Miracle-dz/UniFAR-FTUs huggingface dataset:
Does deforestation promote or inhibit malaria transmission in the Amazon? A systematic literature review and critical appraisal of current evidence

Considerable interest in the relationship between biodiversity and disease has recently captured the attention of the research community, with important public policy implications. In particular, malaria in the Amazon region is often cited as an example of how forest conservation can improve public health outcomes. However, despite a growing body of literature and an increased understanding of the relationship between malaria and land use / land cover change (LULC) in Amazonia, contradictions have emerged. While some studies report that deforestation increases malaria risk, others claim the opposite. Assessing malaria risk requires examination of dynamic processes among three main components: (i) the environment (i.e. LULC and landscape transformations), (ii) vector biology (e.g. mosquito species distributions, vector activity and life cycle, plasmodium infection rates), and (iii) human populations (e.g. forest-related activity, host susceptibility, movement patterns). In this paper, we conduct a systematic literature review on malaria risk and deforestation in the Amazon focusing on these three components. We explore key features that are likely to generate these contrasting results using the reviewed articles and our own data from Brazil and Peru, and conclude with suggestions for productive avenues in future research. This article is part of the themed issue ‘Conservation, biodiversity and infectious disease: scientific evidence and policy implications'.
Novel Spectrophotometric Method for the Assay of Captopril in Dosage Forms using 2,6-Dichloroquinone-4-Chlorimide

A simple spectrophotometric method was developed for the determination of captopril (CPL) in pharmaceutical preparations. The method is based on coupling captopril with 2,6-dichloroquinone-4-chlorimide (DCQ) in dimethylsulphoxide. The yellow reaction product was measured at 443 nm. The absorbance–concentration plot was rectilinear over the range of 10-50 μg/mL with minimum detection limit (LOD) of 0.66 μg/mL and a quantification limit (LOQ) of 2.0 μg/mL. The different experimental parameters affecting the development and stability of the color were carefully studied and optimized. The proposed method was successfully applied to the analysis of commercial tablets and the results were in good agreement with those obtained using official and reference spectrophotometric methods. Hydrochlorothiazide which is frequently co-formulated with CPL did not interfere with the assay. A proposal of the reaction pathway was presented.
Security certificate revocation list distribution for vanet

In a VANET, a certificate authority issues keys and certificates to vehicles. Each vehicle distributes these certificates to other VANET participants and subsequently signs messages against these certificates. If the certificate authority needs to revoke a certificate (e.g. due to a breach of trust), it universally distributes a certificate revocation list. We propose a method for car-to-car epidemic distribution of certificate revocation lists which is quick and efficient. Large-scale simulations based on realistic mobility traces show that this epidemic model significantly outperforms methods that only employ road side unit distribution points.
VDR‐mediated gene expression patterns in resting human coronary artery smooth muscle cells

Vitamin D analogs such as paricalcitol and calcitriol that activate the vitamin D receptor (VDR) provide survival benefit for Stage 5 chronic kidney disease (CKD) patients, possibly associated with a decrease in cardiovascular (CV)‐related incidents. Phenotypic changes of smooth muscle cells play an important role in CV disease. The role of vitamin D analogs in modulating gene expression in smooth muscle cells is still not well understood. In this study, DNA microarray analysis of ∼22,000 different human genes was used to characterize the VDR‐mediated gene expression profile in human coronary artery smooth muscle cells (CASMC) at rest. Cells in serum free medium were treated with 0.1 µM calcitriol (1α,25‐dihydroxyvitamin D3) or paricalcitol (19‐nor‐1α,25‐(OH)2D2) for 30 h. A total of 181 target genes were identified, with 103 genes upregulated and 78 downregulated (>two fold changes in either drug treatment group with P < 0.01). No significant difference was observed between calcitriol and paricalcitol. Target genes fell into various categories with the top five in cellular process, cell communication, signal transduction, development, and morphogenesis. Twenty‐two selected genes linked to the CV system were also impacted. Real‐time RT‐PCR and/or Western blotting analysis were employed to confirm the expression patterns of selected genes such as 25‐hydroxyvitamin D‐24‐hydroxylase, Wilms' tumor gene 1, transforming growth factorβ3, plasminogen activator inhibitor‐1, thrombospondin‐1 (THBS1), and thrombomodulin (TM). This study provides insight into understanding the role of VDR in regulating gene expression in resting smooth muscle cells. J. Cell. Biochem. 100: 1395–1405, 2007. © 2006 Wiley‐Liss, Inc.
Adenosine-induced hyperpolarization in guinea pig coronary artery involves A2b receptors and KATP channels.

The role of P1 purinoceptor subtypes, the adenylyl cyclase (AC) pathway, and ATP-sensitive K+(KATP) channels in adenosine (Ado)-induced membrane hyperpolarization was investigated in isolated segments of the guinea pig coronary artery using conventional microelectrode techniques. Ado (1-100 μM) elicited concentration-dependent hyperpolarization (half-maximal effective concentration 7.5 ± 0.5 μM) that averaged 28.6 ± 2.9 mV at 100 μM Ado. The A1selective agonist N 6-cyclopentyladenosine (CPA), the A1/A2agonist 2-chloroadenosine, and the A2a/A2bagonist 5-( N-ethylcarboxamido)adenosine (NECA) each induced glibenclamide (3 μM)-sensitive hyperpolarization at 10 μM. However, the selective A2a-receptor agonists CGS-21680 and N 6-[2-(3,5-dimethoxyphenyl)-2-(2-methoxyphenyl]ethyladenosine (10 μM each) were without effect. Responses to CPA and NECA were significantly reduced by the AC inhibitor SQ-22,536 (100 μM). Activation of the AC-adenosine 3',5'-cyclic monophosphate (cAMP)-protein kinase A (PKA) pathway by four additional methods, i.e., 1) forskolin (0.3-1 μM), 2) isoproterenol (0.1-1 μM), 3) combined milrinone (0.4 μM) and rolipram (30 μM), and 4) combined N 6-phenyladenosine 3',5'-monophosphate, 8-(6-aminohexyl)aminoadenosine 3',5'-cyclic monophosphate, and the Sp-isomer of 5,6-dichloro-1-d-ribofuranosylbenzimidazole-3',5'-cyclic monophosphothioate (100 μM each), also gave rise to glibenclamide-sensitive hyperpolarization. These results suggest that stimulation of A2b receptors coupled to AC represents the predominant mechanism by which Ado elicits hyperpolarization in this vessel. The ensuing increase in cAMP activates PKA, which then increases the activity of KATP channels. Our results further suggest that KATP channels are an important target for numerous pathways that raise cAMP levels in the coronary artery.
Intraseasonal Variability of Rainfall and Its Effect on Interannual Variability across the Indian Subcontinent and the Tibetan Plateau

Intraseasonal variability of rainfall over the Indian subcontinent (IS) and the Tibetan Plateau (TP) has been discussed widely but often separately. In this study, we investigate the covariability of rainfall across the IS and the TP on intraseasonal time scales and its impact on interannual variability of regional rainfall. The most dominant mode of rainfall intraseasonal variability across the region features a dipole pattern with significant out-of-phase rainfall anomalies between the southeastern TP and the central and northern IS. This dipole rainfall pattern is associated with intraseasonal oscillations (ISOs) of 10–20 days and 30–60 days, especially the latter. An active spell of rainfall in the central and northern IS (southeastern TP) is associated with the strengthening (northward shift) of water vapor transport of the Indian summer monsoon, resulting in more water vapor entering into the central and northern IS (southeastern TP) and thus more rainfall. The 10–20-day ISO of the dipole rainfall pattern is caused by the 10–20-day atmospheric ISO in both the tropics and the extratropics, whereas the 30–60-day ISO of the dipole rainfall pattern is only associated with atmospheric ISO in the tropics. The dipole rainfall pattern resembles the most dominant mode of interannual variability of July–August mean rainfall. The 30–60-day ISO of the dipole rainfall pattern has an important contribution to the dipole pattern of July–August mean rainfall anomalies on an interannual time scale due to the different frequencies of occurrence of the active and break phases.
Bioactive Flavonoids and Catechols as Hif1 and Nrf2 Protein Stabilizers - Implications for Parkinson’s Disease

Flavonoids are known to trigger the intrinsic genetic adaptive programs to hypoxic or oxidative stress via estrogen receptor engagement or upstream kinase activation. To reveal specific structural requirements for direct stabilization of the transcription factors responsible for triggering the antihypoxic and antioxidant programs, we studied flavones, isoflavones and catechols including dihydroxybenzoate, didox, levodopa, and nordihydroguaiaretic acid (NDGA), using novel luciferase-based reporters specific for the first step in HIF1 or Nrf2 protein stabilization. Distinct structural requirements for either transcription factor stabilization have been found: as expected, these requirements for activation of HIF ODD-luc reporter correlate with in silico binding to HIF prolyl hydroxylase. By contrast, stabilization of Nrf2 requires the presence of 3,4-dihydroxy- (catechol) groups. Thus, only some but not all flavonoids are direct activators of the hypoxic and antioxidant genetic programs. NDGA from the Creosote bush resembles the best flavonoids in their ability to directly stabilize HIF1 and Nrf2 and is superior with respect to LOX inhibition thus favoring this compound over others. Given much higher bioavailability and stability of NDGA than any flavonoid, NDGA has been tested in a 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP)-animal model of Parkinson’s Disease and demonstrated neuroprotective effects.
Polyphasic Detection of Cyanobacteria in Terrestrial Biofilms

Cyanobacterial populations detected on buildings by traditional methods are mainly filamentous, whereas direct microscopy shows that they are principally coccoid morphotypes that often cannot be isolated in culture, but may grow on artificial media when the spatial biofilm relationships are maintained. The polyphasic strategy described here was to select morphologically distinct colonies from rehydrated biofilms for direct DNA amplification, allowing uncultured organisms to be sequenced and their morphology to be characterized by microscopy. DNA data banks currently contain many entries for cyanobacteria of unrecorded morphology, which does not facilitate identification, although genetic variability in a population may be assessed. The sequence homologies of the present biofilm organisms (EMBL accession numbers AJ619681 to 619690) with those in DNA databanks were low, indicating differences between xerophytic cyanobacteria on walls and aquatic species comprising the majority in the databases. Further development of databases for the populations found in this environment, subject to temperature extremes, repeated desiccation and high UV and salt levels, is required.
Adaptive Change Inferred from Genomic Population Analysis of the ST93 Epidemic Clone of Community-Associated Methicillin-Resistant Staphylococcus aureus

Community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) has emerged as a major public health problem around the world. In Australia, ST93-IV[2B] is the dominant CA-MRSA clone and displays significantly greater virulence than other S. aureus. Here, we have examined the evolution of ST93 via genomic analysis of 12 MSSA and 44 MRSA ST93 isolates, collected from around Australia over a 17-year period. Comparative analysis revealed a core genome of 2.6 Mb, sharing greater than 99.7% nucleotide identity. The accessory genome was 0.45 Mb and comprised additional mobile DNA elements, harboring resistance to erythromycin, trimethoprim, and tetracycline. Phylogenetic inference revealed a molecular clock and suggested that a single clone of methicillin susceptible, Panton-Valentine leukocidin (PVL) positive, ST93 S. aureus likely spread from North Western Australia in the early 1970s, acquiring methicillin resistance at least twice in the mid 1990s. We also explored associations between genotype and important MRSA phenotypes including oxacillin MIC and production of exotoxins (α-hemolysin [Hla], δ-hemolysin [Hld], PSMα3, and PVL). High-level expression of Hla is a signature feature of ST93 and reduced expression in eight isolates was readily explained by mutations in the agr locus. However, subtle but significant decreases in Hld were also noted over time that coincided with decreasing oxacillin resistance and were independent of agr mutations. The evolution of ST93 S. aureus is thus associated with a reduction in both exotoxin expression and oxacillin MIC, suggesting MRSA ST93 isolates are under pressure for adaptive change.
Msn2/4 regulate expression of glycolytic enzymes and control transition from quiescence to growth

Nutrient availability and stresses impact a cell’s decision to enter a growth state or a quiescent state. Acetyl-CoA stimulates cell growth under nutrient-limiting conditions, but how cells generate acetyl-CoA under starvation stress is less understood. Here, we show that general stress response factors, Msn2 and Msn4, function as master transcriptional regulators of yeast glycolysis via directly binding and activating genes encoding glycolytic enzymes. Yeast cells lacking Msn2 and Msn4 exhibit prevalent repression of glycolytic genes and a significant delay of acetyl-CoA accumulation and reentry into growth from quiescence. Thus Msn2/4 exhibit a dual role in activating carbohydrate metabolism genes and stress response genes. These results suggest a possible mechanism by which starvation-induced stress response factors may prime quiescent cells to reenter growth through glycolysis when nutrients are limited.
Gender Differences in Performance in Competitive Environments: Evidence from Professional Tennis Players

This paper uses data from nine tennis Grand Slam tournaments played between 2005 and 2007 to assess whether men and women respond differently to competitive pressure in a setting with large monetary rewards. In particular, it asks whether the quality of the game deteriorates as the stakes become higher. The paper conducts two parallel analyses, one based on aggregate set-level data, and one based on detailed point-by-point data, which is available for a selected subsample of matches in four of the nine tournaments under examination. The set-level analysis indicates that both men and women perform less well in the final and decisive set of the match. This result is robust to controls for the length of the match and to the inclusion of match and player-specific fixed effects. The drop in performance of women in the decisive set is slightly larger than that of men, but the difference is not statistically significant at conventional levels. On the other hand, the detailed point-by-point analysis reveals that, relative to men, women are substantially more likely to make unforced errors at crucial junctures of the match. Data on serve speed, on first serve percentages and on rally length suggest that women play a more conservative and less aggressive strategy as points become more important. I present a simple game-theoretic model that shows that a less aggressive strategy may be a player’s best response to an increase in the intrinsic probability of making unforced errors.
Effect of β-lactoglobulin on plasma retinol and triglyceride concentrations, and fatty acid composition in calves

β-Lactoglobulin (β-lg) is the main protein of ruminant milk whey. Although β-lg can bind in vitro to a variety of hydrophobic substrates, mainly retinol and long-chain fatty acids, its physiological function is still unknown. In Exp. 1, we investigated the effect of β-lg on the plasma retinol concentration in preruminant calves. Holstein male calves (n = 20) were fed Holstein whole milk at 40 g/kg body weight (BW) plus vitamin A acetate (500,000 i.u.) with or without β-lg (0·4 g/kg BW). The plasma retinol concentration of 10-d-old calves was greater (P<0·05) in the β-lg-fed group than in the control group during the period from 8 to 12 h and at 24 h after the feeding. The postprandial change of plasma retinol in 40-d-old calves fed milk with β-lg was higher (P<0·05) than that in the control calves only at 12 h after the feeding. In Exp. 2, Holstein male calves (n = 18) were used to investigate the effect of β-lg on plasma triglyceride concentration and fatty acid composition. Calves were fed Holstein whole milk at 40 g/kg BW plus milk fat prepared from whole milk at 2 g/kg BW with or without β-lg (0·4 g/kg BW). Plasma triglyceride concentration at age 10 d was higher (P<0·05) in the β-lg-fed group than in the controls during the periods from 1 to 2 h and from 7 to 11 h after the feeding. At age 40 d, plasma triglyceride in the β-lg-fed group was higher (P<0·05) than in the control group only at 9 h. Ratios of palmitic, stearic, and oleic acids to total plasma lipids were higher (P<0·05) in the calves fed β-lg milk than in the control calves at age 10 d. These results suggest that β-lg enhances the intestinal uptake of retinol, triglyceride, and long-chain fatty acids in preruminant calves.
How was your journey?: uncovering routing dynamics in deployed sensor networks with multi-hop network tomography

In the context of wireless data collection, a common application class in wireless sensor networks, this paper presents a novel, non-intrusive algorithm for the precise reconstruction of the packet path, the per-hop arrival order and the per-hop arrival times of individual packets from partial in-band information at runtime. Information is reconstructed outside the network immediately after a packet is received at the sink. After establishing the correctness of our proposed algorithm, we evaluate its performance in testbed experiments using CTP and Dozer, two well-known data collection protocols. Foremost interested in obtaining a better understanding of the performance of long-term real-world deployments, Multi-hop Network Tomography (MNT) is applied to in total more than 140 million packets that have been obtained from three multi-year WSN deployments of the PermaSense project. The capabilities of the performance analysis of deployed systems using the proposed algorithm and methodology are demonstrated in a case study.
Omega-3 Fatty Acids from Fish Oil Lower Anxiety, Improve Cognitive Functions and Reduce Spontaneous Locomotor Activity in a Non-Human Primate

Omega-3 (ω3) polyunsaturated fatty acids (PUFA) are major components of brain cells membranes. ω3 PUFA-deficient rodents exhibit severe cognitive impairments (learning, memory) that have been linked to alteration of brain glucose utilization or to changes in neurotransmission processes. ω3 PUFA supplementation has been shown to lower anxiety and to improve several cognitive parameters in rodents, while very few data are available in primates. In humans, little is known about the association between anxiety and ω3 fatty acids supplementation and data are divergent about their impact on cognitive functions. Therefore, the development of nutritional studies in non-human primates is needed to disclose whether a long-term supplementation with long-chain ω3 PUFA has an impact on behavioural and cognitive parameters, differently or not from rodents. We address the hypothesis that ω3 PUFA supplementation could lower anxiety and improve cognitive performances of the Grey Mouse Lemur (Microcebus murinus), a nocturnal Malagasy prosimian primate. Adult male mouse lemurs were fed for 5 months on a control diet or on a diet supplemented with long-chain ω3 PUFA (n = 6 per group). Behavioural, cognitive and motor performances were measured using an open field test to evaluate anxiety, a circular platform test to evaluate reference spatial memory, a spontaneous locomotor activity monitoring and a sensory-motor test. ω3-supplemented animals exhibited lower anxiety level compared to control animals, what was accompanied by better performances in a reference spatial memory task (80% of successful trials vs 35% in controls, p<0.05), while the spontaneous locomotor activity was reduced by 31% in ω3-supplemented animals (p<0.001), a parameter that can be linked with lowered anxiety. The long-term dietary ω3 PUFA supplementation positively impacts on anxiety and cognitive performances in the adult mouse lemur. The supplementation of human food with ω3 fatty acids may represent a valuable dietary strategy to improve behavioural and cognitive functions.
Building a metal-responsive promoter with synthetic regulatory elements

A fusion gene consisting of the promoter region from the mouse metallothionein-I gene joined to the coding region of the herpes simplex virus thymidine kinase gene is efficiently regulated by zinc in a transient assay when transfected into baby hamster kidney cells. Analysis of similar plasmids in which the metallothionein-I promoter region was mutated indicated the presence of multiple metal regulatory elements (MREs) between -176 and -44 base pairs from the cap site. To further investigate the function of MREs, we inserted a synthetic DNA fragment containing the sequence of MRE-a (the element between -55 and -44 base pairs) into the nonresponsive promoter of the thymidine kinase gene in various positions and configurations. Little or no induction by zinc was observed with single insertions of the regulatory sequence, whereas many different constructions having two copies of MRE-a were inducible. The precise position of the two MREs relative to each other or to the thymidine kinase promoter elements had a relatively small effect on the efficiency of induction, but the inducibility could be further increased by the introduction of more MRE-a sequences. MRE-a can function synergistically with the thymidine kinase distal promoter elements, but in the presence of the TATA box alone it functions as a positive, zinc-dependent promoter element.
Constructionist Design Methodology for Interactive Intelligences

We present a methodology for designing and implementing interactive intelligences. The constructionist design methodology (CDM) -- so called because it advocates modular building blocks and incorporation of prior work -- addresses factors that we see as key to future advances in AI, including support for interdisciplinary collaboration, coordination of teams, and large-scale systems integration. We test the methodology by building an interactive multifunctional system with a real-time perception- action loop. The system, whose construction relied entirely on the methodology, consists of an embodied virtual agent that can perceive both real and virtual objects in an augmented-reality room and interact with a user through coordinated gestures and speech. Wireless tracking technologies give the agent awareness of the environment and the user's speech and communicative acts. User and agent can communicate about things in the environment, their placement, and their function, as well as about more abstract topics, such as current news, through situated multimodal dialogue. The results demonstrate the CDM's strength in simplifying the modeling of complex, multifunctional systems that require architectural experimentation and exploration of unclear subsystem boundaries, undefined variables, and tangled data flow and control hierarchies.