Miracle-dz/UniFAR-FTUs huggingface dataset:
The electro‐mechanical response of canine inspiratory intercostal muscles to increased resistance: the cranial rib‐cage.

1. The effect of graded increases in inspiratory airflow resistance on the electrical activity and the mechanical behaviour of the three groups of inspiratory intercostal muscles (parasternal intercostal, external intercostal, levator costae) situated in the cranial portion of the rib‐cage has been studied in ten anaesthetized, spontaneously breathing dogs. The mechanical behaviour of the muscles was determined by measuring the respiratory changes in muscle length and the displacements of the rib. 2. During unloaded inspiration, the three muscles were active, the rib moved in the cranial direction, and the parasternal intercostal and levator costae muscles shortened; in most animals, the external intercostals shortened as well. 3. Graded increases in inspiratory airflow resistance elicited a progressive inhibition of parasternal intercostal activity and a gradual facilitation of external intercostal and levator costae activities. Concomitantly, the parasternal intercostals continued to shorten during inspiration. However, both the external intercostals and the levator costae progressively lengthened, and the rib was gradually displaced in the caudal direction. This pattern persisted after increases in chemical respiratory drive had developed. 4. Sectioning the phrenic nerve roots did not alter the electrical or the mechanical response of the parasternal intercostal muscles to loading, but it markedly affected the response of the external intercostals and levator costae. After phrenicotomy, the external intercostals and levator costae continued to shorten during loaded breaths, the rib continued to be displaced in the cranial direction, and although the rate of inspiratory muscle shortening and of rib motion decreased, the facilitation of external intercostal and levator costae activities was markedly reduced or abolished. 5. Lengthening of the external intercostals and caudal displacement of the rib was reproduced by isolated stimulation of the phrenic nerves. 6. The reflex facilitation of external intercostal and levator costae activities that takes place during inspiratory resistive loading thus results primarily from the collapsing action of the diaphragm on the cranial portion of the rib‐cage and the consequent lengthening of these muscles. The mechanical effectiveness of this reflex facilitation, however, appears to be relatively small.
Recovery of song preferences after excitotoxic HVC lesion in female canaries.

The courtship solicitation display (CSD) of the female canary is a model to study estrogen dependent auditory preferences for male songs. The forebrain auditory-vocal nucleus, HVC, is part of the circuit that determines such preferences. To further develop this model we show that bilateral excitotoxic lesions of the medial part of HVC involving between 18-60% of the bilateral nucleus are behaviorally effective while complete unilateral lesions are not. Further, we show that animals recover their song preferences over a period of several months after the lesion. This functional recovery does not involve anatomical recovery of the HVC. Even 9 months after the lesion, the HVC size of these females was similar to that of females sacrificed 2 days after the lesion and thus was 40 +/- 8% smaller compared to normal females. Further, ipsilaterally, the lesion procedure transiently disturbed the neurochemistry, such as GAD-mRNA expression, in the part of HVC that did not undergo cell death. These results suggest that the integrity of the lateral part of at least one HVC is required to perform CSD in response to relevant auditory stimuli.
Disulfide reduction and sulfhydryl uptake by Streptococcus mutans

Incubation of Streptococcus mutans cells with certain disulfide compounds resulted in accumulation of reduced sulfhydryl compounds in the extracellular medium or in both the medium and the cells. Oxidized lipoic acid and lipoamide competed for reduction. At high concentrations, these compounds were reduced at rates comparable to that of glucose metabolism, and all of the increase in sulfhydryls was in the medium. Cystamine did not compete with these compounds for reduction but was also reduced at high rates and low apparent affinity, and all of the cysteamine produced from cystamine accumulated in the medium. In contrast, glutathione disulfide (GSSG) and L-cystine were reduced slowly but with high apparent affinity, and 60 to 80% of the increase in sulfhydryls was intracellular. NADH-dependent lipoic acid or lipoamide reductase activity was present in the particulate (wall-plus-membrane) fraction, whereas NADPH-dependent GSSG reductase activity was present in the soluble (cytoplasmic) fraction. Two transport systems for disulfide and sulfhydryl compounds were distinguished. GSSG, L-cystine, and reduced glutathione competed for uptake. L-Cysteine was taken up by a separate system that also accepted L-penicillamine and D-cysteine as substrates. Uptake of glutathione or L-cysteine, or the uptake and reduction of GSSG or L-cystine, resulted in up to a 10-fold increase in cell sulfhydryl content that raised intracellular concentrations to between 30 and 40 mM. These reductase and transport systems enable S. mutans cells to create a reducing environment in both the extracellular medium and the cytoplasm.
Using Raptors as Environmental Sentinels: Monitoring the White-tailed Sea Eagle Haliaeetus albicilla in Sweden

Abstract This paper summarizes results from the monitoring of reproduction of white-tailed sea eagle in Sweden 1965–2006. Since 1989 the eagle population on the Swedish Baltic coast has been included in the National Environment Monitoring Program as an indicator species for potentially harmful chemicals. The percentage of successfully reproducing pairs and nestling brood size decreased in synchrony with rising concentrations of contaminants in the 1950s on into the 1970s. Mean productivity was 1.3 young per pair prior to 1950 and decreased to 0.3 in 1965–1985. Dichlorodiphenyldichloroethene (DDE) in eagle eggs decreased from a range of annual means in 1965–1974 of 600-1200 μg g−1 (lipid weight) to 60–140 μg g−1 in 1996–2005. Total polychlorinated biphenyl (PCB) concentrations averaged above 1000 μg g−1 into the early 1980s and remained in the range of 250–500 μg g−1 in 1996–2005. Productivity began to improve when concentrations of DDE and PCBs dropped below approximately 300 and 800 μg g−1, respectively. Brood size remains below the pre-1950 level in one coastal region, indicating a possible impact from other contaminants. The power to detect significant trends under the program is presented and discussed: if white-tailed sea eagle reproduction had been monitored earlier during the 20th century, the negative impact of dichlorodiphenyltrichloroethane (DDT, source of DDE) would have been signaled as early as the 1950s in the Baltic Sea. The dramatic fall of white-tailed sea eagle reproduction under the influence of DDT and PCBs, and the subsequent rise following their ban, illustrates the usefulness of raptors like sea eagles as sentinels for environmental pollutants.
Genomic footprints of speciation in Atlantic eels (Anguilla anguilla and A. rostrata)

The importance of speciation‐with‐geneflow scenarios is increasingly appreciated. However, the specific processes and the resulting genomic footprints of selection are subject to much discussion. We studied the genomics of speciation between the two panmictic, sympatrically spawning sister species; European (Anguilla anguilla) and American eel (A. rostrata). Divergence is assumed to have initiated more than 3 Ma, and although low gene flow still occurs, strong postzygotic barriers are present. Restriction‐site‐associated DNA (RAD) sequencing identified 328 300 SNPs for subsequent analysis. However, despite the presence of 3757 strongly differentiated SNPs (FST > 0.8), sliding window analyses of FST showed no larger genomic regions (i.e. hundreds of thousands to millions of bases) of elevated differentiation. Overall FST was 0.041, and linkage disequilibrium was virtually absent for SNPs separated by more than 1000 bp. We suggest this to reflect a case of genomic hitchhiking, where multiple regions are under directional selection between the species. However, low but biologically significant gene flow and high effective population sizes leading to very low genetic drift preclude accumulation of strong background differentiation. Genes containing candidate SNPs for positive selection showed significant enrichment for gene ontology (GO) terms relating to developmental processes and phosphorylation, which seems consistent with assumptions that differences in larval phase duration and migratory distances underlie speciation. Most SNPs under putative selection were found outside coding regions, lending support to emerging views that noncoding regions may be more functionally important than previously assumed. In total, the results demonstrate the necessity of interpreting genomic footprints of selection in the context of demographic parameters and life‐history features of the studied species.
Anti-HIV-1 Activity of a New Scorpion Venom Peptide Derivative Kn 2-7

For over 30 years, HIV/AIDS has wreaked havoc in the world. In the absence of an effective vaccine for HIV, development of new anti-HIV agents is urgently needed. We previously identified the antiviral activities of the scorpion-venom-peptidederived mucroporin-M1 for three RNA viruses (measles viruses, SARS-CoV, and H5N1). In this investigation, a panel of scorpion venom peptides and their derivatives were designed and chosen for assessment of their anti-HIV activities. A new scorpion venom peptide derivative Kn2-7 was identified as the most potent anti-HIV-1 peptide by screening assays with an EC50 value of 2.76 mg/ml (1.65 mM) and showed low cytotoxicity to host cells with a selective index (SI) of 13.93. Kn2-7 could inhibit all members of a standard reference panel of HIV-1 subtype B pseudotyped virus (PV) with CCR5-tropic and CXCR4tropic NL4-3 PV strain. Furthermore, it also inhibited a CXCR4-tropic replication-competent strain of HIV-1 subtype B virus. Binding assay of Kn2-7 to HIV-1 PV by Octet Red system suggested the anti-HIV-1 activity was correlated with a direct interaction between Kn2-7 and HIV-1 envelope. These results demonstrated that peptide Kn2-7 could inhibit HIV-1 by direct interaction with viral particle and may become a promising candidate compound for further development of microbicide against HIV-1. Citation: Chen Y, Cao L, Zhong M, Zhang Y, Han C, et al. (2012) Anti-HIV-1 Activity of a New Scorpion Venom Peptide Derivative Kn2-7. PLoS ONE 7(4): e34947. doi:10.1371/journal.pone. 0034947 Editor: Alexander M. Cole, University of Central Florida College of Medicine, United States of America Received December 17, 2011; Accepted March 7, 2012; Published April 19, 2012 Copyright: 2012 Chen et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Funding: This work was financially supported by the National Natural Science Foundation of China (NSFC) (No. 30670097 to HY), the National Basic Research Program of China (973 Program) (Nos. 2005CB522903, 2010CB530100, and 2012CB518904), and the National S&T Major Project on Major Infectious Diseases (Nos. 2008ZX10001-010, 2012ZX10001-008) from the Ministry of Science and Technology of the People’s Republic of China. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. Competing Interests: The authors have declared that no competing interests exist. * E-mail: zjcao@whu.edu. cn (ZC); hmyan@wh.iov. cn (HY)
Relative bio-availability and utilisation of phosphatic fertilisers as sources of phosphorus in broilers and layers

1. Different concentrations of non-phytate phosphorus (NPP, 2·5, 3·0, 3·5, 4·0 and 4·5 g/kg diet) were given to broilers (8 to 42 d of age) to establish regressions between dietary NPP concentration and body weight gain and tibia ash content. Second and third experiments were conducted to study the feasibility of utilisation of different phosphatic fertilisers [ammonium phosphate (AP), ammonium polyphosphate (APP), single super phosphate (SSP), NPK (17:17:17, NPK) and NP (28:28:0, NPK)] in commercial broilers (8 to 42 d) and White Leghorn layers (252 to 364 d). 2. Phosphatic fertilisers were incorporated both in broiler (10 g calcium and 4·5 g NPP/kg) and layer (35 g calcium and 3·5 g NPP/kg) diets by replacing dicalcium phosphate (DCP) in toto. 3. The logarithmic curves obtained for predicting the body weight gain and tibia ash content at different levels of NPP used in experiment 1 were Y = 156·27 + 2468·8 log X (r 2 = 0·958) and Y = 530·82 + 144·26 log X (r 2 = 0·916), respectively. 4. Body weight gain and food intake in broilers given APP- or NP-supplemented diets were comparable to these in the DCP-fed group. Feeding of NPK, AP or SSP resulted in significant depression in weight gain and food intake and high excreta moisture content. Food/gain, Ca and P contents in tibia ash and serum were not influenced by the use of phosphatic fertilisers as P sources in broiler diets. 5. Tibia ash content in broilers fed on diets containing fertilisers was either similar to or significantly higher than that in the DCP-fed group. Broilers on AP or SSP retained more P and had higher tibia ash content than those on DCP. AP, SSP or NPK caused degenerative and necrotic changes in liver, kidney and intestine of broilers. 6. Relative bio-availability of P from APP or NP was better for body weight gain than AP, SSP or NPK, while the reverse was true for bone calcification. 7. APP and NP gave hen-d egg production similar to that of DCP-fed layers. Food intake was significantly reduced in layers fed on diets containing fertilisers. However, food/egg mass, egg weight and serum Ca and inorganic P contents were not influenced by inclusion of fertilisers in layer diets. 8. Except for AP, inclusion of fertilisers in layer diets reduced shell weight and shell thickness compared with the DCP-fed group. However, no apparent eggshell defects were found which could be attributable to diet. 9. Results of these experiments suggest that APP and NP can be used as the sole source of P both in broiler and layer diets, replacing DCP in toto. However, when utilising these P sources in layers, due attention should be given to shell quality. Fertilisers containing high F (AP and SSP) or K (NPK) reduced performance in broilers and layers and caused microscopic changes in liver, kidney and intestine in broilers.
Map‐Based Exploratory Evaluation of Non‐Medical Determinants of Population Health

Multi‐criteria evaluation (MCE) and decision‐making are increasingly combined with interactive tools to assist users with visual thinking and exploring decision strategies. The interactive control of criterion combination rules and the simultaneous observation of geographic space and criterion space provide a means of investigating the sensitivity of the decision outcome to the decision‐maker's preferences. The Analytic Hierarchy Process (AHP) is an MCE method that has been successfully implemented in management processes including those addressed by Geographic Information Systems. In this paper, we present a map‐based, interactive AHP implementation, which provides a link between a well‐understood decision support method and exploratory geographic visualization. Using a case study with public health data for the Province of Ontario, Canada, we demonstrate that exploratory map use increases the effectiveness of the AHP‐based evaluation of population health.
Behavioural and environmental correlates of soaring-bird mortality at on-shore wind turbines

Summary 1. Wind power plants represent a risk of bird mortality, but the effects are still poorly quantified. We measured bird mortality, analysed the factors that led birds to fly close to turbines, and proposed mitigation measures at two wind farms installed in the Straits of Gibraltar, one of the most important migration bottlenecks between Europe and Africa. 2. Bird corpses were surveyed along turbine lines and an associated power line to estimate mortality rates. The behaviour of birds observed within 250 m of turbines was also recorded as a putative indicator of risk. The effects of location, weather and flight behaviour on risk situations (passes within 5 m of turbines) were analysed using generalized linear modelling (GLM). 3. Mortality caused by turbines was higher than that caused by the power line. Losses involved mainly resident species, mostly griffon vultures Gyps fulvus (0·15 individuals turbine − 1 year − 1 ) and common kestrels Falco tinnunculus (0·19 individuals turbine − 1 year − 1 ). Mortalities were not associated with either structural attributes of wind farms or visibility. 4. Vulture collisions occurred in autumn‐winter and were aggregated at two turbine lines where risks of collisions were greatest. The absence of thermals in winter forced vultures to use slopes for lift, the most likely mechanism influencing both their exposure to turbines and mortality. 5. Kestrel deaths occurred during the annual peak of abundance in summer. Carcasses were concentrated in the open habitats around a single wind farm and risk may have resulted from hunting habitat preferences. 6. Synthesis and applications . We conclude that bird vulnerability and mortality at wind power facilities reflect a combination of site-specific (wind‐relief interaction), speciesspecific and seasonal factors. Despite the large number of migrating birds in the study area, most follow routes that are displaced from the facilities. Consequently, only a small fraction of birds on migratory flights was actually exposed to turbines. New wind installations must be preceded by detailed behavioural observation of soaring birds as well as careful mapping of migration routes.
Speciation in mountain refugia: phylogeography and demographic history of the pine siskin and black‐capped siskin complex

Following Pleistocene glacial maxima, species that adapted to temperate climates in low-latitude refugia had to modify their ranges as climate changed, expanding either latitudinally towards the poles, or altitudinally to higher elevations in mountainous regions. Within just a few thousand years, populations taking alternative routes during interglacials became isolated from each other and subjected to different selection pressures, often leading to lineage divergence and speciation. The pine siskin Spinus pinus is a common and widespread songbird showing relative phenotypic uniformity across the North American continent. One exception is the subspecies found in the highlands of northern Central America (S. p. perplexus), which shows marked differentiation in plumage color and shares some traits with the endemic and partly sympatric black-capped siskin S. atriceps, suggesting potential introgression or even a hybrid origin of perplexus. Relationships and species limits among pinus, perplexus and atriceps have been controversial for decades. We provide new molecular evidence to help resolve the evolutionary history of the group. Phylogenetic analysis of mitochondrial DNA and nuclear intron sequences revealed three distinct lineages within the complex, corresponding to: 1) S. pinus individuals from Canada through central Mexico (S. p. pinus and S. p. macropterus), 2) individuals from the highlands of Guatemala and Chiapas (S. p. perplexus), and 3) S. atriceps. Pine siskins across North America show evidence of a recent postglacial population expansion and extremely low levels of diversity and structure. In contrast, S. p. perplexus shows evidence of demographic stasis, reflecting long-term isolation and restricted dispersal. Marked and diagnostic genetic differences among the three lineages in mtDNA and at least one intron, suggest that a hybrid origin of S. p. perplexus is unlikely, yet some degree of introgression between S. p. perplexus and S. atriceps cannot be ruled out in localities where they occur in sympatry.
Project Post-mortems Mindless Mismanagement of Agreement

Researchers have described how IS adoptions can be mindful or mindless. This paper first describes the socio-psychological factors associated with mindful or mindless decision making by social actors. A conceptual model based on these factors is proposed to study mindful or mindless behaviours of software team members in (a) the firm-specific postmortems of projects incorporating traditional software development methods and (b) the project reviews on the adoption and use of an Agile approach to software development, which was introduced to address problems with the traditional approach to software development. The setting for the project post-mortems is a large US multinational telecommunications manufacturer based in Ireland. One significant factor that leads to mindless adoption behaviours, and which was identified by this study, is the Abilene Paradox. The findings of this paper illustrate how ineffective management of agreement (as opposed to disagreement) contributes to the existence of this paradox, the consequence of which affects the mindfulness of an adoption and review processes.
The proton motive force drives the outer membrane transport of cobalamin in Escherichia coli

Cells of Escherichia coli pump cobalamin (vitamin B12) across their outer membranes into the periplasmic space, and it was concluded previously that this process is potentiated by the proton motive force of the inner membrane. The novelty of such an energy coupling mechanism and its relevance to other outer membrane transport processes have required confirmation of this conclusion by studies with cells in which cobalamin transport is limited to the outer membrane. Accordingly, I have examined the effects of cyanide and of 2,4-dinitrophenol on cobalamin uptake in btuC and atp mutants, which lack inner membrane cobalamin transport and the membrane-bound ATP synthase, respectively. Dinitrophenol eliminated cobalamin transport in all strains, but cyanide inhibited this process only in atp and btuC atp mutant cells, providing conclusive evidence that cobalamin transport across the outer membrane requires specifically the proton motive force of the inner membrane. The coupling of metabolic energy to outer membrane cobalamin transport requires the TonB protein and is stimulated by the ExbB protein. I show here that the tolQ gene product can partly replace the function of the ExbB protein. Cells with mutations in both exbB and tolQ had no measurable cobalamin transport and thus had a phenotype that was essentially the same as TonB-. I conclude that the ExbB protein is a normal component of the energy coupling system for the transport of cobalamin across the outer membrane.