bluuebunny/crossref_metadata_2025_split huggingface dataset:
Drivers of farmers’ decisions to adopt agroforestry: Evidence from the Sudanian savanna zone, Burkina Faso
Authors: Sanou L. , Savadogo P. , Ezebilo Eugene E. , Thiombiano A. 
Published: July 2017

AbstractIn most developing countries, there has been a long-standing conflict of interest between using land for agriculture and the conservation of biodiversity. This paper reports on a study of factors influencing farmers’ decisions to integrate trees into their agricultural practice. We also discuss the possibility of protecting and managing planted and naturally regenerating trees on farmland in order to restore degraded land and improve biodiversity. Data were collected from interviews with farmers in the Center-West region of Burkina Faso and analyzed using Principal Component Analysis, multiple linear regression and binary logistic regression. The results show that farmers’ decisions to incorporate trees into their farmland were mainly influenced by silvicultural knowledge and skills, participation in farmers’ groups or other social organizations with an interest in tree conservation, the social value of biodiversity in the rural landscape, and the perceived economic benefits of trees on farmland. The most important factors associated with variation in levels of motivation to conserve trees on farms included household wealth, gender, age, education level, marital status, residence status, farmland size, household size and technical support. We conclude that an agroforestry project will be more successful if the local biophysical conditions and diversity of smallholder socio-economic characteristics and their perceptions, needs and preferences are considered in its design. There is also an immediate need for coordinated development of information and training to raise local community awareness of the potential of agroforestry as well as to disseminate information about adding value to tree products in order to encourage farmers to protect on-farm trees.
Metformin-induced ablation of microRNA 21-5p releases Sestrin-1 and CAB39L antitumoral activities
Authors: Pulito Claudio , Mori Federica , Sacconi Andrea , Goeman Frauke , Ferraiuolo Maria , Pasanisi Patrizia , Campagnoli Carlo , Berrino Franco , Fanciulli Maurizio , Ford Rebecca J , Levrero Massimo , Pediconi Natalia , Ciuffreda Ludovica , Milella Michele , Steinberg Gregory R , Cioce Mario , Muti Paola , Strano Sabrina , Blandino Giovanni 
Published: July 2017

AbstractMetformin is a commonly prescribed type II diabetes medication that exhibits promising anticancer effects. Recently, these effects were found to be associated, at least in part, with a modulation of microRNA expression. However, the mechanisms by which single modulated microRNAs mediate the anticancer effects of metformin are not entirely clear and knowledge of such a process could be vital to maximize the potential therapeutic benefits of this safe and well-tolerated therapy. Our analysis here revealed that the expression of miR-21-5p was downregulated in multiple breast cancer cell lines treated with pharmacologically relevant doses of metformin. Interestingly, the inhibition of miR-21-5p following metformin treatment was also observed in mouse breast cancer xenografts and in sera from 96 breast cancer patients. This modulation occurred at the levels of both pri-miR-21 and pre-miR-21, suggesting transcriptional modulation. Antagomir-mediated ablation of miR-21-5p phenocopied the effects of metformin on both the clonogenicity and migration of the treated cells, while ectopic expression of miR-21-5p had the opposite effect. Mechanistically, this reduction in miR-21-5p enhanced the expression of critical upstream activators of the AMP-activated protein kinase, calcium-binding protein 39-like and Sestrin-1, leading to AMP-activated protein kinase activation and inhibition of mammalian target of rapamycin signaling. Importantly, these effects of metformin were synergistic with those of everolimus, a clinically relevant mammalian target of rapamycin inhibitor, and were independent of the phosphatase and tensin homolog status. This highlights the potential relevance of metformin in combinatorial settings for the treatment of breast cancer.
The m6A pathway facilitates sex determination in Drosophila
Authors: Kan Lijuan , Grozhik Anya V. , Vedanayagam Jeffrey , Patil Deepak P. , Pang Nan , Lim Kok-Seong , Huang Yi-Chun , Joseph Brian , Lin Ching-Jung , Despic Vladimir , Guo Jian , Yan Dong , Kondo Shu , Deng Wu-Min , Dedon Peter C. , Jaffrey Samie R. , Lai Eric C. 
Published: July 2017

AbstractThe conserved modification N6-methyladenosine (m6A) modulates mRNA processing and activity. Here, we establish the Drosophila system to study the m6A pathway. We first apply miCLIP to map m6A across embryogenesis, characterize its m6A ‘writer’ complex, validate its YTH ‘readers’ CG6422 and YT521-B, and generate mutants in five m6A factors. While m6A factors with additional roles in splicing are lethal, m6A-specific mutants are viable but present certain developmental and behavioural defects. Notably, m6A facilitates the master female determinant Sxl, since multiple m6A components enhance female lethality in Sxl sensitized backgrounds. The m6A pathway regulates Sxl processing directly, since miCLIP data reveal Sxl as a major intronic m6A target, and female-specific Sxl splicing is compromised in multiple m6A pathway mutants. YT521-B is a dominant m6A effector for Sxl regulation, and YT521-B overexpression can induce female-specific Sxl splicing. Overall, our transcriptomic and genetic toolkit reveals in vivo biologic function for the Drosophila m6A pathway.
Correlated rotational switching in two-dimensional self-assembled molecular rotor arrays
Authors: Wasio Natalie A. , Slough Diana P. , Smith Zachary C. , Ivimey Christopher J. , Thomas III Samuel W. , Lin Yu-Shan , Sykes E. Charles H. 
Published: July 2017

AbstractMolecular devices are capable of performing a number of functions from mechanical motion to simple computation. Their utility is somewhat limited, however, by difficulties associated with coupling them with either each other or with interfaces such as electrodes. Self-assembly of coupled molecular devices provides an option for the construction of larger entities that can more easily integrate with existing technologies. Here we demonstrate that ordered organometallic arrays can be formed spontaneously by reaction of precursor molecular rotor molecules with a metal surface. Scanning tunnelling microscopy enables individual rotors in the arrays to be switched and the resultant switches in neighbouring rotors imaged. The structure and dimensions of the ordered molecular rotor arrays dictate the correlated switching properties of the internal submolecular rotor units. Our results indicate that self-assembly of two-dimensional rotor crystals produces systems with correlated dynamics that would not have been predicted a priori.
MIST: Accurate and Scalable Microscopy Image Stitching Tool with Stage Modeling and Error Minimization
Authors: Chalfoun Joe , Majurski Michael , Blattner Tim , Bhadriraju Kiran , Keyrouz Walid , Bajcsy Peter , Brady Mary 
Published: July 2017

AbstractAutomated microscopy can image specimens larger than the microscope’s field of view (FOV) by stitching overlapping image tiles. It also enables time-lapse studies of entire cell cultures in multiple imaging modalities. We created MIST (Microscopy Image Stitching Tool) for rapid and accurate stitching of large 2D time-lapse mosaics. MIST estimates the mechanical stage model parameters (actuator backlash, and stage repeatability ‘r’) from computed pairwise translations and then minimizes stitching errors by optimizing the translations within a (4r)2 square area. MIST has a performance-oriented implementation utilizing multicore hybrid CPU/GPU computing resources, which can process terabytes of time-lapse multi-channel mosaics 15 to 100 times faster than existing tools. We created 15 reference datasets to quantify MIST’s stitching accuracy. The datasets consist of three preparations of stem cell colonies seeded at low density and imaged with varying overlap (10 to 50%). The location and size of 1150 colonies are measured to quantify stitching accuracy. MIST generated stitched images with an average centroid distance error that is less than 2% of a FOV. The sources of these errors include mechanical uncertainties, specimen photobleaching, segmentation, and stitching inaccuracies. MIST produced higher stitching accuracy than three open-source tools. MIST is available in ImageJ at isg.nist.gov.
The role of directional interactions in the designability of generalized heteropolymers
Authors: Cardelli Chiara , Bianco Valentino , Rovigatti Lorenzo , Nerattini Francesca , Tubiana Luca , Dellago Christoph , Coluzza Ivan 
Published: July 2017

AbstractHeteropolymers are important examples of self-assembling systems. However, in the design of artificial heteropolymers the control over the single chain self-assembling properties does not reach that of the natural bio-polymers, and in particular proteins. Here, we introduce a sufficiency criterion to identify polymers that can be designed to adopt a predetermined structure and show that it is fulfilled by polymers made of monomers interacting through directional (anisotropic) interactions. The criterion is based on the appearance of a particular peak in the radial distribution function, that we show being a universal feature of all designable heteropolymers, as it is present also in natural proteins. Our criterion can be used to engineer new self-assembling modular polymers that will open new avenues for applications in materials science.
Phosphatidylserine-mediated platelet clearance by endothelium decreases platelet aggregates and procoagulant activity in sepsis
Authors: Ma Ruishuang , Xie Rui , Yu Chengyuan , Si Yu , Wu Xiaoming , Zhao Lu , Yao Zhipeng , Fang Shaohong , Chen He , Novakovic Valerie , Gao Chunyan , Kou Junjie , Bi Yayan , Thatte Hemant S. , Yu Bo , Yang Shufen , Zhou Jin , Shi Jialan 
Published: July 2017

AbstractThe mechanisms that eliminate activated platelets in inflammation-induced disseminated intravascular coagulation (DIC) in micro-capillary circulation are poorly understood. This study explored an alternate pathway for platelet disposal mediated by endothelial cells (ECs) through phosphatidylserine (PS) and examined the effect of platelet clearance on procoagulant activity (PCA) in sepsis. Platelets in septic patients demonstrated increased levels of surface activation markers and apoptotic vesicle formation, and also formed aggregates with leukocytes. Activated platelets adhered were and ultimately digested by ECs in vivo and in vitro. Blocking PS on platelets or αvβ3 integrin on ECs attenuated platelet clearance resulting in increased platelet count in a mouse model of sepsis. Furthermore, platelet removal by ECs resulted in a corresponding decrease in platelet-leukocyte complex formation and markedly reduced generation of factor Xa and thrombin on platelets. Pretreatment with lactadherin significantly increased phagocytosis of platelets by approximately 2-fold, diminished PCA by 70%, prolonged coagulation time, and attenuated fibrin formation by 50%. Our results suggest that PS-mediated clearance of activated platelets by the endothelium results in an anti-inflammatory, anticoagulant, and antithrombotic effect that contribute to maintaining platelet homeostasis during acute inflammation. These results suggest a new therapeutic target for impeding the development of DIC.
Preliminary estimates of the abundance and fidelity of dolphins associating with a demersal trawl fishery
Authors: Allen Simon J. , Pollock Kenneth H. , Bouchet Phil J. , Kobryn Halina T. , McElligott Deirdre B. , Nicholson Krista E. , Smith Joshua N. , Loneragan Neil R. 
Published: July 2017

AbstractThe incidental capture of wildlife in fishing gear presents a global conservation challenge. As a baseline to inform assessments of the impact of bycatch on bottlenose dolphins (Tursiops truncatus) interacting with an Australian trawl fishery, we conducted an aerial survey to estimate dolphin abundance across the fishery. Concurrently, we carried out boat-based dolphin photo-identification to assess short-term fidelity to foraging around trawlers, and used photographic and genetic data to infer longer-term fidelity to the fishery. We estimated abundance at ≈ 2,300 dolphins (95% CI = 1,247–4,214) over the ≈ 25,880-km2fishery. Mark-recapture estimates yielded 226 (SE = 38.5) dolphins associating with one trawler and some individuals photographed up to seven times over 12 capture periods. Moreover, photographic and genetic re-sampling over three years confirmed that some individuals show long-term fidelity to trawler-associated foraging. Our study presents the first abundance estimate for any Australian pelagic dolphin community and documents individuals associating with trawlers over days, months and years. Without trend data or correction factors for dolphin availability, the impact of bycatch on this dolphin population’s conservation status remains unknown. These results should be taken into account by management agencies assessing the impact of fisheries-related mortality on this protected species.
Monocular deprivation induces dendritic spine elimination in the developing mouse visual cortex
Authors: Zhou Yanmei , Lai Baoling , Gan Wen-Biao 
Published: July 2017

AbstractIt is well established that visual deprivation has a profound impact on the responsiveness of neurons in the developing visual cortex. The effect of visual deprivation on synaptic connectivity remains unclear. Using transcranial two-photon microscopy, we examined the effect of visual deprivation and subsequent recovery on dendritic spine remodeling of layer 5 pyramidal neurons in the mouse primary visual cortex. We found that monocular deprivation (MD), but not binocular deprivation (BD), increased dendritic spine elimination over 3 days in the binocular region of 4-week-old adolescent mice. This MD-induced dendritic spine elimination persisted during subsequent 2–4 days of binocular recovery. Furthermore, we found that average dendritic spine sizes were decreased and increased following 3-day MD and BD, respectively. These spine size changes induced by MD or BD tended to be reversed during subsequent binocular recovery. Taken together, these findings reveal differential effects of MD and BD on synaptic connectivity of layer 5 pyramidal neurons and underscore the persistent impact of MD on synapse loss in the developing visual cortex.
Resistance exercise initiates mechanistic target of rapamycin (mTOR) translocation and protein complex co-localisation in human skeletal muscle
Authors: Song Zhe , Moore Daniel R. , Hodson Nathan , Ward Carl , Dent Jessica R. , O’Leary Mary F. , Shaw Andrew M. , Hamilton D. Lee , Sarkar Sovan , Gangloff Yann-Gaël , Hornberger Troy A. , Spriet Lawrence L. , Heigenhauser George J. , Philp Andrew 
Published: July 2017

AbstractThe mechanistic target of rapamycin (mTOR) is a central mediator of protein synthesis in skeletal muscle. We utilized immunofluorescence approaches to study mTOR cellular distribution and protein-protein co-localisation in human skeletal muscle in the basal state as well as immediately, 1 and 3 h after an acute bout of resistance exercise in a fed (FED; 20 g Protein/40 g carbohydrate/1 g fat) or energy-free control (CON) state. mTOR and the lysosomal protein LAMP2 were highly co-localised in basal samples. Resistance exercise resulted in rapid translocation of mTOR/LAMP2 towards the cell membrane. Concurrently, resistance exercise led to the dissociation of TSC2 from Rheb and increased in the co-localisation of mTOR and Rheb post exercise in both FED and CON. In addition, mTOR co-localised with Eukaryotic translation initiation factor 3 subunit F (eIF3F) at the cell membrane post-exercise in both groups, with the response significantly greater at 1 h of recovery in the FED compared to CON. Collectively our data demonstrate that cellular trafficking of mTOR occurs in human muscle in response to an anabolic stimulus, events that appear to be primarily influenced by muscle contraction. The translocation and association of mTOR with positive regulators (i.e. Rheb and eIF3F) is consistent with an enhanced mRNA translational capacity after resistance exercise.
The Flying Saucer: Tomography of the thermal and density gas structure of an edge-on protoplanetary disk
Authors: Dutrey A. , Guilloteau S. , Piétu V. , Chapillon E. , Wakelam V. , Di Folco E. , Stoecklin T. , Denis-Alpizar O. , Gorti U. , Teague R. , Henning T. , Semenov D. , Grosso N. 
Published: July 2017

Context. Determining the gas density and temperature structures of protoplanetary disks is a fundamental task in order to constrain planet formation theories. This is a challenging procedure and most determinations are based on model-dependent assumptions.
Aims. We attempt a direct determination of the radial and vertical temperature structure of the Flying Saucer disk, thanks to its favorable inclination of 90 degrees.
Methods. We present a method based on the tomographic study of an edge-on disk. Using ALMA, we observe at 0.5″ resolution the Flying Saucer in CO J = 2–1 and CS J = 5–4. This edge-on disk appears in silhouette against the CO J = 2–1 emission from background molecular clouds in ρ Oph. The combination of velocity gradients due to the Keplerian rotation of the disk and intensity variations in the CO background as a function of velocity provide a direct measure of the gas temperature as a function of radius and height above the disk mid-plane.
Results. The overall thermal structure is consistent with model predictions, with a cold (<12−15 K) CO-depleted mid-plane and a warmer disk atmosphere. However, we find evidence for CO gas along the mid-plane beyond a radius of about 200 au, coincident with a change of grain properties. Such behavior is expected in the case of efficient rise of UV penetration re-heating the disk and thus allowing CO thermal desorption or favoring direct CO photo-desorption. CO is also detected at up to 3–4 scale heights, while CS is confined to around 1 scale height above the mid-plane. The limits of the method due to finite spatial and spectral resolutions are also discussed.
Conclusions. This method appears to be a very promising way to determine the gas structure of planet-forming disks, provided that the molecular data have an angular resolution which is high enough, on the order of 0.3−0.1″ at the distance of the nearest star-forming regions.
Institutional Outcomes of Leech Therapy for Venous Congestion in 87 Patients
Authors: Cornejo Agustin , Shammas Ronnie , Poveromo Luke , Lee Hui-Jie , Hollenbeck Scott 
Published: July 2017

Background We aimed to report the outcomes associated with leech therapy and to identify risk factors associated with reconstructive failure.
Methods We retrospectively reviewed cases of flap reconstruction or replanted appendages that required leech therapy over an 8-year period at the Duke University Medical Center. Using logistic regression, we assessed the association of risk factors with reconstructive failure.
Results The study cohort included 87 patients which correspond to 2.1% of 4,115 cases done during the study period. The most common flap recipient site was the lower extremity (n = 33, 37.9%) followed by the upper extremity (n = 30, 34.5%), head and neck (n = 13, 14.9%), and trunk (n = 11, 12.6%). Flap types were pedicled in 44 (50.5%) cases and free in 24 (27.5%) cases. Fifteen (17.2%) were digital replantation, and four (4.5%) were replanted appendages. The average duration of therapy was 4.6 days (range: 1–11). The overall leech therapy success rate was 60.9% (53/87) and accounted for cases without flap loss (n = 45, 51.7%) and with partial flap loss in which the original reconstructive goal was achieved without further reconstructive procedures (n = 8, 9.2%). Postoperative blood transfusion was administered in 32 (36.7%) cases, and infectious complications occurred in 7 cases in spite of the administration of prophylactic antibiotics (8%).
Conclusions This study represents the largest single-institution series evaluating the outcomes after leech therapy. Our data support the use of leeches as an adjunct for the management of venous congestion after reconstructive surgery. However, the morbidity associated with it should be considered, particularly the need for a blood transfusion.
Congenital Muscular Dystrophies and Myopathies: An Overview and Update
Authors: Kirschner Janbernd , Bönnemann Carsten , Schorling David 
Published: July 2017

AbstractWith continuous deciphering of the genetic background of congenital muscular dystrophies and congenital myopathies, some of the historic classifications based on clinical phenotypes or histopathological similarities have become blurred. With a growing number of associated genes, the general understanding of these disorders is shifting to a more genotype-based classification. Furthermore, establishing of the right genetic diagnosis involves new aspects of clinical care and therapeutic considerations for gene-specific phenotypes and pathology. In this review, we give an overview of the wide spectrum of clinical phenotypes of congenital muscular dystrophies and congenital myopathies, outline diagnostic considerations, and summarize recent advances in research for selected diseases.
Plasmatic and Intracellular Markers of Oxidative Stress in Normal Weight and Obese Patients with Polycystic Ovary Syndrome
Authors: Di Segni Chantal , Silvestrini Andrea , Fato Romana , Bergamini Christian , Guidi Francesco , Raimondo Sebastiano , Meucci Elisabetta , Romualdi Daniela , Apa Rosanna , Lanzone Antonio , Mancini Antonio 
Published: July 2017

Abstract
Introduction Insulin resistance (IR) is associated with polycystic ovary syndrome (PCOS). Oxidative stress (OS) is, in turn, related to IR. Studies in PCOS evidenced an increase in OS markers, but they are mainly performed in obese patients, while the complex picture of normal weight PCOS is still poorly investigated.
Matherials and Methods To investigate OS in PCOS and relationship with hormonal and metabolic picture, we performed a case-control study in 2 PCOS groups: normal weight (N-PCOS, n=21, age 18–25 ys, mean±SEM BMI 20.7±0.2 kg/m2) and obese (OB-PCOS, n=15, 20–30 ys, BMI 32.8±1.1), compared with control groups matched for BMI: normal (N-C, n=10, 20–30 ys, BMI 21.6±0.9) and obese (OB-C, n=20, 21–31ys, BMI 36.8±1.0). Malondialdehyde (MDA) in blood plasma and peripheral mononuclear cells, obtained by density-gradient centrifugation, was assayed spectrophotometrically by TBARS assay. CoenzymeQ10 (CoQ10) in plasma and cells was assayed by HPLC. Plasma Total Antioxidant Capacity (TAC) was also measured by spectrophotometric method.
Results PCOS patients exhibited higher Testosterone levels than controls, but OB-PCOS had highest HOMA (Homeostasis Model Assessment) index, suggesting marked insulin resistance. Despite plasma MDA levels were not significantly different (N-PCOS 3380±346.94 vs. N-C 7 120±541.66; OB-PCOS 5 517.5±853.9 vs. OB. 3 939.66±311.2 pmol/ml), intracellular MDA levels were significantly higher in N-PCOS than controls (mean 3 259±821.5 vs. 458±43.2 pmol/106/cells) and higher than OB-PCOS, although not significantly (1363.1±412.8 pmol/106/cells). Intracellular CoenzymeQ10 was higher in N-PCOS than in N-C, but the highest levels were found in OB-C.
Conclusions Our data, while confirming the presence of OS in obese PCOS patients in agreement with literature, suggest that OS could be present also in normal weight PCOS, but it can be revealed in tissue rather than in plasma. The relationship with metabolic status remains to be established, but could be a physiopathological basis for antioxidant treatment in such patients.