Showing papers by "Max Planck Society published in 2000"
TL;DR: It is now becoming clear that lipid micro-environments on the cell surface — known as lipid rafts — also take part in this process of signalling transduction, where protein–protein interactions result in the activation of signalling cascades.
Abstract: Signal transduction is initiated by complex protein-protein interactions between ligands, receptors and kinases, to name only a few. It is now becoming clear that lipid micro-environments on the cell surface -- known as lipid rafts -- also take part in this process. Lipid rafts containing a given set of proteins can change their size and composition in response to intra- or extracellular stimuli. This favours specific protein-protein interactions, resulting in the activation of signalling cascades.
6,080 citations
TL;DR: An information theoretic measure is derived that quantifies the statistical coherence between systems evolving in time and is able to distinguish effectively driving and responding elements and to detect asymmetry in the interaction of subsystems.
Abstract: An information theoretic measure is derived that quantifies the statistical coherence between systems evolving in time. The standard time delayed mutual information fails to distinguish information that is actually exchanged from shared information due to common history and input signals. In our new approach, these influences are excluded by appropriate conditioning of transition probabilities. The resulting transfer entropy is able to distinguish effectively driving and responding elements and to detect asymmetry in the interaction of subsystems.
3,653 citations
TL;DR: It is found that RNAi is ATP dependent yet uncoupled from mRNA translation, suggesting that the 21-23 nucleotide fragments from the dsRNA are guiding mRNA cleavage.
3,034 citations
TL;DR: A first-principles investigation, based on density functional theory, produces strong evidence that hydrogen acts as a source of conductivity: it can incorporate in high concentrations and behaves as a shallow donor.
Abstract: Zinc oxide, a wide-band-gap semiconductor with many technological applications, typically exhibits n-type conductivity. The cause of this conductivity has been widely debated. A first-principles investigation, based on density functional theory, produces strong evidence that hydrogen acts as a source of conductivity: it can incorporate in high concentrations and behaves as a shallow donor. This behavior is unexpected and very different from hydrogen's role in other semiconductors, in which it acts only as a compensating center and always counteracts the prevailing conductivity. These insights have important consequences for control and utilization of hydrogen in oxides in general.
2,970 citations
TL;DR: In this article, the authors provide microscopic evidence for a structured consortium of archaea and sulphate-reducing bacteria, which are identified by fluorescence in situ hybridization using specific 16S rRNA-targeted oligonucleotide probes.
Abstract: A large fraction of globally produced methane is converted to CO2 by anaerobic oxidation in marine sediments. Strong geochemical evidence for net methane consumption in anoxic sediments is based on methane profiles, radiotracer experiments and stable carbon isotope data. But the elusive microorganisms mediating this reaction have not yet been isolated, and the pathway of anaerobic oxidation of methane is insufficiently understood. Recent data suggest that certain archaea reverse the process of methanogenesis by interaction with sulphate-reducing bacteria. Here we provide microscopic evidence for a structured consortium of archaea and sulphate-reducing bacteria, which we identified by fluorescence in situ hybridization using specific 16S rRNA-targeted oligonucleotide probes. In this example of a structured archaeal-bacterial symbiosis, the archaea grow in dense aggregates of about 100 cells and are surrounded by sulphate-reducing bacteria. These aggregates were abundant in gas-hydrate-rich sediments with extremely high rates of methane-based sulphate reduction, and apparently mediate anaerobic oxidation of methane.
2,679 citations
TL;DR: In this article, a large grid of stellar evolution-ary tracks, which are suitable to model star clusters and galaxies by means of population synthesis, is presented for the initial chemical compositions.
Abstract: We present a large grid of stellar evolution- ary tracks, which are suitable to modelling star clusters and galaxies by means of population synthesis. The tracks are presented for the initial chemical compositions (Z = 0:0004;Y =0 :23), (Z =0 :001;Y =0 :23), (Z =0 :004;Y = 0:24), (Z =0 :008;Y =0 :25), (Z =0 :019;Y =0 :273) (solar composition), and (Z =0 :03;Y =0 :30). They are com- puted with updated opacities and equation of state, and a moderate amount of convective overshoot. The range of initial masses goes from 0:15 M to 7 M ,a nd the evo- lutionary phases extend from the zero age main sequence (ZAMS) till either the thermally pulsing AGB regime or carbon ignition. We also present an additional set of mod- els with solar composition, computed using the classical Schwarzschild criterion for convective boundaries. From all these tracks, we derive the theoretical isochrones in the Johnson-Cousins UBVRIJHK broad-band photometric system.
2,609 citations
TL;DR: The WRKY proteins are a superfamily of transcription factors with up to 100 representatives in Arabidopsis that appear to be involved in the regulation of various physio-logical programs that are unique to plants, including pathogen defense, senescence and trichome development.
2,447 citations
TL;DR: The finding that the amino acid proline is an effective asymmetric catalyst for the direct aldol reaction between unmodified acetone and a variety of aldehydes is reported.
Abstract: Most enzymatic transformations have a synthetic counterpart. Often though, the mechanisms by which natural and synthetic catalysts operate differ markedly. The catalytic asymmetric aldol reaction as a fundamental C-C bond forming reaction in chemistry and biology is an interesting case in this respect. Chemically, this reaction is dominated by approaches that utilize preformed enolate equivalents in combination with a chiral catalyst.1 Typically, a metal is involved in the reaction mechanism.1d Most enzymes, however, use a fundamentally different strategy and catalyze the direct aldolization of two unmodified carbonyl compounds. Class I aldolases utilize an enamine based mechanism,2 while Class II aldolases mediate this process by using a zinc cofactor.3 The development of aldolase antibodies that use an enamine mechanism and accept hydrophobic organic substrates has demonstrated the potential inherent in amine-catalyzed asymmetric aldol reactions.4 Recently, the first small-molecule asymmetric class II aldolase mimics have been described in the form of zinc, lanthanum, and barium complexes.5,6 However, amine-based asymmetric class I aldolase mimics have not been described in the literature.7 Here we report our finding that the amino acid proline is an effective asymmetric catalyst for the direct aldol reaction between unmodified acetone and a variety of aldehydes. Recently we developed broad scope aldolase antibodies that show very high enantioselectivities, have enzymatic rate accelerations, and use the enamine mechanism of class I aldolases.4 During the course of these studies, we found that one of our aldolase catalytic antibodies (Aldolase Antibody 38C2, Aldrich) is an efficient catalyst for enantiogroup-differentiating aldol cyclodehydrations of 2,6-heptanediones to give cyclohexenones, including the Wieland-Miescher ketone.8,9 These intramolecular reactions are also catalyzed by proline (Hajos-Eder-Sauer-Wiechert reaction)10 and it has been postulated that they proceed via an enamine mechanism.11 However, the proline-catalyzed direct intermolecular asymmetric aldol reaction has not been described. Further, there are no asymmetric small-molecule aldol catalysts that use an enamine mechanism.7 Based on our own results and Shibasaki’s work on lanthanum-based small-molecule aldol catalysts,4,6 we realized the great potential of catalysts for the direct asymmetric aldol reaction. We initially studied the reaction of acetone with 4-nitrobenzaldehyde. Reacting proline (30 mol %) in DMSO/acetone (4:1) with 4-nitrobenzaldehyde at room temperature for 4 h furnished aldol product (R)-1 in 68% yield and 76% ee (eq 1). This result
2,283 citations
TL;DR: Defying anticipated FKN functions, absence of CX3CR1 interferes neither with monocyte extravasation in a peritonitis model nor with DC migration and differentiation in response to microbial antigens or contact sensitizers.
Abstract: The seven-transmembrane receptor CX(3)CR1 is a specific receptor for the novel CX(3)C chemokine fractalkine (FKN) (neurotactin). In vitro data suggest that membrane anchoring of FKN, and the existence of a shed, soluble FKN isoform allow for both adhesive and chemoattractive properties. Expression on activated endothelium and neurons defines FKN as a potential target for therapeutic intervention in inflammatory conditions, particularly central nervous system diseases. To investigate the physiological function of CX(3)CR1-FKN interactions, we generated a mouse strain in which the CX(3)CR1 gene was replaced by a green fluorescent protein (GFP) reporter gene. In addition to the creation of a mutant CX(3)CR1 locus, this approach enabled us to assign murine CX(3)CR1 expression to monocytes, subsets of NK and dendritic cells, and the brain microglia. Analysis of CX(3)CR1-deficient mice indicates that CX(3)CR1 is the only murine FKN receptor. Yet, defying anticipated FKN functions, absence of CX(3)CR1 interferes neither with monocyte extravasation in a peritonitis model nor with DC migration and differentiation in response to microbial antigens or contact sensitizers. Furthermore, a prominent response of CX(3)CR1-deficient microglia to peripheral nerve injury indicates unimpaired neuronal-glial cross talk in the absence of CX(3)CR1.
2,250 citations
TL;DR: The paired box transcription factor Pax7 was isolated by representational difference analysis as a gene specifically expressed in cultured satellite cell-derived myoblasts and it was demonstrated that satellite cells and muscle-derived stem cells represent distinct cell populations.
2,148 citations
TL;DR: Mouse genetics, allowing for selective inactivation of genes relevant for HPA regulation and molecular pharmacology, dissecting the intracellular cascade of CR signaling, are the most promising future research fields, suited for identifying genes predisposing to depression.
TL;DR: The use of metabolite profiling is described as a new tool for a comparative display of gene function and has the potential not only to provide deeper insight into complex regulatory processes but also to determine phenotype directly.
Abstract: Multiparallel analyses of mRNA and proteins are central to today's functional genomics initiatives. We describe here the use of metabolite profiling as a new tool for a comparative display of gene function. It has the potential not only to provide deeper insight into complex regulatory processes but also to determine phenotype directly. Using gas chromatography/mass spectrometry (GC/MS), we automatically quantified 326 distinct compounds from Arabidopsis thaliana leaf extracts. It was possible to assign a chemical structure to approximately half of these compounds. Comparison of four Arabidopsis genotypes (two homozygous ecotypes and a mutant of each ecotype) showed that each genotype possesses a distinct metabolic profile. Data mining tools such as principal component analysis enabled the assignment of “metabolic phenotypes” using these large data sets. The metabolic phenotypes of the two ecotypes were more divergent than were the metabolic phenotypes of the single-loci mutant and their parental ecotypes. These results demonstrate the use of metabolite profiling as a tool to significantly extend and enhance the power of existing functional genomics approaches.
Book•
01 Jan 2000TL;DR: In this article, the author outlines a theory of presumptive meanings, or preferred interpretations, governing the use of language, building on the idea of implicature developed by the philosopher H. P. Grice.
Abstract: From the Publisher:
When we speak, we mean more than we say. In this book Stephen C. Levinson explains some general processes that underlie presumptions in communication. This is the first extended discussion of preferred interpretation in language understanding, integrating much of the best research in linguistic pragmatics from the last two decades. Levinson outlines a theory of presumptive meanings, or preferred interpretations, governing the use of language, building on the idea of implicature developed by the philosopher H. P. Grice. Some of the indirect information carried by speech is presumed by default because it is carried by general principles, rather than inferred from specific assumptions about intention and context. Levinson examines this class of general pragmatic inferences in detail, showing how they apply to a wide range of linguistic constructions. This approach has radical consequences for how we think about language and communication.
TL;DR: In this article, the authors have described the measurement system and the procedure followed for the computation of the fluxes and procedure of flux summation, including data gap filling strategy, night flux corrections and error estimation.
Abstract: Publisher Summary The chapter has described the measurement system and the procedure followed for the computation of the fluxes and the procedure of flux summation, including data gap filling strategy, night flux corrections and error estimation. It begins with the introduction of estimates of the annual net carbon and water exchange of forests using the EUROFLUX methodology. The chapter then provides us with the theory and moves on to discuss the eddy covariance system and its sonic anemometer, temperature fluctuation measurements, infrared gas analyser, air transport system, and tower instrumentation. Additional measurements are also given in the chapter. Data acquisition and its computation and correction is discussed next in the chapter by giving its general procedure, half-hourly means (co-)variances and uncorrected fluxes, intercomparison of software, and correction for frequency response losses. The chapter has also discussed about quality control and four criteria are investigated here for the same. Spatial representativeness of measured fluxes and summation procedure are reviewed. The chapter then moves on to the discussion of data gap filling through interpolation and parameterization and neural networks. Corrections to night-time data and error estimation are also explored in the chapter. Finally, the chapter closes with conclusions.
TL;DR: It is concluded that sufficient evidence exists to support the primary assumption that immunological defences are costly to the vertebrate host and how costly it might be for a host who is forced to up-regulate its immunological defence mechanisms.
Abstract: It has become increasingly clear that life-history patterns among the vertebrates have been shaped by the plethora and variety of immunological risks associated with parasitic faunas in their environments. Immunological competence could very well be the most important determinant of life-time reproductive success and fitness for many species. It is generally assumed by evolutionary ecologists that providing immunological defences to minimise such risks to the host is costly in terms of necessitating trade-offs with other nutrient-demanding processes such as growth, reproduction, and thermoregulation. Studies devoted to providing assessments of such costs and how they may force evolutionary trade-offs among life-history characters are few, especially for wild vertebrate species, and their results are widely scattered throughout the literature. In this paper we attempt to review this literature to obtain a better understanding of energetic and nutritional costs for maintaining a normal immune system and examine how costly it might be for a host who is forced to up-regulate its immunological defence mechanisms. The significance of these various costs to ecology and life history trade-offs among the vertebrates is explored. It is concluded that sufficient evidence exists to support the primary assumption that immunological defences are costly to the vertebrate host.
TL;DR: The diffraction barrier responsible for a finite focal spot size and limited resolution in far-field fluorescence microscopy has been fundamentally broken by quenching excited organic molecules at the rim of the focal spot through stimulated emission.
Abstract: The diffraction barrier responsible for a finite focal spot size and limited resolution in far-field fluorescence microscopy has been fundamentally broken. This is accomplished by quenching excited organic molecules at the rim of the focal spot through stimulated emission. Along the optic axis, the spot size was reduced by up to 6 times beyond the diffraction barrier. The simultaneous 2-fold improvement in the radial direction rendered a nearly spherical fluorescence spot with a diameter of 90–110 nm. The spot volume of down to 0.67 attoliters is 18 times smaller than that of confocal microscopy, thus making our results also relevant to three-dimensional photochemistry and single molecule spectroscopy. Images of live cells reveal greater details.
Max Planck Society1, Lund University2, Dresden University of Technology3, Gembloux Agro-Bio Tech4, University of Antwerp5, University of Helsinki6, Institut national de la recherche agronomique7, University of Göttingen8, University of Edinburgh9, University of Padua10, United States Forest Service11
TL;DR: Data of net ecosystem carbon exchange, collected between 1996 and 1998 from 15 European forests, confirm that many European forest ecosystems act as carbon sinks and indicate that, in general, ecosystem respiration determines netcosystem carbon exchange.
Abstract: Carbon exchange between the terrestrial biosphere and the atmosphere is one of the key processes that need to be assessed in the context of the Kyoto Protocol1. Several studies suggest that the terrestrial biosphere is gaining carbon2,3,4,5,6,7,8, but these estimates are obtained primarily by indirect methods, and the factors that control terrestrial carbon exchange, its magnitude and primary locations, are under debate. Here we present data of net ecosystem carbon exchange, collected between 1996 and 1998 from 15 European forests, which confirm that many European forest ecosystems act as carbon sinks. The annual carbon balances range from an uptake of 6.6 tonnes of carbon per hectare per year to a release of nearly 1 t C ha-1 yr-1, with a large variability between forests. The data show a significant increase of carbon uptake with decreasing latitude, whereas the gross primary production seems to be largely independent of latitude. Our observations indicate that, in general, ecosystem respiration determines net ecosystem carbon exchange. Also, for an accurate assessment of the carbon balance in a particular forest ecosystem, remote sensing of the normalized difference vegetation index or estimates based on forest inventories may not be sufficient.
TL;DR: In this paper, the authors provide an overview of the development of catalysts for olefin metathesis which combine high activity, durability, and excellent tolerance towards polar functional groups.
Abstract: The advent of well-defined catalysts for olefin metathesis which combine high activity, durability, and excellent tolerance towards polar functional groups has revolutionized the field. The past decade has seen the rapid embrace of these reagents as tools for advanced organic and polymer chemistry and the success of this development is witnessed by a plethora of elegant applications to the synthesis of natural and nonnatural products. This review article provides an overview of these developments and intends to familiarize the reader with some very recent advances which hold the promise to expand the scope of the reaction even further. Moreover, the positive impact of metathesis on the fundamental logic of retrosynthetic planning is demonstrated by means of typical examples. Finally, it will be shown that metathesis is by no means restricted to alkenes as substrates, and some comments on metathesis reactions following unconventional mechanistic pathways will also be presented.
TL;DR: In this paper, the formation of twins, α- and e- martensite during plastic deformation was analyzed by optical microscopy, X-ray diffraction, scanning electron microscopy (SEM) and transmission electron microscope (TEM).
Journal Article•
Lawrence Berkeley National Laboratory1, University of Zurich2, Stanford University3, College of William & Mary4, University of Genoa5, University of Urbino6, CERN7, Budker Institute of Nuclear Physics8, Cornell University9, Argonne National Laboratory10, ETH Zurich11, Tata Institute of Fundamental Research12, Hillsdale College13, Spanish National Research Council14, Tohoku University15, Ohio State University16, University of California, San Diego17, University of California, Berkeley18, Aix-Marseille University19, University of Minnesota20, University of Alabama21, University of Helsinki22, California Institute of Technology23, George Washington University24, University of Kansas25, RWTH Aachen University26, Boston University27, University of California, Los Angeles28, Institut des Hautes Études Scientifiques29, University of Pennsylvania30, University of Tokyo31, University of Delaware32, Fermilab33, Carnegie Mellon University34, University of California, Santa Cruz35, Lawrence Livermore National Laboratory36, University of Washington37, Karlsruhe Institute of Technology38, Heidelberg University39, Florida State University40, Carleton University41, National Science Foundation42, University of Mainz43, University of Edinburgh44, University of Chicago45, Brookhaven National Laboratory46, Kent State University47, Paul Scherrer Institute48, Max Planck Society49, Massachusetts Institute of Technology50, Nagoya University51, Harvard University52
TL;DR: In this article, a biennial review summarizes much of particle physics using data from previous editions., plus 2778 new measurements from 645 papers, including measurements of gauge bosons, leptons, quarks, mesons, and baryons.
Abstract: This biennial Review summarizes much of particle physics. Using data from previous editions., plus 2778 new measurements from 645 papers, we list, evaluate, and average measured properties of gauge bosons, leptons, quarks, mesons, and baryons. We also summarize searches for hypothetical particles such as Higgs bosons, heavy neutrinos, and supersymmetric particles. All the particle properties and search limits are listed in Summary Tables. We also give numerous tables, figures, formulae, and reviews of topics such as the Standard Model, particle detectors., probability, and statistics. Among the 108 reviews are many that are new or heavily revised including those on CKM quark-mixing matrix, V-ud & V-us, V-cb & V-ub, top quark, muon anomalous magnetic moment, extra dimensions, particle detectors, cosmic background radiation, dark matter, cosmological parameters, and big bang cosmology.
TL;DR: In this paper, the authors present a new model for computing the effects of dust on the integrated spectral properties of galaxies, based on an idealized description of the main features of the interstellar medium (ISM), including the ionization of H II regions in the interiors of dense clouds in which stars form and the influence of the finite lifetime of these clouds on the absorption of radiation.
Abstract: We present a new model for computing the effects of dust on the integrated spectral properties of galaxies, based on an idealized description of the main features of the interstellar medium (ISM). The model includes the ionization of H II regions in the interiors of the dense clouds in which stars form and the influence of the finite lifetime of these clouds on the absorption of radiation. We compute the production of emission lines and the absorption of continuum radiation in the H II regions and the subsequent transfer of line and continuum radiation in the surrounding H I regions and the ambient ISM. This enables us to interpret simultaneously all the observations of an ultraviolet-selected sample of nearby starburst galaxies, including the ratio of far-infrared to ultraviolet luminosities, the ratio of Hα to Hβ luminosities, the Hα equivalent width, and the ultraviolet spectral slope. We show that the finite lifetime of stellar birth clouds is a key ingredient for resolving an apparent discrepancy between the attenuation of line and continuum photons in starburst galaxies. In addition, we find that an effective absorption curve proportional to λ-0.7 reproduces the observed relation between the ratio of far-infrared to ultraviolet luminosities and the ultraviolet spectral slope. We interpret this relation most simply as a sequence in the overall dust content of the galaxies. The shallow wavelength dependence of the effective absorption curve is compatible with the steepness of known extinction curves if the dust has a patchy distribution. In particular, we find that a random distribution of discrete clouds with optical depths similar to those in the Milky Way provides a consistent interpretation of all the observations. A noteworthy outcome of our detailed analysis is that the observed mean relations for starburst galaxies can be closely approximated by the following simple recipe: use an effective absorption curve proportional to λ-0.7 to attenuate the line and continuum radiation from each stellar generation, and lower the normalization of the curve, typically by a factor of 3 after 107 yr, to account for the dispersal of the birth clouds. This recipe or our full model for absorption can be incorporated easily into any population synthesis model.
TL;DR: The global mtDNA diversity in humans is described based on analyses of the complete mtDNA sequence of 53 humans of diverse origins, providing a concurrent view on human evolution with respect to the age of modern humans.
Abstract: The analysis of mitochondrial DNA (mtDNA) has been a potent tool in our understanding of human evolution, owing to characteristics such as high copy number, apparent lack of recombination, high substitution rate and maternal mode of inheritance. However, almost all studies of human evolution based on mtDNA sequencing have been confined to the control region, which constitutes less than 7% of the mitochondrial genome. These studies are complicated by the extreme variation in substitution rate between sites, and the consequence of parallel mutations causing difficulties in the estimation of genetic distance and making phylogenetic inferences questionable. Most comprehensive studies of the human mitochondrial molecule have been carried out through restriction-fragment length polymorphism analysis, providing data that are ill suited to estimations of mutation rate and therefore the timing of evolutionary events. Here, to improve the information obtained from the mitochondrial molecule for studies of human evolution, we describe the global mtDNA diversity in humans based on analyses of the complete mtDNA sequence of 53 humans of diverse origins. Our mtDNA data, in comparison with those of a parallel study of the Xq13.3 region in the same individuals, provide a concurrent view on human evolution with respect to the age of modern humans.
TL;DR: In this article, the authors reported the sequence and gene catalogue of the long arm of chromosome 21 and sequenced 33,546,361 base pairs (bp) of DNA with very high accuracy, the largest contig being 25,491,867 bp.
Abstract: Chromosome 21 is the smallest human autosome. An extra copy of chromosome 21 causes Down syndrome, the most frequent genetic cause of significant mental retardation, which affects up to 1 in 700 live births. Several anonymous loci for monogenic disorders and predispositions for common complex disorders have also been mapped to this chromosome, and loss of heterozygosity has been observed in regions associated with solid tumours. Here we report the sequence and gene catalogue of the long arm of chromosome 21. We have sequenced 33,546,361 base pairs (bp) of DNA with very high accuracy, the largest contig being 25,491,867 bp. Only three small clone gaps and seven sequencing gaps remain, comprising about 100 kilobases. Thus, we achieved 99.7% coverage of 21q. We also sequenced 281,116 bp from the short arm. The structural features identified include duplications that are probably involved in chromosomal abnormalities and repeat structures in the telomeric and pericentromeric regions. Analysis of the chromosome revealed 127 known genes, 98 predicted genes and 59 pseudogenes.
TL;DR: It is shown that the paternal genome in the mouse is significantly and actively demethylated within 6–8 hours of fertilization, before the onset of DNA replication, whereas the maternal genome is dem methylated after several cleavage divisions.
Abstract: In mammals, both parental genomes undergo dramatic epigenetic changes after fertilization to form the diploid somatic genome. Here we show that the paternal genome in the mouse is significantly and actively demethylated within 6–8 hours of fertilization, before the onset of DNA replication, whereas the maternal genome is demethylated after several cleavage divisions. This active demethylation of the paternal genome may be associated with epigenetic remodelling of sperm chroma-tin, in order to establish parent-specific developmental programmes during early embryogenesis.
TL;DR: This simple model provides a conceptual framework for explaining how the individual and combined activities of the ABC genes produce the four organ types of the typical eudicot flower.
Abstract: Abnormal flowers have been recognized for thousands of years, but only in the past decade have the mysteries of flower development begun to unfold. Among these mysteries is the differentiation of four distinct organ types (sepals, petals, stamens and carpels), each of which may be a modified leaf. A landmark accomplishment in plant developmental biology is the ABC model of flower organ identity. This simple model provides a conceptual framework for explaining how the individual and combined activities of the ABC genes produce the four organ types of the typical eudicot flower. Here we show that the activities of the B and C organ-identity genes require the activities of three closely related and functionally redundant MADS-box genes, SEPALLATA1/2/3 (SEP1/2/3). Triple mutant Arabidopsis plants lacking the activity of all three SEP genes produce flowers in which all organs develop as sepals. Thus SEP1/2/3 are a class of organ-identity genes that is required for development of petals, stamens and carpels.
TL;DR: Four early target genes of CO were identified using a steroid-inducible version of the protein to define common components of distinct flowering-time pathways.
Abstract: In plants, flowering is triggered by endogenous and environmental signals. CONSTANS (CO) promotes flowering of Arabidopsis in response to day length. Four early target genes of CO were identified using a steroid-inducible version of the protein. Two of these genes,SUPPRESSOR OF OVEREXPRESSION OF CO 1 (SOC1) andFLOWERING LOCUS T (FT), are required for CO to promote flowering; the others are involved in proline or ethylene biosynthesis. The SOC1 and FT genes are also regulated by a second flowering-time pathway that acts independently of CO. Thus, early target genes of CO define common components of distinct flowering-time pathways.
TL;DR: The ubiquity of black carbon (BC) produced by incomplete combustion of plant material and fossil fuels in peats, soils, and lacustrine and marine sediments is discussed in this article.
Abstract: This review highlights the ubiquity of black carbon (BC) produced by incomplete combustion of plant material and fossil fuels in peats, soils, and lacustrine and marine sediments. We examine various definitions and analytical approaches and seek to provide a common language. BC represents a continuum from partly charred material to graphite and soot particles, with no general agreement on clear-cut boundaries. Formation of BC can occur in two fundamentally different ways. Volatiles recondense to highly graphitized soot-BC, whereas the solid residues form char-BC. Both forms of BC are relatively inert and are distributed globally by water and wind via fluvial and atmospheric transport. We summarize, chronologically, the ubiquity of BC in soils and sediments since Devonian times, differentiating between BC from vegetation fires and from fossil fuel combustion. BC has important implications for various biological, geochemical and environmental processes. As examples, BC may represent a significant sink in the global carbon cycle, affect the Earth's radiative heat balance, be a useful tracer for Earth's fire history, build up a significant fraction of carbon buried in soils and sediments, and carry organic pollutants. On land, BC seems to be abundant in dark-colored soils, affected by frequent vegetation burning and fossil fuel combustion, thus probably contributing to the highly stable aromatic components of soil organic matter. We discuss challenges for future research. Despite the great importance of BC, only limited progress has been made in calibrating analytical techniques. Progress in the quantification of BC is likely to come from systematic intercomparison using BCs from different sources and in different natural matrices. BC identification could benefit from isotopic and spectroscopic techniques applied at the bulk and molecular levels. The key to estimating BC stocks in soils and sediments is an understanding of the processes involved in BC degradation on a molecular level. A promising approach would be the combination of short-term laboratory experiments and long-term field trials.
TL;DR: In this paper, the authors incorporate a simple scheme for the growth of supermassive black holes into semi-analytic models that follow the formation and evolution of galaxies in a cold dark matter-dominated universe.
Abstract: We incorporate a simple scheme for the growth of supermassive black holes into semi-analytic models that follow the formation and evolution of galaxies in a cold dark matter-dominated Universe. We assume that supermassive black holes are formed and fuelled during major mergers. If two galaxies of comparable mass merge, their central black holes coalesce and a few per cent of the gas in the merger remnant is accreted by the new black hole over a time-scale of a few times 107 yr. With these simple assumptions, our model not only fits many aspects of the observed evolution of galaxies, but also reproduces quantitatively the observed relation between bulge luminosity and black hole mass in nearby galaxies, the strong evolution of the quasar population with redshift, and the relation between the luminosities of nearby quasars and those of their host galaxies. The strong decline in the number density of quasars from z∼2 to z=0 is a result of the combination of three effects: (i) a decrease in the merging rate; (ii) a decrease in the amount of cold gas available to fuel black holes, and (iii) an increase in the time-scale for gas accretion. The predicted decline in the total content of cold gas in galaxies is consistent with that inferred from observations of damped Lyα systems. Our results strongly suggest that the evolution of supermassive black holes, quasars and starburst galaxies is inextricably linked to the hierarchical build-up of galaxies.
TL;DR: Structures were obtained for three intermediates in the hydroxylation reaction of camphor by P450cam with trapping techniques and cryocrystallography and reveal a network of bound water molecules that may provide the protons needed for the reaction.
Abstract: Members of the cytochrome P450 superfamily catalyze the addition of molecular oxygen to nonactivated hydrocarbons at physiological temperature-a reaction that requires high temperature to proceed in the absence of a catalyst. Structures were obtained for three intermediates in the hydroxylation reaction of camphor by P450cam with trapping techniques and cryocrystallography. The structure of the ferrous dioxygen adduct of P450cam was determined with 0.91 angstrom wavelength x-rays; irradiation with 1.5 angstrom x-rays results in breakdown of the dioxygen molecule to an intermediate that would be consistent with an oxyferryl species. The structures show conformational changes in several important residues and reveal a network of bound water molecules that may provide the protons needed for the reaction.
TL;DR: The regulation of cholesterol homeostasis is now receiving a new focus, and this changed perspective may throw light on diseases caused by cholesterol excess, the prime example being atherosclerosis.
Abstract: Cholesterol plays an indispensable role in regulating the properties of cell membranes in mammalian cells. Recent advances suggest that cholesterol exerts many of its actions mainly by maintaining sphingolipid rafts in a functional state. How rafts contribute to cholesterol metabolism and transport in the cell is still an open issue. It has long been known that cellular cholesterol levels are precisely controlled by biosynthesis, efflux from cells, and influx of lipoprotein cholesterol into cells. The regulation of cholesterol homeostasis is now receiving a new focus, and this changed perspective may throw light on diseases caused by cholesterol excess, the prime example being atherosclerosis.