and has low ash yield and sulfur (generally < 10 and < 1??wt.%, respectively). Active tectonic and igneous activity has resulted in significant rank increase in some coal basins. Eight coal samples are described that represent the major export and/or resource potential of Sumatra, Kalimantan, Sulawesi, and Papua. Detailed geochemistry, including proximate and ultimate analysis, sulfur forms, and major, minor, and trace element determinations are presented. Organic petrology and vitrinite reflectance data reflect various precursor flora assemblages and rank variations, including sample composites from active igneous and tectonic areas. A comparison of Hazardous Air Pollutants (HAPs) elements abundance with world and US averages show that the Indonesian coals have low combustion pollution potential.

Monitoring Subsurface Fluid Flow Using Perfluorocarbon Tracers: Another Tool Potentially Available for Subsurface Fluid Flow Assessments

EPA Pesticide Factsheets

Perfluorocarbon Tracers (PFTs) Complement stable Isotopes and Geochemistry for Verifying, Assessing or Modeling Fluid Flow. Geochemistry, Isotopes and PFT’s complement Geophysics to monitor and verify plume movement, leakage to shallow aquifers or surface

GEOCHEMISTRY OF SULFUR IN IRON CORROSION SCALES FOUND IN DRINKING WATER DISTRIBUTION SYSTEMS

EPA Science Inventory

Iron-sulfur geochemistry is important in many natural and engineered environments, including drinking water systems. In the anaerobic environment beneath scales of corroding iron drinking water distribution system pipes, sulfate reducing bacteria (SRB) produce sulfide from natu...

Climate and geochemistry as drivers of eucalypt diversification in Australia.

PubMed

Bui, E N; Thornhill, A H; González-Orozco, C E; Knerr, N; Miller, J T

2017-05-01

Eucalypts cover most of Australia. Here, we investigate the relative contribution of climate and geochemistry to the distribution and diversity of eucalypts. Using geostatistics, we estimate major element concentrations, pH, and electrical conductivity at sites where eucalypts have been recorded. We compare the median predicted geochemistry and reported substrate for individual species that appear associated with extreme conditions; this provides a partial evaluation of the predictions. We generate a site-by-species matrix by aggregating observations to the centroids of 100-km-wide grid cells, calculate diversity indices, and use numerical ecology methods (ordination, variation partitioning) to investigate the ecology of eucalypts and their response to climatic and geochemical gradients. We find that β-diversity coincides with variations in climatic and geochemical patterns. Climate and geochemistry together account for less than half of the variation in eucalypt species assemblages across Australia but for greater than 80% in areas of high species richness. Climate is more important than geochemistry in explaining eucalypts species distribution and change in assemblages across Australia as a whole but there are correlations between the two sets of environmental variables. Many individual eucalypt species and entire taxonomic sections (Aromatica, Longistylus of subgenus Eucalyptus, Dumaria, and Liberivalvae of subgenus Symphyomyrtus) have distributions affected strongly by geochemistry. We conclude that eucalypt diversity is driven by steep geochemical gradients that have arisen as climate patterns have fluctuated over Australia over the Cenozoic, generally aridifying since the Miocene. The diversification of eucalypts across Australia is thus an excellent example of co-evolution of landscapes and biota in space and time and challenges accepted notions of macroecology. © 2017 John Wiley & Sons Ltd.

10 CFR 960.4-2-2 - Geochemistry.

Code of Federal Regulations, 2010 CFR

2010-01-01

... REPOSITORY Postclosure Guidelines § 960.4-2-2 Geochemistry. (a) Qualifying condition. The present and... future, not affect or would favorably affect the ability of the geologic repository to isolate the waste... subjected to expected repository conditions, would remain unaltered or would alter to mineral assemblages...

Detailed description of oil shale organic and mineralogical heterogeneity via fourier transform infrared mircoscopy

USGS Publications Warehouse

Washburn, Kathryn E.; Birdwell, Justin E.; Foster, Michael; Gutierrez, Fernando

2015-01-01

Mineralogical and geochemical information on reservoir and source rocks is necessary to assess and produce from petroleum systems. The standard methods in the petroleum industry for obtaining these properties are bulk measurements on homogenized, generally crushed, and pulverized rock samples and can take from hours to days to perform. New methods using Fourier transform infrared (FTIR) spectroscopy have been developed to more rapidly obtain information on mineralogy and geochemistry. However, these methods are also typically performed on bulk, homogenized samples. We present a new approach to rock sample characterization incorporating multivariate analysis and FTIR microscopy to provide non-destructive, spatially resolved mineralogy and geochemistry on whole rock samples. We are able to predict bulk mineralogy and organic carbon content within the same margin of error as standard characterization techniques, including X-ray diffraction (XRD) and total organic carbon (TOC) analysis. Validation of the method was performed using two oil shale samples from the Green River Formation in the Piceance Basin with differing sedimentary structures. One sample represents laminated Green River oil shales, and the other is representative of oil shale breccia. The FTIR microscopy results on the oil shales agree with XRD and LECO TOC data from the homogenized samples but also give additional detail regarding sample heterogeneity by providing information on the distribution of mineral phases and organic content. While measurements for this study were performed on oil shales, the method could also be applied to other geological samples, such as other mudrocks, complex carbonates, and soils.

Research Coordination Network: Geothermal Biology and Geochemistry in Yellowstone National Park

NASA Astrophysics Data System (ADS)

Inskeep, W. P.; Young, M. J.; Jay, Z.

2006-12-01

The number and diversity of geothermal features in Yellowstone National Park (YNP) represent a fascinating array of high temperature geochemical environments that host a corresponding number of unique and potentially novel organisms in all of the three recognized domains of life: Bacteria, Archaea and Eukarya. The geothermal features of YNP have long been the subject of scientific inquiry, especially in the fields of microbiology, geochemistry, geothermal hydrology, microbial ecology, and population biology. However, there are no organized forums for scientists working in YNP geothermal areas to present research results, exchange ideas, discuss research priorities, and enhance synergism among research groups. The primary goal of the YNP Research Coordination Network (GEOTHERM) is to develop a more unified effort among scientists and resource agencies to characterize, describe, understand and inventory the diverse biota associated with geothermal habitats in YNP. The YNP RCN commenced in January 2005 as a collaborative effort among numerous university scientists, governmental agencies and private industry. The YNP RCN hosted a workshop in February 2006 to discuss research results and to form three working groups focused on (i) web-site and digital library content, (ii) metagenomics of thermophilic microbial communities and (iii) development of geochemical methods appropriate for geomicrobiological studies. The working groups represent one strategy for enhancing communication, collaboration and most importantly, productivity among the RCN participants. If you have an interest in the geomicrobiology of geothermal systems, please feel welcome to join and or participate in the YNP RCN.

NASA's Exobiology Program.

PubMed

DeVincenzi, D L

1984-01-01

The goal of NASA's Exobiology Program is to understand the origin, evolution, and distribution of life, and life-related molecules, on Earth and throughout the universe. Emphasis is focused on determining how the rate and direction of these processes were affected by the chemical and physical environment of the evolving planet, as well as by planetary, solar, and astrophysical phenomena. This is accomplished by a multi-disciplinary program of research conducted by over 60 principal investigators in both NASA and university laboratories. Major program thrusts are in the following research areas: biogenic elements; chemical evolution; origin of life; organic geochemistry; evolution of higher life forms; solar system exploration; and the search for extraterrestrial intelligence (SETI).

Explore Your Future: Careers in the Natural Gas Industry.

ERIC Educational Resources Information Center

American Gas Association, Arlington, VA. Educational Services.

This career awareness booklet provides information and activities to help youth prepare for career and explore jobs in the natural gas industry. Students are exposed to career planning ideas and activities; they learn about a wide variety of industry jobs, what workers say about their jobs, and how the industry operates. Five sections are…

Using Alternate Energy Sources. The Illinois Plan for Industrial Education.

ERIC Educational Resources Information Center

Illinois State Univ., Normal.

This guide, which is one in the "Exploration" series of curriculum guides intended to assist junior high and middle school industrial educators in helping their students explore diverse industrial situations and technologies used in industry, deals with using alternate energy sources. The following topics are covered in the individual lessons:…

Research and Exploration for Operational Research Education in Industry and Engineering Subject

ERIC Educational Resources Information Center

Wu, Yu-hua; Wang, Feng-ming; Du, Gang

2007-01-01

On the basic of exploring the relationship of industry engineering and operational research technique, the thesis analyzes the location and utility of the operational research education in the whole industry engineering subject education. It brings forward the system design about operational research and relative class among industry engineering…

Development of Earthquake Emergency Response Plan for Tribhuvan International Airport, Kathmandu, Nepal

DTIC Science & Technology

2013-02-01

Kathmandu, Nepal 5a. CONTRACT NUMBER W911NF-12-1-0282 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) 5d. PROJECT NUMBER 5e. TASK NUMBER ...In the past, big earthquakes in Nepal (see Figure 1.1) have caused a huge number of casualties and damage to structures. The Great Nepal -Bihar...UBC Earthquake Engineering Research Facility 2235 East Mall, Vancouver, BC, Canada V6T 1Z4 Phone : 604 822-6203 Fax: 604 822-6901 E-mail

Automation &robotics for future Mars exploration

NASA Astrophysics Data System (ADS)

Schulte, W.; von Richter, A.; Bertrand, R.

2003-04-01

Automation and Robotics (A&R) are currently considered as a key technology for Mars exploration. initiatives in this field aim at developing new A&R systems and technologies for planetary surface exploration. Kayser-Threde led the study AROMA (Automation &Robotics for Human Mars Exploration) under ESA contract in order to define a reference architecture of A&R elements in support of a human Mars exploration program. One of the goals was to define new developments and to maintain the competitiveness of European industry within this field. We present a summary of the A&R study in respect to a particular system: The Autonomous Research Island (ARI). In the Mars exploration scenario initially a robotic outpost system lands at pre-selected sites in order to search for life forms and water and to analyze the surface, geology and atmosphere. A&R systems, i.e. rovers and autonomous instrument packages, perform a number of missions with scientific and technology development objectives on the surface of Mars as part of preparations for a human exploration mission. In the Robotic Outpost Phase ARI is conceived as an automated lander which can perform in-situ analysis. It consists of a service module and a micro-rover system for local investigations. Such a system is already under investigation and development in other TRP activities. The micro-rover system provides local mobility for in-situ scientific investigations at a given landing or deployment site. In the long run ARI supports also human Mars missions. An astronaut crew would travel larger distances in a pressurized rover on Mars. Whenever interesting features on the surface are identified, the crew would interrupt the travel and perform local investigations. In order to save crew time ARI could be deployed by the astronauts to perform time-consuming investigations as for example in-situ geochemistry analysis of rocks/soil. Later, the crew could recover the research island for refurbishment and deployment at another site. In the frame of near-term Mars exploration a dedicated exobiology mission is envisaged. Scientific and technical studies for a facility to detect the evidence of past of present life have been carried out under ESA contract. Mars soil/rock samples are to be analyzed for their morphology, organic and inorganic composition using a suite of scientific instruments. Robotic devices, e.g. for the acquisition, handling and onboard processing of Mars sample material retrieved from different locations, and surface mobility are important elements in a fully automated mission. Necessary robotic elements have been identified in past studies. Their realization can partly be based on heritage of existing space hardware, but will require dedicated development effort.

JMSS-1: a new Martian soil simulant

NASA Astrophysics Data System (ADS)

Zeng, Xiaojia; Li, Xiongyao; Wang, Shijie; Li, Shijie; Spring, Nicole; Tang, Hong; Li, Yang; Feng, Junming

2015-05-01

It is important to develop Martian soil simulants that can be used in Mars exploration programs and Mars research. A new Martian soil simulant, called Jining Martian Soil Simulant (JMSS-1), was developed at the Lunar and Planetary Science Research Center at the Institute of Geochemistry, Chinese Academy of Sciences. The raw materials of JMSS-1 are Jining basalt and Fe oxides (magnetite and hematite). JMSS-1 was produced by mechanically crushing Jining basalt with the addition of small amounts of magnetite and hematite. The properties of this simulant, including chemical composition, mineralogy, particle size, mechanical properties, reflectance spectra, dielectric properties, volatile content, and hygroscopicity, have been analyzed. On the basis of these test results, it was demonstrated that JMSS-1 is an ideal Martian soil simulant in terms of chemical composition, mineralogy, and physical properties. JMSS-1 would be an appropriate choice as a Martian soil simulant in scientific and engineering experiments in China's Mars exploration in the future.

Use of termite mounds in geochemical exploration in North Ethiopia [rapid communication

NASA Astrophysics Data System (ADS)

Kebede, Fassil

2004-09-01

The geochemistry of the termite mounds was studied in lower Giba River basin, Kolla Tambien district, northern Ethiopia to show that they are useful in searching for metals. Specimens from the termite mounds and parent materials were collected to quantify gold, silver, copper, zinc, cobalt, manganese, iron and nickel. The results of the geochemical analysis of the samples indicated that these metals exist both in the termite mound and the parent material in the surrounding area. Correlation analysis shows that termite mounds and the parent materials are positively correlated for gold ( r = 0.75∗), copper ( r = 0.77∗), silver ( r = 0.56∗) and manganese ( r = 0.72). This positive correlation leads to the conclusion that there is a direct relation between the concentration of metals in termite mound and the parent rocks. Termite mounds can therefore be used as tools in exploring for these metals.

A Geothermal GIS for Nevada: Defining Regional Controls and Favorable Exploration Terrains for Extensional Geothermal Systems

USGS Publications Warehouse

Coolbaugh, M.F.; Taranik, J.V.; Raines, G.L.; Shevenell, L.A.; Sawatzky, D.L.; Bedell, R.; Minor, T.B.

2002-01-01

Spatial analysis with a GIS was used to evaluate geothermal systems in Nevada using digital maps of geology, heat flow, young faults, young volcanism, depth to groundwater, groundwater geochemistry, earthquakes, and gravity. High-temperature (>160??C) extensional geothermal systems are preferentially associated with northeast-striking late Pleistocene and younger faults, caused by crustal extension, which in most of Nevada is currently oriented northwesterly (as measured by GPS). The distribution of sparse young (160??C) geothermal systems in Nevada are more likely to occur in areas where the groundwater table is shallow (<30m). Undiscovered geothermal systems may occur where groundwater levels are deeper and hot springs do not issue at the surface. A logistic regression exploration model was developed for geothermal systems, using young faults, young volcanics, positive gravity anomalies, and earthquakes to predict areas where deeper groundwater tables are most likely to conceal geothermal systems.

Lunar carbon chemistry - Relations to and implications for terrestrial organic geochemistry.

NASA Technical Reports Server (NTRS)

Eglinton, G.; Maxwell, J. R.; Pillinger, C. T.

1972-01-01

Survey of the various ways in which studies of lunar carbon chemistry have beneficially affected terrestrial organic geochemistry. A lunar organic gas-analysis operating system is cited as the most important instrumental development in relation to terrestrial organic geochemistry. Improved methods of analysis and handling of organic samples are cited as another benefit derived from studies of lunar carbon chemistry. The problem of controlling contamination and minimizing organic vapors is considered, as well as the possibility of analyzing terrestrial samples by the techniques developed for lunar samples. A need for new methods of analyzing carbonaceous material which is insoluble in organic solvents is indicated.

U.S. National Committee for Geochemistry

ERIC Educational Resources Information Center

Geotimes, 1974

1974-01-01

Reports highlights of the April, 1973 meeting of the U.S. National Committee for Geochemistry. Some of the topics reported on were: The Geophysics Research Board, deep drilling, exchange of geochemists with China and the activities of the Subcommittee on Geochemical Environment in Relation to Health and Disease. (BR)

Geochemistry in Action: Watch a Dripstone Grow!

ERIC Educational Resources Information Center

Schmidkonz, Bertram

2017-01-01

Learning how cave formations, such as dripstone, take shape can be a valuable pedagogical tool in chemistry and geochemistry. Grasping the underlying processes requires students to synthesize knowledge of several different topical areas. The activity presented here uses an innovative experiment to connect chemistry concepts with an interesting…

MICROFRACTURE SURFACE GEOCHEMISTRY AND ADHERENT MICROBIAL POPULATION METABOLISM IN TCE-CONTAMINATED COMPETENT BEDROCK

EPA Science Inventory

A TCE-contaminated competent bedrock site in Portsmouth, NH was used to determine if a relation existed between microfracture (MF) surface geochemistry and the ecology and metabolic activity of attached microbes relative to terminal electron accepting processes (TEAPs) and TCE bi...

Distinguishing the Source of Natural Gas Accumulations with a Combined Gas and Co-produced Formation Water Geochemical Approach: a Case Study from the Appalachian Basin

EPA Pesticide Factsheets

The purpose of this study is to discuss the use of gas and co-produced formation water geochemistry for identifying the source of natural gas and present gas geochemistry for the northern Appalachian Basin.

Discovery of natural resources

USGS Publications Warehouse

Guild, P.W.

1976-01-01

Mankind will continue to need ores of more or less the types and grades used today to supply its needs for new mineral raw materials, at least until fusion or some other relatively cheap, inexhaustible energy source is developed. Most deposits being mined today were exposed at the surface or found by relatively simple geophysical or other prospecting techniques, but many of these will be depleted in the foreseeable future. The discovery of deeper or less obvious deposits to replace them will require the conjunction of science and technology to deduce the laws that governed the concentration of elements into ores and to detect and evaluate the evidence of their whereabouts. Great theoretical advances are being made to explain the origins of ore deposits and understand the general reasons for their localization. These advances have unquestionable value for exploration. Even a large deposit is, however, very small, and, with few exceptions, it was formed under conditions that have long since ceased to exist. The explorationist must suppress a great deal of "noise" to read and interpret correctly the "signals" that can define targets and guide the drilling required to find it. Is enough being done to ensure the long-term availability of mineral raw materials? The answer is probably no, in view of the expanding consumption and the difficulty of finding new deposits, but ingenuity, persistence, and continued development of new methods and tools to add to those already at hand should put off the day of "doing without" for many years. The possibility of resource exhaustion, especially in view of the long and increasing lead time needed to carry out basic field and laboratory studies in geology, geophysics, and geochemistry and to synthesize and analyze the information gained from them counsels against any letting down of our guard, however (17). Research and exploration by government, academia, and industry must be supported and encouraged; we cannot wait until an eleventh hour to mount a "crash program.".

Identification of appropriate reference genes for normalizing transcript expression by quantitative real-time PCR in Litsea cubeba.

PubMed

Lin, Liyuan; Han, Xiaojiao; Chen, Yicun; Wu, Qingke; Wang, Yangdong

2013-12-01

Quantitative real-time PCR has emerged as a highly sensitive and widely used method for detection of gene expression profiles, via which accurate detection depends on reliable normalization. Since no single control is appropriate for all experimental treatments, it is generally advocated to select suitable internal controls prior to use for normalization. This study reported the evaluation of the expression stability of twelve potential reference genes in different tissue/organs and six fruit developmental stages of Litsea cubeba in order to screen the superior internal reference genes for data normalization. Two softwares-geNorm, and NormFinder-were used to identify stability of these candidate genes. The cycle threshold difference and coefficient of variance were also calculated to evaluate the expression stability of candidate genes. F-BOX, EF1α, UBC, and TUA were selected as the most stable reference genes across 11 sample pools. F-BOX, EF1α, and EIF4α exhibited the highest expression stability in different tissue/organs and different fruit developmental stages. Besides, a combination of two stable reference genes would be sufficient for gene expression normalization in different fruit developmental stages. In addition, the relative expression profiles of DXS and DXR were evaluated by EF1α, UBC, and SAMDC. The results further validated the reliability of stable reference genes and also highlighted the importance of selecting suitable internal controls for L. cubeba. These reference genes will be of great importance for transcript normalization in future gene expression studies on L. cubeba.

Ubiquitin ligase gp78 increases solubility and facilitates degradation of the Z variant of {alpha}-1-antitrypsin

DOE Office of Scientific and Technical Information (OSTI.GOV)

Shen Yuxian; Medical Biotechnology Center, University of Maryland Biotechnology Institute, Baltimore, MD; Ballar, Petek

2006-11-03

Deficiency of circulating {alpha}-1-antitrypsin (AAT) is the most widely recognized abnormality of a proteinase inhibitor that causes lung disease. AAT-deficiency is caused by mutations of the AAT gene that lead to AAT protein retention in the endoplasmic reticulum (ER). Moreover, the mutant AAT accumulated in the ER predisposes the homozygote to severe liver injuries, such as neonatal hepatitis, juvenile cirrhosis, and hepatocellular carcinoma. Despite the fact that mutant AAT protein is subject to ER-associated degradation (ERAD), yeast genetic studies have determined that the ubiquitination machinery, Hrd1/Der3p-cue1p-Ubc7/6p, which plays a prominent role in ERAD, is not involved in degradation of mutantmore » AAT. Here we report that gp78, a ubiquitin ligase (E3) pairing with mammalian Ubc7 for ERAD, ubiquitinates and facilitates degradation of ATZ, the classic deficiency variant of AAT having a Z mutation (Glu 342 Lys). Unexpectedly, gp78 over-expression also significantly increases ATZ solubility. p97/VCP, an AAA ATPase essential for retrotranslocation of misfolded proteins from the ER during ERAD, is involved in gp78-mediated degradation of ATZ. Surprisingly, unlike other ERAD substrates that cause ER stress leading to apoptosis when accumulated in the ER, ATZ, in fact, increases cell proliferation when over-expressed in cells. This effect can be partially inhibited by gp78 over-expression. These data indicate that gp78 assumes multiple unique quality control roles over ATZ, including the facilitation of degradation and inhibition of aggregation of ATZ.« less

The Spindle Positioning Protein Kar9p Interacts With the Sumoylation Machinery in Saccharomyces cerevisiae

PubMed Central

Meednu, Nida; Hoops, Harold; D'Silva, Sonia; Pogorzala, Leah; Wood, Schuyler; Farkas, David; Sorrentino, Mark; Sia, Elaine; Meluh, Pam; Miller, Rita K.

2008-01-01

Accurate positioning of the mitotic spindle is important for the genetic material to be distributed evenly in dividing cells, but little is known about the mechanisms that regulate this process. Here we report that two microtubule-associated proteins important for spindle positioning interact with several proteins in the sumoylation pathway. By two-hybrid analysis, Kar9p and Bim1p interact with the yeast SUMO Smt3p, the E2 enzyme Ubc9p, an E3 Nfi1p, as well as Wss1p, a weak suppressor of a temperature-sensitive smt3 allele. The physical interaction between Kar9p and Ubc9p was confirmed by in vitro binding assays. A single-amino-acid substitution in Kar9p, L304P disrupted its two-hybrid interaction with proteins in the sumoylation pathway, but retained its interactions with the spindle positioning proteins Bim1p, Stu2p, Bik1p, and Myo2p. The kar9-L304P mutant showed defects in positioning the mitotic spindle, with the spindle located more distally than normal. Whereas wild-type Kar9p-3GFP normally localizes to only the bud-directed spindle pole body (SPB), Kar9p-L304P-3GFP was mislocalized to both SPBs. Using a reconstitution assay, Kar9p was sumoylated in vitro. We propose a model in which sumoylation regulates spindle positioning by restricting Kar9p to one SPB. These findings raise the possibility that sumoylation could regulate other microtubule-dependent processes. PMID:18832349

Pathologic fracture of the distal radius in a 25-year-old patient with a large unicameral bone cyst.

PubMed

Massen, Felix; Baumbach, Sebastian; Volkmer, Elias; Mutschler, Wolf; Grote, Stefan

2014-06-13

Distal radius fractures (DRF) are often referred to as osteoporosis indicator fractures as their incidence increases from age 45. In the group of young adults, distal radius fractures normally result from high-energy trauma. Wrist fractures in young patients without adequate trauma thus raise suspicion of a pathologic fracture. In this report we present the case of a fractured unicameral bone cyst (UBC) at the distal radius in a young adult.To the author's best knowledge, this is the first detailed report in an UBC at the distal radius causing a pathologic DRF in an adult patient. A 25-year-old otherwise healthy male presented to our Emergency Department after a simple fall on his right outstretched hand. Extended diagnostics revealed a pathologic, dorsally displaced, intra-articular distal radius fracture secondary to a unicameral bone cyst occupying almost the whole metaphysis of the distal radius. To stabilize the fracture, a combined dorsal and volar approach was used for open reduction and internal fixation. A tissue specimen for histopathological examination was gathered and the lesion was filled with an autologous bone graft harvested from the ipsilateral femur using a reamer-irrigator-aspirator (RIA) system. Following one revision surgery due to an intra-articular step-off, the patient recovered without further complications. Pathologic fractures in young patients caused by unicameral bone cysts require extended diagnostics and adequate treatment. A single step surgical treatment is reasonable if fracture and bone cyst are treated appropriately. Arthroscopically assisted fracture repair may be considered in intra-articular fractures or whenever co-pathologies of the carpus are suspected.

A Systems Biology Approach to Reveal Putative Host-Derived Biomarkers of Periodontitis by Network Topology Characterization of MMP-REDOX/NO and Apoptosis Integrated Pathways.

PubMed

Zeidán-Chuliá, Fares; Gürsoy, Mervi; Neves de Oliveira, Ben-Hur; Özdemir, Vural; Könönen, Eija; Gürsoy, Ulvi K

2015-01-01

Periodontitis, a formidable global health burden, is a common chronic disease that destroys tooth-supporting tissues. Biomarkers of the early phase of this progressive disease are of utmost importance for global health. In this context, saliva represents a non-invasive biosample. By using systems biology tools, we aimed to (1) identify an integrated interactome between matrix metalloproteinase (MMP)-REDOX/nitric oxide (NO) and apoptosis upstream pathways of periodontal inflammation, and (2) characterize the attendant topological network properties to uncover putative biomarkers to be tested in saliva from patients with periodontitis. Hence, we first generated a protein-protein network model of interactions ("BIOMARK" interactome) by using the STRING 10 database, a search tool for the retrieval of interacting genes/proteins, with "Experiments" and "Databases" as input options and a confidence score of 0.400. Second, we determined the centrality values (closeness, stress, degree or connectivity, and betweenness) for the "BIOMARK" members by using the Cytoscape software. We found Ubiquitin C (UBC), Jun proto-oncogene (JUN), and matrix metalloproteinase-14 (MMP14) as the most central hub- and non-hub-bottlenecks among the 211 genes/proteins of the whole interactome. We conclude that UBC, JUN, and MMP14 are likely an optimal candidate group of host-derived biomarkers, in combination with oral pathogenic bacteria-derived proteins, for detecting periodontitis at its early phase by using salivary samples from patients. These findings therefore have broader relevance for systems medicine in global health as well.

Molecular characterization of accessions of Cratylia argentea (Camaratuba) using ISSR markers.

PubMed

Luz, G A; Gomes, S O; Araujo Neto, R B; Nascimento, M S C B; Lima, P S C

2015-11-27

Cratylia argentea (Desv.) Kuntze (Fabaceae) is a drought-tolerant, perennial legume found primarily in Brazil, Bolivia, and Peru. The shrub is well adapted to acid soils and exhibits high productivity and nutritional value, characteristics that would favor its use as a dry season animal forage supplement in semiarid regions. In plant improvement programs, the production of elite hybrids with superior traits is generally achieved by crossing parents that exhibit the highest level of genetic divergence. Therefore, the aim of the present study was to assess genetic diversity among 13 accessions of C. argentea from the same population maintained in the active germplasm bank of Embrapa Meio-Norte using inter-simple sequence repeat (ISSR) markers. Genetic similarities between C. argentea accessions were estimated from Jaccard coefficients, and a dendrogram was constructed using the unweighted pair group method with arithmetic average (UPGMA). The set of 15 primers selected for ISSR analysis generated a total of 313 loci of which 79.23% were polymorphic. The mean number of bands per primer was 20.87, and the amplicons ranged from 280 to 3000 bp in size. Primers UBC834 and UBC827 generated the largest number of polymorphic loci and exhibited 90.91 and 100% polymorphism, respectively. The coefficients of genetic similarity among accessions varied between 0.49 and 0.73. UPGMA cluster analysis allowed the identification of four genotypic groups and demonstrated the existence of considerable variability within the collection. Potential progenitors were selected that would offer good possibilities of obtaining unusual and favorable combinations of genes in a plant breeding program.

Scientific Communication of Geochemical Data and the Use of Computer Databases.

ERIC Educational Resources Information Center

Le Bas, M. J.; Durham, J.

1989-01-01

Describes a scheme in the United Kingdom that coordinates geochemistry publications with a computerized geochemistry database. The database comprises not only data published in the journals but also the remainder of the pertinent data set. The discussion covers the database design; collection, storage and retrieval of data; and plans for future…

Fallon, Nevada FORGE Fluid Geochemistry

DOE Data Explorer

Blankenship, Doug; Ayling, Bridget

2018-03-13

Fluid geochemistry analysis for wells supporting the Fallon FORGE project. Samples were collected from geothermal wells using standard geothermal water sampling techniques, including filtration and acidification of the cation sample to pH < 2 prior to geochemical analysis. Analyses after 2005 were done in reputable commercial laboratories that follow standard protocols for aqueous chemistry analysis.

Application of support vector machines for copper potential mapping in Kerman region, Iran

NASA Astrophysics Data System (ADS)

Shabankareh, Mahdi; Hezarkhani, Ardeshir

2017-04-01

The first step in systematic exploration studies is mineral potential mapping, which involves classification of the study area to favorable and unfavorable parts. Support vector machines (SVM) are designed for supervised classification based on statistical learning theory. This method named support vector classification (SVC). This paper describes SVC model, which combine exploration data in the regional-scale for copper potential mapping in Kerman copper bearing belt in south of Iran. Data layers or evidential maps were in six datasets namely lithology, tectonic, airborne geophysics, ferric alteration, hydroxide alteration and geochemistry. The SVC modeling result selected 2220 pixels as favorable zones, approximately 25 percent of the study area. Besides, 66 out of 86 copper indices, approximately 78.6% of all, were located in favorable zones. Other main goal of this study was to determine how each input affects favorable output. For this purpose, the histogram of each normalized input data to its favorable output was drawn. The histograms of each input dataset for favorable output showed that each information layer had a certain pattern. These patterns of SVC results could be considered as regional copper exploration characteristics.

The Moon: Keystone to Understanding Planetary Geological Processes and History

NASA Technical Reports Server (NTRS)

2002-01-01

Extensive and intensive exploration of the Earth's Moon by astronauts and an international array of automated spacecraft has provided an unequaled data set that has provided deep insight into geology, geochemistry, mineralogy, petrology, chronology, geophysics and internal structure. This level of insight is unequaled except for Earth. Analysis of these data sets over the last 35 years has proven fundamental to understanding planetary surface processes and evolution, and is essential to linking surface processes with internal and thermal evolution. Much of the understanding that we presently have of other terrestrial planets and outer planet satellites derives from the foundation of these data. On the basis of these data, the Moon is a laboratory for understanding of planetary processes and a keystone for providing evolutionary perspective. Important comparative planetology issues being addressed by lunar studies include impact cratering, magmatic activity and tectonism. Future planetary exploration plans should keep in mind the importance of further lunar exploration in continuing to build solid underpinnings in this keystone to planetary evolution. Examples of these insights and applications to other planets are cited.

Thiols in Hydrothermal Solution: Standard Partial Molal Properties and Their Role in the Organic Geochemistry of Hydrothermal Environments

NASA Technical Reports Server (NTRS)

Schulte, Mitchell D.; Rogers, Karyn L.; DeVincenzi, D. (Technical Monitor)

2001-01-01

Modern seafloor hydrothermal systems are locations where great varieties of geochemistry occur due to the enormous disequilibrium between vent fluids and seawater. The disequilibrium geochemistry has been hypothesized to include reactions to synthesize organic compounds. Despite the incomplete understanding of the carbon budget in hydrothermal systems, the organic geochemistry of these sites has received little attention. Experimental simulations of these environments, however, indicate that organic compounds may have difficulty forming in a purely aqueous environment. On the other hand, thiols, thioesters and disulfides have been implicated as reaction intermediates between CO or CO2 in experiments of carbon reduction in hydrothermal environments, as well as in a variety of biological processes and other abiotic reactions. The reduction of CO2 to thesis, for example, is observed using the FeS-H2S/FeS2 couple to provide the reducing power. We have used recent advances in theoretical geochemistry to estimate the standard partial moral thermodynamic properties and parameters for the revised Helgeson-Kirkham-Flowers equation of state for aqueous straight-chain alkyl thesis. With these data and parameters we have evaluated the role that organic sulfur compounds may play as reaction intermediates during organic compound synthesis. We conclude that organic sulfur compounds may hold the key to the organic chemistry leading to the origin of life in hydrothermal settings. These results may also explain the presence of sulfur in a number of biomolecules present in ancient thermophilic microorganisms.

Springwater geochemistry at Honey Creek State Natural Area, central Texas: Implications for surface water and groundwater interaction in a karst aquifer

NASA Astrophysics Data System (ADS)

Musgrove, M.; Stern, L. A.; Banner, J. L.

2010-06-01

SummaryA two and a half year study of two adjacent watersheds at the Honey Creek State Natural Area (HCSNA) in central Texas was undertaken to evaluate spatial and temporal variations in springwater geochemistry, geochemical evolution processes, and potential effects of brush control on karst watershed hydrology. The watersheds are geologically and geomorphologically similar, and each has springs discharging into Honey Creek, a tributary to the Guadalupe River. Springwater geochemistry is considered in a regional context of aquifer components including soil water, cave dripwater, springwater, and phreatic groundwater. Isotopic and trace element variability allows us to identify both vadose and phreatic groundwater contributions to surface water in Honey Creek. Spatial and temporal geochemical data for six springs reveal systematic differences between the two watersheds. Springwater Sr isotope values lie between values for the limestone bedrock and soils at HCSNA, reflecting a balance between these two primary sources of Sr. Sr isotope values for springs within each watershed are consistent with differences between soil compositions. At some of the springs, consistent temporal variability in springwater geochemistry (Sr isotopes, Mg/Ca, and Sr/Ca values) appears to reflect changes in climatic and hydrologic parameters (rainfall/recharge) that affect watershed processes. Springwater geochemistry was unaffected by brush removal at the scale of the HCSNA study. Results of this study build on previous regional studies to provide insight into watershed hydrology and regional hydrologic processes, including connections between surface water, vadose groundwater, and phreatic groundwater.

Exploring manufacturing competencies of a two wheeler manufacturing unit

NASA Astrophysics Data System (ADS)

Deep Singh, Chandan; Singh Khamba, Jaimal; Singh, Rajdeep; Singh, Navdeep

2014-07-01

The two wheeler industry of India is one of the most dependable industries as every person has at least a two wheeler with him, if not any four wheeler. Earlier there were scooters like Bajaj Chetak, Priya but with evolution of motorcycles like splendor, splendor+, etc. the scooter market started declining but with arrival of gearless scooters like Honda Activa, Scooty Pep, etc. the market place has become increasingly competitive in recent time and industries are facing tough test of improving products and thus market share. The competitiveness among industries is an important issue. Competency development is a vital tool to enhance the competitiveness of industries. Based, on aggregate performance of a firm, it comprehensively explores the varying importance of manufacturing competencies and drives of industrial competitiveness. Hence by, exploring the manufacturing competencies of a two wheeler industry, one can reflect the competitiveness of two wheeler manufacturing industry as a whole. This study presents various factors of manufacturing competencies affecting industrial competitiveness as the significance of these competencies is increasing day by day in two wheeler manufacturing industry.

ILEWG report and discussion on Lunar Science and Exploration

NASA Astrophysics Data System (ADS)

Foing, Bernard

2015-04-01

The EGU PS2.2 session "Lunar Science and Exploration" will include oral papers and posters, and a series of discussions. Members of ILEWG International Lunar Exploration Working Group will debate: - Recent lunar results: geochemistry, geophysics in the context of open - Celebrating the lunar legacy of pioneers Gerhard Neukum, Colin Pillinger and Manfred Fuchs planetary science and exploration - Latest results from LADEE and Chang'e 3/4 - Synthesis of results from SMART-1, Kaguya, Chang-E1 and Chang-E2, Chandrayaan-1, Lunar Reconnaissance Orbiter and LCROSS impactor, Artemis and GRAIL - Goals and Status of missions under preparation: orbiters, Luna-Glob, Google Lunar X Prize, Luna Resurs, Chang'E 5, Future landers, Lunar sample return - Precursor missions, instruments and investigations for landers, rovers, sample return, and human cis-lunar activities and human lunar sorties - Preparation: databases, instruments, terrestrial field campaigns - The future international lunar exploration programme towards ILEWG roadmap of a global robotic village and permanent international lunar base - The proposals for an International Lunar Decade and International Lunar Research Parks - Strategic Knowledge Gaps, and key science Goals relevant to Human Lunar Global Exploration Lunar science and exploration are developing further with new and exciting missions being developed by China, the US, Japan, India, Russia, Korea and Europe, and with the perspective of robotic and human exploration. The session will include invited and contributed talks as well as a panel discussion and interactive posters with short oral introduction.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Graham, R.; Howe, S.; O`Leary, J.

The Piedemonte Llanero petroleum trend of the Cordillera Oriental in Colombia has proven to be one of the most prolific hydrocarbon provinces discovered in recent years. The Piedemonte Llanero is a fold and thrust belt of complex, multi-phase structuration and hydrocarbon generation. Following the discovery of the Cusiana and Cupiagua fields in the southern part of the trend, BP and its partners began exploration further to the northeast. Early seismic data showed the existence of two structural trends: the frontal (or basal) thrust trend, with structures similar to Cusiana; and the overthrust (or duplex) trend, with multiple imbricated structures. Improvedmore » quality seismic data defined the gross structures and allowed them to be successfully drilled, but did not give a constrained model for the kinematic evolution of the fold and thrust belt nor the petroleum play. This resulted in no clear predictive models for reservoir quality and hydrocarbon phase distribution in the undrilled parts of the trend. A wide variety of geological and geochemical analytical techniques including biostratigraphy, reservoir petrology, petroleum geochemistry, thermal maturity data, basin modelling and fluid inclusion studies were undertaken. These were iteratively integrated into the seismo-structural model to develop a constrained interpretation for the evolution of the Piedemonte Llanero petroleum system. This paper summarizes the current understanding of the structural evolution of the trend and the development of a major petroleum system. A companion paper details the reservoir petrography and petroleum geochemistry studies.« less

Detecting potential impacts of deep subsurface CO2 injection on shallow drinking water

NASA Astrophysics Data System (ADS)

Smyth, R. C.; Yang, C.; Romanak, K.; Mickler, P. J.; Lu, J.; Hovorka, S. D.

2012-12-01

Presented here are results from one aspect of collective research conducted at Gulf Coast Carbon Center, BEG, Jackson School at UT Austin. The biggest hurdle to public acceptance of CCS is to show that drinking water resources will not be impacted. Since late 1990s our group has been supported by US DOE NETL and private industry to research how best to detect potential impacts to shallow (0 to ~0.25 km) subsurface drinking water from deep (~1 to 3.5 km) injection of CO2. Work has and continues to include (1) field sampling and testing, (2) laboratory batch experiments, (3) geochemical modeling. The objective has been to identify the most sensitive geochemical indicators using data from research-level investigations, which can be economically applied on an industrial-scale. The worst-case scenario would be introduction of CO2 directly into drinking water from a leaking wellbore at a brownfield site. This is unlikely for a properly screened and/or maintained site, but needs to be considered. Our results show aquifer matrix (carbonate vs. clastic) to be critical to interpretation of pH and carbonate (DIC, Alkalinity, and δ13C of DIC) parameters because of the influence of water-rock reaction (buffering vs. non-buffering) on aqueous geochemistry. Field groundwater sampling sites to date are Cranfield, MS and SACROC, TX CO2-EOR oilfields. Two major aquifer types are represented, one dominated by silicate (Cranfield) and the other by carbonate (SACROC) water-rock reactions. We tested sensitivity of geochemical indicators (pH, DIC, Alkalinity, and δ13C of DIC) by modeling the effects of increasing pCO2 on aqueous geochemistry, and laboratory batch experiments, both with partial pressure of CO2 gas (pCO2) at 1x105 Pa (1 atm). Aquifer matrix and groundwater data provided constraints for the geochemical models. We used results from modeling and batch experiments to rank geochemical parameter sensitivity to increased pCO2 into weakly, mildly and strongly sensitive categories for both aquifer systems. DIC concentration is strongly sensitive to increased pCO2 for both aquifers; however, CO2 outgassing during sampling complicates direct field measurement of DIC. Interpretation of data from in-situ push-pull aquifer tests is ongoing and will be used to augment results summarized here. We are currently designing groundwater monitoring plans for two additional industrial-scale sites where we will further test the sensitivity and utility of our sampling approach.

Decision support methods for the environmental assessment of contamination at mining sites.

PubMed

Jordan, Gyozo; Abdaal, Ahmed

2013-09-01

Polluting mine accidents and widespread environmental contamination associated with historic mining in Europe and elsewhere has triggered the improvement of related environmental legislation and of the environmental assessment and management methods for the mining industry. Mining has some unique features such as natural background pollution associated with natural mineral deposits, industrial activities and contamination located in the three-dimensional sub-surface space, the problem of long-term remediation after mine closure, problem of secondary contaminated areas around mine sites and abandoned mines in historic regions like Europe. These mining-specific problems require special tools to address the complexity of the environmental problems of mining-related contamination. The objective of this paper is to review and evaluate some of the decision support methods that have been developed and applied to mining contamination. In this paper, only those methods that are both efficient decision support tools and provide a 'holistic' approach to the complex problem as well are considered. These tools are (1) landscape ecology, (2) industrial ecology, (3) landscape geochemistry, (4) geo-environmental models, (5) environmental impact assessment, (6) environmental risk assessment, (7) material flow analysis and (8) life cycle assessment. This unique inter-disciplinary study should enable both the researcher and the practitioner to obtain broad view on the state-of-the-art of decision support methods for the environmental assessment of contamination at mine sites. Documented examples and abundant references are also provided.

Sweeter E and P terms, Cretaceous Abiod chalk oil play lead to busier exploration in Tunisia

DOE Office of Scientific and Technical Information (OSTI.GOV)

Davies, W.C.; Haiza, A.B.

1990-12-10

This paper reports that Tunisia's oil exploration and production industry is experiencing a boom of almost unprecedented proportions. The catalysts are changes in the fiscal and legislative regime and a high success ratio in an exciting new exploration play, Upper Cretaceous Abiod chalk. The foundation of this renewed phase of activity was laid in 1985. The Tunisian government decided to liberalize the terms and conditions that apply to the hydrocarbon exploration industry, in order to encourage the search for reserves to replace those being rapidly depleted through increased industrial, commercial, and transport consumption.

The global geochemistry of bomb-produced tritium - General circulation model compared to available observations and traditional interpretations

NASA Technical Reports Server (NTRS)

Koster, Randal D.; Broecker, Wallace S.; Jouzel, Jean; Suozzo, Robert J.; Russell, Gary L.; Rind, David

1989-01-01

Observational evidence suggests that of the tritium produced during nuclear bomb tests that has already reached the ocean, more than twice as much arrived through vapor impact as through precipitation. In the present study, the Goddard Institute for Space Studies 8 x 10 deg atmospheric general circulation model is used to simulate tritium transport from the upper atmosphere to the ocean. The simulation indicates that tritium delivery to the ocean via vapor impact is about equal to that via precipitation. The model result is relatively insensitive to several imposed changes in tritium source location, in model parameterizations, and in model resolution. Possible reasons for the discrepancy are explored.

Conduct of Geologic Field Work During Planetary Exploration: Why Geology Matters

NASA Technical Reports Server (NTRS)

Eppler, Dean B.

2010-01-01

The science of field geology is the investigative process of determining the distribution of rock units and structures on a planet fs surface, and it is the first-order data set that informs all subsequent studies of a planet, such as geochemistry, geochronology, geophysics, or remote sensing. For future missions to the Moon and Mars, the surface systems deployed must support the conduct of field geology if these endeavors are to be scientifically useful. This lecture discussed what field geology is all about.why it is important, how it is done, how conducting field geology informs many other sciences, and how it affects the design of surface systems and the implementation of operations in the future.

Stable isotopes in seafloor hydrothermal systems: Vent fluids, hydrothermal deposits, hydrothermal alteration, and microbial processes

USGS Publications Warehouse

Shanks, Wayne C.

2001-01-01

The recognition of abundant and widespread hydrothermal activity and associated unique life-forms on the ocean floor is one of the great scientific discoveries of the latter half of the twentieth century. Studies of seafloor hydrothermal processes have led to revolutions in understanding fluid convection and the cooling of the ocean crust, the chemical and isotopic mass balance of the oceans, the origin of stratiform and statabound massive-sulfide ore-deposits, the origin of greenstones and serpentinites, and the potential importance of the subseafloor biosphere. Stable isotope geochemistry has been a critical and definitive tool from the very beginning of the modern era of seafloor exploration.

Assessment of geothermal resources at Newcastle, Utah

USGS Publications Warehouse

Blackett, Robert E.; Shubat, Michael A.; Chapman, David S.; Forster, Craig B.; Schlinger, Charles M.

1989-01-01

Integrated geology, geophysics, and geochemistry studies in the Newcastle area of southwest Utah are used to develop a conceptual geologic model of a blind, moderate-temperature hydrothermal system. Studies using 12 existing and 12 new, thermal gradient test holes, in addition to geologic mapping, gravity surveys, and other investigations have helped define the thermal regime. Preliminary results indicate that the up-flow region is located near the west-facing escarpment of an adjacent mountain range, probably related to the bounding range-front fault. Chemical geothermometers suggest equilibration temperatures ranging from 140??C to 170??C. The highest temperature recorded in the system is 130??C from an exploration well drilled by the Unocal Corporation.

Metallic-mineral assessment of the Aban Al Ahmar quadrangle, sheet 25F, Kingdom of Saudi Arabia

USGS Publications Warehouse

Kamilli, Robert J.; Arnold, Mark A.; Cole, James C.; Kleinkopf, M. Dean; Lee, Keenan; Miller, William R.; Raines, Gary L.; ,; ,

1990-01-01

Comprehensive detailed interdisciplinary study assesses the metallic-mineral-resource potential in the Aban Al Ahmar Quadrangle of the Kingdom of Saudi Arabia, located in the eastern margin of the northeastern Arabian Shield, utilizing techniques of geophysics, geologic mapping, remote sensing and geochemistry. The landscape of the study area is characterized by isolated mountain groups, inselbergs, and local tracts of dissected hills separated by broad, low-relief peneplain. Topics covered include mining and exploration history; geological setting; interpretation of geophysical anomalies; limonitic hydrothermally altered and mineralized rocks; geochemical interpretation; mineral resource potential; skarn deposiits associated with intermediate igneous rocks; gold deposits; tin/tungsten skarn deposits; etc. 

Isotope Geochemistry for Comparative Planetology of Exoplanets

NASA Technical Reports Server (NTRS)

Mandt, K. E.; Atreya, S.; Luspay-Kuti, A.; Mousis, O.; Simon, A.; Hofstadter, M. D.

2017-01-01

Isotope geochemistry has played a critical role in understanding processes at work in and the history of solar system bodies. Application of these techniques to exoplanets would be revolutionary and would allow comparative planetology with the formation and evolution of exoplanet systems. The roadmap for comparative planetology of the origins and workings of exoplanets involves isotopic geochemistry efforts in three areas: (1) technology development to expand observations of the isotopic composition of solar system bodies and expand observations to isotopic composition of exoplanet atmospheres; (2) theoretical modeling of how isotopes fractionate and the role they play in evolution of exoplanetary systems, atmospheres, surfaces and interiors; and (3) laboratory studies to constrain isotopic fractionation due to processes at work throughout the solar system.

Detection and analysis of protein ISGylation.

PubMed

Takeuchi, Tomoharu; Yokosawa, Hideyoshi

2008-01-01

ISG15 is a ubiquitin-like modifi er that is conjugated to target proteins by a sequential reaction catalyzed by E1/E2/E3 enzymes (protein ISGylation). ISG15 and protein ISGylation are upregulated by interferon stimuli. ISG15 functions as an antiviral protein against Sindbis virus and HIV-1, but the molecular mechanism remains unknown. Here we describe in detail methods for detecting and analyzing protein ISGylation. The methods consist of plasmid transfection and affi nity purifi cation of ISGylated proteins. In addition, we describe a method for detecting ISGylation of a target protein, Ubc13.

Ferro- and antiferro-magnetism in (Np, Pu)BC

NASA Astrophysics Data System (ADS)

Klimczuk, T.; Shick, A. B.; Kozub, A. L.; Griveau, J.-C.; Colineau, E.; Falmbigl, M.; Wastin, F.; Rogl, P.

2015-04-01

Two new transuranium metal boron carbides, NpBC and PuBC, have been synthesized. Rietveld refinements of powder XRD patterns of {Np,Pu}BC confirmed in both cases isotypism with the structure type of UBC. Temperature dependent magnetic susceptibility data reveal antiferromagnetic ordering for PuBC below TN = 44 K, whereas ferromagnetic ordering was found for NpBC below TC = 61 K. Heat capacity measurements prove the bulk character of the observed magnetic transition for both compounds. The total energy electronic band structure calculations support formation of the ferromagnetic ground state for NpBC and the antiferromagnetic ground state for PuBC.

Variations in trace element geochemistry in the Seine River Basin based on floodplain deposits and bed sediments

USGS Publications Warehouse

Horowitz, A.J.; Meybeck, Michel; Idlafkih, Z.; Biger, E.

1999-01-01

Between 1990 and 1995 a series of bed sediment, suspended sediment and fresh floodplain samples were collected within the Seine River Basin, in France, to evaluate variations in trace element geochemistry. Average background trace element levels for the basin were determined from the collection and subsequent analyses of bed sediment samples from small rural watersheds and from a prehistoric (5000 BP) site in Paris. Concentrations are relatively low, and similar to those observed for fine-grained bed sediments from unaffected areas in the United States and Canada. However, the concentrations are somewhat higher than the reference levels presently adopted by French water authorities for areas north of the Seine Basin, which have similar bedrock lithologies. Downstream trace element variations were monitored in 1994 and 1995 using fresh surficial floodplain samples that were collected either as dried deposits a few days after peak discharge, or immediately after peak discharge (under ??? 30 cm of water). Chemical comparisons between fresh floodplain deposits, and actual suspended sediments collected during flood events, indicate that, with some caveats, the former can be used as surrogates for the latter. The floodplain sediment chemical data indicate that within the Seine Basin, from the relatively unaffected headwaters through heavily affected urban streams, trace element concentrations vary by as much as three orders of magnitude. These trace element changes appear to be the result of both increases in population as well as concomitant increases in industrial activity. This article is a US government work and is in the public domain in the United States.

A History of Warming Sea Surface Temperature and Ocean Acidification Recorded by Planktonic Foraminifera Geochemistry from the Santa Barbara Basin, California

NASA Astrophysics Data System (ADS)

Osborne, E.; Thunell, R.; Bizimis, M.; Buckley, W. P., Jr.; benitez-Nelson, C. R.; Chartier, C. J.

2015-12-01

The geochemistry of foraminiferal shells has been widely used to reconstruct past conditions of the ocean and climate. Since the onset of the Industrial Revolution, anthropogenically produced CO2 has resulted in an increase in global temperatures and a decline in the mean pH of the world's oceans. The California Current System is a particularly susceptible region to ocean acidification due to natural upwelling processes that also cause a reduction in seawater pH. The trace element concentration of magnesium and boron in planktonic foraminiferal shells are used here as proxies for temperature and carbonate ion concentration ([CO32-]), respectively. Newly developed calibrations relating Mg/Ca ratios to temperature (R2 0.91) and B/Ca ratios to [CO32-] (R2 0.84) for the surface-mixed layer species Globogerina bulloides were generated using material collected in the Santa Barbara Basin sediment trap time-series. Using these empirical relationships, temperature and [CO32-] are reconstructed using a 0.5 meter long multi-core collected within the basin. 210Pb activities were used to determine a sedimentation rate for the core to estimate ages for core samples (sedimentation rate: 0.341 cm/yr). A spike in 137Cs activity is used as a tie-point to the year 1965 coinciding with the peak of nuclear bomb testing. Our down-core record extends through the mid-19th century to create a history of rising sea surface temperatures and declining [CO32-] as a result of anthropogenic CO2 emissions.

Markets, Models and Metrics in Higher Education

ERIC Educational Resources Information Center

Palfreyman, David

2007-01-01

In this article, the author explores the features of the higher education (HE) industry (nationally and globally) in terms of an industrial economic analysis. Specifically, the author explores the following questions: (1) Can HE as an industry and HEIs as service-providers control costs in the absence of a free and genuinely/ruthlessly competitive…

Exploration review

USGS Publications Warehouse

Wilburn, D.R.; Rapstine, T.D.; Lee, E.C.

2012-01-01

This summary of international mineral exploration activities for the year 2011 draws upon available information from industry sources, published literature and U.S. Geological Survey (USGS) specialists. This summary provides data on exploration budgets by region and mineral commodity, identifies significant mineral discoveries and areas of mineral exploration, discusses government programs affecting the mineral exploration industry and presents surveys returned by companies primarily focused on precious (gold, platinum-group metals and silver) and base (copper, lead, nickel and zinc) metals.

Determination of geochemical and natural radioactivity characteristics in Bilecik Marble, Turkey

NASA Astrophysics Data System (ADS)

Yerel Kandemir, Suheyla; Ozbay, Nurgul

2014-05-01

Natural stones are one of the oldest known building materials. There are more than 400 natural stone in Turkey. Recently, the demand for the natural stone types in markets has been increasing rapidly. For this reason, the geochemical and natural radioactivity characteristics of natural stone are very important. Bilecik province is located at the northwest part of Turkey and it is surrounded by Sakarya, Bursa, Eskisehir and Kutahya city. Bilecik is one of the important marble industry regions of Turkey. Thus, the geochemical and natural radioactivity characteristics of Bilecik marble are very important. In this study, Bilecik marble was collected to determine the geochemistry and natural radioactivity. Then, analyses of geochemical and natural radioactivity in the marble samples are interpreted. ACKNOWLEDGMENT This study is supported by Bilecik Seyh Edebali University scientific project (Project Number =2011-02-BIL.03-04).

Using lanthanoid elements as tracers for anthropogenic contamination of atmospheric aerosols

NASA Astrophysics Data System (ADS)

Moreno, T.; Querol, X.; Alastuey, A.; Gibbons, W.

2009-04-01

Lanthanoid elements are present in atmospheric particulate matter both within natural mineral particles and as anthropogenic aerosols emitted from industrial and traffic pollution sources. Whereas the total lanthanoid (ΣLoid) content of atmospheric PM is controlled primarily by the amount of coarse crustal mineral material present, ratios between different lanthanoid elements (e.g. La/Ce and La/Sm) can be influenced by industrial processes such as the use of La-enriched fluid catalytic converters (FCC) in oil refineries, the combustion of refinery La-contaminated oils in power stations, or the abrasive loss of Ce-bearing PM from road vehicle catalytic converters. Use of lanthanoid ratios as tracers are especially useful in allowing the identification of specific La anomalies (La>Ce) when FCC refinery emissions are prominent. Increasing contamination of urban/industrial atmospheric PM samples away from crustal compositions may be tracked using a LaCeSm triangular plot, but this does not differentiate between FCC refinery and oil combustion emissions. Comparing lanthanoid and V concentrations does aid such differentiation, although given the likelihood of multiple PM sources in industrial locations, we recommend use of a LaCeV plot rather than simply La/V ratios. Lanthanoid geochemistry can be applied in this way to demonstrate for example how atmospheric PM in many urban areas is polluted more by V-bearing fuel oil combustion (e.g. Mexico City), whereas other cities are more influenced by different aerosol sources such as oil refineries (e.g. Houston) or coal burning (e.g. Beijing). This work was funded by the Spanish Ministry of Science and Innovation (GRACCIE-SCD2007-00067).

Making Connections to Real Data and Peer-Review Literature: A Short Soil Exercise in a Geochemistry Class

ERIC Educational Resources Information Center

Gutiérrez, Mélida; Baker, Becky

2013-01-01

A class exercise was designed for a college-level geochemistry class to promote inquiry and student participation. In this exercise, real soil data available online was analyzed to evaluate geochemical associations among different soil orders and as a screening tool for anthropogenic metal contamination. Students were asked to read a peer-reviewed…

Geochemistry and geophysics field maps used during the USGS 2011 field season in southwest Alaska

USGS Publications Warehouse

Giles, Stuart A.

2013-01-01

The US Geological Survey (USGS) has been studying a variety of geochemical and geophyscial assessment techniques for concealed mineral deposits. The 2011 field season for this project took place in southwest Alaska, northeast of Bristol Bay between Dillingham and Iliamna Lake. Four maps were created for the geochemistry and geophysics teams to use during field activities.

Stable isotopes in mid-ocean ridge hydrothermal systems: Interactions between fluids, minerals, and organisms

NASA Astrophysics Data System (ADS)

Shanks, W. C., III; Böhlke, J. K.; Seal, R. R., II

Studies of abundance variations of light stable isotopes in nature have had a tremendous impact on all aspects of geochemistry since the development, in 1947, of a gas source isotope ratio mass spectrometer capable of measuring small variations in stable isotope ratios [Nier, 1947] Stable isotope geochemistry is now a mature field, as witnessed by the proliferation of commercially available mass spectrometers installed at virtually every major academic, government, and private-sector research geochemistry laboratory. A recent search of a literature database revealed over 3,000 articles that utilized stable isotope geochemistry over the last 20 years. Nonetheless, many exciting new technical developments are leading to exciting new discoveries and applications. In particular, micro analytical techniques involving new generations of laser- and ion-microprobes are revolutionizing the types of analyses that can be done on spot sizes as small as a few tens of micrometers [Shanks and Criss, 1989]. New generations of conventional gas source and thermal ionization mass spectrometers, with high levels of automation and increased sensitivity and precision, are allowing analyses of large numbers of samples, like those needed for stable isotope stratigraphy in marine sediments, and are enabling the development and application of new isotopic systems.

Stable isotopes in mid-ocean ridge hydrothermal systems: Interactions between fluids, minerals, and organisms

USGS Publications Warehouse

Shanks, Wayne C.; Böhlke, John Karl; Seal, Robert R.; Humphries, S.D.; Zierenberg, Robert A.; Mullineaux, Lauren S.; Thomson, Richard E.

1995-01-01

Studies of abundance variations of light stable isotopes in nature have had a tremendous impact on all aspects of geochemistry since the development, in 1947, of a gas source isotope ratio mass spectrometer capable of measuring small variations in stable isotope ratios (Nice, 1947]. Stable isotope geochemistry is now a mature field, as witnessed by the proliferation of commercially available mass spectrometers installed at virtually every major academic, government, and private-sector research geochemistry laboratory. A recent search of a literature database revealed over 3,000 articles that utilized stable isotope geochemistry over the last 20 years. Nonetheless, many exciting new technical developments are leading to exciting new discoveries and applications. In particular, micro-analytical techniques involving new generations of laser- and ion-microprobes are revolutionizing the types of analyses that can be done on spot sizes as small as a few tens of micrometers [Shanks and Criss, 1989]. New generations of conventional gas source and thermal ionization mass spectrometers, with high levels of automation and increased sensitivity and precision, are allowing analyses of large numbers of samples, like those needed for stable isotope stratigraphy in marine sediments, and are enabling the development and application of new isotopic systems.

Management of ground water and evolving hydrogeologic studies in New Jersey : a heavily urbanized and industrialized state in the northeastern United States

USGS Publications Warehouse

Leahy, P. Patrick

1985-01-01

New Jersey is the most densely populated and one of the most industrialized states in the United States. An abundance of freshwater and proximity to major northeastern metropolitan centers has facilitated this development. Pumpage of freshwater from all aquifers in the State in 1980 was 730 million gallons per day (2.76 million cubic meters per day).Management and efficient development of the ground-water resources of the State are the responsibility of the New Jersey Department of Environmental Protection. Laws have been enacted and updated by the State legislature to manage water allocation and to control the disposal of hazardous wastes. Present resource management is guided by the New Jersey Water-Supply Master Plan of 1981. Funding for management activities is partially derived from the sale of state-approved bonds.Effective planning and regional management require accurate and up-to-date hydrologic information and analyses. The U.S. Geological Survey, in cooperation with the New Jersey Geological Survey, is conducting three intensive ground-water studies involving the collection and interpretation of hydrologic data to meet the urgent water-management needs of New Jersey. These studies are part of a long-term cooperative program and are funded through the Water-Supply Bond Act of 1981. They began in 1983 and are scheduled to be completed in 1988.The project areas are situated in the New Jersey part of the Atlantic Coastal Plain in and near Atlantic City, Camden, and South River. They range in size from 400 to 1,200 mil (1,040 to 3,120 km2). The studies are designed to define the geology, hydrology, and geochemistry of the local ground-water systems. The results of these studies will enable the State to address more effectively major problems in these areas such as declining water levels, overpumping, saltwater intrusion, and ground-water contamination resulting from the improper disposal of hazardous wastes.Specific objectives of these studies by the U.S. Geological Survey are to (1) develop an accurate and up-to-date hydrogeologic data base, (2) design and implement a data-collection program and establish a computerized information management system, (3) refine the conceptualization of the ground-water flow system, and (4) define the geochemistry of the aquifer system by conducting a water-quality appraisal. The objectives are accomplished by standard hydrogeologic methods. Information concerning hydrogeologic framework, ground-water levels, water use, hydraulic characteristics, and water quality in the study areas is compiled from all available sources. Additional data needed are collected through well inventories, surface geophysical surveys, water-quality samplings, water-level measurements, and a well-drilling program.Interpretation of the flow system is based on the use of standard analytical techniques and digital flow modeling. Calibrated flow models will provide ground-water managers with a mechanism to develop and test regional water-supply strategies.Definition of the geochemistry of the aquifer system is accomplished through a variety of methods which depend on the problems and available data in the particular study area. The approach includes statistical analysis of water-quality data, reaction-path modeling, and determination of the movement of chemical constituents using analytical and numerical modeling techniques.A combined staff of 25 to 30 professionals and technicians from the New Jersey District office of the U.S. Geological Survey is committed to the three studies. The staff has specialists in geohydrology, numerical modeling, geochemistry, geophysics, and computer science. The findings of these studies will be published in data reports, interpretive reports, instructional manuals and journal articles.

Career Exploration in the Fashion Industry: A Suggested Program Guide. Fashion Industry Series No. 1.

ERIC Educational Resources Information Center

Fashion Inst. of Tech., New York, NY.

The career exploration guide is the first of a series of five interrelated program resource guides encompassing the various dimensions of the fashion industry. The series is intended to provide an information source for establishing, expanding, or evaluating secondary and adult vocational instructional programs related to the broad field of…

Sedimentary basin geochemistry and fluid/rock interactions workshop

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

1991-12-31

Fundamental research related to organic geochemistry, fluid-rock interactions, and the processes by which fluids migrate through basins has long been a part of the U.S. Department of Energy Geosciences program. Objectives of this program were to emphasize those principles and processes which would be applicable to a wide range of problems associated with petroleum discovery, occurrence and extraction, waste disposal of all kinds, and environmental management. To gain a better understanding of the progress being made in understanding basinal fluids, their geochemistry and movement, and related research, and to enhance communication and interaction between principal investigators and DOE and othermore » Federal program managers interested in this topic, this workshop was organized by the School of Geology and Geophysics and held in Norman, Oklahoma in November, 1991.« less

NGA Industry Critique of the Exploration Component

DOE Office of Scientific and Technical Information (OSTI.GOV)

Iovanetti, J.L.

1992-03-24

The author critiques the Exploration component of the U.S. Department of Energy (DOE) Geothermal Program Review X. The comments focus principally on the hydrothermal portion of the DOE program, but he also makes some commentary on the Long Valley Exploratory Well and Geopressured-Geothermal components of the program, as well as some general comments. Before I do that, I would like to review the current state of geothermal exploration in the United States. According to Koenig (1989, 1990) who critiqued the DOE Geothermal Program in those years, geothermal exploration in the western U.S. has been conducted in virtually all of themore » apparent geothermal resource areas. Many of these areas which were under exploration in the 1960s and 1970s, and were explored in part under the U.S. DOE Industry Coupled Program have progressed to commercial status in the 80s. The DOE March (1992) Draft Multi-Year Program Plan for FY 1993-1997 states that 8 out of the 14 geothermal resource areas explored under this Industry Coupled Program in the late 1970s are currently under production. I do not think we will find anyone in this room, in the geothermal industry, or in the United States that will argue with the clear and outstanding success of that government program. When the prices of oil dropped in the 1980s, many geothermal operators left the industry, and with the dramatic decrease in activity, many of the service companies went by the wayside also. By and large, the domestic geothermal industry today is emaciated. As a result of the capital intensive nature of geothermal development, the historical long lead times to go from exploration to production, the highly entrepreneurial nature of the industry, and the lack of an economic market, virtually no new exploration has been conducted in the U.S. in about 10 years. The consequence of this lack of activity is an almost nonexistent geothermal reserve base, outside of known producing fields and their immediate surrounds. The U.S. DOE Deep Thermal Gradient Drilling Program in the Cascade Range is a notable exception to this stagnant condition. Like it's predecessor, the industry coupled program, the Thermal Gradient Drilling Program identified at least, one potentially viable geothermal resource: Newberry Volcano.« less

Indoor radon measurements in south west England explained by topsoil and stream sediment geochemistry, airborne gamma-ray spectroscopy and geology.

PubMed

Ferreira, Antonio; Daraktchieva, Zornitza; Beamish, David; Kirkwood, Charles; Lister, T Robert; Cave, Mark; Wragg, Joanna; Lee, Kathryn

2018-01-01

Predictive mapping of indoor radon potential often requires the use of additional datasets. A range of geological, geochemical and geophysical data may be considered, either individually or in combination. The present work is an evaluation of how much of the indoor radon variation in south west England can be explained by four different datasets: a) the geology (G), b) the airborne gamma-ray spectroscopy (AGR), c) the geochemistry of topsoil (TSG) and d) the geochemistry of stream sediments (SSG). The study area was chosen since it provides a large (197,464) indoor radon dataset in association with the above information. Geology provides information on the distribution of the materials that may contribute to radon release while the latter three items provide more direct observations on the distributions of the radionuclide elements uranium (U), thorium (Th) and potassium (K). In addition, (c) and (d) provide multi-element assessments of geochemistry which are also included in this study. The effectiveness of datasets for predicting the existing indoor radon data is assessed through the level (the higher the better) of explained variation (% of variance or ANOVA) obtained from the tested models. A multiple linear regression using a compositional data (CODA) approach is carried out to obtain the required measure of determination for each analysis. Results show that, amongst the four tested datasets, the soil geochemistry (TSG, i.e. including all the available 41 elements, 10 major - Al, Ca, Fe, K, Mg, Mn, Na, P, Si, Ti - plus 31 trace) provides the highest explained variation of indoor radon (about 40%); more than double the value provided by U alone (ca. 15%), or the sub composition U, Th, K (ca. 16%) from the same TSG data. The remaining three datasets provide values ranging from about 27% to 32.5%. The enhanced prediction of the AGR model relative to the U, Th, K in soils suggests that the AGR signal captures more than just the U, Th and K content in the soil. The best result is obtained by including the soil geochemistry with geology and AGR (TSG + G + AGR, ca. 47%). However, adding G and AGR to the TSG model only slightly improves the prediction (ca. +7%), suggesting that the geochemistry of soils already contain most of the information given by geology and airborne datasets together, at least with regard to the explanation of indoor radon. From the present analysis performed in the SW of England, it may be concluded that each one of the four datasets is likely to be useful for radon mapping purposes, whether alone or in combination with others. The present work also suggest that the complete soil geochemistry dataset (TSG) is more effective for indoor radon modelling than using just the U (+Th, K) concentration in soil. Copyright © 2016 Natural Environment Research Council. Published by Elsevier Ltd.. All rights reserved.

Selection of reference genes as internal controls for gene expression in tissues of red abalone Haliotis rufescens (Mollusca, Vetigastropoda; Swainson, 1822).

PubMed

López-Landavery, Edgar A; Portillo-López, Amelia; Gallardo-Escárate, Cristian; Del Río-Portilla, Miguel A

2014-10-10

The red abalone Haliotis rufescens is one of the most important species for aquaculture in Baja California, México, and despite this, few gene expression studies have been done in tissues such as gill, head and gonad. For this purpose, reverse transcription and quantitative real time PCR (RT-qPCR) is a powerful tool for gene expression evaluation. For a reliable analysis, however, it is necessary to select and validate housekeeping genes that allow proper transcription quantification. Stability of nine housekeeping genes (ACTB, BGLU, TUBB, CY, GAPDH, HPRTI, RPL5, SDHA and UBC) was evaluated in different tissues of red abalone (gill, head and gonad/digestive gland). Four-fold serial dilutions of cDNA (from 25 ngμL(-1) to 0.39 ngμL(-1)) were used to prepare the standard curve, and it showed gene efficiencies between 0.95 and 0.99, with R(2)=0.99. geNorm and NormFinder analysis showed that RPL5 and CY were the most stable genes considering all tissues, whereas in gill HPRTI and BGLU were most stable. In gonad/digestive gland, RPL5 and TUBB were the most stable genes with geNorm, while SDHA and HPRTI were the best using NormFinder. Similarly, in head the best genes were RPL5 and UBC with geNorm, and GAPDH and CY with NormFinder. The technical variability analysis with RPL5 and abalone gonad/digestive gland tissue indicated a high repeatability with a variation coefficient within groups ≤ 0.56% and between groups ≤ 1.89%. These results will help us for further research in reproduction, thermoregulation and endocrinology in red abalone. Copyright © 2014 Elsevier B.V. All rights reserved.

Genetic Circuits that Govern Bisexual and Unisexual Reproduction in Cryptococcus neoformans

PubMed Central

Feretzaki, Marianna; Heitman, Joseph

2013-01-01

Cryptococcus neoformans is a human fungal pathogen with a defined sexual cycle. Nutrient-limiting conditions and pheromones induce a dimorphic transition from unicellular yeast to multicellular hyphae and the production of infectious spores. Sexual reproduction involves cells of either opposite (bisexual) or one (unisexual) mating type. Bisexual and unisexual reproduction are governed by shared components of the conserved pheromone-sensing Cpk1 MAPK signal transduction cascade and by Mat2, the major transcriptional regulator of the pathway. However, the downstream targets of the pathway are largely unknown, and homology-based approaches have failed to yield downstream transcriptional regulators or other targets. In this study, we applied insertional mutagenesis via Agrobacterium tumefaciens transkingdom DNA delivery to identify mutants with unisexual reproduction defects. In addition to elements known to be involved in sexual development (Crg1, Ste7, Mat2, and Znf2), three key regulators of sexual development were identified by our screen: Znf3, Spo11, and Ubc5. Spo11 and Ubc5 promote sporulation during both bisexual and unisexual reproduction. Genetic and phenotypic analyses provide further evidence implicating both genes in the regulation of meiosis. Phenotypic analysis of sexual development showed that Znf3 is required for hyphal development during unisexual reproduction and also plays a central role during bisexual reproduction. Znf3 promotes cell fusion and pheromone production through a pathway parallel to and independent of the pheromone signaling cascade. Surprisingly, Znf3 participates in transposon silencing during unisexual reproduction and may serve as a link between RNAi silencing and sexual development. Our studies illustrate the power of unbiased genetic screens to reveal both novel and conserved circuits that operate sexual reproduction. PMID:23966871

Identification of a Novel Reference Gene for Apple Transcriptional Profiling under Postharvest Conditions

PubMed Central

Storch, Tatiane Timm; Pegoraro, Camila; Finatto, Taciane; Quecini, Vera; Rombaldi, Cesar Valmor; Girardi, César Luis

2015-01-01

Reverse Transcription quantitative PCR (RT-qPCR) is one of the most important techniques for gene expression profiling due to its high sensibility and reproducibility. However, the reliability of the results is highly dependent on data normalization, performed by comparisons between the expression profiles of the genes of interest against those of constitutively expressed, reference genes. Although the technique is widely used in fruit postharvest experiments, the transcription stability of reference genes has not been thoroughly investigated under these experimental conditions. Thus, we have determined the transcriptional profile, under these conditions, of three genes commonly used as reference—ACTIN (MdACT), PROTEIN DISULPHIDE ISOMERASE (MdPDI) and UBIQUITIN-CONJUGATING ENZYME E2 (MdUBC)—along with two novel candidates—HISTONE 1 (MdH1) and NUCLEOSSOME ASSEMBLY 1 PROTEIN (MdNAP1). The expression profile of the genes was investigated throughout five experiments, with three of them encompassing the postharvest period and the other two, consisting of developmental and spatial phases. The transcriptional stability was comparatively investigated using four distinct software packages: BestKeeper, NormFinder, geNorm and DataAssist. Gene ranking results for transcriptional stability were similar for the investigated software packages, with the exception of BestKeeper. The classic reference gene MdUBC ranked among the most stably transcribed in all investigated experimental conditions. Transcript accumulation profiles for the novel reference candidate gene MdH1 were stable throughout the tested conditions, especially in experiments encompassing the postharvest period. Thus, our results present a novel reference gene for postharvest experiments in apple and reinforce the importance of checking the transcription profile of reference genes under the experimental conditions of interest. PMID:25774904

Identification of a novel reference gene for apple transcriptional profiling under postharvest conditions.

PubMed

Storch, Tatiane Timm; Pegoraro, Camila; Finatto, Taciane; Quecini, Vera; Rombaldi, Cesar Valmor; Girardi, César Luis

2015-01-01

Reverse Transcription quantitative PCR (RT-qPCR) is one of the most important techniques for gene expression profiling due to its high sensibility and reproducibility. However, the reliability of the results is highly dependent on data normalization, performed by comparisons between the expression profiles of the genes of interest against those of constitutively expressed, reference genes. Although the technique is widely used in fruit postharvest experiments, the transcription stability of reference genes has not been thoroughly investigated under these experimental conditions. Thus, we have determined the transcriptional profile, under these conditions, of three genes commonly used as reference--ACTIN (MdACT), PROTEIN DISULPHIDE ISOMERASE (MdPDI) and UBIQUITIN-CONJUGATING ENZYME E2 (MdUBC)--along with two novel candidates--HISTONE 1 (MdH1) and NUCLEOSSOME ASSEMBLY 1 PROTEIN (MdNAP1). The expression profile of the genes was investigated throughout five experiments, with three of them encompassing the postharvest period and the other two, consisting of developmental and spatial phases. The transcriptional stability was comparatively investigated using four distinct software packages: BestKeeper, NormFinder, geNorm and DataAssist. Gene ranking results for transcriptional stability were similar for the investigated software packages, with the exception of BestKeeper. The classic reference gene MdUBC ranked among the most stably transcribed in all investigated experimental conditions. Transcript accumulation profiles for the novel reference candidate gene MdH1 were stable throughout the tested conditions, especially in experiments encompassing the postharvest period. Thus, our results present a novel reference gene for postharvest experiments in apple and reinforce the importance of checking the transcription profile of reference genes under the experimental conditions of interest.

Pathologic fracture of the distal radius in a 25-year-old patient with a large unicameral bone cyst

PubMed Central

2014-01-01

Background Distal radius fractures (DRF) are often referred to as osteoporosis indicator fractures as their incidence increases from age 45. In the group of young adults, distal radius fractures normally result from high-energy trauma. Wrist fractures in young patients without adequate trauma thus raise suspicion of a pathologic fracture. In this report we present the case of a fractured unicameral bone cyst (UBC) at the distal radius in a young adult. To the author’s best knowledge, this is the first detailed report in an UBC at the distal radius causing a pathologic DRF in an adult patient. Case presentation A 25-year-old otherwise healthy male presented to our Emergency Department after a simple fall on his right outstretched hand. Extended diagnostics revealed a pathologic, dorsally displaced, intra-articular distal radius fracture secondary to a unicameral bone cyst occupying almost the whole metaphysis of the distal radius. To stabilize the fracture, a combined dorsal and volar approach was used for open reduction and internal fixation. A tissue specimen for histopathological examination was gathered and the lesion was filled with an autologous bone graft harvested from the ipsilateral femur using a reamer-irrigator-aspirator (RIA) system. Following one revision surgery due to an intra-articular step-off, the patient recovered without further complications. Conclusions Pathologic fractures in young patients caused by unicameral bone cysts require extended diagnostics and adequate treatment. A single step surgical treatment is reasonable if fracture and bone cyst are treated appropriately. Arthroscopically assisted fracture repair may be considered in intra-articular fractures or whenever co-pathologies of the carpus are suspected. PMID:24925068

Program evaluation of a model to integrate internationally educated health professionals into clinical practice

PubMed Central

2013-01-01

Background The demand for health professionals continues to increase, partially due to the aging population and the high proportion of practitioners nearing retirement. The University of British Columbia (UBC) has developed a program to address this demand, by providing support for internationally trained Physiotherapists in their preparation for taking the National Physiotherapy competency examinations. The aim was to create a program comprised of the educational tools and infrastructure to support internationally educated physiotherapists (IEPs) in their preparation for entry to practice in Canada and, to improve their pass rate on the national competency examination. Methods The program was developed using a logic model and evaluated using program evaluation methodology. Program tools and resources included educational modules and curricular packages which were developed and refined based on feedback from clinical experts, IEPs and clinical physical therapy mentors. An examination bank was created and used to include test-enhanced education. Clinical mentors were recruited and trained to provide clinical and cultural support for participants. Results The IEP program has recruited 124 IEPs, with 69 now integrated into the Canadian physiotherapy workforce, and more IEPs continuing to apply to the program. International graduates who participated in the program had an improved pass rate on the national Physiotherapy Competency Examination (PCE); participation in the program resulted in them having a 28% (95% CI, 2% to 59%) greater possibility of passing the written section than their counterparts who did not take the program. In 2010, 81% of all IEP candidates who completed the UBC program passed the written component, and 82% passed the clinical component. Conclusion The program has proven to be successful and sustainable. This program model could be replicated to support the successful integration of other international health professionals into the workforce. PMID:24119470

Human Homolog of Drosophila Ariadne (HHARI) is a marker of cellular proliferation associated with nuclear bodies

DOE Office of Scientific and Technical Information (OSTI.GOV)

Elmehdawi, Fatima; Wheway, Gabrielle; Szymanska, Katarzyna

2013-02-01

HHARI (also known as ARIH1) is an ubiquitin-protein ligase and is the cognate of the E2, UbcH7 (UBE2L3). To establish a functional role for HHARI in cellular proliferation processes, we performed a reverse genetics screen that identified n=86/522 (16.5%) ubiquitin conjugation components that have a statistically significant effect on cell proliferation, which included HHARI as a strong hit. We then produced and validated a panel of specific antibodies that establish HHARI as both a nuclear and cytoplasmic protein that is expressed in all cell types studied. HHARI was expressed at higher levels in nuclei, and co-localized with nuclear bodies includingmore » Cajal bodies (p80 coilin, NOPP140), PML and SC35 bodies. We confirmed reduced cellular proliferation after ARIH1 knockdown with individual siRNA duplexes, in addition to significantly increased levels of apoptosis, an increased proportion of cells in G2 phase of the cell cycle, and significant reductions in total cellular RNA levels. In head and neck squamous cell carcinoma biopsies, there are higher levels of HHARI expression associated with increased levels of proliferation, compared to healthy control tissues. We demonstrate that HHARI is associated with cellular proliferation, which may be mediated through its interaction with UbcH7 and modification of proteins in nuclear bodies. -- Highlights: ► We produce and validate new antibody reagents for the ubiquitin-protein ligase HHARI. ► HHARI colocalizes with nuclear bodies including Cajal, PML and SC35 bodies. ► We establish new functions in cell proliferation regulation for HHARI. ► Increased HHARI expression associates with squamous cell carcinoma and proliferation.« less

Undergraduate exposure to urology: impact of the distributed model of medical education in British Columbia.

PubMed

Hoag, Nathan A; Hamidizadeh, Reza; MacNeily, Andrew E

2013-01-01

With the increased development of distributed sites for medical education across Canada, it is imperative we ensure that the quality of education is comparable between the different campuses. Our objective was to assess medical student experience and comfort with common urologic clinical encounters and to determine whether any differences exist between the distributed education sites at the University of British Columbia (UBC). Questionnaires assessing urologic education were delivered simultaneously to all final-year UBC medical students attending campuses in Vancouver, Victoria and Prince George. Results were analyzed using descriptive statistics. Overall, 55.8% of students felt their exposure to urology was adequate in the medical curriculum; learners in the Northern Program (Prince George) ranked their clinical and didactic experiences significantly higher. Areas requiring improvement include teaching of the male genitourinary exam, digital rectal exam and sexual history, in which learners rated teaching "good/outstanding" in only 18.2%, 47.7% and 43.2% of cases, respectively. Overall, students were most comfortable with the following clinical encounters: urinary tract infection, nephrolithiasis, benign prostatic hyperplasia, hematuria, incontinence and prostate cancer. Few differences in student experience or comfort were noted related to campus site, gender or urology clerkship exposure. A significant minority of learners perceived that they had inadequate exposure to urology in the undergraduate curriculum. Experience in urology was comparable across the distributed sites and was congruent with teaching objectives. Students were comfortable with the clinical scenarios deemed most important in the literature. Learners in the Northern Program were significantly more satisfied with their urologic teaching, which potentially highlights the advantages of learning in a smaller academic setting.

Genetic circuits that govern bisexual and unisexual reproduction in Cryptococcus neoformans.

PubMed

Feretzaki, Marianna; Heitman, Joseph

2013-01-01

Cryptococcus neoformans is a human fungal pathogen with a defined sexual cycle. Nutrient-limiting conditions and pheromones induce a dimorphic transition from unicellular yeast to multicellular hyphae and the production of infectious spores. Sexual reproduction involves cells of either opposite (bisexual) or one (unisexual) mating type. Bisexual and unisexual reproduction are governed by shared components of the conserved pheromone-sensing Cpk1 MAPK signal transduction cascade and by Mat2, the major transcriptional regulator of the pathway. However, the downstream targets of the pathway are largely unknown, and homology-based approaches have failed to yield downstream transcriptional regulators or other targets. In this study, we applied insertional mutagenesis via Agrobacterium tumefaciens transkingdom DNA delivery to identify mutants with unisexual reproduction defects. In addition to elements known to be involved in sexual development (Crg1, Ste7, Mat2, and Znf2), three key regulators of sexual development were identified by our screen: Znf3, Spo11, and Ubc5. Spo11 and Ubc5 promote sporulation during both bisexual and unisexual reproduction. Genetic and phenotypic analyses provide further evidence implicating both genes in the regulation of meiosis. Phenotypic analysis of sexual development showed that Znf3 is required for hyphal development during unisexual reproduction and also plays a central role during bisexual reproduction. Znf3 promotes cell fusion and pheromone production through a pathway parallel to and independent of the pheromone signaling cascade. Surprisingly, Znf3 participates in transposon silencing during unisexual reproduction and may serve as a link between RNAi silencing and sexual development. Our studies illustrate the power of unbiased genetic screens to reveal both novel and conserved circuits that operate sexual reproduction.

densityCut: an efficient and versatile topological approach for automatic clustering of biological data

PubMed Central

Ding, Jiarui; Shah, Sohrab; Condon, Anne

2016-01-01

Motivation: Many biological data processing problems can be formalized as clustering problems to partition data points into sensible and biologically interpretable groups. Results: This article introduces densityCut, a novel density-based clustering algorithm, which is both time- and space-efficient and proceeds as follows: densityCut first roughly estimates the densities of data points from a K-nearest neighbour graph and then refines the densities via a random walk. A cluster consists of points falling into the basin of attraction of an estimated mode of the underlining density function. A post-processing step merges clusters and generates a hierarchical cluster tree. The number of clusters is selected from the most stable clustering in the hierarchical cluster tree. Experimental results on ten synthetic benchmark datasets and two microarray gene expression datasets demonstrate that densityCut performs better than state-of-the-art algorithms for clustering biological datasets. For applications, we focus on the recent cancer mutation clustering and single cell data analyses, namely to cluster variant allele frequencies of somatic mutations to reveal clonal architectures of individual tumours, to cluster single-cell gene expression data to uncover cell population compositions, and to cluster single-cell mass cytometry data to detect communities of cells of the same functional states or types. densityCut performs better than competing algorithms and is scalable to large datasets. Availability and Implementation: Data and the densityCut R package is available from https://bitbucket.org/jerry00/densitycut_dev. Contact: condon@cs.ubc.ca or sshah@bccrc.ca or jiaruid@cs.ubc.ca Supplementary information: Supplementary data are available at Bioinformatics online. PMID:27153661

Merkel Cell Polyomavirus Small T Antigen Induces Cancer and Embryonic Merkel Cell Proliferation in a Transgenic Mouse Model.

PubMed

Shuda, Masahiro; Guastafierro, Anna; Geng, Xuehui; Shuda, Yoko; Ostrowski, Stephen M; Lukianov, Stefan; Jenkins, Frank J; Honda, Kord; Maricich, Stephen M; Moore, Patrick S; Chang, Yuan

2015-01-01

Merkel cell polyomavirus (MCV) causes the majority of human Merkel cell carcinomas (MCC) and encodes a small T (sT) antigen that transforms immortalized rodent fibroblasts in vitro. To develop a mouse model for MCV sT-induced carcinogenesis, we generated transgenic mice with a flox-stop-flox MCV sT sequence homologously recombined at the ROSA locus (ROSAsT), allowing Cre-mediated, conditional MCV sT expression. Standard tamoxifen (TMX) administration to adult UbcCreERT2; ROSAsT mice, in which Cre is ubiquitously expressed, resulted in MCV sT expression in multiple organs that was uniformly lethal within 5 days. Conversely, most adult UbcCreERT2; ROSAsT mice survived low-dose tamoxifen administration but developed ear lobe dermal hyperkeratosis and hypergranulosis. Simultaneous MCV sT expression and conditional homozygous p53 deletion generated multi-focal, poorly-differentiated, highly anaplastic tumors in the spleens and livers of mice after 60 days of TMX treatment. Mouse embryonic fibroblasts from these mice induced to express MCV sT exhibited anchorage-independent cell growth. To examine Merkel cell pathology, MCV sT expression was also induced during mid-embryogenesis in Merkel cells of Atoh1CreERT2/+; ROSAsT mice, which lead to significantly increased Merkel cell numbers in touch domes at late embryonic ages that normalized postnatally. Tamoxifen administration to adult Atoh1CreERT2/+; ROSAsT and Atoh1CreERT2/+; ROSAsT; p53flox/flox mice had no effects on Merkel cell numbers and did not induce tumor formation. Taken together, these results show that MCV sT stimulates progenitor Merkel cell proliferation in embryonic mice and is a bona fide viral oncoprotein that induces full cancer cell transformation in the p53-null setting.

Emerging role of immunotherapy in urothelial carcinoma - immunobiology/biomarkers

PubMed Central

Sweis, Randy F.; Galsky, Matthew D.

2017-01-01

Urothelial bladder cancer is one of the first cancers recognized to be immunogenic since 40 years ago when the use of bacillus Calmette–Guerin (BCG) was shown to prevent recurrence. Since that time, our knowledge of immune biology of cancer has expanded tremendously, and bladder cancer patients finally have new active immunotherapeutic drugs with on the horizon. Anti-programmed cell death-1 (PD-1)/(programmed cell death ligand-1 (PD-L1) therapy has shown impressively durable responses in urothelial bladder cancer (UBC), but the reported response rates warrant improvement. To outline potential strategies to overcome tumor immune resistance, herein, we summarize current models of tumor immunology with a specific focus on bladder cancer. Recognition of tumor-specific antigens through cross-presentation, T cell priming and activation, and trafficking of immune cells to the tumor microenvironment are some of the critical steps we now understand to be necessary for an effective anti-tumor immune response. Many of the involved steps are important targets for therapeutic interventions. As new immunotherapies are developed, predictive biomarkers will also be important to select patients most likely to respond and to better understand tumor biology. Several potential biomarkers are reviewed including PD-L1 expression, identification of T cell-inflamed/non-T cell-inflamed tumors based on immune gene expression, intrinsic molecular subtyping based on luminal/basal or the cancer genome atlas (TCGA) groups, T cell receptor (TCR) sequencing, and somatic mutational density. Within even the past few years our current knowledge of immune biology has exploded, and we are highly optimistic about the future of UBC therapy that will be available to patients. PMID:27836246

Risk of in-hospital complications after radical cystectomy for urinary bladder carcinoma: population-based follow-up study of 7608 patients

PubMed Central

Hemelrijck, Mieke; Thorstenson, Andreas; Smith, Philip; Adolfsson, Jan; Akre, Olof

2013-01-01

Objective To evaluate the risk of different in-hospital complications for patients undergoing a radical cystectomy (RC), as limited nationwide population data on short- and long-term complications after RC is available, despite it being the standard treatment for localised muscle-invasive urinary bladder cancer (UBC). Patients and Methods In all, 7608 persons underwent a RC after UBC diagnosis, as registered in the Swedish National Patient Register between 1964 and 2008. We estimated the frequency and incidences and calculated hazard ratios (HR) and 95% confidence intervals (CI) using multivariate Cox proportional hazards models. Results Urinary tract infection/septicaemia was the most common complication following radical cystectomy, with an incidence of 90.4 per 1,000 person years. There was a higher risk of urinary tract infection among patients who had a continent cutaneous reservoir (HR: 1.11 (0.94–1.30) or orthotopic neobladder 1.21 (1.05–1.39) than among those with ileal conduit. Similarly, continent cutaneous reservoir and orthotopic neobladder were associated with increased risks for wound and abdominal wall hernias, stones in the urinary tract, hydronephrosis and nephrostomy tube treatment, and kidney failure. In contrast, risk of bowel obstruction was lower among those with orthotopic neobladder than those with ileal conduit (HR: 0.64 (0.50–0.81)) and those with continent cutaneous reservoir (HR: 0.92 (0.73–1.16). Conclusions In-hospital complications after RC are numerous and continue to accumulate for many years after surgery, indicating the need for life-long follow-up of these patients. Comparison between different types of diversion should, however, be made with care because of potential confounding by indication. PMID:23906011

Human T-Cell Leukemia Virus Type 1 (HTLV-1) Tax Requires CADM1/TSLC1 for Inactivation of the NF-κB Inhibitor A20 and Constitutive NF-κB Signaling

PubMed Central

Thomas, Remy; van der Weyden, Louise; Rauch, Dan; Ratner, Lee; Nyborg, Jennifer K.; Ramos, Juan Carlos; Takai, Yoshimi; Shembade, Noula

2015-01-01

Persistent activation of NF-κB by the Human T-cell leukemia virus type 1 (HTLV-1) oncoprotein, Tax, is vital for the development and pathogenesis of adult T-cell leukemia (ATL) and HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP). K63-linked polyubiquitinated Tax activates the IKK complex in the plasma membrane-associated lipid raft microdomain. Tax also interacts with TAX1BP1 to inactivate the NF-κB negative regulatory ubiquitin-editing A20 enzyme complex. However, the molecular mechanisms of Tax-mediated IKK activation and A20 protein complex inactivation are poorly understood. Here, we demonstrated that membrane associated CADM1 (Cell adhesion molecule1) recruits Ubc13 to Tax, causing K63-linked polyubiquitination of Tax, and IKK complex activation in the membrane lipid raft. The c-terminal cytoplasmic tail containing PDZ binding motif of CADM1 is critical for Tax to maintain persistent NF-κB activation. Finally, Tax failed to inactivate the NF-κB negative regulator ubiquitin-editing enzyme A20 complex, and activate the IKK complex in the lipid raft in absence of CADM1. Our results thus indicate that CADM1 functions as a critical scaffold molecule for Tax and Ubc13 to form a cellular complex with NEMO, TAX1BP1 and NRP, to activate the IKK complex in the plasma membrane-associated lipid rafts, to inactivate NF-κB negative regulators, and maintain persistent NF-κB activation in HTLV-1 infected cells. PMID:25774694

Gas hydrate prospecting using well cuttings and mud-gas geochemistry from 35 wells, North Slope, Alaska

USGS Publications Warehouse

Lorenson, T.D.; Collett, Timothy S.

2011-01-01

Gas hydrate deposits are common on the North Slope of Alaska around Prudhoe Bay; however, the extent of these deposits is unknown outside of this area. As part of a U.S. Geological Survey (USGS) and Bureau of Land Management gas hydrate research collaboration, well-cutting and mud-gas samples have been collected and analyzed from mainly industry-drilled wells on the North Slope for the purpose of prospecting for gas hydrate deposits. On the Alaska North Slope, gas hydrates are now recognized as an element within a petroleum systems approach or "total petroleum system." Since 1979, 35 wells have been sampled from as far west as Wainwright to Prudhoe Bay in the east. Regionally, the USGS has assessed the gas hydrate resources of the North Slope and determined that there is about 85.4 trillion cubic feet of technically recoverable hydrate-bound gas within three assessment units. The assessment units are defined mainly by three separate stratigraphic sections and constrained by the physical temperatures and pressures where gas hydrate can form. Geochemical studies of known gas hydrate occurrences on the North Slope have shown a link between gas hydrate and more deeply buried conventional oil and gas deposits. The link is established when hydrocarbon gases migrate from depth and charge the reservoir rock within the gas hydrate stability zone. It is likely gases migrated into conventional traps as free gas and were later converted to gas hydrate in response to climate cooling concurrent with permafrost formation. Results from this study indicate that some thermogenic gas is present in 31 of the wells, with limited evidence of thermogenic gas in four other wells and only one well with no thermogenic gas. Gas hydrate is known to occur in one of the sampled wells, likely present in 22 others on the basis of gas geochemistry, and inferred by equivocal gas geochemistry in 11 wells, and one well was without gas hydrate. Gas migration routes are common in the North Slope and include faults and widespread, continuous shallowly dipping permeable sand sections that are potentially in communication with deeper oil and gas sources. The application of the petroleum system model with the geochemical evidence suggests that gas hydrate deposits may be widespread across the North Slope of Alaska.

Geochemical Data for Samples Collected in 2008 Near the Concealed Pebble Porphyry Cu-Au-Mo Deposit, Southwest Alaska

USGS Publications Warehouse

Fey, David L.; Granitto, Matthew; Giles, Stuart A.; Smith, Steven M.; Eppinger, Robert G.; Kelley, Karen D.

2009-01-01

In the summer of 2007, the U.S. Geological Survey (USGS) began an exploration geochemical research study over the Pebble porphyry copper-gold-molybdenum deposit. This report presents the analytical data collected in 2008. The Pebble deposit is world class in size, and is almost entirely concealed by tundra, glacial deposits, and post-Cretaceous volcanic rocks. The Pebble deposit was chosen for this study because it is concealed by surficial cover rocks, is relatively undisturbed (except for exploration company drill holes), is a large mineral system, and is fairly well-constrained at depth by the drill hole geology and geochemistry. The goals of this study are to 1) determine whether the concealed deposit can be detected with surface samples, 2) better understand the processes of metal migration from the deposit to the surface, and 3) test and develop methods for assessing mineral resources in similar concealed terrains. The analytical data are presented as an integrated Microsoft Access 2003 database and as separate Excel files.

Baseline Geochemical Data for Medical Researchers in Kentucky

NASA Astrophysics Data System (ADS)

Anderson, W.

2017-12-01

According to the Centers for Disease Control, Kentucky has the highest cancer incidence and death rates in the country. New efforts by geochemists and medical researchers are examining ways to diagnose the origin and sources of carcinogenesis. In an effort to determine if naturally occurring geochemical or mineral elements contributes to the cancer causation, the Kentucky Geological Survey has established a Minerals and Geochemical Database that is available to medical researchers for examination of baseline geochemistry and determine if naturally occurring mineral or chemical elements contribute to the high rate of cancers in the state. Cancer causation is complex, so if natural sources can be accounted for, then researchers can focus on the true causation. Naturally occurring minerals, metals and elements occur in many parts of the state, and their presence is valuable for evaluating causation. For example, some data in the database contain maps showing (a) statewide elemental geochemistry, (b) areas of black shale oxidation occurrence, which releases metals in soil and surface waters, (c) some clay deposits in the state that can contain high content of rare earth elements, and (d) site-specific uranium occurrences. Knowing the locations of major ore deposits in the state can also provide information related to mineral and chemical anomalies, such as for base metals and mercury. Radionuclide data in soil and water analyses are limited, so future research may involve obtaining more analyses to determine radon potential. This database also contains information on faulting and geology in the state. Although the metals content of trees may not seem relevant, the ash and humus content of degraded trees affects soil, stream sediment and water geochemistry. Many rural homes heat with wood, releasing metals into the surrounding biosphere. Stressed vegetation techniques can be used to explore for ore deposits and look for high metal contents in soils and rocks. These naturally occurring elements could be used for baseline information related to new collaborative research that integrates medicine, geology, forestry, and botany to predict metal contents of stream sediments, soil residuum, trees, plants, and forest cover and determine their relation to carcinogenesis.

JPRS Report, Science & Technology, USSR: Science & Technology Policy

DTIC Science & Technology

1989-12-07

technologies. —The restoration of the biosphere and its return to an ecologically clean, healthy state; the preservation and reproduction of soils and the...and Geochemistry of Combustible Materials Institute, Casting Problems Institute, Technical Thermal Physics Institute, Gas Insti- tute, Social and...academician, honorary director of the Institute of Geochemistry imeni A.P. Vinogradov of the Siberian Department of the USSR Academy of Sciences

Merging metagenomics and geochemistry reveals environmental controls on biological diversity and evolution.

PubMed

Alsop, Eric B; Boyd, Eric S; Raymond, Jason

2014-05-28

The metabolic strategies employed by microbes inhabiting natural systems are, in large part, dictated by the physical and geochemical properties of the environment. This study sheds light onto the complex relationship between biology and environmental geochemistry using forty-three metagenomes collected from geochemically diverse and globally distributed natural systems. It is widely hypothesized that many uncommonly measured geochemical parameters affect community dynamics and this study leverages the development and application of multidimensional biogeochemical metrics to study correlations between geochemistry and microbial ecology. Analysis techniques such as a Markov cluster-based measure of the evolutionary distance between whole communities and a principal component analysis (PCA) of the geochemical gradients between environments allows for the determination of correlations between microbial community dynamics and environmental geochemistry and provides insight into which geochemical parameters most strongly influence microbial biodiversity. By progressively building from samples taken along well defined geochemical gradients to samples widely dispersed in geochemical space this study reveals strong links between the extent of taxonomic and functional diversification of resident communities and environmental geochemistry and reveals temperature and pH as the primary factors that have shaped the evolution of these communities. Moreover, the inclusion of extensive geochemical data into analyses reveals new links between geochemical parameters (e.g. oxygen and trace element availability) and the distribution and taxonomic diversification of communities at the functional level. Further, an overall geochemical gradient (from multivariate analyses) between natural systems provides one of the most complete predictions of microbial taxonomic and functional composition. Clustering based on the frequency in which orthologous proteins occur among metagenomes facilitated accurate prediction of the ordering of community functional composition along geochemical gradients, despite a lack of geochemical input. The consistency in the results obtained from the application of Markov clustering and multivariate methods to distinct natural systems underscore their utility in predicting the functional potential of microbial communities within a natural system based on system geochemistry alone, allowing geochemical measurements to be used to predict purely biological metrics such as microbial community composition and metabolism.

Selection of reference genes for gene expression studies in virus-infected monocots using quantitative real-time PCR.

PubMed

Zhang, Kun; Niu, Shaofang; Di, Dianping; Shi, Lindan; Liu, Deshui; Cao, Xiuling; Miao, Hongqin; Wang, Xianbing; Han, Chenggui; Yu, Jialin; Li, Dawei; Zhang, Yongliang

2013-10-10

Both genome-wide transcriptomic surveys of the mRNA expression profiles and virus-induced gene silencing-based molecular studies of target gene during virus-plant interaction involve the precise estimation of the transcript abundance. Quantitative real-time PCR (qPCR) is the most widely adopted technique for mRNA quantification. In order to obtain reliable quantification of transcripts, identification of the best reference genes forms the basis of the preliminary work. Nevertheless, the stability of internal controls in virus-infected monocots needs to be fully explored. In this work, the suitability of ten housekeeping genes (ACT, EF1α, FBOX, GAPDH, GTPB, PP2A, SAND, TUBβ, UBC18 and UK) for potential use as reference genes in qPCR were investigated in five different monocot plants (Brachypodium, barley, sorghum, wheat and maize) under infection with different viruses including Barley stripe mosaic virus (BSMV), Brome mosaic virus (BMV), Rice black-streaked dwarf virus (RBSDV) and Sugarcane mosaic virus (SCMV). By using three different algorithms, the most appropriate reference genes or their combinations were identified for different experimental sets and their effectiveness for the normalisation of expression studies were further validated by quantitative analysis of a well-studied PR-1 gene. These results facilitate the selection of desirable reference genes for more accurate gene expression studies in virus-infected monocots. Copyright © 2013 Elsevier B.V. All rights reserved.

NASA'S Solar System Exploration Research Virtual Institute: An international approach toward bringing science and human exploration together for mutual benefit

NASA Astrophysics Data System (ADS)

Schmidt, Gregory

2016-07-01

The NASA Solar System Exploration Research Virtual Institute (SSERVI) is a virtual institute focused on research at the intersection of science and explora-tion, training the next generation of lunar scientists, and community development. The institute is a hub for opportunities that engage the larger scientific and exploration communities in order to form new interdis-ciplinary, research-focused collaborations. Its relative-ly large domestic teams work together along with in-ternational partners in both traditional and virtual set-tings to bring disparate approaches together for mutual benefit. This talk will describe the research efforts of the nine domestic teams that constitute the U.S. com-plement of the Institute and how it is engaging the in-ternational science and exploration communities through workshops, conferences, online seminars and classes, student exchange programs and internships. The Institute is centered on the scientific aspects of exploration as they pertain to the Moon, Near Earth Asteroids (NEAs) and the moons of Mars. It focuses on interdisciplinary, exploration-related science cen-tered around all airless bodies targeted as potential human destinations. Areas of study reported here will represent the broad spectrum of lunar, NEA, and Mar-tian moon sciences encompassing investigations of the surface, interior, exosphere, and near-space environ-ments as well as science uniquely enabled from these bodies. The technical focus ranges from investigations of plasma physics, geology/geochemistry, technology integration, solar system origins/evolution, regolith geotechnical properties, analogues, volatiles, ISRU and exploration potential of the target bodies. SSERVI enhances the widening knowledgebase of planetary research by acting as a bridge between several differ-ent groups and bringing together researchers from the scientific and exploration communities, multiple disci-plines across the full range of planetary sciences, and domestic and international communities and partner-ships.

Toxic legacy: the environmental impact of the manufactured gas industry in the United States.

PubMed

Tarr, Joel A

2014-01-01

The manufactured gas industry provided cities in the United States with energy for light and power during much of the period from approximately 1850 to 1950. This article explores the history of the effects of this industry on air, land, and water environments; it also examines attempts by the courts and municipal and state governments to regulate gas-waste pollution and the industry's response. The article concludes by exploring the heritage of badly contaminated sites that the manufactured gas industry left to the nation after it was replaced by natural gas after World War II.

Precambrian organic geochemistry - Preservation of the record

NASA Technical Reports Server (NTRS)

Hayes, J. M.; Wedeking, K. W.; Kaplan, I. R.

1983-01-01

A review of earlier studies is presented, and new results in Precambrian organic geochemistry are discussed. It is pointed out that two lines of evidence can be developed. One is based on structural organic chemistry, while the other is based on isotopic analyses. In the present investigation, the results of both structural and isotopic investigations of Precambrian organic matter are discussed. Processes and products related to organic geochemistry are examined, taking into account the carbon cycle, an approximate view of the principal pathways of carbon cycling associated with organic matter in the present global ecosystem, processes affecting sedimentary organic matter, and distribution and types of organic matter. Attention is given to chemical fossils in Precambrian sediments, kerogen analyses, the determination of the structural characteristics of kerogen, and data concerning the preservation of the Precambrian organic geochemical record.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kaltenegger, L.; Sasselov, D.; Rugheimer, S., E-mail: kaltenegger@mpia.de

Planets composed of large quantities of water that reside in the habitable zone are expected to have distinct geophysics and geochemistry of their surfaces and atmospheres. We explore these properties motivated by two key questions: whether such planets could provide habitable conditions and whether they exhibit discernable spectral features that distinguish a water-planet from a rocky Earth-like planet. We show that the recently discovered planets Kepler-62e and -62f are the first viable candidates for habitable zone water-planets. We use these planets as test cases for discussing those differences in detail. We generate atmospheric spectral models and find that potentially habitablemore » water-planets show a distinctive spectral fingerprint in transit depending on their position in the habitable zone.« less

Under the sea: microbial life in volcanic oceanic crust.

PubMed

Edwards, Katrina J; Wheat, C Geoffrey; Sylvan, Jason B

2011-09-06

Exploration of the microbiology in igneous, 'hard rock' oceanic crust represents a major scientific frontier. The igneous crust harbours the largest aquifer system on Earth, most of which is hydrologically active, resulting in a substantial exchange of fluids, chemicals and microorganisms between oceanic basins and crustal reservoirs. Study of the deep-subsurface biosphere in the igneous crust is technically challenging. However, technologies have improved over the past decade, providing exciting new opportunities for the study of deep-seated marine life, including in situ and cross-disciplinary experimentation in microbiology, geochemistry and hydrogeology. In this Progress article, we describe the recent advances, available technology and remaining challenges in the study of the marine intraterrestrial microbial life that is harboured in igneous oceanic crust.

High-resolution gamma ray attenuation density measurements on mining exploration drill cores, including cut cores

NASA Astrophysics Data System (ADS)

Ross, P.-S.; Bourke, A.

2017-01-01

Physical property measurements are increasingly important in mining exploration. For density determinations on rocks, one method applicable on exploration drill cores relies on gamma ray attenuation. This non-destructive method is ideal because each measurement takes only 10 s, making it suitable for high-resolution logging. However calibration has been problematic. In this paper we present new empirical, site-specific correction equations for whole NQ and BQ cores. The corrections force back the gamma densities to the "true" values established by the immersion method. For the NQ core caliber, the density range extends to high values (massive pyrite, 5 g/cm3) and the correction is thought to be very robust. We also present additional empirical correction factors for cut cores which take into account the missing material. These "cut core correction factors", which are not site-specific, were established by making gamma density measurements on truncated aluminum cylinders of various residual thicknesses. Finally we show two examples of application for the Abitibi Greenstone Belt in Canada. The gamma ray attenuation measurement system is part of a multi-sensor core logger which also determines magnetic susceptibility, geochemistry and mineralogy on rock cores, and performs line-scan imaging.

Chronology and geochemistry of late Holocene eolian deposits in the Brandon Sand Hills, Manitoba, Canada

USGS Publications Warehouse

Wolfe, S.A.; Muhs, D.R.; David, P.P.; McGeehin, J.P.

2000-01-01

Accelerator mass spectrometry and conventional radiocarbon age determinations of organic matter from paleosols indicate that the Brandon Sand Hills area of southern Manitoba has been subjected to recurrent intervals of eolian activity in the past 5000 years. Although precise regional correlations are precluded by dating uncertainties, periods of most notable paleosol development occurred around 2300 to 2000, 1400 to 1000, and 600 to 500 cal yr BP with eolian activity occurring before and after each of these periods. Episodes of eolian activity may correspond to periods of regional drought, whereas paleosols mark periods of increased moisture availability and stabilization by vegetation. The geochemistry of the eolian sands, paleosols and source sediments indicates that partial leaching of carbonates occurs from pedogenesis during humid climatic phases, and that this is probably the primary mechanism of carbonate depletion of eolian sands in this area. Recent trends in sand dune activity from historic aerial photography and early explorers' accounts indicate that the few active dunes that presently exist have stabilized at a rate of 10-20% per decade, despite several severe droughts in the 20th century. This may be attributed to pre-settlement droughts that were more severe than those in historic times although regional dune stabilization may also be related, in part, to the spread of forest cover in the past few hundred years. Crown copyright (C) 2000 Published by Elsevier Science Ltd. All rights reserved.

A simple definitive test for chloride salts on Europa

NASA Astrophysics Data System (ADS)

Brown, Michael

2016-10-01

Europa is a prime location for exploring our concepts of habitability throughout the solar system. As importantly, Europa is a case study for how liquid water drives the geochemistry and geophysics in a world very different from our own. One of the keys to understanding the liquid water's effect on habitability, geochemistry, and even on geophysics is understanding the chemistry of the internal ocean. Evaporites on the surface of Europa provide a window into this ocean chemistry. Recent observations have overturned 15 years worth of assumptions about the chemistry of Europa's ocean and have suggested that chloride salts - rather than sulfate salts - could be the most abundant constituent in the ocean and in the surface evaporites. The possibility of chloride salts has major implications for geophysics and habitability, but, because chloride salts are basically featureless, definitive spectral evidence was thought impossible.New laboratory data now shows, however, that electron irradiation with Europa-like fluxes imparts distinct spectral absorption features on chloride salts. These spectral features, in specific bands between 430 and 830 nm, are uniquely accessible to high spatial resolution HST spectroscopy. We propose a very simple program to obtain four separate high spatial resolution STIS slit scans across the disk of Europa to construct a global spectral map which will detect and map these surface salts. These observations can definitively identify chloride salts on Europa and fundamentally change our understanding of this world. Rarely can such a simple and short program with HST have the possibility of obtaining such conclusive and transformative results.

The compact AMS facility at Guangzhou Institute of Geochemistry, Chinese Academy of Sciences

NASA Astrophysics Data System (ADS)

Zhu, Sanyuan; Ding, Ping; Wang, Ning; Shen, Chengde; Jia, Guodong; Zhang, Gan

2015-10-01

A compact 14C AMS facility manufactured by the National Electrostatics Corporation (NEC) has been installed at Guangzhou Institute of Geochemistry, Chinese Academy of Sciences (GIGCAS). The system is based on a Model 1.5SDH-1 Pelletron accelerator with a maximum terminal volt 0.6 MV. This paper reports the performance and the operation of this machine in the first several months after installation.

Active Layer and Water Geochemistry Dynamics throughout the Yukon River Basin

NASA Astrophysics Data System (ADS)

Mutter, E. A.; Toohey, R.; Herman-Mercer, N. M.; Schuster, P. F.

2017-12-01

The hydrology of the Yukon River Basin has changed over the last several decades as evidenced by a variety of discharge, gravimetric, and geochemical analyses. The Indigenous Observation Network (ION), a community-based project, was initiated by the Yukon River Inter-Tribal Watershed Council and USGS. Capitalizing on existing USGS monitoring and research infrastructure and supplementing USGS collected data, ION investigates changes in surface water geochemistry and active layer dynamics throughout the Yukon River Basin. Over 1600 samples of surface water geochemistry (i.e., major ions, dissolved organic carbon, and 18O and 2H) have been collected at 35 sites throughout the Yukon River and its major tributaries over the past 15 years. Active layer dynamics (maximum thaw depth, soil temperature and moisture) have been collected at 20 sites throughout the Yukon River Basin for the past eight years. Important regional differences in geochemistry and active layer parameters linked to permafrost continuity and tributaries will be highlighted. Additionally, annual trends and seasonal dynamics describing the spatial and temporal heterogeneity of the watershed will be presented in the context of observed hydrological changes. These data assist the global effort to characterize arctic river fluxes and their relationship to the carbon cycle, weathering and permafrost degradation.

Exploring the Learning Problems and Resource Usage of Undergraduate Industrial Design Students in Design Studio Courses

ERIC Educational Resources Information Center

Chen, Wenzhi

2016-01-01

Design is a powerful weapon for modern companies so it is important to have excellent designers in the industry. The purpose of this study is to explore the learning problems and the resources that students use to overcome problems in undergraduate industrial design studio courses. A survey with open-type questions was conducted to collect data.…

Exploring Middle-Skill Training Programs for Employment in the Retail Industry

ERIC Educational Resources Information Center

Kazis, Richard; Molina, Frieda

2016-01-01

The retail industry is a huge and growing sector of the U.S. economy, accounting for about 10 percent of the nation's jobs in 2013 and projected to increase by 7 percent between 2012 and 2022. The sheer size of the industry and the number of employment opportunities it affords low-skilled workers led MDRC to explore the potential of the retail…

Uncovering Information Hidden in Web Archives: Glimpse at Web Analysis Building on Data Warehouses; Towards Continuous Web Archiving: First Results and an Agenda for the Future; The Open Video Digital Library; After Migration to an Electronic Journal Collection: Impact on Faculty and Doctoral Students; Who Is Reading On-Line Education Journals? Why? And What Are They Reading?; Report on eLibrary@UBC4: Research, Collaboration and the Digital Library - Visions for 2010.

ERIC Educational Resources Information Center

Rauber, Andreas; Bruckner, Robert M.; Aschenbrenner, Andreas; Witvoet, Oliver; Kaiser, Max; Masanes, Julien; Marchionini, Gary; Geisler, Gary; King, Donald W.; Montgomery, Carol Hansen; Rudner, Lawrence M.; Gellmann, Jennifer S.; Miller-Whitehead, Marie; Iverson, Lee

2002-01-01

These six articles discuss Web archives and Web analysis building on data warehouses; international efforts at continuous Web archiving; the Open Video Digital Library; electronic journal collections in academic libraries; online education journals; and an electronic library symposium at the University of British Columbia. (LRW)

Geology and mineral and energy resources, Roswell Resource Area, New Mexico; an interactive computer presentation

USGS Publications Warehouse

Tidball, Ronald R.; Bartsch-Winkler, S. B.

1995-01-01

This Compact Disc-Read Only Memory (CD-ROM) contains a program illustrating the geology and mineral and energy resources of the Roswell Resource Area, an administrative unit of the U.S. Bureau of Land Management in east-central New Mexico. The program enables the user to access information on the geology, geochemistry, geophysics, mining history, metallic and industrial mineral commodities, hydrocarbons, and assessments of the area. The program was created with the display software, SuperCard, version 1.5, by Aldus. The program will run only on a Macintosh personal computer. This CD-ROM was produced in accordance with Macintosh HFS standards. The program was developed on a Macintosh II-series computer with system 7.0.1. The program is a compiled, executable form that is nonproprietary and does not require the presence of the SuperCard software.

Summaries of physical research in the geosciences

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1990-10-01

The Department of Energy supports research in the geosciences in order to provide a sound foundation of fundamental knowledge in those areas of the geosciences which are germane to the Department of Energy's many missions. The Division of Engineering and Geosciences, part of the Office of Basic Energy Sciences of the Office of Energy Research, supports the Geosciences Research Program. The participants in this program include Department of Energy laboratories, industry, universities, and other governmental agencies. The summaries in this document, prepared by the investigators, briefly describe the scope of the individual programs. The Geosciences Research Program includes research inmore » geology, petrology, geophysics, geochemistry, solar physics, solar-terrestrial relationships, aeronomy, seismology, and natural resource modeling and analysis, including their various subdivisions and interdisciplinary areas. All such research is related either directly or indirectly to the Department of Energy's long-range technological needs.« less

The geochemistry and bioreactivity of fly-ash from coal-burning power stations.

PubMed

Jones, Timothy; Wlodarczyk, Anna; Koshy, Lata; Brown, Patrick; Shao, Longyi; BéruBé, Kelly

2009-07-01

Fly-ash is a byproduct of the combustion of coal in power stations for the generation of electricity. The fly-ash forms from the melting of incombustible minerals found naturally in the coal. The very high coal combustion temperatures result in the formation of microscopic glass particles from which minerals such as quartz, haematite and mullite can later recrystallize. In addition to these minerals, the glassy fly-ash contains a number of leachable metals. Mullite is a well-known material in the ceramics industry and a known respiratory hazard. Macroscopically mullite can be found in a large range of morphologies; however microscopic crystals appear to favour a fibrous habit. Fly-ash is a recognized bioreactive material in rat lung, generating hydroxyl radicals, releasing iron, and causing DNA damage. However, the mechanisms of the bioreactivity are still unclear and the relative contributions of the minerals and leachable metals to that toxicity are not well known.

A petroleum system model for gas hydrate deposits in northern Alaska

USGS Publications Warehouse

Lorenson, T.D.; Collett, Timothy S.; Wong, Florence L.

2011-01-01

Gas hydrate deposits are common on the North Slope of Alaska around Prudhoe Bay, however the extent of these deposits is unknown outside of this area. As part of a United States Geological Survey (USGS) and the Bureau of Land Management (BLM) gas hydrate research collaboration, well cutting and mud gas samples have been collected and analyzed from mainly industry-drilled wells on the Alaska North Slope for the purpose of prospecting for gas hydrate deposits. On the Alaska North Slope, gas hydrates are now recognized as an element within a petroleum systems approach or TPS (Total Petroleum System). Since 1979, 35 wells have been samples from as far west as Wainwright to Prudhoe Bay in the east. Geochemical studies of known gas hydrate occurrences on the North Slope have shown a link between gas hydrate and more deeply buried conventional oil and gas deposits. Hydrocarbon gases migrate from depth and charge the reservoir rock within the gas hydrate stability zone. It is likely gases migrated into conventional traps as free gas, and were later converted to gas hydrate in response to climate cooling concurrent with permafrost formation. Gas hydrate is known to occur in one of the sampled wells, likely present in 22 others based gas geochemistry and inferred by equivocal gas geochemistry in 11 wells, and absent in one well. Gas migration routes are common in the North Slope and include faults and widespread, continuous, shallowly dipping permeable sand sections that are potentially in communication with deeper oil and gas sources. The application of this model with the geochemical evidence suggests that gas hydrate deposits may be widespread across the North Slope of Alaska.

Urban soil geochemistry in Athens, Greece: The importance of local geology in controlling the distribution of potentially harmful trace elements.

PubMed

Argyraki, Ariadne; Kelepertzis, Efstratios

2014-06-01

Understanding urban soil geochemistry is a challenging task because of the complicated layering of the urban landscape and the profound impact of large cities on the chemical dispersion of harmful trace elements. A systematic geochemical soil survey was performed across Greater Athens and Piraeus, Greece. Surface soil samples (0-10cm) were collected from 238 sampling sites on a regular 1×1km grid and were digested by a HNO3-HCl-HClO4-HF mixture. A combination of multivariate statistics and Geographical Information System approaches was applied for discriminating natural from anthropogenic sources using 4 major elements, 9 trace metals, and 2 metalloids. Based on these analyses the lack of heavy industry in Athens was demonstrated by the influence of geology on the local soil chemistry with this accounting for 49% of the variability in the major elements, as well as Cr, Ni, Co, and possibly As (median values of 102, 141, 16 and 24mg kg(-1) respectively). The contribution to soil chemistry of classical urban contaminants including Pb, Cu, Zn, Sn, Sb, and Cd (medians of 45, 39, 98, 3.6, 1.7 and 0.3mg kg(-1) respectively) was also observed; significant correlations were identified between concentrations and urbanization indicators, including vehicular traffic, urban land use, population density, and timing of urbanization. Analysis of soil heterogeneity and spatial variability of soil composition in the Greater Athens and Piraeus area provided a representation of the extent of anthropogenic modifications on natural element loadings. The concentrations of Ni, Cr, and As were relatively high compared to those in other cities around the world, and further investigation should characterize and evaluate their geochemical reactivity. Copyright © 2014 Elsevier B.V. All rights reserved.

Verifying mapping, monitoring and modeling of fine sediment pollution sources in West Maui, Hawai'i, USA

NASA Astrophysics Data System (ADS)

Cerovski-Darriau, C.; Stock, J. D.

2017-12-01

Coral reef ecosystems, and the fishing and tourism industries they support, depend on clean waters. Fine sediment pollution from nearshore watersheds threatens these enterprises in West Maui, Hawai'i. To effectively mitigate sediment pollution, we first have to know where the sediment is coming from, and how fast it erodes. In West Maui, we know that nearshore sediment plumes originate from erosion of fine sand- to silt-sized air fall deposits where they are exposed by grazing, agriculture, or other disturbances. We identified and located these sediment sources by mapping watershed geomorphological processes using field traverses, historic air photos, and modern orthophotos. We estimated bank lowering rates using erosion pins, and other surface erosion rates were extrapolated from data collected elsewhere on the Hawaiian Islands. These measurements and mapping led to a reconnaissance sediment budget which showed that annual loads are dominated by bank erosion of legacy terraces. Field observations during small storms confirm that nearshore sediment plumes are sourced from bank erosion of in-stream, legacy agricultural deposits. To further verify this sediment budget, we used geochemical fingerprinting to uniquely identify each potential source (e.g. stream banks, agricultural fields, roads, other human modified soils, and hillslopes) from the Wahikuli watershed (10 km2) and analyzed the fine fraction using ICP-MS for elemental geochemistry. We propose to apply this the fingerprinting results to nearshore suspended sediment samples taken during storms to identify the proportion of sediment coming from each source. By combining traditional geomorphic mapping, monitoring and geochemistry, we hope to provide a powerful tool to verify the primary source of sediment reaching the nearshore.

Accelerating Exploration Through the Sharing of Best Practices in Research Partnerships

NASA Technical Reports Server (NTRS)

Nall, Mark; Casas, Joseph

2004-01-01

This paper proposes the formation of an international panel of space related public/private partnerships for the purposes of sharing best practices among members. The exploration and development of space is too costly to be conducted by governments alone. Private industry has a significant role in creating needed technologies, and developing commercial space infrastructure, thereby allowing sustainable exploration to take place. Public/private partnerships between government and industry are key to fostering industrial participation in space. The spacefaring nations have, or are developing these partnerships. Those organizations forming these partnerships can benefit from sharing among each other best practices and lessons learned. In this way the common goal of space exploration and development can be more effectively pursued.

Commentary: University-Industry Alliances.

ERIC Educational Resources Information Center

Nelkin, Dorothy; And Others

1987-01-01

Addresses issues and assesses developments in research and development collaborative efforts between universities and industry. Provides an historical context and explores current industry-university alliances. (ML)

Local assessment of the risk on groundwater resources related to unconventional hydrocarbon development

NASA Astrophysics Data System (ADS)

Raynauld, Melanie; Peel, Morgan; Lefebvre, Rene; Crow, Heather; Gloaguen, Erwan; Molson, John; Ahad, Jason; Aquilina, Luc

2014-05-01

A study was carried out in the Haldimand sector of Gaspé, Québec, Canada, to assess the potential link between a tight sandstone petroleum reservoir, whose potential is being evaluated, and the shallow fractured rock aquifer system. Petroleum exploration operations are taking place in the forested core of a hilly 40 km2 peninsula by the sea (up to 200 m amsl). Houses located on the periphery of the peninsula use wells for their water supply. This study served as a test case for a new framework proposed specifically to regulate oil and gas exploration and production activities. Significant concerns have been voiced in Quebec about such relatively new activities in the past few years. The study thus also aimed to provide a sound scientific perspective on the actual risk to groundwater resources related to oil and gas industry upstream activities. The study was based on the compilation of existing hydrogeological, geological and petroleum exploration data and on a field characterization. The field work involved 1) the installation of 17 observation wells and their hydraulic testing, including two fully-cored wells, 2) groundwater and surface water sampling in observation wells and more than 70 residential wells within a 2 km radius of a proposed new drill pad, and 3) geophysical logging of the open-hole observation wells. On all samples, chemical analyses involved major and minor inorganics, a wide range of organics, dissolved light hydrocarbon gases and CH4 isotopes, where present. More specialized analyses were done on observation wells (stable isotopes, tritium, 13C and 14C, noble gases, CFCs and SF6, organic acids). The hydrogeological conditions were then defined on the basis of existing and newly acquired data. Fracturing was found to control groundwater flow which is more intense in the upper 15 m of the rock aquifer. Recharge occurs on topographic highs where the rock is not covered by a low permeability glacial till, as found almost everywhere. Hydrogeochemical conditions were defined on the basis of a multivariate analysis of 16 chemical parameters. Quite wide variations in geochemistry were encountered, with evolved groundwater types affected by cation exchange or mixing with sea water. Groundwater residence time can thus be quite long, which may be due to the relatively high porosity (5-10%) of the rock. Methane is of mixed origin and preferentially associated with evolved water types. SALTFLOW, a variable-density flow and mass transport simulator, was used to represent the peninsula as well as the adjacent highlands in a 2D vertical section model. The interaction of the highland and peninsula recharge leads to nested flow systems with converging-diverging flow conditions under the peninsula, with a relatively shallow active flow zone. The observed and simulated conditions support a conceptual model that can be used to infer the level of risk for groundwater quality related to oil and gas industry activities.

The Isotope Geochemistry of Abyssal Peridotites and Related Rocks

DTIC Science & Technology

1993-06-01

object of several cruises, including a combined geophysics and petrology cruise (R/V Robert Conrad 27-09: Dick, et al., 1991) and an ocean drilling ...al. (1991) Proceed- ings of the Ocean Drilling Program, Scientific Results Vol. 118. Snow, J., Hart, S.R. and Dick, H.J.B. (1991) "Os isotopic...the geology, petrology , and geochemistry of mantle rocks, as well as their physical and acoustic properties. The first indications that the oceanic

Rethinking early Earth phosphorus geochemistry

PubMed Central

Pasek, Matthew A.

2008-01-01

Phosphorus is a key biologic element, and a prebiotic pathway leading to its incorporation into biomolecules has been difficult to ascertain. Most potentially prebiotic phosphorylation reactions have relied on orthophosphate as the source of phosphorus. It is suggested here that the geochemistry of phosphorus on the early Earth was instead controlled by reduced oxidation state phosphorus compounds such as phosphite (HPO32−), which are more soluble and reactive than orthophosphates. This reduced oxidation state phosphorus originated from extraterrestrial material that fell during the heavy bombardment period or was produced during impacts, and persisted in the mildly reducing atmosphere. This alternate view of early Earth phosphorus geochemistry provides an unexplored route to the formation of pertinent prebiotic phosphorus compounds, suggests a facile reaction pathway to condensed phosphates, and is consistent with the biochemical usage of reduced oxidation state phosphorus compounds in life today. Possible studies are suggested that may detect reduced oxidation state phosphorus compounds in ancient Archean rocks. PMID:18195373

Rethinking early Earth phosphorus geochemistry.

PubMed

Pasek, Matthew A

2008-01-22

Phosphorus is a key biologic element, and a prebiotic pathway leading to its incorporation into biomolecules has been difficult to ascertain. Most potentially prebiotic phosphorylation reactions have relied on orthophosphate as the source of phosphorus. It is suggested here that the geochemistry of phosphorus on the early Earth was instead controlled by reduced oxidation state phosphorus compounds such as phosphite (HPO(3)(2-)), which are more soluble and reactive than orthophosphates. This reduced oxidation state phosphorus originated from extraterrestrial material that fell during the heavy bombardment period or was produced during impacts, and persisted in the mildly reducing atmosphere. This alternate view of early Earth phosphorus geochemistry provides an unexplored route to the formation of pertinent prebiotic phosphorus compounds, suggests a facile reaction pathway to condensed phosphates, and is consistent with the biochemical usage of reduced oxidation state phosphorus compounds in life today. Possible studies are suggested that may detect reduced oxidation state phosphorus compounds in ancient Archean rocks.

Geochemistry, petrology, and palynology of the Pond Creek coal bed, northern Pike and southern Martin counties, Kentucky

USGS Publications Warehouse

Hower, J.C.; Ruppert, L.F.; Eble, C.F.; Clark, W.L.

2005-01-01

The geochemistry, petrology, and palynology of the Duckmantian-age Pond Creek coal bed were investigated in northern Pike and southern Martin counties, eastern Kentucky. The coal bed exhibits significant vertical variation in the investigated geochemical parameters, with many diagenetic overprints of the original geochemistry. Included in the range of geochemical signatures are the presence of elements, particularly TiO2 and Zr, suggesting the detrital influences at the time of deposition of a low-vitrinite durain; a high CaO zone with elevated B/Be, both suggesting marine influence, in a lithotype in the middle of the coal bed; and the postdepositional emplacement of pyrite in the uppermost lithotype. Individual lithotypes, each representing distinct depositional environments, all complicated to some degree by diagentic overprints, comprise the complex history of the coal bed. ?? 2004 Elsevier B.V. All rights reserved.

76 FR 66040 - Announcement of Meeting To Explore Feasibility of Establishing a NIST/Industry Consortium on...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-10-25

... Explore Feasibility of Establishing a NIST/Industry Consortium on ``Concrete Rheology: Enabling Metrology... meeting. SUMMARY: The National Institute of Standards and Technology (NIST) invites interested parties to attend a pre-consortium meeting on November 8, [[Page 66041

Organic matter compounds as source indicators and tracers for marine pollution in a western Mediterranean coastal zone.

PubMed

Amorri, Jalila; Geffroy-Rodier, Claude; Boufahja, Fehmi; Mahmoudi, Ezzeddine; Aïssa, Patricia; Ksibi, Mohamed; Amblès, André

2011-11-01

Complex organic compounds found in oil and sediments linked with a particular source (such as algae, bacteria or vascular plants) are defined as biomarkers and are useful dating indicators in organic geochemistry. This paper presents the composition of the organic matter (OM) on marine surface sediments from a degraded Tunisian coast analysed by pyrolysis and gas chromatography-mass spectrometry (GC-MS). High total OM contents (0.3-4.2%) were detected with high levels of saturated linear hydrocarbons. The aliphatic lipids had contributed with up to 11.7% of the total OM, and their distribution had consisted of resolved compounds (n-alkanes and fatty acid (FAs)) and an unresolved complex mixture. Hydrocarbons, primarily n-alkanes, were ranged from 368 to 3,886 μg g(-1). The FAs (674-2,568 μg g(-1)) were dominated by derived primary production, and the short chain FAs (C16 and C18) were the most abundant throughout. The ubiquitous presence of petroleum contamination, mainly from offshore oil exploration, discharge of pollutants from rivers, shipping activities and atmospheric deposition was found in all samples. The Gabès littoral seems to be quite to very polluted near the industrial zone of Ghannouch. The C/H ratio (generally around 5.9), the thermal analysis and GC-MS of n-alkanes and FAs showed that the OM in the studied area was composed of anthropogenic/petrogenic, marine and continental sources. Our study represents an innovative approach to assessing environmental pollution. The evaluation of organic matter by examination of sterols, alkanes and fatty acids allows the identification of source, both anthropogenic and natural.

Factors affecting the geochemistry of a thick, subbituminous coal bed in the Powder River Basin: volcanic, detrital, and peat-forming processes

USGS Publications Warehouse

Crowley, S.S.; Ruppert, L.F.; Belkin, H.E.; Stanton, R.W.; Moore, T.A.

1993-01-01

The inorganic geochemistry and mineralogy of three cores from the Anderson-Dietz 1 coal bed, a 15.2-m-thick subbituminous coal bed in the Tongue River Member (Paleocene) of the Fort Union Formation, were examined (1) to determine if the cores could be correlated by geochemical composition alone over a total distance of 2 km and (2) to identify the major factors that influenced the geochemistry of the coal bed. Chemical data (46 elements on a coal-ash basis) for 81 coal samples and 4 carbonaceous rock samples, with most samples representing a 0.6-m-thick (2-ft) interval of core, were grouped into compositional clusters by means of cluster analysis. Seven major clusters were produced; two of these clusters can be used to correlate the coal bed throughout the study area. Data from scanning electron and optical microscope analyses indicate that several factors influenced the geochemistry of the Anderson-Dietz 1 coal bed. The majority of mineral grains in the coal bed are interpreted to be detrital (water borne); evidence includes the presence of rounded to subrounded quartz grains having two-phase, aqueous fluid inclusions characteristic of hydrothermal or low-to-moderate grade metamorphic quartz. These quartz grains are found throughout the coal bed but are most abundant in samples from the midpart of the bed, which was influenced by detrital input associated with the deposition of the clastic rocks that form the split between the Anderson and Dietz 1 coal beds 900 m to the east of the study area. In addition to the detrital minerals mentioned above, volcanic ash that was fluvially transported to the sites of peat deposition or possibly deposited as air-fall volcanic ash also affected the geochemistry of the coal bed. For example, crandallite(?), a mineral reported to form as an alteration product of volcanic ash, is found in seven samples from the coal bed. The presence of quartz grains containing silicate-melt inclusions in eight samples from the coal bed.provides further support for a volcanic ash component. Other factors that probably affected the geochemistry of the coal bed include (1) detrital input associated with the deposition of the roof rocks of the coal bed, (2) peat-forming processes and plant material, and (3) epigenetic ground-water flow. ?? 1993.

Exploration of Near-Earth Asteroids

NASA Technical Reports Server (NTRS)

Abell, Paul

2013-01-01

A major goal for NASA's human spaceflight program is to send astronauts to near-Earth asteroids (NEAs) in the coming decades. Missions to NEAs would undoubtedly provide a great deal of technical and engineering data on spacecraft operations for future human space exploration while conducting in-depth scientific examinations of these primitive objects. However, prior to sending human explorers to NEAs, robotic investigations of these bodies would be required in order to maximize operational efficiency and reduce mission risk. These precursor missions to NEAs would fill crucial strategic knowledge gaps concerning their physical characteristics that are relevant for human exploration of these relatively unknown destinations. Information obtained from a human investigation of a NEA, together with ground-based observations and prior spacecraft investigations of asteroids and comets, will also provide a real measure of ground truth to data obtained from terrestrial meteorite collections. Major advances in the areas of geochemistry, impact history, thermal history, isotope analyses, mineralogy, space weathering, formation ages, thermal inertias, volatile content, source regions, solar system formation, etc. can be expected from human NEA missions. Samples directly returned from a primitive body would lead to the same kind of breakthroughs for understanding NEAs that the Apollo samples provided for understanding the Earth-Moon system and its formation history. In addition, robotic precursor and human exploration missions to NEAs would allow the NASA and its international partners to gain operational experience in performing complex tasks (e.g., sample collection, deployment of payloads, retrieval of payloads, etc.) with crew, robots, and spacecraft under microgravity conditions at or near the surface of a small body. This would provide an important synergy between the worldwide Science and Exploration communities, which will be crucial for development of future international deep space exploration architectures and has potential benefits for future exploration of other destinations beyond low-Earth orbit.

Future Scenario Development from Disruptive Exploration Technologies and Business Models in the U.S. Geothermal Industry

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wall, Anna

With recent trends toward intermittent renewable energy sources in the U.S., the geothermal industry in its current form faces a crossroad: adapt, disrupt, or be left behind. Strategic planning with scenario analysis offers a framework to characterize plausible views of the future given current trends - as well as disruptions to the status quo. To inform strategic planning in the Department of Energy's (DOE) Geothermal Technology Office (GTO), the Geothermal Vision Study is tasked with offering data-driven pathways for future geothermal development. Scenario analysis is a commonly used tool in private industry corporate strategic planning as a way to prioritizemore » and manage large investments in light of uncertainty and risk. Since much of the uncertainty and risk in a geothermal project is believed to occur within early stage exploration and drilling, this paper focuses on the levers (technical and financial) within the exploration process that can be pulled to affect change. Given these potential changes, this work first qualitatively explores potential shifts to the geothermal industry. Future work within the Geothermal Vision Study will incorporate these qualitative scenarios quantitatively, in competition with other renewable and conventional energy industries.« less

Tracking Water-Use in Colorado's Energy Exploration and Development

NASA Astrophysics Data System (ADS)

Halamka, T. A.; Ge, S.

2017-12-01

By the year 2050 Colorado's population is projected to nearly double, posing many important questions about the stresses that Colorado's water resources will experience. Growing in tandem with Colorado's population is the state's energy exploration and development industry. As water demands increase across the state, the energy exploration and development industry must adapt to and prepare for future difficulties surrounding the legal acquisition of water. The goal of this study is to map out the potential sources of water within the state of Colorado that are being purchased, or will be eligible for purchase, for unconventional subsurface energy extraction. The background of this study includes an overview of the intertwined relationship between water, the energy industry, and the Colorado economy. The project also aims to determine the original purpose of legally appropriated water that is used in Colorado's energy exploration and development. Is the water primarily being purchased or leased from the agricultural sector? Is the water mostly surface water or groundwater? In order to answer these questions, we accessed data from numerous water reporting agencies and examined legal methods of acquisition of water for use in the energy industry. Using these data, we assess the future water quantity available to the energy industry. Knowledge and foresight on the origins of the water used by the energy industry will allow for better and strategic planning of water resources and how the industry will respond to statewide water-related stresses.

Determination of trace amounts of rare-earth elements in highly pure neodymium oxide by sector field inductively coupled plasma mass spectrometry (ICP-SFMS) and high-performance liquid chromatography (HPLC) techniques

NASA Astrophysics Data System (ADS)

Pedreira, W. R.; Sarkis, J. E. S.; da Silva Queiroz, C. A.; Rodrigues, C.; Tomiyoshi, I. A.; Abrão, A.

2003-02-01

Recently rare-earth elements (REE) have received much attention in fields of geochemistry and industry. Rapid and accurate determinations of them are increasingly required as industrial demands expand. Sector field inductively coupled plasma mass spectrometry (ICP-SFMS) with high-performance liquid chromatography (HPLC) has been applied to the determination of REE. HR ICP-MS was used as an element-selective detector for HPLC in highly pure materials. The separation of REE with HPLC helped to avoid erroneous analytical results due to spectral interferences. Sixteen elements (Sc, Y and 14 lanthanides) were determined selectively with the HPLC/ICP-SFMS system using a concentration gradient methods. The detection limits with the HPLC/ICP-SFMS system were about 0.5-10 pg mL-1. The percentage recovery ranged from 90% to 100% for different REE. The %RSD of the methods varying between 2.5% and 4.5% for a set of five (n=5) replicates was found for the IPEN's material and for the certificate reference sample. Determination of trace REEs in two highly pure neodymium oxides samples (IPEN and Johnson Matthey Company) were performed. In short, the IPEN's materials which are highly pure (>99.9%) were successfully analyzed without spectral interferences.

Environmental Geochemistry of Cerium: Applications and Toxicology of Cerium Oxide Nanoparticles

PubMed Central

Dahle, Jessica T.; Arai, Yuji

2015-01-01

Cerium is the most abundant of rare-earth metals found in the Earth’s crust. Several Ce-carbonate, -phosphate, -silicate, and -(hydr)oxide minerals have been historically mined and processed for pharmaceutical uses and industrial applications. Of all Ce minerals, cerium dioxide has received much attention in the global nanotechnology market due to their useful applications for catalysts, fuel cells, and fuel additives. A recent mass flow modeling study predicted that a major source of CeO2 nanoparticles from industrial processing plants (e.g., electronics and optics manufactures) is likely to reach the terrestrial environment such as landfills and soils. The environmental fate of CeO2 nanoparticles is highly dependent on its physcochemical properties in low temperature geochemical environment. Though there are needs in improving the analytical method in detecting/quantifying CeO2 nanoparticles in different environmental media, it is clear that aquatic and terrestrial organisms have been exposed to CeO2 NPs, potentially yielding in negative impact on human and ecosystem health. Interestingly, there has been contradicting reports about the toxicological effects of CeO2 nanoparticles, acting as either an antioxidant or reactive oxygen species production-inducing agent). This poses a challenge in future regulations for the CeO2 nanoparticle application and the risk assessment in the environment. PMID:25625406

Environmental geochemistry of cerium: applications and toxicology of cerium oxide nanoparticles.

PubMed

Dahle, Jessica T; Arai, Yuji

2015-01-23

Cerium is the most abundant of rare-earth metals found in the Earth's crust. Several Ce-carbonate, -phosphate, -silicate, and -(hydr)oxide minerals have been historically mined and processed for pharmaceutical uses and industrial applications. Of all Ce minerals, cerium dioxide has received much attention in the global nanotechnology market due to their useful applications for catalysts, fuel cells, and fuel additives. A recent mass flow modeling study predicted that a major source of CeO2 nanoparticles from industrial processing plants (e.g., electronics and optics manufactures) is likely to reach the terrestrial environment such as landfills and soils. The environmental fate of CeO2 nanoparticles is highly dependent on its physcochemical properties in low temperature geochemical environment. Though there are needs in improving the analytical method in detecting/quantifying CeO2 nanoparticles in different environmental media, it is clear that aquatic and terrestrial organisms have been exposed to CeO2 NPs, potentially yielding in negative impact on human and ecosystem health. Interestingly, there has been contradicting reports about the toxicological effects of CeO2 nanoparticles, acting as either an antioxidant or reactive oxygen species production-inducing agent). This poses a challenge in future regulations for the CeO2 nanoparticle application and the risk assessment in the environment.