Miracle-dz/UniFAR-FTUs huggingface dataset:
Candidate ionotropic taste receptors in the Drosophila larva

Significance The coding of taste is based on the activity of taste receptors. We examine in Drosophila the expression of a group of ∼35 ionotropic receptors (IRs), the IR20a clade, about which remarkably little is known. We find evidence that 11 are expressed in the larva. Most are expressed in neurons of the pharynx, a taste organ. Others are expressed in body-wall neurons that may be chemosensory. The organization of IR gene expression differs from the organization of expression of Gustatory receptor taste receptor genes. Among neurons expressing IR20a receptors in the pharynx, two projection patterns in the CNS can be distinguished, perhaps representing cues with different valence. Our results suggest that the IR20a clade encodes a class of larval taste receptors. We examine in Drosophila a group of ∼35 ionotropic receptors (IRs), the IR20a clade, about which remarkably little is known. Of 28 genes analyzed, GAL4 drivers representing 11 showed expression in the larva. Eight drivers labeled neurons of the pharynx, a taste organ, and three labeled neurons of the body wall that may be chemosensory. Expression was not observed in neurons of one taste organ, the terminal organ, although these neurons express many drivers of the Gr (Gustatory receptor) family. For most drivers of the IR20a clade, we observed expression in a single pair of cells in the animal, with limited coexpression, and only a fraction of pharyngeal neurons are labeled. The organization of IR20a clade expression thus appears different from the organization of the Gr family or the Odor receptor (Or) family in the larva. A remarkable feature of the larval pharynx is that some of its organs are incorporated into the adult pharynx, and several drivers of this clade are expressed in the pharynx of both larvae and adults. Different IR drivers show different developmental dynamics across the larval stages, either increasing or decreasing. Among neurons expressing drivers in the pharynx, two projection patterns can be distinguished in the CNS. Neurons exhibiting these two kinds of projection patterns may activate different circuits, possibly signaling the presence of cues with different valence. Taken together, the simplest interpretation of our results is that the IR20a clade encodes a class of larval taste receptors.
Compact MIMO antenna with low mutual coupling using defected ground structure

Defected Ground Structure (DGS) is a newly introduced revolutionary technique in the field of microstrip antenna to enhance the performance of antenna parameters as bandwidth. In this paper, a design of compact MIMO antenna using DGS is proposed. The antenna operates at 3.5 GHz for WiMax/LTE tablet applications. Compare to theoretical microstrip antenna design, the suggested MIMO antenna using a simple DGS shape has achieved not only an enlarged bandwidth but also more compact size. In addition, the mutual coupling between two antenna elements with close distance is low (less than -20dB) thanks to proper position in antenna ground as well as the fed method using.
Wnt11/β-catenin signaling in both oocytes and early embryos acts through LRP6-mediated regulation of axin

Current models of canonical Wnt signaling assume that a pathway is active if β-catenin becomes nuclearly localized and Wnt target genes are transcribed. We show that, in Xenopus, maternal LRP6 is essential in such a pathway, playing a pivotal role in causing expression of the organizer genes siamois and Xnr3, and in establishing the dorsal axis. We provide evidence that LRP6 acts by degrading axin protein during the early cleavage stage of development. In the full-grown oocyte, before maturation, we find that axin levels are also regulated by Wnt11 and LRP6. In the oocyte, Wnt11 and/or LRP6 regulates axin to maintain β-catenin at a low level, while in the embryo, asymmetrical Wnt11/LRP6 signaling stabilizesβ -catenin and enriches it on the dorsal side. This suggests that canonical Wnt signaling may not exist in simple off or on states, but may also include a third, steady-state, modality.
Delayed upwelling alters nearshore coastal ocean ecosystems in the northern California current

Wind-driven coastal ocean upwelling supplies nutrients to the euphotic zone near the coast. Nutrients fuel the growth of phytoplankton, the base of a very productive coastal marine ecosystem [Pauly D, Christensen V (1995) Nature 374:255–257]. Because nutrient supply and phytoplankton biomass in shelf waters are highly sensitive to variation in upwelling-driven circulation, shifts in the timing and strength of upwelling may alter basic nutrient and carbon fluxes through marine food webs. We show how a 1-month delay in the 2005 spring transition to upwelling-favorable wind stress in the northern California Current Large Marine Ecosystem resulted in numerous anomalies: warm water, low nutrient levels, low primary productivity, and an unprecedented low recruitment of rocky intertidal organisms. The delay was associated with 20- to 40-day wind oscillations accompanying a southward shift of the jet stream. Early in the upwelling season (May–July) off Oregon, the cumulative upwelling-favorable wind stress was the lowest in 20 years, nearshore surface waters averaged 2°C warmer than normal, surf-zone chlorophyll-a and nutrients were 50% and 30% less than normal, respectively, and densities of recruits of mussels and barnacles were reduced by 83% and 66%, respectively. Delayed early-season upwelling and stronger late-season upwelling are consistent with predictions of the influence of global warming on coastal upwelling regions.
Frequency Diversity Comparison of Coded SC-FDE & OFDM on Different Channels

This paper compares the relative performance of coded single carrier frequency domain equalisation (SC-FDE) and orthogonal frequency-division multiplexing (OFDM) on frequency-selective fading channels. We focus on the extent to which the two schemes can exploit the frequency diversity inherent in such channels. Channels with different impulse response lengths, and therefore available diversity order are considered, with convolutional codes of different rates and constraint lengths, and also turbo-codes. We show that on all channels SC-FDE has better performance with codes having smaller minimum distance. However with more powerful codes, which enable it to exploit the full frequency diversity available in the channel, OFDM has better performance, particularly on channels with greater diversity.
The HeLa 200 kDa U5 snRNP‐specific protein and its homologue in Saccharomyces cerevisiae are members of the DEXH‐box protein family of putative RNA helicases.

The primary structure of the 200 kDa protein of purified HeLa U5 snRNPs (U5‐200kD) was characterized by cloning and sequencing of its cDNA. In order to confirm that U5‐200kD is distinct from U5‐220kD we demonstrate by protein sequencing that the human U5‐specific 220 kDa protein is homologous to the yeast U5‐specific protein Prp8p. A 246 kDa protein (Snu246p) homologous to U5–200kD was identified in Saccharomyces cerevisiae. Both proteins contain two conserved domains characteristic of the DEXH‐box protein family of putative RNA helicases and RNA‐stimulated ATPases. Antibodies raised against fusion proteins produced from fragments of the cloned mammalian cDNA interact specifically with the HeLa U5–200kD protein on Western blots and co‐immunoprecipitate U5 snRNA and to a lesser extent U4 and U6 snRNAs from HeLa snRNPs. Similarly, U4, U5 and U6 snRNAs can be co‐immunoprecipitated from yeast splicing extracts containing an HA‐tagged derivative of Snu246p with HA‐tag specific antibodies. U5–200kD and Snu246p are thus the first putative RNA helicases shown to be intrinsic components of snRNPs. Disruption of the SNU246 gene in yeast is lethal and leads to a splicing defect in vivo, indicating that the protein is essential for splicing. Anti‐U5–200kD antibodies specifically block the second step of mammalian splicing in vitro, demonstrating for the first time that a DEXH‐box protein is involved in mammalian splicing. We propose that U5–200kD and Snu246p promote one or more conformational changes in the dynamic network of RNA‐RNA interactions in the spliceosome.
The trait of Introversion–Extraversion predicts vulnerability to sleep deprivation

According to Eysenck’s theory of Introversion–Extroversion (I–E), introverts demonstrate higher levels of basal activity within the reticular‐thalamic‐cortical loop, yielding higher tonic cortical arousal than Extraverts, who are described conversely as chronically under‐aroused and easily bored. We hypothesized that higher scores on the trait of Extraversion would be associated with greater declines in psychomotor vigilance performance during prolonged wakefulness. We evaluated the relationship between I–E and overnight psychomotor vigilance performance during 77 h of continuous sleep deprivation in a sample of 23 healthy adult military personnel (19 men; four women), ranging in age from 20 to 35 years. At baseline, volunteers completed the Revised NEO Personality Inventory (NEO PI‐R) and completed psychomotor vigilance testing at approximately 10‐min intervals from 00:15 to 08:50 hours over three nights of continuous sleep deprivation. In addition, 12 participants received four repeated administrations of caffeine (200 mg) every 2 h each night. Analysis of covariance and stepwise multiple regression analyses showed that, above and beyond the effects of caffeine, higher Extraversion was significantly related to more extensive declines in speed of responding and more frequent attentional lapses, but only for the first overnight testing session. Sub‐factors of Extraversion, including Gregariousness and higher Activity level were most predictive of these changes following sleep loss. These findings are consistent with Eysenck’s cortico‐reticular activation theory of I–E and suggest that individual differences in the trait of Extraversion confer some vulnerability/resistance to the adverse effects of sleep loss on attention and vigilance.
Transcriptional activities of mammalian genomes at sites of recombination with foreign DNA

The nucleotide sequences of several sites of recombination between adenovirus DNA and hamster, mouse, or human cell DNAs were determined. These sites of recombination had been cloned from adenovirus type 2 (Ad2)- or type 12 (Ad12)-transformed cells, from Ad12-induced tumor cells, or from a symmetric recombinant between Ad12 DNA and human cell DNA. One important precondition for the generation of recombinants between host and foreign DNAs might be the establishment of a chromatin configuration that permits access of foreign DNA and of the recombination machinery to cellular DNA. Such favorable chromatin structures might arise during cellular DNA replication or transcription or both. As a first approach toward investigating these more complex problems of foreign DNA insertion, we determined transcriptional activities of cellular DNA sequences at viral junction sites. The sites of linkage investigated in this study with respect to their transcriptional activities were those previously cloned and sequenced (W. Doerfler, R. Gahlmann, S. Stabel, R. Deuring, U. Lichtenberg, M. Schulz, D. Eick, and R. Leisten, Curr. Top. Microbiol. Immunol. 109:193-228, 1983). In addition, a site from cell line HA12/7 which is described in this paper was also analyzed. The results presented demonstrate that the cellular DNA sequences involved in linkage to viral DNA at five completely different sites in DNA from three different species are transcribed into RNAs even in cells which have not been transformed or infected by adenovirus. Some of these RNAs were cytoplasmic and were not poly(A)+. Human cell DNA sequences at the junction to Ad12 DNA in SYREC2 DNA were transcribed into poly(A)+ cytoplasmic RNA which could be translated in vitro. These results are consistent with the notion that at least some of the cellular DNA sequences at sites of insertion of adenovirus (foreign) DNA are transcriptionally active and thus provide an opportunity for recombination.
Reconciling the High Rates of Preterm and Postterm Birth in the United States

OBJECTIVE: Preterm and postterm birth rates are substantially higher in the United States than in Canada and other industrialized countries, although relative mortality at preterm compared with term gestation is considerably lower. We attempted to explain these differences based on differences in the method of gestational age estimation. METHODS: We used information on all live births in the United States and Canada for 1995–2002 and on singleton births and perinatal deaths for 1996–1999. Gestational age in Canada was based on the clinical estimate, whereas in the United States both menstrual-based and clinical estimates were used. RESULTS: In 2002, preterm (12.3%) and postterm birth (6.6%) rates in the United States were far higher than in Canada (7.6% and 1.0%, respectively) when U.S. rates were based on menstrual dates. Differences were reduced or abolished when U.S. rates were based on the clinical estimate of gestation (10.1% and 1.0%, respectively). In Canada, the rate ratio for perinatal death at preterm compared with term gestation was 27.8 (95% confidence interval [CI] 26.3–29.3), similar to that in the United States when gestation was based on the clinical estimate (rate ratio 26.5, 95% CI 26.1–26.9, P value for difference in rate ratios=.06) but not when based on menstrual dates (rate ratio 18.9, 95% CI 18.7–19.2, P<.001). CONCLUSION: Menstrual dates in U.S. data misclassify gestational duration and overestimate both preterm and postterm birth rates. For international comparisons, gestational age in the United States should be based on the clinical estimate. Level of Evidence: II
The Capabilities Driving Participation in Global Value Chains

Global value chains have altered the nature of global trade and offer significant opportunities for developing countries to expand exports, access technology, and raise productivity. Policy makers rightly seek to understand what it takes to participate in global value chains. In practice, this means understanding what it takes to attract lead firms and upgrade to higher value-added activities. Recent literature has pointed to a range of underlying characteristics that may drive participation in global value chains. Using a modified factor-content methodology, this paper shows that proximity to markets, efficient logistics, and strength of institutions are among the most important capabilities. However, the paper also shows that each sector has a unique mix of capability requirements. Fixed structural characteristics limit the range of sectoral possibilities for a given country, but, by reducing policy-related gaps, a country may be able to increase its competitiveness for participating in global value chains. The paper applies the methodology to Southern African Customs Union countries, and demonstrates that, by filling gaps in underlying capabilities, these countries could increase participation in certain global value chain sectors.
Internet channel entry: retail coverage and entry cost advantage

In this research we study how existing market coverage affects the outcome of the Internet channel entry game between an existing retailer and a new entrant. A market is not covered when some consumers with low reservation prices are priced out by existing retailers and do not purchase. In a model with multiple existing retailers and a potential new entrant, we demonstrate that when entry costs are equal, one of the existing retailers enters the Internet channel first. However, if the market is covered by existing retailers before entry, then because of the threat of Internet channel entry by the potential new entrant, retailer entry cannibalizes existing retail profits—cannibalizing at a loss. In addition, if a potential new entrant has a slight advantage in Internet channel entry costs and the market is not covered by existing retailers, then the new entrant enters the Internet channel first. If the market is covered by existing retailers, then the new entrant must have a larger Internet channel entry cost advantage to be first to enter the Internet channel.
Mechanisms for monovalent cation‐dependent depletion of intracellular Mg2+:Na+‐independent Mg2+ pathways in guinea‐pig smooth muscle

It has been suggested that magnesium deficiency is correlated with many diseases. 31P NMR experiments were carried out in order to investigate the effects of Na+ substitution on Mg2+ depletion in smooth muscle under divalent cation‐free conditions. In the taenia of guinea‐pig caeci, the intracellular free Mg2+ concentration ([Mg2+]i) was estimated from the chemical shifts of (1) the β‐ATP peak alone and (2) β‐ and γ‐ATP peaks. Both estimations indicated that [Mg2+]i decreased only very slowly in Mg2+‐free, Ca2+‐free solutions in which Na+ was substituted with large cations such as NMDG (N‐methyl‐D‐glucamine) and choline. Furthermore, the measurements of tension development supported the suggestion of preservation of intracellular Mg2+ with NMDG substitution. Substituting extracellular Na+ with the small cation, Li+, also shifted the β‐ATP peak towards a lower frequency, but the frequency shift was significantly less than that seen upon Na+ substitution with K+. The estimated [Mg2+]i depletion was, however, comparable with that seen after Na+ substitution with K+ using the titration curves of metal‐free and Mg2+‐bound ATP obtained in Li+‐based model solutions. It was concluded that Mg2+ rapidly decreases only when small cations were the major electrolyte of the extracellular medium. Na+ substitutions with NMDG, choline or Li+ had little effect on intracellular ATP concentration after 100 min treatment.
Recycling Endosome Membrane Incorporation into the Leading Edge Regulates Lamellipodia Formation and Macrophage Migration

In comparison to our knowledge of the recycling of adhesion receptors and actin assembly, exactly how the cell controls its surface membrane to form a lamellipodium during migration is poorly understood. Here, we show the recycling endosome membrane is incorporated into the leading edge of a migrating cell to expand lamellipodia membrane. We have identified the SNARE complex that is necessary for fusion of the recycling endosome with the cell surface, as consisting of the R‐SNARE VAMP3 on the recycling endosome partnering with the surface Q‐SNARE Stx4/SNAP23, which was found to translocate and accumulate on the leading edge of migrating cells. Increasing VAMP3‐mediated fusion of the recycling endosome with the surface increased membrane ruffling, while inhibition of VAMP3‐mediated fusion showed that incorporation of the recycling endosome is necessary for efficient lamellipodia formation. At the same time, insertion of this recycling endosome membrane also delivers its cargo integrin α5β1 to the cell surface. The loss of this extra membrane for lamellipodia expansion and delivery of cargo in cells resulted in macrophages with a diminished capacity to effectively migrate. Thus, the recycling endosome membrane is incorporated into the leading edge and this aids expansion of the lamellipodia and simultaneously delivers integrins necessary for efficient cell migration.
Yeast Species Associated with Orange Juice: Evaluation of Different Identification Methods

ABSTRACT Five different methods were used to identify yeast isolates from a variety of citrus juice sources. A total of 99 strains, including reference strains, were identified using a partial sequence of the 26S rRNA gene, restriction pattern analysis of the internal transcribed spacer region (5.8S-ITS), classical methodology, the RapID Yeast Plus system, and API 20C AUX. Twenty-three different species were identified representing 11 different genera. Distribution of the species was considerably different depending on the type of sample. Fourteen different species were identified from pasteurized single-strength orange juice that had been contaminated after pasteurization (PSOJ), while only six species were isolated from fresh-squeezed, unpasteurized orange juice (FSOJ). Among PSOJ isolates, Candida intermedia and Candida parapsilosis were the predominant species. Hanseniaspora occidentalis and Hanseniaspora uvarum represented up to 73% of total FSOJ isolates. Partial sequence of the 26S rRNA gene yielded the best results in terms of correct identification, followed by classical techniques and 5.8S-ITS analysis. The commercial identification kits RapID Yeast Plus system and API 20C AUX were able to correctly identify only 35 and 13% of the isolates, respectively. Six new 5.8S-ITS profiles were described, corresponding to Clavispora lusitaniae, Geotrichum citri-aurantii, H. occidentalis, H. vineae, Pichia fermentans, and Saccharomycopsis crataegensis. With the addition of these new profiles to the existing database, the use of 5.8S-ITS sequence became the best tool for rapid and accurate identification of yeast isolates from orange juice.
Molecular Approaches to the Investigation of Viable Dinoflagellate Cysts in Natural Sediments from Estuarine Environments 1

Abstract. Molecular methods offer an efficient alternative to microscopic identification of dinoflagellate cysts in natural sediments. Unfortunately, amplification of DNA also detects the presence of dead cells and is not a reliable indication of cyst viability. Because mRNA transcripts are more labile than DNA, the presence of specific transcripts may be used as a proxy for cyst viability. Here, we evaluate mRNA detection capabilities for identification of viable cysts of the dinoflagellate, Pfiesteria piscicida, in natural sediment samples. We targeted transcripts for cytochrome c oxidase subunit 1, cytochrome b (COB), and Tags 343 and 277, recently identified by serial analysis of gene expression. Expression was confirmed in laboratory cultures and compared with natural sediment samples. Three of the transcripts were detected in sediments by RT‐PCR. The fourth transcript, for COB, was not detected in sediments, perhaps because of down‐regulation of the gene in anoxic conditions. Our results suggest that methods targeting specific mRNA transcripts may be useful for detection of viable cysts in natural sediment samples. In addition, dinoflagellate cysts, which sustain extended periods of anoxia, may provide an important source of data for studies of anoxia tolerance by microbial eukaryotes.
Prenatal exposure to ethinylestradiol alters the morphologic patterns and increases the predisposition for prostatic lesions in male and female gerbils during ageing

Ethinylestradiol (EE) is an endocrine disruptor (ED) which acts as an oestrogen agonist; this compound is known as an oral contraceptive. Male and female rodents exposed to EE during critical time points of development, such as in the prenatal period, show alterations in their reproductive tract during adulthood. Few studies have placed an emphasis on the effects of EE during ageing. Thus, this study had as it's objective the analysis of the morphological and immunohistochemical effects of exposure to EE in the prenatal period on ventral male prostate and female prostate of gerbils (Meriones unguiculatus) during ageing. The animals were exposed to EE (15 μg/kg/day) during the 18–22th days of prenatal life (EE/PRE group), and the analyses were performed when the male and female reached 12 months of age. Our results showed an increase in the development of prostatic intraepithelial neoplasia (PIN), which was observed in the male and female prostate of EE/PRE groups. Immunohistochemistry showed a rise in prostatic epithelial and basal cells immunoreactivity, respectively, and to AR and p63 in the male EE/PRE. There were alterations in the morphological pattern of the prostatic glands and increase in predisposition to emergence of prostatic lesions of both sexes during ageing. Despite male and female having been exposed to the same doses of EE, the “exposure to EE promoted modifications” more accentuated in the male prostate. Thus the male gland is more sensitive to the action of this synthetic oestrogen than the female prostate.