Miracle-dz/UniFAR-FTUs huggingface dataset:
Effect of Spinner Dolphin Presence on Level of Swimmer and Vessel Activity in Hawai'ian Bays

Questions have been raised about the effects human activity in Hawai‘ian bays has on dolphins. Concerns about the effects of this activity have led the National Marine Fisheries Service to begin the process of enacting regulations to reduce the impacts of swimmers and vessels on Hawaiian spinner dolphins (Stenella longirostris). One step in evaluating potential effects is to determine if dolphin presence attracts swimmers and vessels into bays. In this study, numbers of vessels and swimmers in Kealake‘akua, Honaunau, and Kauhako Bays were measured and related to spinner dolphin presence. In Kauhako Bay, mean number of swimmers per scan sample was significantly higher when dolphins were present, and in Honaunau Bay, mean number of kayaks per scan sample was significantly higher when dolphins were present. In addition to measuring the relationship between dolphin presence and vessel and swimmer presence, it is important to track vessel and swimmer numbers over time and to determine patterns of use in individual bays. This establishes trends in human use of bays and allows management on a more individual bay basis. During this study, Kealake‘akua Bay experienced significantly more vessel and swimmer activity than Kauhako Bay. Numbers of oneto three-person kayaks, motorboats <6 m, and zodiacs were highest in Kealake‘akua Bay. Numbers of swimmers from shore were higher in Honaunau Bay than in Kauhako Bay. Overall, numbers of vessels and swimmers in the bays were higher than in previous decades, and swimmers comprised the majority human activity in the bays.
Tick-Borne Transmission of Two Genetically Distinct Anaplasma marginale Strains following Superinfection of the Mammalian Reservoir Host

ABSTRACT Strain superinfection affects the dynamics of epidemiological spread of pathogens through a host population. Superinfection has recently been shown to occur for two genetically distinct strains of the tick-borne pathogen Anaplasma marginale that encode distinctly different surface protein variants. Superinfected animals could serve as a reservoir for onward transmission of both strains if the tick vector is capable of acquiring and transmitting both strains. Whether competition among strains during development within the tick vector, which requires sequential invasion and replication events, limits colonization and subsequent transmission to a single strain is unknown. We tested this possibility by acquisition feeding Dermacentor andersoni ticks on a reservoir host superinfected with the genetically distinct St. Maries and EMΦ strains. Although the St. Maries strain consistently maintained higher bacteremia levels in the mammalian host and the EMΦ strain had an early advantage in colonization of the tick salivary glands, individual ticks were coinfected, and there was successful transmission of both strains. These results indicate that a genetically distinct A. marginale strain capable of superinfecting the mammalian host can subsequently be cotransmitted and become established within the host population despite the presence of an existing established strain.
Endometrial BCL6 Overexpression in Eutopic Endometrium of Women With Endometriosis

The objective of this study was to examine B-cell CLL/lymphoma 6 (BCL6) expression in human eutopic endometrium across the menstrual cycle in women with and without endometriosis and to establish a cutoff for future studies. This design was a series of case–control studies in tertiary University teaching hospitals. We examined BCL6 expression by messenger RNA and immunohistochemically in prospectively collected samples in both the proliferative (P) and the secretory phases. BCL6 is minimally increased in the mid-secretory phase of the menstrual cycle compared to the P phase in normal patients. BCL6 protein expression was significantly higher in the secretory phase of patients with endometriosis (n = 29) versus fertile controls without endometriosis at laparoscopy (n = 20; P < .0001). Normal fertile controls (n = 28) recruited for endometrial biopsy also had low levels of secretory phase BCL6 expression compared to women with unexplained infertility (UI; n = 119). A receiving–operator characteristic analysis of these data revealed an area under the curve of 94% (95% confidence interval 85%-100%; P < .0001) with an HSCORE cutoff of 1.4 to differentiate cases with and without endometriosis. Using this cutoff value, BCL6 was positive in 88% of cases with UI. Laparoscopic examination of a subset of 65 patients confirmed abnormalities in 98% of cases; 61 (93.8%) were found to have endometriosis, 3 (4.6%) with hydrosalpinx, and 1 (1.5%) with a normal pelvis. These data suggest that BCL6 is a promising candidate as a single diagnostic biomarker for detection of endometriosis in women with otherwise UI and may be associated with endometrial dysfunction, including progesterone resistance.
Transient Cholesterol Effects on Nicotinic Acetylcholine Receptor Cell-Surface Mobility

To what extent do cholesterol-rich lipid platforms modulate the supramolecular organization of the nicotinic acetylcholine receptor (AChR)? To address this question, the dynamics of AChR particles at high density and its cholesterol dependence at the surface of mammalian cells were studied by combining total internal reflection fluorescence microscopy and single-particle tracking. AChR particles tagged with a monovalent ligand, fluorescent α-bungarotoxin (αBTX), exhibited two mobile pools: i) a highly mobile one undergoing simple Brownian motion (16%) and ii) one with restricted motion (∼50%), the rest being relatively immobile (∼44%). Depletion of membrane cholesterol by methyl-α-cyclodextrin increased the fraction of the first pool to 22% and 33% after 15 and 40 min, respectively; the pool undergoing restricted motion diminished from 50% to 44% and 37%, respectively. Monoclonal antibody binding results in AChR crosslinking-internalization after 2 h; here, antibody binding immobilized within minutes ∼20% of the totally mobile AChR. This proportion dramatically increased upon cholesterol depletion, especially during the initial 10 min (83.3%). Thus, antibody crosslinking and cholesterol depletion exhibited a mutually synergistic effect, increasing the average lifetime of cell-surface AChRs∼10 s to ∼20 s. The instantaneous (microscopic) diffusion coefficient D 2–4 of the AChR obtained from the MSD analysis diminished from ∼0.001 µm2 s−1 to ∼0.0001–0.00033 µm2 s−1 upon cholesterol depletion, ∼30% of all particles falling into the stationary mode. Thus, muscle-type AChR exhibits heterogeneous motional regimes at the cell surface, modulated by the combination of intrinsic (its supramolecular organization) and extrinsic (membrane cholesterol content) factors.
Statistical Timing Analysis for Latch-Controlled Circuits With Reduced Iterations and Graph Transformations

Level-sensitive latches are widely used in high-performance designs. For such circuits, efficient statistical timing analysis algorithms are needed to take increasing process variations into account. The existing methods for solving this problem are still computationally expensive and can only provide the yield at a given clock period. In this paper, we propose a method combining reduced iterations and graph transformations. The reduced iterations extract setup time constraints and identify a subgraph for the following graph transformations handling the constraints from nonpositive loops. The combined algorithms are very efficient, more than ten times faster than other existing methods, and result in a parametric minimum clock period, which, together with the hold-time constraints, can be used to compute the yield at any given clock period very easily.
Tidal Currents and Eddy Statistics From Iceberg Trajectories off Labrador

Extensive data on the trajectories of icebergs located off the coast of Labrador has yielded information on tidal currents, the effect of wind on iceberg motion, and the properties of the low-frequency eddies. Statistical properties of the data were shown to be related to theoretical ideas on two-dimensional turbulence and to the connection between Eulerian and Lagrangian velocity statistics. The results have led to an estimate of the cross-shelf mixing rate and a statistical prediction scheme for iceberg trajectories.
Formulations and Numerical Methods of the Black Oil Model in Porous Media

The black oil model for describing the hydrocarbon equilibrium in porous media is considered in this paper. Various formulations of the governing equations that describe this model, including phase, weighted fluid, global, and pseudoglobal pressure-saturation formulations with the total velocity and flux, are first constructed. These formulations are more suitable for their mathematical and numerical analysis. Finite element approximate procedures are then analyzed. These procedures are based on the use of mixed finite element methods for the pressure equations and Galerkin finite element methods for the saturation equations. Error estimates are stated first for the case where capillary diffusion coefficients are assumed to be uniformly positive. Then an error analysis is carried out in detail for a degenerate case where these coefficients can be zero.
A Fully Integrated IC With 0.85-μW/Channel Consumption for Epileptic iEEG Detection

Feature extraction from a multichannel compressed neural signal is introduced in this brief. Compressive sensing (CS) is an efficient method for reducing the transmission data rate of sparse biological signals and lowering the power consumption of resource-constrained sensor nodes. However, recovering the original signal from compressed measurements is typically achieved by relatively complex and optimization-based algorithms, which is hardly suitable for real-time applications. The previously proposed multichannel CS scheme enables the area-efficient implementation of CS. In this brief, a low-power feature extraction method based on line length is directly applied in the compressed domain. This approach exploits the spatial sparsity of the signals recorded by adjacent electrodes of a sensor array and detects the seizure onset for every sixteen channels of the array. The proposed circuit architecture is implemented in a UMC 0.18-μm CMOS technology. Extensive performance analysis and design optimization enable a low-power and compact implementation. The proposed feature extractor reaches a perfect sensitivity of 100% for 420 h of clinical data containing 23 seizures from four patients, with an average false alarm rate of 0.34 h-1 for artifact-free channels, consuming 0.85 μW of power/channel at a compression rate of 16.
Nucleolar Integrity Is Required for the Maintenance of Long-Term Synaptic Plasticity

Long-term memory (LTM) formation requires new protein synthesis and new gene expression. Based on our work in Aplysia, we hypothesized that the rRNA genes, stimulation-dependent targets of the enzyme Poly(ADP-ribose) polymerase-1 (PARP-1), are primary effectors of the activity-dependent changes in synaptic function that maintain synaptic plasticity and memory. Using electrophysiology, immunohistochemistry, pharmacology and molecular biology techniques, we show here, for the first time, that the maintenance of forskolin-induced late-phase long-term potentiation (L-LTP) in mouse hippocampal slices requires nucleolar integrity and the expression of new rRNAs. The activity-dependent upregulation of rRNA, as well as L-LTP expression, are poly(ADP-ribosyl)ation (PAR) dependent and accompanied by an increase in nuclear PARP-1 and Poly(ADP) ribose molecules (pADPr) after forskolin stimulation. The upregulation of PARP-1 and pADPr is regulated by Protein kinase A (PKA) and extracellular signal-regulated kinase (ERK)—two kinases strongly associated with long-term plasticity and learning and memory. Selective inhibition of RNA Polymerase I (Pol I), responsible for the synthesis of precursor rRNA, results in the segmentation of nucleoli, the exclusion of PARP-1 from functional nucleolar compartments and disrupted L-LTP maintenance. Taken as a whole, these results suggest that new rRNAs (28S, 18S, and 5.8S ribosomal components)—hence, new ribosomes and nucleoli integrity—are required for the maintenance of long-term synaptic plasticity. This provides a mechanistic link between stimulation-dependent gene expression and the new protein synthesis known to be required for memory consolidation.
Role of Stress Myocardial Scintigraphy in the Evaluation of Incompletely Revascularized Post-PCI Patients

Percutaneous coronary intervention (PCI) is actually the most used method of revascularization. Although complete revascularization remains a desirable goal, it may not be possible or not easy to plan in many patients. Thus, incomplete revascularization might be a preferred treatment strategy in selected patient categories. Stress myocardial scintigraphy, because of its high diagnostic accuracy and prognostic value and its ability to assess location and extent of myocardial ischemia regardless of symptoms as well as to evaluate patients who are unable to exercise or who have uninterpretable electrocardiogram, is of paramount importance for clinical decision making in patients with multivessel disease and incomplete revascularization.
Synapsin Regulates Activity-Dependent Outgrowth of Synaptic Boutons at the Drosophila Neuromuscular Junction

Patterned depolarization of Drosophila motor neurons can rapidly induce the outgrowth of new synaptic boutons at the larval neuromuscular junction (NMJ), providing a model system to investigate mechanisms underlying acute structural plasticity. Correlative light and electron microscopy analysis revealed that new boutons typically form near the edge of postsynaptic reticulums of presynaptic boutons. Unlike mature boutons, new varicosities have synaptic vesicles which are distributed uniformly throughout the bouton and undeveloped postsynaptic specializations. To characterize the presynaptic mechanisms mediating new synaptic growth induced by patterned activity, we investigated the formation of new boutons in NMJs lacking synapsin [Syn(−)], a synaptic protein important for vesicle clustering, neurodevelopment, and plasticity. We found that budding of new boutons at Syn(−) NMJs was significantly diminished, and that new boutons in Syn(−) preparations were smaller and had reduced synaptic vesicle density. Since synapsin is a target of protein kinase A (PKA), we assayed whether activity-dependent synaptic growth is regulated via a cAMP/PKA/synapsin pathway. We pretreated preparations with forskolin to raise cAMP levels and found this manipulation significantly enhanced activity-dependent synaptic growth in control but not Syn(−) preparations. To examine the trafficking of synapsin during synaptic growth, we generated transgenic animals expressing fluorescently tagged synapsin. Fluorescence recovery after photobleaching analysis revealed that patterned depolarization promoted synapsin movement between boutons. During new synaptic bouton formation, synapsin redistributed upon stimulation toward the sites of varicosity outgrowth. These findings support a model whereby synapsin accumulates at sites of synaptic growth and facilitates budding of new boutons via a cAMP/PKA-dependent pathway.
Structure and Microscopic Magnetism of Epitaxial Ni–Mn–Ga Films

We report on the structural and magnetic properties of epitaxial thin films of the ferromagnetic shape memory material Ni–Mn–Ga prepared by DC magnetron sputter deposition. Different substrate materials, i.e., MgO(100) and Al2O3(11−20) allow for a tailored epitaxial growth. Using a sacrificial chromium buffer layer freestanding epitaxial films are obtained. In combination with photolithography partially freestanding structures such as microbridges are fabricated. The complex martensite crystal structure in substrate‐constrained and freestanding films is studied by means of X‐ray diffraction. The identified asymmetric twin variant configuration is associated with a macroscopic surface pattern observed by optical microscopy. The absence of magnetic‐field induced strain in the (100) oriented samples is explained on basis of the detected twin variant configuration using a simplified model. Taking advantage of the thin film geometry spectroscopic methods are applied to the samples. The measurements provide the first experimental test for changes in the electronic structure of the involved 3d metals during a martensitic transition. Exploiting the X‐ray magnetic circular dichroism quantitative information on the element‐specific spin and orbital magnetic moments are accessed. In addition, angular‐dependent experiments allow us to trace the microscopic origin of the magnetic anisotropy in Ni2MnGa improving the fundamental understanding of this material.
An Identity-based Ring Signature Scheme with Enhanced Privacy

There are many applications in which it is necessary to transmit authenticatable messages while achieving certain privacy goals such as signer ambiguity. The emerging area of vehicular ad-hoc network is a good example application domain with this requirement The ring signature technique that uses an ad-hoc group of signer identities is a widely used method for generating this type of privacy preserving digital signatures. The identity-based cryptographic techniques do not require certificates. The construction of ring signatures using identity-based cryptography allow for privacy preserving digital signatures to be created in application when certificates are not readily available or desirable such as in vehicle area networks. We propose a new designated verifier identity-based ring signature scheme that is secure against full key exposure attacks even for a small group size. This is a general purpose primitive that can be used in many application domains such as ubiquitous computing where signer ambiguity is required in small groups. We consider the usefulness of identity-based cryptographic primitives in vehicular ad-hoc networks and use a specific example application to illustrate the use of identity-based ring signatures as a tool to create privacy preserving authenticatable messages
ALDH1A1-overexpressing cells are differentiated cells but not cancer stem or progenitor cells in human hepatocellular carcinoma

Aldehyde dehydrogenase 1A1 (ALDH1A1) is considered to be a cancer stem cell marker in several human malignancies. However, the role of ALDH1A1 in hepatocellular carcinoma (HCC) has not been well elucidated. In this study, we investigated the relationship between ALDH1A1 and clinicopathological findings and examined whether ALDH1A1 deserves to be a cancer stem cell marker in HCC. Sixty HCC samples obtained from surgical resection were collected for immunohistochemical (IHC) staining. Of these 60 samples, 47 samples of HCC tumorous and non-tumorous tissues were evaluated with qRT-PCR. There was no significant difference in the ALDH1A1-mRNA level between tumorous and non-tumorous tissues. Tumorous ALDH1A1-mRNA level had no relationship with the clinicopathological features. Immunoreactivity of ALDH1A1 was classified into two groups based on the percentage of ALDH1A1-overexpressing cells. The ALDH1A1-high group was significantly associated with low serum levels of α-fetoprotein, small tumor diameter, very little lymphovascular invasion, more differentiated pathology and good stage. The ALDH1A1-high group showed more favorable prognosis for recurrence-free survival. In double-staining IHC, ALDH1A1 was not co-expressed with BMI1, EpCAM, CD13, CD24, CD90 and CD133, which reported as cancer stem cell markers in HCC. In conclusion, ALDH1A1-overexpressing cells could appear to be differentiated cells rather than cancer stem cells in HCC.
Ontogenetic development of migration: Lagrangian drift trajectories suggest a new paradigm for sea turtles

Long distance migration occurs in a wide variety of taxa including birds, insects, fishes, mammals and reptiles. Here, we provide evidence for a new paradigm for the determinants of migration destination. As adults, sea turtles show fidelity to their natal nesting areas and then at the end of the breeding season may migrate to distant foraging sites. For a major rookery in the Mediterranean, we simulated hatchling drift by releasing 288 000 numerical particles in an area close to the nesting beaches. We show that the pattern of adult dispersion from the breeding area reflects the extent of passive dispersion that would be experienced by hatchlings. Hence, the prevailing oceanography around nesting areas may be crucial to the selection of foraging sites used by adult sea turtles. This environmental forcing may allow the rapid evolution of new migration destinations if ocean currents alter with climate change.
Molecular Cloning and Characterization of the Salmonella enterica Serovar Paratyphi B rma Gene, Which Confers Multiple Drug Resistance in Escherichia coli

ABSTRACT A genomic library from a strain of Salmonella enterica serovar Paratyphi B that exhibits multiple drug resistance (MDR) was constructed in Escherichia coli. Two of the recombinant plasmids, pNOR5 and pNOR5, conferred resistance only to fluoroquinolones in E. coli, whereas the third, pNCTR4, conferred the MDR phenotype. Sequence and subcloning analysis showed that it is the presence of RecA on the first two plasmids which confers resistance to fluoroquinolones in E. coli. A similar analysis established that the MDR phenotype conferred by pNCTR4 is due to a gene, rma (resistance to multiple antibiotics), which encodes a 13.5-kDa polypeptide. The derived sequence for Rma exhibits a high degree of similarity to those of a group of MarA-like activators that confer MDR in E. coli. A MalE-Rma fusion protein was purified to near homogeneity and was shown to interact with a DNA fragment carrying a MarA operator sequence. Furthermore, overexpression of rma in E. coli caused changes in the outer membrane protein profile that were similar to those reported for MarA. These results suggest that Rma might act as a transcriptional activator of the marA regulon.
Cardiovascular Autonomic Neuropathy and Cardiovascular Outcomes in the Diabetes Control and Complications Trial/Epidemiology of Diabetes Interventions and Complications (DCCT/EDIC) Study

OBJECTIVE To examine whether cardiovascular autonomic neuropathy (CAN) is an independent risk factor of cardiovascular disease (CVD) events during DCCT/EDIC. RESEARCH DESIGN AND METHODS Standardized cardiovascular autonomic reflex tests (R-R response to paced breathing, Valsalva maneuver, postural changes in blood pressure) were performed at DCCT baseline, every 2 years throughout DCCT, and at two time points in EDIC. CVD events were ascertained throughout the study and adjudicated by a review committee. Cox proportional hazards models were used to estimate the effect of CAN at DCCT closeout on subsequent CVD risk. RESULTS There were 299 adjudicated CVD events in 165 participants following the DCCT closeout assessment: 132 of 1,262 subjects (10%) without CAN at DCCT closeout who experienced 244 CVD events versus 33 of 131 subjects (25%) with CAN at DCCT closeout who experienced 55 events (hazard ratio 2.79, 95% CI 1.91–4.09 for time to first CVD event). The cumulative incidence of the first occurrence of any CVD event during EDIC was significantly higher in participants with CAN at DCCT closeout compared with those without CAN. The association remained marginally significant after adjustment for multiple risk factors, including the EDIC updated mean HbA1c. When analyzed as a continuous variable, R-R variation was significantly lower at DCCT closeout in participants who experienced a CVD event compared with those who did not (P = 0.0012). CONCLUSIONS In the DCCT/EDIC cohort, individuals diagnosed with CAN at DCCT closeout experienced a higher long-term risk of CVD events during follow-up in EDIC. This association was not independent of historic glycemic exposure and its metabolic memory effect, the principal determinant of both long-term CVD risk and CAN in type 1 diabetes.