cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Intragenic Recombination and Diversifying Selection Contribute to the Evolution of Downy Mildew Resistance at the RPP8 Locus of Arabidopsis
Creators: name: McDowell, J. M.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 1998

description: Pathogen resistance (R) genes of the NBS-LRR class (for nucleotide binding site and leucine-rich repeat) are found in many plant species and confer resistance to a diverse spectrum of pathogens. Little is known about the mechanisms that drive NBS-LRR gene evolution in the host-pathogen arms race. We cloned the RPP8 gene (for resistance to Peronospora parasitica) and compared the structure of alleles at this locus in resistant Landsberg erecta (Ler-0) and susceptible Columbia (Col-0) accessions. RPP8-Ler encodes an NBS-LRR protein with a putative N-terminal leucine zipper and is more closely related to previously cloned R genes that confer resistance to bacterial pathogens than it is to other known RPP genes. The RPP8 haplotype in Ler-0 contains the functional RPP8-Ler gene and a nonfunctional homolog, RPH8A. In contrast, the rpp8 locus in Col-0 contains a single chimeric gene, which was likely derived from unequal crossing over between RPP8-Ler and RPH8A ancestors within a Ler-like haplotype. Sequence divergence among RPP8 family members has been accelerated by positive selection on the putative ligand binding region in the LRRs. These observations indicate that NBS-LRR molecular evolution is driven by the same mechanisms that promote rapid sequence diversification among other genes involved in non-self-recognition.
The Tangled1 Gene Is Required for Spatial Control of Cytoskeletal Arrays Associated with Cell Division during Maize Leaf Development
Creators: name: Cleary, A. L.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 1998

description: The cytoskeleton plays a major role in the spatial regulation of plant cell division and morphogenesis. Arrays of microtubules and actin filaments present in the cell cortex during prophase mark sites to which phragmoplasts and associated cell plates are guided during cytokinesis. During interphase, cortical microtubules are believed to influence the orientation of cell expansion by guiding the pattern in which cell wall material is laid down. Little is known about the mechanisms that regulate these cytoskeleton-dependent processes critical for plant development. Previous work showed that the Tangled1 (Tan1) gene of maize is required for spatial regulation of cytokinesis during maize leaf development but not for leaf morphogenesis. Here, we examine the cytoskeletal arrays associated with cell division and morphogenesis during the development of tan1 and wild-type leaves. Our analysis leads to the conclusion that Tan1 is required both for the positioning of cytoskeletal arrays that establish planes of cell division during prophase and for spatial guidance of expanding phragmoplasts toward preestablished cortical division sites during cytokinesis. Observations on the organization of interphase cortical microtubules suggest that regional influences may play a role in coordinating cell expansion patterns among groups of cells during leaf morphogenesis.
Nodule-Specific Regulation of Phosphatidylinositol Transfer Protein Expression in Lotus japonicus
Creators: name: Kapranov, P.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2001

description: Phosphatidylinositol transfer proteins (PITPs) modulate signal transduction pathways and membrane-trafficking functions in eukaryotes. Here, we describe the characterization of a gene family from Lotus japonicus that encodes a novel class of plant PITP-like proteins (LjPLPs) and that is regulated in an unusual nodule-specific manner. Members of this gene family were identified based on their nucleotide sequence homology with a previously described cDNA, LjNOD16, which encodes the L. japonicus late nodulin Nlj16. Nlj16 or highly related amino acid sequences are shown to constitute C-terminal domains of LjPLPs and are suggested to function as specific plasma membrane targeting modules. The expression patterns of one member of this gene family (LjPLP-IV) revealed that LjNOD16 mRNA synthesis in nodules is the result of the transcriptional activity of a nodule-specific promoter located in an intron of the LjPLP-IV gene. This intron-borne bidirectional promoter also generates nodule-specific antisense transcripts derived from the N-terminal PITP domain coding region of the LjPLP-IV gene. We propose that Nlj16 protein synthesis and LjPLP-IV antisense transcript generation are components of an elaborate mechanism designed to control LjPLP synthesis and/or functioning in nodules.
The Disease Resistance Signaling Components EDS1 and PAD4 Are Essential Regulators of the Cell Death Pathway Controlled by LSD1 in Arabidopsis
Creators: name: Rusterucci, C.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2001

description: Specific recognition of pathogens is mediated by plant disease resistance (R) genes and translated into a successful defense response. The extent of associated hypersensitive cell death varies from none to an area encompassing cells surrounding an infection site, depending on the R gene activated. We constructed double mutants in Arabidopsis between positive regulators of R function and a negative regulator of cell death, LSD1, to address whether genes required for normal R function also regulate the runaway cell death observed in lsd1 mutants. We report here that EDS1 and PAD4, two signaling genes that mediate some but not all R responses, also are required for runaway cell death in the lsd1 mutant. Importantly, this novel function of EDS1 and PAD4 is operative when runaway cell death in lsd1 is initiated through an R gene that does not require EDS1 or PAD4 for disease resistance. NDR1, another component of R signaling, also contributes to the control of plant cell death. The roles of EDS1 and PAD4 in regulating lsd1 runaway cell death are related to the interpretation of reactive oxygen intermediate–derived signals at infection sites. We further demonstrate that the fate of superoxide at infection sites is different from that observed at the leading margins of runaway cell death lesions in lsd1 mutants.
A Mutation in the Arabidopsis KT2/KUP2 Potassium Transporter Gene Affects Shoot Cell Expansion
Creators: name: Elumalai, R. P.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2002

description: Potassium ions (K+) are the most abundant cations in plants and are necessary for cell growth. Arabidopsis shy3-1 mutant plants have a short hypocotyl, small leaves, and a short flowering stem, and these defects result from decreased cell expansion. The semidominant shy3-1 mutation changes an amino acid in KT2/KUP2, a K+ transporter related to the Escherichia coli Kup protein. Second mutations in the KT2/KUP2/SHY3 gene, including presumed null mutations, suppress the shy3-1 phenotypes. Plants with these intragenic suppressor mutations appear similar to wild-type plants, suggesting that KT2/KUP2/SHY3 acts redundantly with other genes. Expression of the shy3-1 mutant version of KT2/KUP2/SHY3 in wild-type plants confers shy3-1–like phenotypes, indicating that shy3-1 probably either causes a gain of function or creates an interfering protein. The shy3-1 mutation does not eliminate the ability of the KT2/KUP2 cDNA to rescue the growth of a potassium transport-deficient E. coli mutant. A PSHY3::GUS fusion is expressed in growing portions of the plant. These results suggest that KT2/KUP2/SHY3 mediates K+-dependent cell expansion in growing tissues.
Constructive Interference Between Disordered Couplings Enhances Multiparty Entanglement in Quantum Heisenberg Spin Glass Models
Creators: name: Mishra, Utkarsh
name: Rakshit, Debraj
name: Prabhu, R.
name: De, Aditi Sen
name: Sen, Ujjwal
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Physics (quant-ph)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Disordered systems form one of the centrestages of research in many body sciences and lead to a plethora of interesting phenomena and applications. A paradigmatic disordered system consists of an one-dimensional array of quantum spin-1/2 particles, governed by the Heisenberg spin glass Hamiltonian with natural or engineered quenched disordered couplings in an external magnetic field. These systems allow disorder-induced enhancement for bipartite and multipartite observables. Here we show that simultaneous application of independent quenched disorders results in disorder-induced enhancement, while the same is absent with individual application of the same disorders. We term the phenomenon as constructive interference and the corresponding parameter stretches as the Venus regions. Interestingly, it has only been observed for multiparty entanglement and is absent for the single- and two-party physical quantities.
description: Close to published version, some additional material wrt published version, 17 pages, 6 figure
Презентація з дисципліни «Електричні машини» для студентів спец. 141 «Електроенергетика, електротехніка та електромеханіка» спеціалізація «Електроенергетика»
Creators: name: В.В., Шевченко
Publisher: name: Zenodo
Year: 2023
Subjects: електричні машини
презентація

description: Шевченко ВВ. Презентація з дисципліни «Електричні машини» для студентів спец. 141 «Електроенергетика, електротехніка та електромеханіка» спеціалізація «Електроенергетика». Харків: НТУ "ХПІ"; 2023. https://doi.org/10.5281/zenodo.8331276
Arabidopsis SGT1b Is Required for Defense Signaling Conferred by Several Downy Mildew Resistance Genes
Creators: name: Tor, M.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2002

description: We describe the identification of a mutant in the Arabidopsis accession Columbia (Col-0) that exhibits enhanced downy mildew (edm1) susceptibility to several Peronospora parasitica isolates, including the RPP7-diagnostic isolate Hiks1. The mutation was mapped to chromosome IV and characterized physically as a 35-kb deletion spanning seven genes. One of these genes complemented the mutant to full wild-type resistance against all of the Peronospora isolates tested. This gene (AtSGT1b) encodes a predicted protein of 39.8 kD and is an Arabidopsis ortholog of yeast SGT1, which was described originally as a key regulatory protein in centromere function and ubiquitin-mediated proteolysis. AtSGT1b contains three tetratricopeptide repeats at the N terminus followed by a bipartite chord-containing SGT domain and an SGT-specific domain at the C terminus. We discuss the role of AtSGT1b in disease resistance and its possible involvement in ubiquitin-mediated proteolysis in plants.
Arabidopsis SHY2/IAA3 Inhibits Auxin-Regulated Gene Expression
Creators: name: Tian, Q.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2002

description: In Arabidopsis, SHY2 encodes IAA3, a member of the auxin-induced Aux/IAA family. Gain-of-function mutations in SHY2/IAA3 cause enlarged cotyledons, short hypocotyls, and altered auxin-regulated root development. Here we show that the gain-of-function mutation shy2-2 decreases both the induction and repression of auxin-regulated genes, suggesting that SHY2/IAA3 acts as a negative regulator in auxin signaling. shy2-2 affects auxin induction of many previously characterized primary response genes, implying that it might repress primary auxin responses. In addition, shy2-2 also affects expression of multiple auxin-nonresponsive genes. Light regulates expression of SHY2/IAA3, suggesting a possible link between light and auxin response pathways.
A Decomposition of Total Factor Productivity Growth in the Food Manufacturing Industry in Korea: A Stochastic Frontier Approach
Creators: name: Choi, Soon
name: Choi, Soon
Publisher: name: Unknown
Year: 2021
Subjects: subject: Productivity Analysis
subject: Total Factor Productivity
subject: Stochastic Frontier Production Function
subject: Technical Efficiency

description: This study aims to identify major contributors to the change in total factor productivity of food manufacturers by decomposing it into four factors: technological progress, scale efficiency, technological efficiency, and allocation efficiency. Using the “Mining and Manufacturing Survey” data provided by the Statistics Korea, it classifies food manufacturing industries into seven sub-categories to estimate stochastic frontier production functions. The results show that the increase in output is mainly driven by an input increase in food manufacturing. In addition, technical progress is found to be the most significant contributor to the total factor productivity of the food manufacturing industry. On the other hand, it is found that the contribution of technical efficiency shows a negative sign, negatively affecting the productivity increase. The result indicates that R&D investment to improve the technology frontier is essential in increasing the productivity of the food industry. On top of that, support policies to spread and disseminate the leading technologies to other companies are also necessary to enhance technical efficiency throughout the industry.
Cytokinin Signaling in Arabidopsis
Creators: name: Hutchison, Claire E.
name: Kieber, Joseph J.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2002

description: Cytokinins have been implicated in many developmental processes and environmental responses of plants, including leaf senescence, apical dominance, chloroplast development, anthocyanin production, and the regulation of cell division and sink/source relationships. They were identified in the
Large-Scale Structure -Function Analysis of the Arabidopsis RPM1 Disease Resistance Protein
Creators: name: Tornero, P.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2002

description: The Arabidopsis RPM1 gene confers resistance against Pseudomonas syringae expressing either the AvrRpm1 or the AvrB type III effector protein. We present an exhaustive genetic screen for mutants that no longer recognize avrRpm1. Using an inducible avrRpm1 expression system, we identified 110 independent mutations. These mutations represent six complementation groups. None discriminates between avrRpm1 and avrB recognition. We identified 95 rpm1 alleles and present a detailed structure–function analysis of the RPM1 protein. Several rpm1 mutants retain partial function, and we deduce that their residual activity is dependent on the level of avrRpm1 signal. In these mutants, the hypersensitive response remains activated if the signal goes above a certain threshold. Missense mutations in rpm1 are highly enriched in the nucleotide binding domain, suggesting that this region plays a key role either in the hypersensitive response associated with RPM1 activation or in RPM1 stability. Cluster analysis of rpm1 alleles defines functionally important residues that are highly conserved between nucleotide binding site leucine-rich repeat R proteins and those that are unique to RPM1. Regions of RPM1 to which no loss-of-function alleles map may represent domains in which variation is tolerated and may contribute to the evolution of new R gene specificities.
The Arabidopsis NPR1 Disease Resistance Protein Is a Novel Cofactor That Confers Redox Regulation of DNA Binding Activity to the Basic Domain/Leucine Zipper Transcription Factor TGA1
Creators: name: Despres, C.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2003

description: The Arabidopsis NPR1 protein is essential for regulating salicylic acid–dependent gene expression during systemic acquired resistance. NPR1 interacts differentially with members of the TGA class of basic domain/Leu zipper transcription factors and regulates their DNA binding activity. Here, we report that although TGA1 does not interact with NPR1 in yeast two-hybrid assays, treatment with salicylic acid induces the interaction between these proteins in Arabidopsis leaves. This phenomenon is correlated with a reduction of TGA1 Cys residues. Furthermore, site-directed mutagenesis of TGA1 Cys-260 and Cys-266 enables the interaction with NPR1 in yeast and Arabidopsis. Together, these results indicate that TGA1 relies on the oxidation state of Cys residues to mediate the interaction with NPR1. An intramolecular disulfide bridge in TGA1 precludes interaction with NPR1, and NPR1 can only stimulate the DNA binding activity of the reduced form of TGA1. Unlike its animal and yeast counterparts, the DNA binding activity of TGA1 is not redox regulated; however, this property is conferred by interaction with the NPR1 cofactor.
Doing what works in teaching with data: quantitative data and data skills in UK social science higher education teaching
Creators: name: Buckley, Jennifer
name: Bloom, Alle
name: Higgins, Vanessa
Publisher: name: Zenodo
Year: 2023
Subjects: Data literacy
Quantitative data
Social Science

description: This presentation looks at how quantitative data is being used in social science teaching in UK Higher Education. Discussions on the teaching of research methods have emphasised the role of data as a pedagogical hook; data is important for making research methods engaging and knowable to students. We consider the question of what data lecturers use in their teaching and how and why do they use it. We explored these questions with lecturers in a mixed method study that combined a survey and interviews and found how lecturers identify ‘what works.’ What works is shaped by multiple factors including the work involved in finding and preparing data for teaching as well as wider orientations towards teaching quantitative research and data skills as part of a broader curriculum. The talk concludes with insights into what makes good data for teaching and a discussion of the challenges around introducing programming into the curriculum.
The beta-Subunit of the Arabidopsis G Protein Negatively Regulates Auxin-Induced Cell Division and Affects Multiple Developmental Processes
Creators: name: Ullah, H.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2003

description: Plant cells respond to low concentrations of auxin by cell expansion, and at a slightly higher concentration, these cells divide. Previous work revealed that null mutants of the α-subunit of a putative heterotrimeric G protein (GPA1) have reduced cell division. Here, we show that this prototypical G protein complex acts mechanistically by controlling auxin sensitivity toward cell division. Loss-of-function G protein mutants have altered auxin-mediated cell division throughout development, especially during the auxin-induced formation of lateral and adventitious root primordia. Ectopic expression of the wild-type Gα-subunit phenocopies the Gβ mutants (auxin hypersensitivity), probably by sequestering the Gβγ-subunits, whereas overexpression of Gβ reduces auxin sensitivity and a constitutively active (Q222L) mutant Gα behaves like the wild type. These data are consistent with a model in which Gβγ acts as a negative regulator of auxin-induced cell division. Accordingly, basal repression of approximately one-third of the identified auxin-regulated genes (47 of 150 upregulated genes among 8300 quantitated) is lost in the Gβ transcript-null mutant. Included among these are genes that encode proteins proposed to control cell division in root primordia formation as well as several novel genes. These results suggest that although auxin-regulated cell division is not coupled directly by a G protein, the Gβ-subunit attenuates this auxin pathway upstream of the control of mRNA steady state levels.
The eto1, eto2, and eto3 Mutations and Cytokinin Treatment Increase Ethylene Biosynthesis in Arabidopsis by Increasing the Stability of ACS Protein
Creators: name: Chae, H. S.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2003

description: The Arabidopsis ethylene-overproducing mutants eto1, eto2, and eto3 have been suggested to affect the post-transcriptional regulation of 1-aminocyclopropane-1-carboxylic acid synthase (ACS). Here, we present the positional cloning of the gene corresponding to the dominant eto3 mutation and show that the eto3 phenotype is the result of a missense mutation within the C-terminal domain of ACS9, which encodes one isoform of the Arabidopsis ACS gene family. This mutation is analogous to the dominant eto2 mutation that affects the C-terminal domain of the highly similar ACS5. Analysis of purified recombinant ACS5 and epitope-tagged ACS5 in transgenic Arabidopsis revealed that eto2 does not increase the specific activity of the enzyme either in vitro or in vivo; rather, it increases the half-life of the protein. In a similar manner, cytokinin treatment increased the stability of ACS5 by a mechanism that is at least partially independent of the eto2 mutation. The eto1 mutation was found to act by increasing the function of ACS5 by stabilizing this protein. These results suggest that an important mechanism by which ethylene biosynthesis is controlled is the regulation of the stability of ACS, mediated at least in part through the C-terminal domain.
Feature importance for machine learning redshifts applied to SDSS galaxies
Creators: name: Hoyle, Ben
name: Rau, Markus Michael
name: Zitlau, Roman
name: Seitz, Stella
name: Weller, Jochen
Publisher: name: arXiv
Year: 2014
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We present an analysis of importance feature selection applied to photometric redshift estimation using the machine learning architecture Decision Trees with the ensemble learning routine Adaboost (hereafter RDF). We select a list of 85 easily measured (or derived) photometric quantities (or `features') and spectroscopic redshifts for almost two million galaxies from the Sloan Digital Sky Survey Data Release 10. After identifying which features have the most predictive power, we use standard artificial Neural Networks (aNN) to show that the addition of these features, in combination with the standard magnitudes and colours, improves the machine learning redshift estimate by 18% and decreases the catastrophic outlier rate by 32%. We further compare the redshift estimate using RDF with those from two different aNNs, and with photometric redshifts available from the SDSS. We find that the RDF requires orders of magnitude less computation time than the aNNs to obtain a machine learning redshift while reducing both the catastrophic outlier rate by up to 43%, and the redshift error by up to 25%. When compared to the SDSS photometric redshifts, the RDF machine learning redshifts both decreases the standard deviation of residuals scaled by 1/(1+z) by 36% from 0.066 to 0.041, and decreases the fraction of catastrophic outliers by 57% from 2.32% to 0.99%.
description: 10 pages, 4 figures, updated to match version accepted in MNRAS
Composite Fermions in Medium: Extending the Lipkin Model
Creators: name: Liebing, S.
name: Blaschke, D.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Nuclear Theory (nucl-th)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The role of phase space occupation effects for the formation of two- and three-particle bound states in a dense medium is investigated within an algebraic approach suitable for systems with short-range interactions. It is shown that for two-fermion bound states due to the account of the exchange symmetry (phase space occupation) effect (Pauli blocking) in a dense medium the binding energy is reduced and vanishes at a critical density (Mott effect). For three-fermion bound states, within a Faddeev equation approach, the intermediate formation of pair correlations leads to the representation as a suitably symmetrized fermion-boson bound state. It is shown that the Bose enhancement of fermion pairs can partially compensate the Pauli blocking between the fermions. This leads to the general result obtained by algebraic methods: three-fermion bound states in a medium with high phase space occupation appear necessarily as Borromean states beyond the Mott density of the two-fermion bound state.
description: 6 pages, 1 figure
High-fidelity pseudopotentials for the contact interaction
Creators: name: Bugnion, P. O.
name: Ríos, P. López
name: Needs, R. J.
name: Conduit, G. J.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: The contact interaction is often used in modeling ultracold atomic gases, although it leads to pathological behavior arising from the divergence of the many-body wavefunction when two particles coalesce. This makes it difficult to use this model interaction in quantum Monte Carlo and other popular numerical methods. Researchers therefore model the contact interaction with pseudopotentials, such as the square well potential, whose scattering properties deviate markedly from those of the contact potential. In this article, we propose a family of pseudopotentials that reproduce the scattering phase shifts of the contact interaction up to a hundred times more accurately than the square well potential. Moreover, the pseudopotentials are smooth, resulting in significant improvements in efficiency when used in numerical calculations.
description: We have split arXiv:1403.0047 into two separate manuscripts. This submission develops the pseudopotential formalism. A second submission will study the ferromagnetic transition and p-wave superconductivity
Arabidopsis CAND1, an Unmodified CUL1-Interacting Protein, Is Involved in Multiple Developmental Pathways Controlled by Ubiquitin/Proteasome-Mediated Protein Degradation
Creators: name: Feng, S.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2004

description: Ubiquitin/proteasome-mediated protein degradation controls various developmental pathways in eukaryotes. Cullin-containing complexes are both versatile and abundant groups of RING family ubiquitin E3 ligases, whose activities are subject to control by RUB/Nedd8 (for related to ubiquitin/neural precursor cell-expressed developmentally downregulated 8) modification of their cullin subunits. Here, we report the identification of an Arabidopsis thaliana counterpart of human CAND1 (cullin-associated and neddylation-dissociated) and demonstrate that it can preferentially interact with unmodified CUL1. The Arabidopsis cand1-1 null mutant displays distinct phenotypes, including late flowering, aerial rosettes, floral organ defects, low fertility, dwarfism, loss of apical dominance, and altered responses to multiple plant hormones. Molecular analyses show that many of these defects are because of compromised activity of CUL1-containing ubiquitin E3 ligases, indicating that CAND1 is required for their optimal activity. Furthermore, the cand1-1 mutant displays a partial constitutive photomorphogenic phenotype and has defects in HY5 degradation in the absence of light, a process mediated by a different RING family E3, COP1. Thus, our data provides genetic support for a critical role of CAND1 in regulating various ubiquitin E3 ligases and their targeted cellular and developmental pathways.
Multiple Lensing of the Cosmic Microwave Background anisotropies
Creators: name: Calabrese, Matteo
name: Carbone, Carmelita
name: Fabbian, Giulio
name: Baldi, Marco
name: Baccigalupi, Carlo
Publisher: name: arXiv
Year: 2014
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We study the gravitational lensing effect on the Cosmic Microwave Background (CMB) anisotropies performing a ray-tracing of the primordial CMB photons through intervening large-scale structures (LSS) distribution predicted by N-Body numerical simulations with a particular focus on the precise recovery of the lens-induced polarized counterpart of the source plane. We apply both a multiple plane ray-tracing and an effective deflection approach based on the Born approximation to deflect the CMB photons trajectories through the simulated lightcone. We discuss the results obtained with both these methods together with the impact of LSS non-linear evolution on the CMB temperature and polarization power spectra. We compare our results with semi-analytical approximations implemented in Boltzmann codes like, e.g., CAMB. We show that, with our current N-body setup, the predicted lensing power is recovered with good accuracy in a wide range of multipoles while excess power with respect to semi-analytic prescriptions is observed in the lensing potential on scales $\ell \gtrsim 3000$. We quantify the impact of the numerical effects connected to the resolution in the N-Body simulation together with the resolution and band-limit chosen to synthesise the CMB source plane. We found these quantities to be particularly important for the simulation of B-mode polarization power spectrum.
description: 33 pages, 11 figures; accepted for publication on JCAP.
Arabidopsis RIN4 Negatively Regulates Disease Resistance Mediated by RPS2 and RPM1 Downstream or Independent of the NDR1 Signal Modulator and Is Not Required for the Virulence Functions of Bacterial Type III Effectors AvrRpt2 or AvrRpm1
Creators: name: Belkhadir, Y.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2004

description: Bacterial pathogens deliver type III effector proteins into the plant cell during infection. On susceptible (r) hosts, type III effectors can contribute to virulence. Some trigger the action of specific disease resistance (R) gene products. The activation of R proteins can occur indirectly via modification of a host target. Thus, at least some type III effectors are recognized at site(s) where they may act as virulence factors. These data indicate that a type III effector's host target might be required for both initiation of R function in resistant plants and pathogen virulence in susceptible plants. In Arabidopsis thaliana, RPM1-interacting protein 4 (RIN4) associates with both the Resistance to Pseudomonas syringae pv maculicola 1 (RPM1) and Resistance to P. syringae 2 (RPS2) disease resistance proteins. RIN4 is posttranslationally modified after delivery of the P. syringae type III effectors AvrRpm1, AvrB, or AvrRpt2 to plant cells. Thus, RIN4 may be a target for virulence functions of these type III effectors. We demonstrate that RIN4 is not the only host target for AvrRpm1 and AvrRpt2 in susceptible plants because its elimination does not diminish their virulence functions. In fact, RIN4 negatively regulates AvrRpt2 virulence function. RIN4 also negatively regulates inappropriate activation of both RPM1 and RPS2. Inappropriate activation of RPS2 is nonspecific disease resistance 1 (NDR1) independent, in contrast with the established requirement for NDR1 during AvrRpt2-dependent RPS2 activation. Thus, RIN4 acts either cooperatively, downstream, or independently of NDR1 to negatively regulate RPS2 in the absence of pathogen. We propose that many P. syringae type III effectors have more than one target in the host cell. We suggest that a limited set of these targets, perhaps only one, are associated with R proteins. Thus, whereas any pathogen virulence factor may have multiple targets, the perturbation of only one is necessary and sufficient for R activation.
Type-A Arabidopsis Response Regulators Are Partially Redundant Negative Regulators of Cytokinin Signaling
Creators: name: To, J. P.C.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2004

description: Type-A Arabidopsis (Arabidopsis thaliana) response regulators (ARRs) are a family of 10 genes that are rapidly induced by cytokinin and are highly similar to bacterial two-component response regulators. We have isolated T-DNA insertions in six of the type-A ARRs and constructed multiple insertional mutants, including the arr3,4,5,6,8,9 hextuple mutant. Single arr mutants were indistinguishable from the wild type in various cytokinin assays; double and higher order arr mutants showed progressively increasing sensitivity to cytokinin, indicating functional overlap among type-A ARRs and that these genes act as negative regulators of cytokinin responses. The induction of cytokinin primary response genes was amplified in arr mutants, indicating that the primary response to cytokinin is affected. Spatial patterns of ARR gene expression were consistent with partially redundant function of these genes in cytokinin signaling. The arr mutants show altered red light sensitivity, suggesting a general involvement of type-A ARRs in light signal transduction. Further, morphological phenotypes of some arr mutants suggest complex regulatory interactions and gene-specific functions among family members.
Different Signaling and Cell Death Roles of Heterotrimeric G Protein   and   Subunits in the Arabidopsis Oxidative Stress Response to Ozone
Creators: name: Joo, J. H.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2005

description: Arabidopsis thaliana plants with null mutations in the genes encoding the α and β subunits of the single heterotrimeric G protein are less and more sensitive, respectively, to O3 damage than wild-type Columbia-0 plants. The first peak of the bimodal oxidative burst elicited by O3 in wild-type plants is almost entirely missing in both mutants. The late peak is normal in plants lacking the Gβ protein but missing in plants lacking the Gα protein. Endogenous reactive oxygen species (ROS) are first detectable in chloroplasts of leaf epidermal guard cells. ROS production in adjacent cells is triggered by extracellular ROS signals produced by guard cell membrane-associated NADPH oxidases encoded by the AtrbohD and AtrbohF genes. The late, tissue damage–associated component of the oxidative burst requires only the Gα protein and arises from multiple cellular sources. The early component of the oxidative burst, arising primarily from chloroplasts, requires signaling through the heterotrimer (or the Gβγ complex) and is separable from Gα-mediated activation of membrane-bound NADPH oxidases necessary for both intercellular signaling and cell death.
Multiple Type-B Response Regulators Mediate Cytokinin Signal Transduction in Arabidopsis
Creators: name: Mason, M. G.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2005

description: Type-B Arabidopsis thaliana response regulators (ARRs) are transcription factors that function in the final step of two-component signaling systems. To characterize their role in plant growth and development, we isolated T-DNA insertions within six of the genes (ARR1, ARR2, ARR10, ARR11, ARR12, and ARR18) from the largest subfamily of type-B ARRs and also constructed various double and triple combinations of these mutations. Higher order mutants revealed progressively decreased sensitivity to cytokinin, including effects on root elongation, lateral root formation, callus induction and greening, and induction of cytokinin primary response genes. The triple mutant arr1,10,12 showed almost complete insensitivity to cytokinin under many of the assay conditions used. By contrast, no significant change in the sensitivity to ethylene was found among the mutants examined. These results indicate that there is functional overlap among the type-B ARRs and that they act as positive regulators of cytokinin signal transduction.
The Empirical Analysis of Production Cost Reduction Effects from the Agricultural Machinery Rental Policy
Creators: name: Nam, Kyungsoo
name: Nam, Kyungsoo
Publisher: name: Unknown
Year: 2021
Subjects: subject: Productivity Analysis
subject: dry-field farming
subject: agricultural mechanization rate
subject: agricultural machinery rental policy

description: In recent years, agriculture has been suffering from a severe shortage of labor. Accordingly, the government is striving to increase the agricultural mechanization rate to solve the labor shortage and improve agricultural productivity. The most representative policy is the implementation of agricultural machinery rental system. In the dry-field farming, however, the mechanization rate is still low. Therefore, the government is looking for a way to improve the rate. This study proposes an improvement of the agricultural mechanization rate indicators. In addition, a method of analyzing production cost reduction according to the agricultural machinery rental policy is presented in this study. As a result of the analysis, the mechanization rate of dry-field farming is estimated to be 50.1 to 58.9 percent. The average production cost reduction due to the policy is estimated to be from 520,000 to 530,000 won per hectare. Pepper is found to be the largest cost-reduction commodity as much as about 880,000 to 930,000 won, followed by potato (about 660,000 to 700,000 won) and cabbage (about 610,000 to 630,000 won).
Arabidopsis Response Regulators ARR3 and ARR4 Play Cytokinin-Independent Roles in the Control of Circadian Period
Creators: name: Salome, P. A.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2006

description: Light and temperature are potent environmental signals used to synchronize the circadian oscillator with external time and photoperiod. Phytochrome and cryptochrome photoreceptors integrate light quantity and quality to modulate the pace and phase of the clock. PHYTOCHROME B (phyB) controls period length in red light as well as the phase of the clock in white light. phyB interacts with ARABIDOPSIS RESPONSE REGULATOR4 (ARR4) in a light-dependent manner. Accordingly, we tested ARR4 and other members of the type-A ARR family for roles in clock function and show that ARR4 and its closest relative, ARR3, act redundantly in the Arabidopsis thaliana circadian system. Loss of ARR3 and ARR4 lengthens the period of the clock even in the absence of light, demonstrating that they do so independently of active phyB. In addition, in white light, arr3,4 mutants show a leading phase similar to phyB mutants, suggesting that circadian light input is modulated by the interaction of phyB with ARR4. Although type-A ARRs are involved in cytokinin signaling, the circadian defects appear to be independent of cytokinin, as exogenous cytokinin affects the phase but not the period of the clock. Therefore, ARR3 and ARR4 are critical for proper circadian period and define an additional level of regulation of the circadian clock in Arabidopsis.
Disformal vectors and anisotropies on a warped brane
Creators: name: Koivisto, Tomi S.
name: Urban, Federico R.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The Maxwell action is conformally invariant and classically ignorant of conformally flat metrics. However, if the vector lives in a disformal metric--- as it does if residing upon a moving brane---this is no longer true. The disformal coupling is then mediated by a Dirac-Born-Infeld scalar field. Here a systematic dynamical system analysis is developed for anisotropic Bianchi I cosmology with a massive disformally coupled vector field. Several new fixed points are found, including anisotropic scaling solutions. The presented formalism here presented can be conveniently applied to general scenarios with or without extra dimensional motivations. This is illustrated here by performing a complete analysis with simple assumption that both the potentials and the warp factor for the brane are (nearly) exponential. In that case, the anisotropic fixed points are either not attractors, do not describe accelerating expansion or else they feature too large anisotropies to be compatible with observations. Nonetheless, viable classes of models exist where isotropy is retained due to rapid oscillations of the vector field, thus providing a possible realisation of disformally interacting massive dark matter.
description: 13 pages -- 4 numerical examples, v2 corrects a mistake in the equations; the conclusions are essentially unchanged
Phytotoxicity and Innate Immune Responses Induced by Nep1-Like Proteins
Creators: name: Nurnberger, T.
name: Glawischnig, E.
name: Engelhardt, S.
name: Gust, A. A.
name: Schween, G.
name: Qutob, D.
name: Luberacki, B.
name: Dodt, G.
name: Kufner, I.
name: Kemmerling, B.
name: Lam, E.
name: Hubert, D.
name: Watanabe, N.
name: Lacombe, B.
name: Rauhut, T.
name: Stahl, D.
name: Seitz, H. U.
name: Schlichting, R.
name: Scheel, D.
name: Nau, K.
name: Brunner, F.
name: Gijzen, M.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2006

description: We show that oomycete-derived Nep1 (for necrosis and ethylene-inducing peptide1)–like proteins (NLPs) trigger a comprehensive immune response in Arabidopsis thaliana, comprising posttranslational activation of mitogen-activated protein kinase activity, deposition of callose, production of nitric oxide, reactive oxygen intermediates, ethylene, and the phytoalexin camalexin, as well as cell death. Transcript profiling experiments revealed that NLPs trigger extensive reprogramming of the Arabidopsis transcriptome closely resembling that evoked by bacteria-derived flagellin. NLP-induced cell death is an active, light-dependent process requiring HSP90 but not caspase activity, salicylic acid, jasmonic acid, ethylene, or functional SGT1a/SGT1b. Studies on animal, yeast, moss, and plant cells revealed that sensitivity to NLPs is not a general characteristic of phospholipid bilayer systems but appears to be restricted to dicot plants. NLP-induced cell death does not require an intact plant cell wall, and ectopic expression of NLP in dicot plants resulted in cell death only when the protein was delivered to the apoplast. Our findings strongly suggest that NLP-induced necrosis requires interaction with a target site that is unique to the extracytoplasmic side of dicot plant plasma membranes. We propose that NLPs play dual roles in plant pathogen interactions as toxin-like virulence factors and as triggers of plant innate immune responses.
LUNG FUNCTION AND DYSPNEA IN NEUROMUSCULAR DISEASES
Creators: name: PELLEGRINO, GIULIA MICHELA
Publisher: name: Universit� degli Studi di Milano
Year: 2021

description: Dyspnea is a common source of suffering for patients affected by cardiorespiratory or neuromuscular diseases. The symptom is complex and encompasses different sensory qualities with distinct intensities. The Multidimensional Dyspnea Profile (MDP) is an instrument specifically developed to assess the multidimensional dimensions of the symptom, and it is applicable in both the research and clinical setting. In order to allow its use for Italian speaking populations, we aimed to provide a linguistically validated, Italian translation of the MDP. We conducted a structured translation and linguistic validation of the MDP questionnaire in accordance to the international guidelines and in cooperation with a specialized company (MAPI SAS, Language Services Unit, Lyon, France). Cognitive interviews on 8 patients were conducted in order to test clarity and understandability of the questionnaire. The multistep process was enriched by several quality checks which led to a translation conceptually equivalent to the original version (American English). A final certified copy linguistically validated Italian translation of the MDP is now available. It measures the intensity of the breathing discomforts in five sensory qualities and assess its intensity and potential reactions. W e here provide an Italian translation and linguistic validation of the MDP. This instrument, allows the assessment of dyspnea in both its sensory and emotional aspects, therefore representing a valuable method for research and therapy purposes.
The Arabidopsis Histidine Phosphotransfer Proteins Are Redundant Positive Regulators of Cytokinin Signaling
Creators: name: Lee, E.
name: Hutchison, C. E.
name: Kieber, J. J.
name: Lewis, M. W.
name: Alonso, J. M.
name: Li, J.
name: Gonzalez, M.
name: Schaller, G. E.
name: Maxwell, B. B.
name: Argueso, C.
name: Perdue, T. D.
name: Ecker, J. R.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2006

description: Arabidopsis thaliana histidine phosphotransfer proteins (AHPs) are similar to bacterial and yeast histidine phosphotransfer proteins (HPts), which act in multistep phosphorelay signaling pathways. A phosphorelay pathway is the current model for cytokinin signaling. To assess the role of AHPs in cytokinin signaling, we isolated T-DNA insertions in the five AHP genes that are predicted to encode functional HPts and constructed multiple insertion mutants, including an ahp1,2,3,4,5 quintuple mutant. Single ahp mutants were indistinguishable from wild-type seedlings in cytokinin response assays. However, various higher-order mutants displayed reduced sensitivity to cytokinin in diverse cytokinin assays, indicating both a positive role for AHPs in cytokinin signaling and functional overlap among the AHPs. In contrast with the other four AHPs, AHP4 may play a negative role in some cytokinin responses. The quintuple ahp mutant showed various abnormalities in growth and development, including reduced fertility, increased seed size, reduced vascular development, and a shortened primary root. These data indicate that most of the AHPs are redundant, positive regulators of cytokinin signaling and affect multiple aspects of plant development.
Eddington-Born-Infeld cosmology: a cosmographic approach, a tale of doomsdays and the fate of bound structures
Creators: name: Bouhmadi-Lopez, Mariam
name: Chen, Che-Yu
name: Chen, Pisin
Publisher: name: arXiv
Year: 2014
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The Eddington-inspired-Born-Infeld scenario (EiBI) can prevent the Big Bang singularity for a matter content whose equation of state is constant and positive. In a recent paper we showed that, on the contrary, it is impossible to smooth a big rip in the EiBI setup. In fact the situations are still different for other singularities. In this paper we show that a big freeze singularity in general relativity (GR) can in some cases be smoothed to a sudden or a type IV singularity under the EiBI scenario. Similarly, a sudden or a type IV singularity in GR can be replaced in some regions of the parameter space by a type IV singularity or a loitering behaviour, respectively, in the EiBI framework. Furthermore, we find that the auxiliary metric related to the physical connection usually has a smoother behaviour than that based on the physical metric. In addition, we show that bound structures close to a big rip or a little rip will be destroyed before the advent of the singularity and will remain bound close to a sudden, big freeze or type IV singularity. We then constrain the model following a cosmographic approach, which is well-known to be model-independent, for a given Friedmann-Lemaître-Robertson-Walker geometry. It turns out that among the various past or present singularities, the cosmographic analysis can pick up the physical region that determines the occurrence of a type IV singularity or a loitering effect in the past. Moreover, to determine which of the future singularities or doomsdays is more probable, observational constraints on higher order cosmographic parameters is required.
description: 23 pages, 6 figures. RevTex4-1. Revised/clarified version accepted in EPJC