bluuebunny/crossref_metadata_2025_split huggingface dataset:
A nanoparticle-based immobilization assay for prion-kinetics study
Authors: Kouassi Gilles K , Irudayaraj Joseph 
Published: August 2006

Abstract
Magnetic and gold coated magnetic nanoparticles were synthesized by co-precipitation of ferrous and ferric chlorides, and by the micromicelles method, respectively. Synthesized nanoparticles were functionalized to bear carboxyl and amino acid moieties and used as prion protein carriers after carbodiimide activation in the presence of N-hydroxysuccinimide. The binding of human recombinant prion protein (huPrPrec) to the surface of these nanoparticles was confirmed by FTIR and the size and structures of the particles were characterized by transmission electron microscopy. Findings indicate that the rate of prion binding increased only slightly when the concentration of prion in the reaction medium was increased. Rate constants of binding were very similar on Fe3O4@Au and Fe3O4-LAA when the concentrations of protein were 1, 2, 1.5, 2.25 and 3.57 μg/ml. For a 5 μg/ml concentration of huPrPrec the binding rate constant was higher for the Fe3O4-LAA particles. This study paves the way towards the formation of prion protein complexes onto a 3-dimensional structure that could reveal obscure physiological and pathological structure and prion protein kinetics.
Differential susceptibility of naïve, central memory and effector memory T cells to dendritic cell-mediated HIV-1 transmission
Authors: Groot Fedde , van Capel Toni MM , Schuitemaker Joost HN , Berkhout Ben , de Jong Esther C 
Published: August 2006

AbstractBackgroundDendritic cells (DC) have been proposed to facilitate sexual transmission of HIV-1 by capture of the virus in the mucosa and subsequent transmission to CD4+T cells. Several T cell subsets can be identified in humans: naïve T cells (TN) that initiate an immune response to new antigens, and memory T cells that respond to previously encountered pathogens. The memory T cell pool comprises central memory (TCM) and effector memory cells (TEM), which are characterized by distinct homing and effector functions. The TEMcell subset, which can be further divided into effector Th1 and Th2 cells, has been shown to be the prime target for viral replication after HIV-1 infection, and is abundantly present in mucosal tissues.ResultsWe determined the susceptibility of TN, TCMand TEMcells to DC-mediated HIV-1 transmission and found that co-receptor expression on the respective T cell subsets is a decisive factor for transmission. Accordingly, CCR5-using (R5) HIV-1 was most efficiently transmitted to TEMcells, and CXCR4-using (X4) HIV-1 was preferentially transmitted to TNcells.ConclusionThe highly efficient R5 transfer to TEMcells suggests that mucosal T cells are an important target for DC-mediated transmission. This may contribute to the initial burst of virus replication that is observed in these cells. TNcells, which are the prime target for DC-mediated X4 virus transmission in our study, are considered to inefficiently support HIV-1 replication. Our results thus indicate that DC may play a decisive role in the susceptibility of TNcells to X4 tropic HIV-1.
Fertility of frozen-thawed stallion semen cannot be predicted by the currently used laboratory methods
Authors: Kuisma P , Andersson M , Koskinen E , Katila T 
Published: August 2006

Abstract
The aim of the project was to use current simple and practical laboratory tests and compare results with the foaling rates of mares inseminated with commercially produced frozen semen. In Exp. 1, semen was tested from 27 and in Exp. 2 from 23 stallions; 19 stallions participated in both experiments. The mean number of mares per stallion in both experiments was 37 (min. 7, max. 121). Sperm morphology was assessed and bacterial culture performed once per stallion. In Exp. 1, progressive motility after 0, 1, 2, 3, and 4 h of incubation using light microscopy, motility characteristics measured with an automatic sperm analyzer, plasma membrane integrity using carboxyfluorescein diacetate/propidium iodide (CFDA/PI) staining and light microscopy, plasma membrane integrity using PI staining and a fluorometer, plasma membrane integrity using a resazurin reduction test, and sperm concentration were evaluated. In Exp. 2, the same tests as in Exp. 1 and a hypo-osmotic swelling test (HOST) using both light microscopy and a fluorometer were performed immediately after thawing and after a 3-h incubation. Statistical analysis was done separately to all stallions and to those having ≥ 20 mares; in addition, stallions with foaling rates < 60 or ≥ 60% were compared. In Exp. 1, progressive motility for all stallions after a 2 – 4-h incubation correlated with the foaling rate (correlation coefficients 0.39 – 0.51), (p < 0.05). In stallions with > 20 mares, the artificial insemination dose showed a correlation coefficient of -0.58 (p < 0.05). In Exp. 2, the HOST immediately after thawing showed a negative correlation with foaling rate (p < 0.05). No single test was consistently reliable for predicting the fertilizing capacity of semen, since the 2 experiments yielded conflicting results, although the same stallions sometimes participated in both. This shows the difficulty of frozen semen quality control in commercially produced stallion semen, and on the other hand, the difficulty of conducting fertility trials in horses.
Integration of metabolite with transcript and enzyme activity profiling during diurnal cycles in Arabidopsisrosettes
Authors: Gibon Yves , Usadel Bjoern , Blaesing Oliver E , Kamlage Beate , Hoehne Melanie , Trethewey Richard , Stitt Mark 
Published: August 2006

Abstract
Background
Genome-wide transcript profiling and analyses of enzyme activities from central carbon and nitrogen metabolism show that transcript levels undergo marked and rapid changes during diurnal cycles and after transfer to darkness, whereas changes in activities are smaller and delayed. In the starchless pgm mutant, where sugars are depleted every night, there are accentuated diurnal changes in transcript levels. Enzyme activities in this mutant do not show larger diurnal changes; instead, they shift towards the levels found in the wild type after several days of darkness. This indicates that enzyme activities change slowly, integrating the changes in transcript levels over several diurnal cycles.

Results
To generalize this conclusion, 137 metabolites were profiled using gas and liquid chromatography coupled to mass spectroscopy. The amplitudes of the diurnal changes in metabolite levels in pgm were (with the exception of sugars) similar or smaller than in the wild type. The average levels shifted towards those found after several days of darkness in the wild type. Examples include increased levels of amino acids due to protein degradation, decreased levels of fatty acids, increased tocopherol and decreased myo-inositol. Many metabolite-transcript correlations were found and the proportion of transcripts correlated with sugars increased dramatically in the starchless mutant.

Conclusion
Rapid diurnal changes in transcript levels are integrated over time to generate quasi-stable changes across large sectors of metabolism. This implies that correlations between metabolites and transcripts are due to regulation of gene expression by metabolites, rather than metabolites being changed as a consequence of a change in gene expression.
Statistical methods and software for the analysis of highthroughput reverse genetic assays using flow cytometry readouts
Authors: Hahne Florian , Arlt Dorit , Sauermann Mamatha , Majety Meher , Poustka Annemarie , Wiemann Stefan , Huber Wolfgang 
Published: August 2006

AbstractHighthroughput cell-based assays with flow cytometric readout provide a powerful technique for identifying components of biologic pathways and their interactors. Interpretation of these large datasets requires effective computational methods. We present a new approach that includes data pre-processing, visualization, quality assessment, and statistical inference. The software is freely available in the Bioconductor package prada. The method permits analysis of large screens to detect the effects of molecular interventions in cellular systems.
Intraspecific variation in tracheal volume in the American locust,Schistocerca americana, measured by a new inert gas method
Authors: Lease Hilary M. , Wolf Blair O. , Harrison Jon F. 
Published: August 2006

SUMMARYThe volume of a tracheal system influences breath-holding capacity and provides an index of an insect's investment in its respiratory system. Here,we describe a new, generally applicable method to measure tracheal volume that enables repeatable determinations on live animals. Animals are isolated in a closed chamber of a known volume and equilibrated with a helium:oxygen gas mixture. The chamber is then rapidly flushed with a nitrogen:oxygen gas mixture to eliminate the helium surrounding the animal, and sealed. After a period of time sufficient to allow equilibration of helium between tracheal system and chamber air, a gas sample is taken from the chamber, and tracheal volumes are calculated from the helium content of the sample, using a gas chromatograph. We show that relative investment in the tracheal system increases with age/size in the grasshopper; tracheal volume scales with mass to the power 1.3. This increased proportional investment in the tracheal system provides a mechanistic basis for the enhanced respiratory capacity of older grasshoppers. Tracheal volumes decrease strongly as grasshoppers grow within an instar stage, explaining reduced safety margins for oxygen delivery. Finally, tracheal volumes are smaller in gravid females than males, probably due to compression of air sacs by eggs.
Associations between tissue fatty acid composition and physiological traits of performance and metabolism in the seabass (Dicentrarchus labrax)
Authors: Chatelier A. , McKenzie D. J. , Prinet A. , Galois R. , Robin J. , Zambonino J. , Claireaux G. 
Published: August 2006

SUMMARYSeabass were fed for 4 months with diets where the lipid was provided as either canola oil (CO), palm oil (PO) or fish oil (FO), to generate diversity in their tissue fatty acid (FA) composition and investigate how this influenced major traits of exercise performance, cardiac performance and respiratory metabolism. In particular, based upon previous observations, we investigated the hypothesis that enriching the fish tissues with oleic and linoleic acids (OA, 18:1n-9 and LA, 18:2n-6, respectively) from the CO and PO diets would improve maximum exercise and cardiac performance, and increase aerobic metabolic scope. This proved to be the case; exercise respirometry on bass fitted with cardiac flow probes revealed that those fed CO and PO diets had a significantly higher critical swimming speed (Ucrit)than those fed the FO diet. The improved swimming performance in the CO and PO groups was accompanied by a higher maximum cardiac output(Q̇) and net cardiac scope, and a higher active metabolic rate (AMR) and aerobic scope (AS) than in the FO group. Analysis of tissue FA composition revealed that the fish fed the CO and PO diets had accumulated significantly higher levels of OA and LA in their heart and muscle than the fish from the FO group, which had significantly higher levels of highly unsaturated FA of the n-3 series, such as EPA and DHA(20:5n-3 and 22:6n-3, respectively). Principal components analysis revealed significant positive associations between tissue OA and LA content and Ucrit, maximum Q, the increase in Q during exercise, AMR and aerobic scope. There was a negative association between these physiological traits and tissue content of EPA. Therefore, diet composition is an environmental factor that can generate significant phenotypic diversity in major physiological traits of performance and metabolism in the seabass, with increased intake of FAs such as OA and LA leading to improved cardiorespiratory performance.
Seed husking time and maximal bite force in finches
Authors: van der Meij M. A. A. , Bout R. G. 
Published: August 2006

SUMMARY
Many studies on the efficiency of feeding in finches concentrate on husking time in relation to average seed size and bird size. Large species are capable of eating larger seeds and are able to husk large seeds faster than smaller species. It is generally assumed that husking time is related to bite force. However, there are very few studies that investigate the relationship between husking time, seed hardness and bite force directly.
In our experiments we measured the seed husking time and the maximal bite force of two taxa of seed cracking birds. Husking time is related to maximal bite force in a highly non-linear way and differs between estrildids and fringillids. Fringillids with the same bite force as estrildids take less time to crack seeds, but only when the strength of the seed coat is close to their maximal bite force. For seeds that are relatively soft the difference in husking time becomes very small. A preliminary jaw motion analysis provides evidence that this difference in husking time between estrildids and fringillids is paralleled by a difference in husking technique. This difference in technique does not affect bite force as such, but decreases the chance of failed cracking attempts.
The selective advantage of a small increase in maximal bite force may be related more to the decrease in husking time for seeds with hardness below the maximal bite force, than to the increase in range of seed hardness that the bird is able to crack.
Becoming airborne without legs: the kinematics of take-off in a flying snake,Chrysopelea paradisi
Authors: Socha John J. 
Published: August 2006

SUMMARYAmong terrestrial vertebrate gliders, take-off presents a unique problem to flying snakes (Chrysopelea). Without legs, snakes must use fundamentally different kinematics to begin their aerial trajectories. To determine the effectiveness of different modes of take-off in a gliding snake(C. paradisi), I videotaped multiple views of take-off from a horizontal branch and quantified the two- and three-dimensional coordinates of three points on the snake's body. Performance values derived from these coordinates were used to describe take-off in C. paradisi, compare modes of take-off, and make predictions about the ecological use of take-off in the wild. Four types of take-off were identified. In most observed take-offs, snakes used a vertically looped take-off (termed `anchored J-loop'and `sliding J-loop'), which represent the only true jumping in snakes. In an anchored J-loop take-off, the snake formed an anterior hanging loop and then jumped by holding the posterior body static on the branch and accelerating up and away from the branch. This was the most commonly used take-off mode. A sliding J-loop take-off was similar but occurred with the entire body in motion. Snakes using such take-offs lowered less of their body below the branch than in an anchored J-loop take-off, resulting in shorter preparation and vertical acceleration durations and producing a lower maximum vertical velocity. However, these differences did not produce significant differences after the snakes were fully airborne and had started their aerial trajectories. The non-looped take-offs (termed `dive' and `fall') were the least kinematically complex. Compared to the non-looped take-offs, looped take-offs allowed snakes to reach higher, range farther, and attain greater speeds. Futhermore, snakes that launched with looped take-offs traveled farther over the course of a full glide trajectory when starting from a 10 m high perch. Take-off in C. paradisi is qualitatively similar to that in other species of Chrysopelea and may represent a suite of behaviors that preceded the evolution of gliding flight in snakes.
`Binaural echo disparity' as a potential indicator of object orientation and cue for object recognition in echolocating nectar-feeding bats
Authors: Holderied Marc W. , von Helversen Otto 
Published: August 2006

SUMMARYEcholocating bats emit ultrasonic calls through their mouth or their nostrils and receive echoes from objects with both their ears. Information conveyed in the echoes is the basis for their three-dimensional acoustic perception of the surroundings. The direction of an object is encoded in binaural echo differences, i.e. on the one hand in the different arrival times of its echo at the two ears, and on the other hand in spectral differences through direction-dependent frequency filtering of head and pinnae. Insufficient attention has been paid, however, to the fact that three-dimensional objects produce structured spatial echo fields, and that the position of the ear in this field determines the echo it receives. We were interested to determine whether the two ears, in addition to direction-specific echo differences, receive object-specific echo disparities that might be useful for the bat. Our measurements with an artificial bat head, which consisted of two microphones and a small ultrasound loudspeaker arranged to resemble a bat's ears and mouth, revealed that echoes at the two ears differed largely depending on the shape and orientation of the echo-giving object. Binaural echo disparities of a bat-pollinated flower did indeed carry information about the orientation and, to a lesser extent, the shape of the flower. During flower approach such object-specific binaural echo disparities even exceed the binaural differences encoding direction of echo incidence, because the echo from the flower in front undergoes the same directional filtering by the two symmetrical ears. Nectar-feeding bats could use these object-specific binaural echo disparities not only to determine the object's orientation relative to the approaching bat, facilitating flight planning, but also to improve object recognition through spatial reconstruction of details of the object creating the echo. Our results suggest that the evaluation of binaural echo disparity has a greater importance for these tasks than has previously been assumed.
Water balance of field-excavated aestivating Australian desert frogs, the cocoon-formingNeobatrachus aquiloniusand the non-cocooningNotaden nichollsi(Amphibia: Myobatrachidae)
Authors: Cartledge Victoria A. , Withers Philip C. , McMaster Kellie A. , Thompson Graham G. , Bradshaw S. Don 
Published: August 2006

SUMMARYBurrowed aestivating frogs of the cocoon-forming species Neobatrachus aquilonius and the non-cocooning species Notaden nichollsi were excavated in the Gibson Desert of central Australia. Their hydration state(osmotic pressure of the plasma and urine) was compared to the moisture content and water potential of the surrounding soil. The non-cocooning N. nichollsi was consistently found in sand dunes. While this sand had favourable water potential properties for buried frogs, the considerable spatial and temporal variation in sand moisture meant that frogs were not always in positive water balance with respect to the surrounding soil. The cocoon-forming N. aquilonius was excavated from two distinct habitat types, a claypan in which frogs had a well-formed cocoon and a dune swale where frogs did not have a cocoon. Cocoons of excavated frogs ranged in thickness from 19.4 μm to 55.61 μm and consisted of 81-229 layers. Cocooned claypan N. aquilonius were nearing exhaustion of their bladder water reserves and had a urine osmolality approaching that of the plasma. By contrast, non-cocooned N. aquilonius from the dune swale were fully hydrated, although soil moisture levels were not as high as calculated to be necessary to maintain water balance. Both species had similar plasma arginine vasotocin (AVT) concentrations ranging from 9.4 to 164 pg ml-1, except for one cocooned N. aquilonius with a higher concentration of 394 pg ml-1. For both species, AVT showed no relationship with plasma osmolality over the lower range of plasma osmolalities but was appreciably increased at the highest osmolality recorded. This study provides the first evidence that cocoon formation following burrowing is not obligatory in species that are capable of doing so, but that cocoon formation occurs when soil water conditions are more desiccating than for non-cocooned frogs.
Selection for desiccation resistance in adultDrosophila melanogasteraffects larval development and metabolite accumulation
Authors: Gefen Eran , Marlon Anthony J. , Gibbs Allen G. 
Published: August 2006

SUMMARYWe studied larval development and acquisition of metabolic resources in Drosophila melanogaster selected for adult desiccation resistance. Desiccation-selected (D) flies had longer developmental times in comparison with control populations, resulting in significantly higher body mass. No differences were found in larval growth rates, suggesting that increased body mass results from the extended larval feeding period. Larvae from both D and control lines molted from second to third instar 81-84 h after egg laying,whereas D larvae pupated 5-6 h later than controls. This indicates that selecting adults for desiccation resistance results in longer third larval instar. Newly eclosed D flies had higher carbohydrate and water contents in comparison with control populations. No differences were found in body mass,water or metabolite contents of newly eclosed selected and control flies after larvae were prevented from further feeding from 96 h after egg laying onwards. This shows that differences in accumulated carbohydrate and water stores are a result of evolved differences in the duration of third larval instar. The contribution of third instar feeding to desiccation resistance of adult selected flies is higher than that of controls. Thus, selection for adult stress resistance has resulted in correlated changes in larval physiology.
Development of swimming behaviour in the larva of the ascidianCiona intestinalis
Authors: Zega Giuliana , Thorndyke Michael C. , Brown Euan R. 
Published: August 2006

SUMMARYThe aim of this study was to characterize the swimming behaviour of C. intestinalis larvae during the first 6 h after hatching by measuring tail muscle field potentials. This recording method allowed a quantitative description of the responses of the larva under light and dark conditions. Three different larval movements were distinguished by their specific frequencies: tail flicks, `spontaneous' swimming, and shadow response, or dark induced activity, with respective mean frequencies of about 10, 22 and 32 Hz. The shadow response develops at about 1.5 h post hatching (h.p.h.). The frequency of muscle potentials associated with this behaviour became higher than those of spontaneous swimming activity, shifting from 20 to 30 Hz, but only from about 2 h.p.h. onwards. Swimming rate was influenced positively for about 25 s after the beginning of the shadow response. Comparison of swimming activity at three different larval ages (0-2, 2-4 and 4-6 h.p.h.) showed that Ciona larvae swim for longer periods and more frequently during the first hours after hatching. Our results provide a starting point for future studies that aim to characterize the nervous control of ascidian locomotion,in wild-type or mutant larvae.