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  • 1
    Publication Date: 2013-12-11
    Description: Comparative genomic studies have reported widespread variation in levels of gene expression within and between species. Using these data to infer organism-level trait divergence has proven to be a key challenge in the field. We have used a wild Malaysian population of S. cerevisiae as a test bed in the search to predict and validate trait differences based on observations of regulatory variation. Malaysian yeast, when cultured in standard medium, activated regulatory programs that protect cells from the toxic effects of high iron. Malaysian yeast also showed a hyperactive regulatory response during culture in the presence of excess iron and had a unique growth defect in conditions of high iron. Molecular validation experiments pinpointed the iron metabolism factors AFT1 , CCC1 , and YAP5 as contributors to these molecular and cellular phenotypes; in genome-scale sequence analyses, a suite of iron toxicity response genes showed evidence for rapid protein evolution in Malaysian yeast. Our findings support a model in which iron metabolism has diverged in Malaysian yeast as a consequence of a change in selective pressure, with Malaysian alleles shifting the dynamic range of iron response to low-iron concentrations and weakening resistance to extreme iron toxicity. By dissecting the iron scarcity specialist behavior of Malaysian yeast, our work highlights the power of expression divergence as a signpost for biologically and evolutionarily relevant variation at the organismal level. Interpreting the phenotypic relevance of gene expression variation is one of the primary challenges of modern genomics.
    Electronic ISSN: 2160-1836
    Topics: Biology
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  • 2
    Publication Date: 2015-09-04
    Description: MYC (also known as c-MYC) overexpression or hyperactivation is one of the most common drivers of human cancer. Despite intensive study, the MYC oncogene remains recalcitrant to therapeutic inhibition. MYC is a transcription factor, and many of its pro-tumorigenic functions have been attributed to its ability to regulate gene expression programs. Notably, oncogenic MYC activation has also been shown to increase total RNA and protein production in many tissue and disease contexts. While such increases in RNA and protein production may endow cancer cells with pro-tumour hallmarks, this increase in synthesis may also generate new or heightened burden on MYC-driven cancer cells to process these macromolecules properly. Here we discover that the spliceosome is a new target of oncogenic stress in MYC-driven cancers. We identify BUD31 as a MYC-synthetic lethal gene in human mammary epithelial cells, and demonstrate that BUD31 is a component of the core spliceosome required for its assembly and catalytic activity. Core spliceosomal factors (such as SF3B1 and U2AF1) associated with BUD31 are also required to tolerate oncogenic MYC. Notably, MYC hyperactivation induces an increase in total precursor messenger RNA synthesis, suggesting an increased burden on the core spliceosome to process pre-mRNA. In contrast to normal cells, partial inhibition of the spliceosome in MYC-hyperactivated cells leads to global intron retention, widespread defects in pre-mRNA maturation, and deregulation of many essential cell processes. Notably, genetic or pharmacological inhibition of the spliceosome in vivo impairs survival, tumorigenicity and metastatic proclivity of MYC-dependent breast cancers. Collectively, these data suggest that oncogenic MYC confers a collateral stress on splicing, and that components of the spliceosome may be therapeutic entry points for aggressive MYC-driven cancers.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hsu, Tiffany Y-T -- Simon, Lukas M -- Neill, Nicholas J -- Marcotte, Richard -- Sayad, Azin -- Bland, Christopher S -- Echeverria, Gloria V -- Sun, Tingting -- Kurley, Sarah J -- Tyagi, Siddhartha -- Karlin, Kristen L -- Dominguez-Vidana, Rocio -- Hartman, Jessica D -- Renwick, Alexander -- Scorsone, Kathleen -- Bernardi, Ronald J -- Skinner, Samuel O -- Jain, Antrix -- Orellana, Mayra -- Lagisetti, Chandraiah -- Golding, Ido -- Jung, Sung Y -- Neilson, Joel R -- Zhang, Xiang H-F -- Cooper, Thomas A -- Webb, Thomas R -- Neel, Benjamin G -- Shaw, Chad A -- Westbrook, Thomas F -- 1F30CA180447/CA/NCI NIH HHS/ -- 1R01CA178039-01/CA/NCI NIH HHS/ -- P30 AI036211/AI/NIAID NIH HHS/ -- P30CA125123/CA/NCI NIH HHS/ -- R01 AR045653/AR/NIAMS NIH HHS/ -- R01 AR060733/AR/NIAMS NIH HHS/ -- R01 CA140474/CA/NCI NIH HHS/ -- R01 HL045565/HL/NHLBI NIH HHS/ -- S10 RR024574/RR/NCRR NIH HHS/ -- U54-CA149196/CA/NCI NIH HHS/ -- England -- Nature. 2015 Sep 17;525(7569):384-8. doi: 10.1038/nature14985. Epub 2015 Sep 2.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Verna &Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas 77030, USA. ; Interdepartmental Program in Molecular and Biomedical Sciences, Baylor College of Medicine, Houston, Texas 77030, USA. ; Medical Scientist Training Program, Baylor College of Medicine, Houston, Texas 77030, USA. ; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA. ; Princess Margaret Cancer Centre, University Health Network, Toronto M5G 2C4, Canada. ; Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas 77030, USA. ; Department of Pathology and Immunology, Baylor College of Medicine, Houston, Texas 77030, USA. ; Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas 77030, USA. ; Department of Pediatrics, Baylor College of Medicine, Houston, Texas 77030, USA. ; Department of Physics, University of Illinois, Urbana, Illinois 61801, USA. ; Center for Chemical Biology, Bioscience Division, SRI International, Menlo Park, California 94025, USA. ; The Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas 77030, USA. ; Department of Medical Biophysics, University of Toronto, Toronto M5S 2J7, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26331541" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Breast Neoplasms/*drug therapy/*genetics/pathology ; Cell Line, Tumor ; Cell Survival/drug effects ; Cell Transformation, Neoplastic/drug effects ; Female ; Gene Expression Regulation, Neoplastic/drug effects ; Genes, myc/*genetics ; HeLa Cells ; Humans ; Introns/genetics ; Mice ; Mice, Nude ; Neoplasm Metastasis/drug therapy ; Nuclear Proteins/metabolism ; Phosphoproteins/metabolism ; Proto-Oncogene Proteins c-myc/genetics/metabolism ; RNA Precursors/biosynthesis/genetics ; RNA Splicing/drug effects ; RNA, Messenger/biosynthesis/genetics ; Ribonucleoprotein, U2 Small Nuclear/metabolism ; Ribonucleoproteins/metabolism ; Spliceosomes/*drug effects/*metabolism ; Xenograft Model Antitumor Assays
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 3
    Publication Date: 2003-05-01
    Print ISSN: 0957-4484
    Electronic ISSN: 1361-6528
    Topics: Physics
    Published by Institute of Physics
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  • 4
    Electronic Resource
    Electronic Resource
    Woodbury, NY : American Institute of Physics (AIP)
    Applied Physics Letters 61 (1992), S. 2515-2517 
    ISSN: 1077-3118
    Source: AIP Digital Archive
    Topics: Physics
    Notes: A robust, high current electron beam, produced by emission from a refractory metal cathode operating in the superemissive mode, is reported. Electron beam current of (approximately-greater-than)150 A is produced by a back-lighted thyratron during the conductive phase. Electron energies are several hundred eV and the electron beam has the duration of the discharge pulse. A simple differential pumping scheme has been used to demonstrate extraction of the electron beam into a low pressure (〈7 mTorr) region.
    Type of Medium: Electronic Resource
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  • 5
    ISSN: 0378-1119
    Keywords: Recombinant DNA ; dual promoters ; nucleotide sequence ; oncogene ; regulatory region ; sequence homologies ; woodchuck
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology
    Type of Medium: Electronic Resource
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  • 6
    Electronic Resource
    Electronic Resource
    Springer
    Bulletin of environmental contamination and toxicology 65 (2000), S. 126-131 
    ISSN: 1432-0800
    Source: Springer Online Journal Archives 1860-2000
    Topics: Energy, Environment Protection, Nuclear Power Engineering , Medicine
    Type of Medium: Electronic Resource
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  • 7
    Electronic Resource
    Electronic Resource
    Springer
    Journal of materials science 18 (1983), S. 3213-3218 
    ISSN: 1573-4803
    Source: Springer Online Journal Archives 1860-2000
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics
    Notes: Abstract Experimental results show that in some decarburized Fe-Ni alloys, values of M S decrease (and strength increases) with the increase in quenching temperature above 900° C with definite grain size of the parent phase. After short-time annealing of the quenched specimen, m S values increase and strength decreases. According to the nucleation model suggested by Olson and Cohen and the observation of the fault nucleation by Smallman et al., a model of the interaction of clustered point defect (vacancies) with partial dislocation is presented. It is suggested that the lowering of M S is due to the pinning of clustered vacancies to partial dislocation, hindering the nucleation of martensite. Preliminary TEM observations of the substructure of austenite has confirmed this view. From this experiment the energy of formation of a vacancy is found to be 1.2 to 1.4 eV, which is in good agreement with the known values for Fe-Ni. The activation energy obtained in the annealing process is 0.18eV, corresponding to the dissociation energy of the divacancies. The effect of quenching stress is also taken into consideration and it is concluded that the moderate cooling rate of 2500° C sec−1 seems just suitable for studying the effect of quenched-in vacancies on M S.
    Type of Medium: Electronic Resource
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  • 8
    Electronic Resource
    Electronic Resource
    Springer
    Journal of materials science 20 (1985), S. 23-31 
    ISSN: 1573-4803
    Source: Springer Online Journal Archives 1860-2000
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics
    Notes: Abstract Having estimated the critical driving force associated with martensitic transformation,ΔG α→M, as $$\Delta G^{\alpha \to M} = 2.1 \sigma + 900$$ whereσ is the yield strength of austenite atM s, in MN m−2, we can directly deduce theM s by the following equation: $$\Delta G^{\gamma \to {\rm M}} |_{M_S } = \Delta G^{\gamma \to \alpha } + \Delta G^{\alpha \to M} = 0.$$ The calculatedM s are in good agreement with the experimental results in Fe-C, Fe-Ni-C and Fe-Cr-C, and are consistent with part of the data in Fe-Ni, Fe-Cr and Fe-Mn alloys. Some higher “M s” determined in previous works may be identified asM a,M s of surface martensite or bainitic temperature. TheM s of pure iron is about 800 K. TheM s in Fe-C can be approximately expressed as $$M_S (^\circ {\text{C}}) = 520 {\text{--- }}\left[ {{\text{\% C}}} \right]{\text{ }}x 320.$$ In Fe-X, the effect of the alloying element onM s depends on its effect onT 0 and on the strengthening of austenite. An approach for calculation of ΔG γ→α in Fe-X-C is suggested. Thus dM s/dx c in Fe-X-C is found to increase with the decrease of the activity coefficient of carbon in austenite.
    Type of Medium: Electronic Resource
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  • 9
    Electronic Resource
    Electronic Resource
    Springer
    Journal of materials science 18 (1983), S. 3206-3212 
    ISSN: 1573-4803
    Source: Springer Online Journal Archives 1860-2000
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics
    Notes: Abstract The calculation of the driving force, T 0, and the free energy change associated with the martensitic transformation, ΔG γ→α, in Fe-C given by Hsu is used to obtain M S (temperature at which ΔG γ→M=0) values by combining various expressions for ΔG Fe γ→α with evaluations of ΔG γ→α from Fisher, Kaufman, Guggenhiem and others. A combination of the Lobo-Fisher-Guggenhiem model with ΔG Fe γ→α values from Mogutnov, and of the Hsu model (A) with ΔG Fe γ→α values from Kaufman and co-workers are in good agreement with experimental values of M S. Hsu's model, however, is much simpler. Experimental M S values for Fe-C are well represented and the M S temperature with X C=0.06 determined by Greninger, seem too high. The calculated driving force not only depends on the model adopted for ΔG γ→α evaluation but also mainly on the values of ΔG Fe γ→α and M S. It is probable that values of driving force increase continuously with carbon content.
    Type of Medium: Electronic Resource
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  • 10
    Electronic Resource
    Electronic Resource
    Springer
    Journal of materials science 29 (1994), S. 1662-1665 
    ISSN: 1573-4803
    Source: Springer Online Journal Archives 1860-2000
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics
    Notes: Abstract The relationship between the starting temperature of the martensitic transformation, M s, and the grain size of the parent phase, d, in ZrO2-containing ceramics was investigated. The experimental results showed that in tetragonal zirconia polycrystals doped with CeO2 (8 mol%) and Y2O3 (0.25 mol%) (8Ce, 0.25Y-TZP), the M s temperature displays a linear relationship with d −1/2, its slope being negative. A new explanation for this phenomenon, the so-called the size effect, has been presented, in which the grain size of the parent phase affects the M s temperature through the strength of the parent phase. Thermodynamic calculation of the relationship between M s and d gives a result consistent with the experimental ones.
    Type of Medium: Electronic Resource
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