bluuebunny/crossref_metadata_2025 huggingface dataset:
Imaging in the Diagnosis and Management of Necrotizing Otitis Externa: A Survey of Practice Patterns
Authors: Cooper Timothy , Hildrew Douglas , McAfee Jacob S. , McCall Andrew A. , Branstetter Barton F. , Hirsch Barry E.
Published: May 2018

Objective:

To survey neurotologists and head and neck radiologists regarding use of imaging in the diagnosis and management of necrotizing otitis externa (NOE).

Study Design:

Cross-sectional survey study.

Setting:

Online survey distributed through email to specialty society membership lists.

Participants:

Neurotologists and head and neck radiologists with membership in either the American Neurotology Society or The American Society of Head and Neck Radiology.

Main Outcome Measures:

Responses to survey consisting of two demographic and seven clinically oriented questions related to the use of imaging in the diagnosis and management of NOE.

Results:

One hundred thirty-six participants responded to the survey. The imaging modality of choice in establishing the diagnosis of NOE selected by the respondents was computed tomography (CT) (37.5%) followed by technetium scintigraphy (21.3%). Magnetic resonance imaging (MRI) was the preferred investigation by 41.9% of participants for determining extent of disease. Gallium scanning was the imaging modality preferred by 32.4% of respondents for determining when to cease medical therapy. Ninety-five percent of participants responded that CT scans were always or frequently used in the diagnosis and management of NOE compared with 72.8% for MRI, 34.5% for gallium scans, and 34.2% for technetium scans.

Conclusions:

There is considerable heterogeneity in the preferred imaging modalities used in the diagnosis and management of NOE. CT and MRI are the preferred contemporary modalities used by many physicians, demonstrating a shift away from the historic use of nuclear medicine scans.
Spleen Stiffness Differentiates Between Acute and Chronic Liver Damage and Predicts Hepatic Decompensation
Authors: Meister Phil , Dechêne Alexander , Büchter Matthias , Kälsch Julia , Gerken Guido , Canbay Ali , Jochum Christoph
Published: May 2018

Objectives:

Spleen stiffness (SS) correlates with liver stiffness (LS) and hepatic venous pressure gradient. The latter is currently the most accurate predictor of hepatic decompensation. Our study aims to check whether SS has a similar predictive capability, while being an easy-to-perform noninvasive test in a real-life patient cohort.

Methods:

Concomitantly, 210 successive patients were examined and received liver and SS measurements and a standard laboratory. Patients were observed for 1 year in terms of clinical signs of decompensation.

Results:

One hundred fifty-nine of the initial 210 patients had a valid LS and SS measurement and were evaluable for clinical follow-up. Twelve patients developed a hepatic decompensation; with a SS >39 kPa (P=0.0005). Especially in a group with elevated LS, patients with a high risk of decompensation could be identified using SS. Patients with comparable LS who suffered from acute liver damage had significantly lower SS than respective patients with chronic liver damage (30.97 vs. 46.03 kPa; P=0.04). Acute liver failure was associated with elevated LS (16.47 kPa) but not with elevated SS (30.97 kPa).

Conclusions:

The risk of a hepatic decompensation can easily be assessed using SS measurement. Therefore SS measurement might be a powerful screening tool identifying patients who need closer monitoring. Moreover, SS is able to differentiate between acute and chronic or acute on chronic liver damage.
Automated low-flow ascites pump in a real-world setting: complications and outcomes
Authors: Solbach Philipp , Höner zu Siederdissen Christoph , Wellhöner Freya , Richter Nicolas , Heidrich Benjamin , Lenzen Henrike , Kerstin Port , Hueper Katja , Manns Michael P. , Wedemeyer Heiner , Jaeckel Elmar
Published: May 2018

Background and aims

The aim of this study was to investigate the Alfapump, an automated low-flow pump system for the treatment of refractory ascites (RA) as an alternative for repeated large-volume paracentesis in patients with contraindication for placement of a transjugular intrahepatic portosystemic shunt (TIPS) or liver transplantation.

Materials and methods

In 21 consecutive patients with RA and contraindication for a placement of a TIPS, the Alfapump was implanted at Hannover Medical School between December 2012 and May 2016. Repeated laboratory, clinical, and microbiology data were collected and analyzed to assess the outcome of patients with an Alfapump. Half of the patients received a modified peritoneal catheter.

Results

Twenty-one patients with RA in end-stage liver disease and with a contraindication to TIPS placement received the Alfapump. Diuretic dosages were significantly reduced, and the number of paracentesis declined from 2.3±2.7 to 0 per week. Using the Alfapump, kidney function and serum sodium remained stable. Likewise, serum albumin remained stable in the absence of albumin infusions. Thirty-three complications (dislocation and/or blockade of the catheter, infection, pump dysfunction) related to the Alfapump were observed in 15 of 21 patients (71.4%), and 21 surgical interventions were needed in 15 patients (71.4%, 1–3 interventions per patient). A new peritoneal catheter system could significantly reduce blockage of the peritoneal catheter.

Conclusion

The Alfapump is an effective treatment in patients with RA. However, a high rate of complications were observed, which could be reduced with a modified peritoneal catheter.
The Use of a Honeycomb Technique Combined with Ultrasonic Aspirators and Indocyanine Green Fluorescence Angiography for a Superthin Anterolateral Thigh Flap: A Pilot Study
Authors: Fan Song , Zhang Han-qing , Li Qun-xing , Tian Tian , Chen Wei-xiong , Pan Guo-kai , Ho-Young Ahn Michael , Sun Sheng , Wu Bing-hao , Li Jin-song
Published: May 2018

Background:

Harvesting an optimally thinned anterolateral thigh flaps is a challenge in overweight individuals and in the Western population. The authors describe a novel honeycomb technique to achieve a superthin anterolateral thigh flap in overweight patients.

Methods:

Forty patients with a body mass index greater than 25 kg/m2 who required a thinned anterolateral thigh flap for reconstruction were assigned randomly to a honeycomb technique group or a microdissection technique group. The honeycomb technique group underwent flap thinning with the Cavitron Ultrasonic Surgical Aspirator, and flap thinning was performed with a conventional microdissection technique in the microdissection technique group. Perfusion of all flaps was measured by indocyanine green fluorescence angiography before and after thinning. Hypoperfusion was defined as 30 percent.

Results:

The mean body mass index was 28.6 ± 2.0 kg/m2 and 27.3 ± 1.9 kg/m2 in the honeycomb group and the microdissection group, respectively. Flap size, perforator, type of dissection, and initial perfusion were comparable between the two groups. However, significantly more patients (nine of 21) experienced final hypoperfusion in the microdissection group than in the honeycomb group (two of 19) (p = 0.034). In addition, blood loss and final flap thickness were significantly lower in the honeycomb group (p < 0.05), and the duration of thinning was comparable between the two groups. No flap necrosis was found in either group.

Conclusion:

The honeycomb technique in combination with the Cavitron Ultrasonic Surgical Aspirator and indocyanine green angiography was able to remove adipose tissue but protect the integrity of the subcutaneous vascular plexus to reduce potential risk of jeopardizing flap perfusion while obtaining a superthin anterolateral thigh flap in an overweight population.

CLINICAL QUESTION/LEVEL OF EVIDENCE:

Therapeutic, II.
Chronotropic Incompetence and Reduced Heart Rate Recovery in Rheumatoid Arthritis
Authors: Peçanha Tiago , Rodrigues Reynaldo , Pinto Ana Jéssica , Sá-Pinto Ana Lúcia , Guedes Lissiane , Bonfiglioli Karina , Gualano Bruno , Roschel Hamilton
Published: May 2018

Background/Objective

Recent studies have indicated that cardiac autonomic dysfunction is an early sign of cardiovascular impairment in rheumatoid arthritis (RA). Previous studies have mainly focused on resting assessments; however, analysis of heart rate (HR) responses to exercise might provide additional information on cardiac autonomic dysfunction in this disease. Thus, we aimed to assess the HR responses during and after a maximal graded exercise test in patients with RA and healthy controls (CONs).

Methods

This was a cross-sectional study in which 27 female RA patients and 14 female CONs frequency matched by physical activity, age, and body mass index were compared for HR responses during and after a maximal graded exercise test.

Results

Rheumatoid arthritis patients showed reduced chronotropic response (94.3% ± 16.3% vs. 106.1% ± 10.3%, p = 0.02) and lower HR recovery (HRR) at 30 seconds (8.6 ± 6.7 vs. 13.4 ± 5.2 beats/min [bpm], p = 0.02), 60 seconds (16.5 ± 7.8 vs. 24.0 ± 9.9 bpm, p = 0.01), 120 seconds (32.6 ± 9.9 vs. 40.7 ± 12.3 bpm, p = 0.03), and 180 seconds (46.5 ± 12.6 vs. 55.5 ± 13.4 bpm, p = 0.05) post-maximal exercise test when compared with CONs. Moreover, the prevalence of chronotropic incompetence (i.e., failure to reach 80% of the HR-predicted response) and abnormal HRR (i.e., HRR ≤12 bpm) were, respectively, 22.2% and 37.1% in RA patients.

Conclusions

Patients with RA showed reduced chronotropic response to exercise and slower postexercise HRR. These abnormal autonomic responses to exercise indicate the presence of cardiac autonomic dysfunction and increased cardiovascular risk in this population.
Development of Human Face Literature Database Using Text Mining Approach: Phase I
Authors: Kaur Paramjit , Krishan Kewal , Sharma Suresh K.
Published: May 2018

The face is an important part of the human body by which an individual communicates in the society. Its importance can be highlighted by the fact that a person deprived of face cannot sustain in the living world. The amount of experiments being performed and the number of research papers being published under the domain of human face have surged in the past few decades. Several scientific disciplines, which are conducting research on human face include: Medical Science, Anthropology, Information Technology (Biometrics, Robotics, and Artificial Intelligence, etc.), Psychology, Forensic Science, Neuroscience, etc. This alarms the need of collecting and managing the data concerning human face so that the public and free access of it can be provided to the scientific community. This can be attained by developing databases and tools on human face using bioinformatics approach. The current research emphasizes on creating a database concerning literature data of human face. The database can be accessed on the basis of specific keywords, journal name, date of publication, author's name, etc. The collected research papers will be stored in the form of a database. Hence, the database will be beneficial to the research community as the comprehensive information dedicated to the human face could be found at one place. The information related to facial morphologic features, facial disorders, facial asymmetry, facial abnormalities, and many other parameters can be extracted from this database. The front end has been developed using Hyper Text Mark-up Language and Cascading Style Sheets. The back end has been developed using hypertext preprocessor (PHP). The JAVA Script has used as scripting language. MySQL (Structured Query Language) is used for database development as it is most widely used Relational Database Management System. XAMPP (X (cross platform), Apache, MySQL, PHP, Perl) open source web application software has been used as the server.

The database is still under the developmental phase and discusses the initial steps of its creation. The current paper throws light on the work done till date.
Comparison of Piezosurgery and Hammer-Chisel in Endoscopic Dacryocystorhinostomy
Authors: Çukurova Ibrahim , Bulğurcu Suphi , Arslan Ilker Burak , Dikilitaş Bünyamin
Published: May 2018

Background:

In this study, we compared the advantages and disadvantages of piezosurgery and hammer-chisel used in endoscopic dacryocystorhinostomy (EDCR).

Material and Methods:

Between January 2012 and January 2016, 10 women and 8 men in whom piezosurgery was used (group 1) and 11 women and 7 men in whom hammer-chisel was used (group 2) during EDCR operations were compared retrospectively. Recurrence, operation time, postoperative bleeding, and operative cost were evaluated in patients who were followed for an average of 11.8 months. In addition, visual analogue scale (VAS) was used to assess pain at 6 hours postoperatively.

Results:

No recurrence was observed in group 1, but recurrence was observed in 2 patients in group 2 (P = 0.685). There was no postoperative bleeding in both groups. The mean duration of operation was 30.6 ± 8.2 minutes in group 1 and 46.8 ± 9.5 minutes in group 2 (P = 0.038). The VAS score in group 1 was 2.7 ± 1.4 and the VAS score in group 2 was 5.8 ± 2.2 (P = 0.01). Piezosurgery costs an additional $325 for each patient while the use of the hammer-chisel does not incur additional costs.

Conclusion:

Piezosurgery causes shorter operation time, less recurrence, and less pain when compared with hammer-chisel.
Pure Retroperitoneal Optical Access Trocar for Lumbar Diseases in Adults: A Step-by-Step Technique
Authors: Nunes-Silva Igor , Hidaka Alexandre , Barrios Carol , Azevedo Eduardo , Ferreira Faria Eliney , Zampoli Hamilton , Bertrand Guillonneau , Tobias-Machado Marcos
Published: May 2018

Purposes:

The primary end point of this study was to describe step by step the technique of the pure retroperitoneal optical access trocar (PROAT) in adults. The secondary end point was to access between-group differences in perioperative outcomes.

Materials and Methods:

Forty-five patients underwent retroperitoneoscopic surgery using the PROAT technique to enter the retroperitoneal space (PROAT group). Thirty-nine patients underwent retroperitoneoscopic surgery using the conventional open-Hasson technique with manufactured Hasson-trocar and space-maker balloon to enter and create the retroperitoneal space (conventional group). PROAT technique was described. Data were prospectively collected and analyzed.

Results:

Mean time for first-entry trocar insertion was lower in the PROAT group (9.76±3.17 vs. 23±7.2 s; P<0.001). Mean time to develop the retroperitoneal space until all-trocar placement was higher in the PROAT group (12.7±3.3 vs. 6.4±2.2 min; P<0.001). Carbon dioxide gas leakage was not observed.

Conclusions:

The PROAT technique is feasible and safe. This approach can potentially avoid carbon dioxide leakage when manufactured Hasson trocars are not available and allow a reduced-cost procedure.
Robotic-assisted Laparoscopic Repair of Scrotal Inguinal Hernias
Authors: Yheulon Christopher G. , Maxwell Daniel W. , Balla Fadi M. , Patel Ankit D. , Lin Edward , Stetler Jamil L. , Davis Steven S.
Published: May 2018

Background:

Scrotal inguinal hernias represent a challenging surgical pathology. Although some advanced laparoscopists can repair these hernias through a minimally invasive approach, open repair is considered the technique of choice for most surgeons. The purpose of this study is to show our results of robotic-assisted laparoscopic repair of scrotal inguinal hernias.

Patients and Methods:

We reviewed the charts of 14 patients with inguinoscrotal hernias who underwent robotic-assisted transabdominal preperitoneal (TAPP) hernia repair. Mean follow-up was 7 months. The European Registry for Abdominal Wall Hernia Quality of Life score, a 90-point scale, was utilized to quantify patient reported outcomes.

Results:

Robotic TAPP repair was successful in all 14 patients. Average case duration was 100 minutes (78 to 140 min) for unilateral hernias and 208 minutes (166 to 238 min) for bilateral hernias. Trainees were involved in 93% (13/14) of cases. There were no recurrences. Three patients developed postoperative seromas. The mean European Registry for Abdominal Wall Hernia Quality of Life score was 3.7 (0 to 10).

Conclusions:

Scrotal hernias can be safely repaired using robotic-assisted TAPP methods with low morbidity and favorable patient reported outcomes.
Biodiversity and socioeconomics in the city: a review of the luxury effect
Authors: Leong Misha , Dunn Robert R. , Trautwein Michelle D.
Published: May 2018

The ecological dynamics of cities are influenced not only by geophysical and biological factors, but also by aspects of human society. In cities around the world, a pattern of higher biodiversity in affluent neighbourhoods has been termed ‘the luxury effect'. The luxury effect has been found globally regarding plant diversity and canopy or vegetative cover. Fewer studies have considered the luxury effect and animals, yet it has been recognized in the distributions of birds, bats, lizards and indoor arthropods. Higher socioeconomic status correlates with higher biodiversity resulting from many interacting factors—the creation and maintenance of green space on private and public lands, the tendency of both humans and other species to favour environmentally desirable areas, while avoiding environmental burdens, as well as enduring legacy effects. The luxury effect is amplified in arid cities and as neighbourhoods age, and reduced in tropical areas. Where the luxury effect exists, benefits of urban biodiversity are unequally distributed, particularly in low-income neighbourhoods with higher minority populations. The equal distribution of biodiversity in cities, and thus the elimination of the luxury effect, is a worthy societal goal.
Comparison of vacuum static quadrupolar metrics
Authors: Frutos-Alfaro Francisco , Quevedo Hernando , Sanchez Pedro A.
Published: May 2018

We investigate the properties of static and axisymmetric vacuum solutions of Einstein equations which generalize the Schwarzschild spherically symmetric solution to include a quadrupole parameter. We test all the solutions with respect to elementary and asymptotic flatness and curvature regularity. Analysing their multipole structure, according to the relativistic invariant Geroch definition, we show that all of them are equivalent up to the level of the quadrupole. We conclude that the
q
-metric, a variant of the Zipoy–Voorhees metric, is the simplest generalization of the Schwarzschild metric, containing a quadrupole parameter.
Critical factors for the bulk adhesion of engineered elastomeric proteins
Authors: Brennan M. Jane , Hollingshead Sydney E. , Wilker Jonathan J. , Liu Julie C.
Published: May 2018

Many protein-based materials, such as soy and mussel adhesive proteins, have been the subject of scientific and commercial interest. Recently, a variety of protein adhesives have been isolated from diverse sources such as insects, frogs and squid ring teeth. Many of these adhesives have similar amino acid compositions to elastomeric proteins such as elastin. Although elastin is widely investigated for a structural biomaterial, little work has been done to assess its adhesive potential. In this study, recombinant elastin-like polypeptides were created to probe the factors affecting adhesion strength. Lap shear adhesion was used to examine the effects of both extrinsic factors (pH, concentration, cross-linker, humidity, cure time and cure temperature) and intrinsic factors (protein sequence, structure and molecular weight). Of the extrinsic factors tested, only humidity, cure time and cure temperature had a significant effect on adhesion strength. As water content was reduced, adhesion strength increased. Of the intrinsic factors tested, amino acid sequence did not significantly affect adhesion strength, but less protein structure and higher molecular weights increased adhesion strength directly. The strengths of proteins in this study (greater than 2 MPa) were comparable to or higher than those of two commercially available protein-based adhesives, hide glue and a fibrin sealant. These results may provide general rules for the design of adhesives from elastomeric proteins.
A plug-in electrophoresis microchip with PCB electrodes for contactless conductivity detection
Authors: Yang Mingpeng , Huang Zhe , You Hui
Published: May 2018

A plug-in electrophoresis microchip for large-scale use aimed at improving maintainability with low fabrication and maintenance costs is proposed in this paper. The plug-in microchip improves the maintainability of a device because the damaged microchannel layer can be changed without needing to cut off the circuit wires in the detection component. Obviously, the plug-in structure reduces waste compared with earlier microchips; at present the whole microchip has to be discarded, including the electrode layer and the microchannel layer. The fabrication cost was reduced as far as possible by adopting a steel template and printed circuit board electrodes that avoided the complex photolithography, metal deposition and sputtering processes. The detection performance of our microchip was assessed by electrophoresis experiments. The results showed an acceptable gradient and stable detection performance. The effect of the installation shift between the microchannel layer and the electrode layer brought about by the plug-in structure was also evaluated. The results indicated that, as long as the shift was controlled within a reasonable scope, its effect on the detection performance was acceptable. The plug-in microchip described in this paper represents a new train of thought for the large-scale use and design of portable instruments with electrophoresis microchips in the future.
Early-life begging effort reduces adult body mass but strengthens behavioural defence of the rate of energy intake in European starlings
Authors: Dunn Jonathon , Andrews Clare , Nettle Daniel , Bateson Melissa
Published: May 2018

Animals require strategies for coping with periods when food is scarce. Such strategies include storing fat as a buffer, and defending the rate of energy intake by changing foraging behaviour when food becomes difficult to obtain. Storage and behavioural defence may constitute alternative strategies for solving the same problem. We would thus expect any developmental influences that limit fat storage in adulthood to also induce a compensatory alteration in adult foraging behaviour, specifically when food is hard to obtain. In a cohort of hand-reared European starlings, we found that higher manipulated early-life begging effort caused individuals to maintain consistently lower adult body mass over a period of two years. Using an operant foraging task in which we systematically varied the costs of obtaining food, we show that higher early-life begging effort also caused stronger behavioural defence of the rate of energy intake when food was more costly to obtain. Among individuals with the same developmental history, however, those individuals who defended their rate of energy intake most strongly were also the heaviest. Our results are relevant to understanding why there are marked differences in body weight and foraging behaviour even among individuals inhabiting the same environment.
Application of a triblock copolymer additive modified polyvinylidene fluoride membrane for effective oil/water separation
Authors: Shen S. S. , Liu K. P. , Yang J. J. , Li Y. , Bai R. B. , Zhou X. J.
Published: May 2018

A hollow fibre membrane was fabricated by blending polyvinylidene fluoride (PVDF) with a triblock copolymer additive polymer that has both hydrophilic and oleophobic surface properties. The novel membrane was characterized and examined for oil/water separation under various system conditions, including different cross-flow rate, feed temperature, trans-membrane pressure, and its rejection and cleaning efficiency, etc. By applying the membrane into the filtration of synthesized oil/water emulsion, the membrane constantly achieved an oil rejection rate of above 99%, with a relatively constant permeate flux varied in the range of 68.9–59.0 l m
−2
 h
−1
. More importantly, the fouling of the used membrane can be easily removed by simple water flushing. The membrane also demonstrated a wide adaptability for different types of real oily wastewater, even at very high feed oil concentration (approx. 115 000 mg l
−1
in terms of chemical oxygen demand (COM)). Hence, the novel triblock copolymer additive-modified PVDF membrane can have a great prospect in the continuing effort to expand the engineering application of polymeric membranes for oily wastewater treatment.
Body ownership and agency altered by an electromyographically controlled robotic arm
Authors: Sato Yuki , Kawase Toshihiro , Takano Kouji , Spence Charles , Kansaku Kenji
Published: May 2018

Understanding how we consciously experience our bodies is a fundamental issue in cognitive neuroscience. Two fundamental components of this are the sense of body ownership (the experience of the body as one's own) and the sense of agency (the feeling of control over one's bodily actions). These constructs have been used to investigate the incorporation of prostheses. To date, however, no evidence has been provided showing whether representations of ownership and agency in amputees are altered when operating a robotic prosthesis. Here we investigated a robotic arm using myoelectric control, for which the user varied the joint position continuously, in a rubber hand illusion task. Fifteen able-bodied participants and three trans-radial amputees were instructed to contract their wrist flexors/extensors alternately, and to watch the robotic arm move. The sense of ownership in both groups was extended to the robotic arm when the wrists of the real and robotic arm were flexed/extended synchronously, with the effect being smaller when they moved in opposite directions. Both groups also experienced a sense of agency over the robotic arm. These results suggest that these experimental settings induced successful incorporation of the prosthesis, at least for the amputees who took part in the present study.
Subgrain-controlled grain growth in the laser-melted 316 L promoting strength at high temperatures
Authors: Saeidi Kamran , Akhtar Farid
Published: May 2018

Stainless steel 316 L prepared by laser melting consisted of a hierarchical austenitic microstructure with micrometre-sized (10–25 µm) grains containing fine 1 µm subgrains with a cellular structure. At high-temperature thermal treatments (greater than or equal to 1100°C), merging and growth of the 1 µm subgrains into bigger subgrains restricted the rapid grain growth and microstructure coarsening. Partial phase transformation of austenite to ferrite at temperatures greater than or equal to 1100°C, in combination with gradual and steady growth of subgrains inside the micrometre-sized grains and nucleation of the sigma phase, has promoted the tensile strength of stainless steel 316 L to 300 MPa at 1100°C compared with that of conventionally made 316 L counterparts (approx. 40 MPa). The grain growth mechanism of the laser-melted microstructure can change the application criteria for 316 L and expand the application fields for 316 L.
Effect of captivity on morphology: negligible changes in external morphology mask significant changes in internal morphology
Authors: Courtney Jones Stephanie K. , Munn Adam J. , Byrne Phillip G.
Published: May 2018

Captive breeding programmes are increasingly relied upon for threatened species management. Changes in morphology can occur in captivity, often with unknown consequences for reintroductions. Few studies have examined the morphological changes that occur in captive animals compared with wild animals. Further, the effect of multiple generations being maintained in captivity, and the potential effects of captivity on sexual dimorphism remain poorly understood. We compared external and internal morphology of captive and wild animals using house mouse (Mus musculus) as a model species. In addition, we looked at morphology across two captive generations, and compared morphology between sexes. We found no statistically significant differences in external morphology, but after one generation in captivity there was evidence for a shift in the internal morphology of captive-reared mice; captive-reared mice (two generations bred) had lighter combined kidney and spleen masses compared with wild-caught mice. Sexual dimorphism was maintained in captivity. Our findings demonstrate that captive breeding can alter internal morphology. Given that these morphological changes may impact organismal functioning and viability following release, further investigation is warranted. If the morphological change is shown to be maladaptive, these changes would have significant implications for captive-source populations that are used for reintroduction, including reduced survivorship.
Light stabilizers added to the shell of co-extruded wood/high-density polyethylene composites to improve mechanical and anti-UV ageing properties
Authors: Liu Chaozheng , Mei Changtong , Xu Bing , Chen Weimin , Yong Cheng , Wang Ke , Wu Qinglin
Published: May 2018

Weathering of wood--plastic composites (WPCs) leads to discoloration and cracks, which greatly limits their outdoor application. In this study, light stabilizers (including UV-327, HS-944 and nano-SiO2) were added to the shell of a co-extruded high-density polyethylene-based WPC to improve its anti-ultraviolet (UV) ageing properties and simultaneously to maintain its good mechanical properties. The results showed that UV-327 was the most effective light stabilizer for improving the mechanical and anti-UV ageing properties of the composites among the three stabilizers used. WPC samples combined with 2% UV-327 had the highest retention rates in flexural strength and also had the smoothest surface after 2500 h of UV ageing. The samples with 2% UV-327 added had the best protection for discoloration, showing the lowest values of ΔE* (colour difference) and ΔL* (luminescence) in all samples after 2500 h of UV ageing. WPC samples with 2% UV-327 were also oxidized the least after 2500 h of UV ageing. The results reported herein serve to enhance our understanding of the efficiency of light stabilizers in preventing UV degradation of WPCs, with a view to developing co-extruded WPCs with low cost, high anti-UV ageing properties and good mechanical properties for outdoor applications.
The correct and unusual coordinate transformation rules for electromagnetic quadrupoles
Authors: Gratus J. , Banaszek T.
Published: May 2018

Despite being studied for over a century, the use of quadrupoles have been limited to Cartesian coordinates in flat space–time due to the incorrect transformation rules used to define them. Here the correct transformation rules are derived, which are particularly unusual as they involve second derivatives of the coordinate transformation and an integral. Transformations involving integrals have not been seen before. This is significantly different from the familiar transformation rules for a dipole, where the components transform as tensors. It enables quadrupoles to be correctly defined in general relativity and to prescribe the equations of motion for a quadrupole in a coordinate system adapted to its motion and then transform them to the laboratory coordinates. An example is given of another unusual feature: a quadrupole which is free of dipole terms in polar coordinates has dipole terms in Cartesian coordinates. It is shown that dipoles, electric dipoles, quadrupoles and electric quadrupoles can be defined without reference to a metric and in a coordinates-free manner. This is particularly useful given their complicated coordinate transformation.
How the carnivorous waterwheel plant (Aldrovanda vesiculosa) snaps
Authors: Westermeier Anna S. , Sachse Renate , Poppinga Simon , Vögele Philipp , Adamec Lubomir , Speck Thomas , Bischoff Manfred
Published: May 2018

The fast motion of the snap-traps of the terrestrial Venus flytrap (Dionaea muscipula) have been intensively studied, in contrast to the tenfold faster underwater snap-traps of its phylogenetic sister, the waterwheel plant (Aldrovanda vesiculosa). Based on biomechanical and functional–morphological analyses and on a reverse biomimetic approach via mechanical modelling and computer simulations, we identify a combination of hydraulic turgor change and the release of prestress stored in the trap as essential for actuation. Our study is the first to identify and analyse in detail the motion principle ofAldrovanda, which not only leads to a deepened understanding of fast plant movements in general, but also contributes to the question of how snap-traps may have evolved and also allows for the development of novel biomimetic compliant mechanisms.
Evolutionary adaptation to aquatic lifestyle in extinct sloths can lead to systemic alteration of bone structure
Authors: Amson Eli , Billet Guillaume , de Muizon Christian
Published: May 2018

Through phenotypic plasticity, bones can change in structure and morphology, in response to physiological and biomechanical influences over the course of individual life. Changes in bones also occur in evolution as functional adaptations to the environment. In this study, we report on the evolution of bone mass increase (BMI) that occurred in the postcranium and skull of extinct aquatic sloths. Although non-pathological BMI in postcranial skeleton has been known in aquatic mammals, we here document general BMI in the skull for the first time. We present evidence of thickening of the nasal turbinates, nasal septum and cribriform plate, further thickening of the frontals, and infilling of sinus spaces by compact bone in the late and more aquatic species of the extinct sloth
Thalassocnus
. Systemic bone mass increase occurred among the successively more aquatic species of
Thalassocnus
, as an evolutionary adaptation to the lineage's changing environment. The newly documented pachyostotic turbinates appear to have conferred little or no functional advantage and are here hypothesized as a correlation with or consequence of the systemic BMI among
Thalassocnus
species. This could, in turn, be consistent with a genetic accommodation of a physiological adjustment to a change of environment.
Structural and functional studies of the RBPJ-SHARP complex reveal conserved corepressor binding site
Authors: Yuan Zhenyu , VanderWielen Bradley D. , Giaimo Benedetto Daniele , Pan Leiling , Collins Courtney E. , Turkiewicz Aleksandra , Hein Kerstin , Oswald Franz , Borggrefe Tilman , Kovall Rhett A.
Published: May 2018

The Notch pathway is a conserved signaling mechanism that is essential for cell fate decisions during pre and postnatal development. Dysregulated signaling underlies the pathophysiology of numerous human diseases, most notably T-cell acute lymphoblastic leukemia. Receptor-ligand interactions result in changes in gene expression, which are regulated by the transcription factor CSL. CSL forms a complex with the intracellular domain of the Notch receptor and the transcriptional coactivator Mastermind, which is required to activate transcription of all Notch target genes. CSL can also function as repressor by interacting with corepressor proteins, e.g. SHARP in mammals and Hairless in Drosophila melanogaster; however, its role as a transcriptional repressor is not well understood. Here we determine the high-resolution structure of RBPJ, the mouse CSL ortholog, bound to the corepressor SHARP and DNA, which reveals a new mode of corepressor binding to CSL and an interesting example for how ligand binding sites evolve in proteins. Based on the structure, we designed and tested a number of mutants in biophysical, biochemical, and cellular assays to characterize the role of RBPJ as a repressor of Notch target genes. Our cellular studies clearly demonstrate that RBPJ mutants that are deficient for binding SHARP are incapable of repressing transcription from genes responsive to Notch signaling. Altogether, our structure-function studies of the RBPJ-SHARP corepressor complex bound to DNA provide significant insights into the repressor function of RBPJ and identify a new binding pocket on RBPJ that could be targeted for therapeutic benefit.
Extensive and deep sequencing of the Venter/HuRef genome for developing and benchmarking genome analysis tools
Authors: Zhou Bo , Arthur Joseph G. , Ho Steve S. , Pattni Reenal , Huang Yiling , Wong Wing H. , Urban Alexander E.
Published: May 2018

We produced an extensive collection of deep re-sequencing datasets for the Venter/HuRef genome using the Illumina massively-parallel DNA sequencing platform. The original Venter genome sequence is a very-high quality phased assembly based on Sanger sequencing. Therefore, researchers developing novel computational tools for the analysis of human genome sequence variation for the dominant Illumina sequencing technology can test and hone their algorithms by making variant calls from these Venter/HuRef datasets and then immediately confirm the detected variants in the Sanger assembly, freeing them of the need for further experimental validation. This process also applies to implementing and benchmarking existing genome analysis pipelines. We prepared and sequenced 200 bp and 350 bp short-insert whole-genome sequencing libraries (sequenced to 100x and 40x genomic coverages respectively) as well as 2 kb, 5 kb, and 12 kb mate-pair libraries (49x, 122x, and 145x physical coverages respectively). Lastly, we produced a linked-read library (128x physical coverage) from which we also performed haplotype phasing.
Connecting the dots between computational tools to analyse soil-root water relations
Authors: Passot Sixtine , Couvreur Valentin , Meunier Félicien , Draye Xavier , Javaux Mathieu , Leitner Daniel , Pagès Loïc , Schnepf Andrea , Vanderborght Jan , Lobet Guillaume
Published: May 2018

In the recent years, many computational tools, such as image analysis, data management, process-based simulation and upscaling tools, were developed to help quantify and understand water flow in the soil-root system, at multiple scales (tissue, organ, plant and population). Several of these tools work together or, at least, are compatible. However, for the un-informed researcher, they might seem disconnected, forming a unclear and disorganised succession of tools.

In this article, we present how different pieces of work can be further developed by connecting them to analyse soil-root-water relations in a comprehensive and structured network. This “explicit network of soil-root computational tools” informs the reader about existing tools and help them understand how their data (past and future) might fit within the network. We also demonstrate the novel possibilities of scale-consistent parameterizations made possible by the network with a set of case studies from the literature. Finally, we discuss existing gaps in the network and how we can move forward to fill them.

Highlights

Many computational tools exist to quantify water flow in the soil-root system. These tools can be arranged in a comprehensive network that can be leveraged to better interpret experimental data.
Finding informative neurons in the brain using Multi-Scale Relevance
Authors: Cubero Ryan John , Marsili Matteo , Roudi Yasser
Published: May 2018

We propose a metric – called Multi-Scale Relevance (MSR) – to score neurons for their prominence in encoding for the animal’s behaviour that is being observed in a multi-electrode array recording experiment. The MSR assumes that relevant neurons exhibit a wide variability in their dynamical state, in response to the external stimulus, across different time scales. It is a non-parametric, fully featureless indicator, in that it uses only the time stamps of the firing activity, without resorting to any a priori covariate or invoking any specific tuning curve for neural activity. We test the method on data from freely moving rodents, where we found that neurons having low MSR tend to have low mutual information and low firing sparsity across the correlates that are believed to be encoded by the region of the brain where the recordings were made. In addition, neurons with high MSR contain significant information on spatial navigation and allow to decode spatial position or head direction as efficiently as those neurons whose firing activity has high mutual information with the covariate to be decoded.
The Complete Chloroplast Genome of Dendrobium nobile, an endangered medicinal orchid from Northeast India and its comparison with related chloroplast genomes of Dendrobium species
Authors: Konhar Ruchishree , Debnath Manish , Bhattacharjee Atanu , Sundar Durai , Tandon Pramod , Dash Debasis , Biswal Devendra Kumar
Published: May 2018

The medicinal orchid genus Dendrobium belonging to the Orchidaceae family is the largest genus comprising about 800-1500 species. To better illustrate the species status in the genus Dendrobium, a comparative analysis of 33 newly sequenced chloroplast genomes retrieved from NCBI Refseq database was compared with that of the first complete chloroplast genome of D. nobile from north-east India based on next-generation sequencing methods (Illumina HiSeq 2500-PE150). Our results provide comparative chloroplast genomic information for taxonomical identification, alignment-free phylogenomic inference and other statistical features of Dendrobium plastomes, which can also provide valuable information on their mutational events and sequence divergence.
Effects of Xiantao sewage treatment on microbial community structure of shallow groundwater in wetland
Authors: Song Shu-Fen , Gao Xiu-Fang , Yang Fan
Published: May 2018

In order to solve the problem of urban domestic sewage treated by semi natural wetland method with high connectivity between surface water and underground water in the flood diversion channel, Whether there is a blank study on the pollution of shallow groundwater. The community structure and abundances of CODCr, total nitrogen, total phosphorus and microorganism were added to the surface water. Environmental factors such as CODCr, TN, TP, NH4+-N and microbial community and abundance indices were monitored through surface water and groundwater. In this study, physical and chemical indicators, microbial diversity and community structure of 12 water samples from Xiantao artificial wetland were studied by using the Illumina Miseq sequencing technique and the resulting microbial data were statistically analyzed in combination with environmental variables. The results showed that CODCr concentration had a very significant positive correlation with total microbial communities (r=0.530, P<0.01), NH4+-N and TN were significantly positively correlated (r=0.337 and 0.325, P<0.05). In addition, CODCr concentration was highly positively correlated with abundant groups (r=0.520, P<0.05), NH4+-N and TN were significantly positively correlated (r=0.325 and 0.304, P<0.05). For rare taxa, they might be more sensitive to the environment than their abundant groups. The relative abundance of the rare group is 0 at the depth of 10m, so we should carefully evaluate microbial reaction (rare group) environmental conditions in the future.
Epidemiology, Microbiology and Therapeutic Consequences of Chronic Osteomyelitis in Northern China: A Retrospective Analysis of 255 Patients
Authors: Ma Xianzhi , Han Shengshou , Ma Jun , Chen Xiaotao , Bai Wenbin , Yan Wenqi , Wang Kai
Published: May 2018

The study aimed to explore the epidemiology and clinical characteristics of chronic osteomyelitis observed in a northern China hospital. Clinical data of 255 patients with chronic osteomyelitis from January 2007 to January 2014 were collected and analyzed, including general information, disease data, treatment and follow-up data. Chronic osteomyelitis is more common in males and in the age group from 41-50 years of age. Common infection sites are the femur, tibiofibular, and hip joint. More g+ than g- bacterial infections were observed, with S. aureus the most commonly observed pathogenic organism. The positive detection rate from debridement bacterial culture is 75.6%. The detection rate when five samples are sent for bacterial culture is 90.6%, with pathogenic bacteria identified in 82.8% of cases. The two-stage debridement method (87.0%) has higher first curative rate than the one-stage debridement method (71.2%). To improve detection rate using bacterial culture, at least five samples are recommended. Treatment of chronic osteomyelitis with two-stage debridement, plus antibiotic-loaded polymethylmethacrylate (PMMA) beads provided good clinical results in this study and is therefore recommended.
Sarek: A portable workflow for whole-genome sequencing analysis of germline and somatic variants
Authors: Garcia Maxime , Juhos Szilveszter , Larsson Malin , Olason Pall I. , Martin Marcel , Eisfeldt Jesper , DiLorenzo Sebastian , Sandgren Johanna , de Ståhl Teresita Diaz , Wirta Valtteri , Nistér Monica , Nystedt Björn , Käller Max
Published: May 2018

Whole-genome sequencing (WGS) is a cornerstone of precision medicine, but portable and reproducible open-source workflows for WGS analyses of germline and somatic variants are lacking. We present Sarek, a modular, comprehensive, and easy-to-install workflow, combining a range of software for the identification and annotation of single-nucleotide variants (SNVs), insertion and deletion variants (indels), structural variants, tumor sample heterogeneity, and karyotyping from germline or paired tumor/normal samples. Sarek is implemented in a bioinformatics workflow language (Nextflow) with Docker and Singularity compatible containers, ensuring easy deployment and full reproducibility at any Linux based compute cluster or cloud computing environment. Sarek supports the human reference genomes GRCh37 and GRCh38, and can readily be used both as a core production workflow at sequencing facilities and as a powerful stand-alone tool for individual research groups.

Availability

Source code and instructions for local installation are available at GitHub (https://github.com/SciLifeLab/Sarek) under the MIT open-source license, and we invite the research community to contribute additional functionality as a collaborative open-source development project.
Improved estimation of macroevolutionary rates from fossil data using a Bayesian framework
Authors: Silvestro Daniele , Antonelli Alexandre , Salamin Nicolas , Meyer Xavier
Published: May 2018

The estimation of origination and extinction rates and their temporal variation is central to understanding diversity patterns and the evolutionary history of clades. The fossil record provides the most direct evidence of extinction and biodiversity changes through time and has long been used to infer the dynamics of diversity changes in deep time. The software PyRate implements a Bayesian framework to analyze fossil occurrence data to estimate the rates of preservation, origination and extinction while incorporating several sources of uncertainty. This fully probabilistic approach allows us to explicitly assess the statistical support of alternative macroevolutionary hypotheses and to infer credible intervals around parameter estimates. Here, we present a major update of the software, which implements substantial methodological advancements, including more complex and realistic models of preservation, a reversible jump Markov chain Monte Carlo algorithm to estimate origination and extinction rates and their temporal variation, and a substantial boost in performance. We demonstrate the new functionalities through extensive simulations and with the analysis of a large dataset of Cenozoic marine mammals. We identify several significant shifts in origination and extinction rates of marine mammals, underlying a late Miocene diversity peak and a subsequent 50% diversity decline towards the present. Our analyses indicate that explicit statistical model testing, which is often neglected in fossil-based macroevolutionary analyses, is crucial to obtain accurate and robust results. PyRate provides a flexible, statistically sound analytical framework, which we think can serve as a useful toolkit for many future studies in paleobiology.