bluuebunny/crossref_metadata_2025_split huggingface dataset:
The origin of motif families in food webs
Authors: Klaise Janis , Johnson Samuel 
Published: November 2017

AbstractFood webs have been found to exhibit remarkable “motif profiles”, patterns in the relative prevalences of all possible three-species subgraphs, and this has been related to ecosystem properties such as stability and robustness. Analysing 46 food webs of various kinds, we find that most food webs fall into one of two distinct motif families. The separation between the families is well predicted by a global measure of hierarchical order in directed networks—trophic coherence. We find that trophic coherence is also a good predictor for the extent of omnivory, defined as the tendency of species to feed on multiple trophic levels. We compare our results to a network assembly model that admits tunable trophic coherence via a single free parameter. The model is able to generate food webs in either of the two families by varying this parameter, and correctly classifies almost all the food webs in our database. This is in contrast with the two most popular food web models, the generalized cascade and niche models, which can only generate food webs within a single motif family. Our findings suggest the importance of trophic coherence in modelling local preying patterns in food webs.
Differential distribution of Y-chromosome haplotypes in Swiss and Southern European goat breeds
Authors: Vidal Oriol , Drögemüller Cord , Obexer-Ruff Gabriela , Reber Irene , Jordana Jordi , Martínez Amparo , Bâlteanu Valentin Adrian , Delgado Juan Vicente , Eghbalsaied Shahin , Landi Vincenzo , Goyache Felix , Traoré Amadou , Pazzola Michele , Vacca Giuseppe Massimo , Badaoui Bouabid , Pilla Fabio , D’Andrea Mariasilvia , Álvarez Isabel , Capote Juan , Sharaf Abdoallah , Pons Àgueda , Amills Marcel 
Published: November 2017

AbstractThe analysis of Y-chromosome variation has provided valuable clues about the paternal history of domestic animal populations. The main goal of the current work was to characterize Y-chromosome diversity in 31 goat populations from Central Eastern (Switzerland and Romania) and Southern Europe (Spain and Italy) as well as in reference populations from Africa and the Near East. Towards this end, we have genotyped seven single nucleotide polymorphisms (SNPs), mapping to the SRY, ZFY, AMELY and DDX3Y Y-linked loci, in 275 bucks from 31 populations. We have observed a low level of variability in the goat Y-chromosome, with just five haplotypes segregating in the whole set of populations. We have also found that Swiss bucks carry exclusively Y1 haplotypes (Y1A: 24%, Y1B1: 15%, Y1B2: 43% and Y1C: 18%), while in Italian and Spanish bucks Y2A is the most abundant haplotype (77%). Interestingly, in Carpathian goats from Romania the Y2A haplotype is also frequent (42%). The high Y-chromosome differentiation between Swiss and Italian/Spanish breeds might be due to the post-domestication spread of two different Near Eastern genetic stocks through the Danubian and Mediterranean corridors. Historical gene flow between Southern European and Northern African goats might have also contributed to generate such pattern of genetic differentiation.
Functional anatomy of a giant toothless mandible from a bird-like dinosaur: Gigantoraptor and the evolution of the oviraptorosaurian jaw
Authors: Ma Waisum , Wang Junyou , Pittman Michael , Tan Qingwei , Tan Lin , Guo Bin , Xu Xing 
Published: November 2017

AbstractThe Oviraptorosauria are a group of theropod dinosaurs that diverged from the typical carnivorous theropod diet. It includes two main lineages – Caenagnathidae and Oviraptoridae – that display a number of differences in mandibular morphology, but little is known about their functional consequences, hampering our understanding of oviraptorosaurian dietary evolution. This study presents the first in-depth description of the giant toothless mandible ofGigantoraptor, the only well-preserved stemward caenagnathid mandible. This mandible shows the greatest relative beak depth among caenagnathids, which is an adaptation seen in some modern birds for processing harder seeds. The presence of a lingual triturating shelf in caenagnathids more crownward thanGigantoraptorsuggests a possible increased specialization towards shearing along this lineage. Like other oviraptorosaurs, the possession of a dorsally convex articular glenoid inGigantoraptorindicates that propalinal jaw movement was probably an important mechanism for food processing, as inSphenodonand dicynodonts. Oviraptorid mandibles were more suited for producing powerful bites (e.g. crushing-related) compared to caenagnathids: oviraptorids generally possess a deeper, more downturned beak, a taller coronoid process prominence and a larger medial mandibular fossa. This disparity in caenagnathid and oviraptorid mandible morphology potentially suggests specialization towards two different feeding styles – shearing and crushing-related mechanisms respectively.
Emergence of tick-borne diseases at northern latitudes in Europe: a comparative approach
Authors: Mysterud Atle , Jore Solveig , Østerås Olav , Viljugrein Hildegunn 
Published: November 2017

AbstractThe factors that drive the emergence of vector-borne diseases are difficult to identify due to the complexity of the pathogen-vector-host triad. We used a novel comparative approach to analyse four long-term datasets (1995–2015) on the incidence of tick-borne diseases in humans and livestock (Lyme disease, anaplasmosis and babesiosis) over a geographic area that covered the whole of Norway. This approach allowed us to separate general (shared vector) and specific (pathogen reservoir host) limiting factors of tick-borne diseases, as well as the role of exposure (shared and non-shared pathogens in different hosts). We found broadly similar patterns of emergence across the four tick-borne diseases. Following initial increases during the first decade of the time series, the numbers of cases peaked at slightly different years and then stabilized or declined in the most recent years. Contrasting spatial patterns of disease incidence were consistent with exposure to ticks being an important factor influencing disease incidence in livestock. Uncertainty regarding the reservoir host(s) of the pathogens causing anaplasmosis and babesiosis prevented a firm conclusion regarding the role of the reservoir host-pathogen distribution. Our study shows that the emergence of tick-borne diseases at northern latitudes is linked to the shared tick vector and that variation in host-pathogen distribution and exposure causes considerable variation in emergence.
Temperature dependence of the single photon emission from interface-fluctuation GaN quantum dots
Authors: Le Roux F. , Gao K. , Holmes M. , Kako S. , Arita M. , Arakawa Y. 
Published: November 2017

AbstractThe temperature dependent single photon emission statistics of interface-fluctuation GaN quantum dots are reported. Quantum light emission is confirmed at temperatures up to ~77 K, by which point the background emission degrades the emission purity and results in a measured g(2) (0) in excess of 0.5. A discussion on the extent of the background contamination is also given through comparison to extensive data taken under various ambient and experimental conditions, revealing that the quantum dots themselves are emitting single photons with high purity.
Measuring tissue displacement of the anterior vaginal wall using the novel aspiration technique in vivo
Authors: Röhrnbauer Barbara , Betschart Cornelia , Perucchini Daniele , Bajka Michael , Fink Daniel , Maake Caroline , Mazza Edoardo , Scheiner David Amos 
Published: November 2017

AbstractLittle is known about the mechanical properties of pelvic floor structures and their role in the course and treatment of pelvic organ prolapse (POP). We hypothesize that in vivo mechanical properties of the vaginal wall are related to the appearance of POP and pre-and post-operative states. We used a suction device for intravaginal application, the aspiration device, to evaluate two in vivo mechanical parameters of the anterior vaginal wall, the load dependent tissue displacement and the initial displacement, by image analysis in pre- and post-menopausal women with (POP) and without (control) cystocele (POP: pre-menopausal: N = 6, post-menopausal: N = 19, control: pre-menopausal: N = 17, post-menopausal: N = 6). Mechanical parameters in women with and without cystocele and pre- and post-operative parameters were compared. Statistically significant differences were observed between the two mechanical parameters in pre- and post-operative states (P = 0.04, P = 0.03), but not between the parameters for women with and without cystocele (P = 0.92, P = 0.75). The mechanical behavior of pelvic floor structures is influenced by factors such as POP, age or estrogenization that are apparent at different length scales, which cannot be separated by the aspiration based biomechanical measurements. When comparing pre- and post-operative states of the same patient, a firmer tissue response was observed after intervention.
Tailoring the structural, morphological, optical and dielectric properties of lead iodide through Nd3+ doping
Authors: Shkir Mohd. , AlFaify S. 
Published: November 2017

AbstractHexagonal single crystal nanosheets of Nd3+ doped PbI2 were effortlessly synthesized via microwave-assisted technique under a power of 700 W and in a duration of 15 minutes with a homogeneous morphology. X-ray diffraction, energy dispersive X-ray spectroscope, scanning electron microscope, FT-Raman, UV-Visible, photoluminescence and dielectric measurement were employed to study the product. High purity, single phase and presence of Nd3+ doping was confirmed. SEM study confirm the formation of nanorods and single crystal nanosheets of very few nanometers in size. Robust vibrational analysis has been carried out and the observed bands are assigned to the vibration modes of E21, A11, A12, 2E21 and 2E11, respectively. These bands are red-shifted when compare to the corresponding bulk values which indicate relaxed nanostructure formation and occurrence of confinement effect. The thickness of the synthesized single crystal nanosheets are found to be in the range of ~20 to 30 nm. The energy band gap was calculated and found to be 3.35, 3.34, 3.42 and 3.39 eV for pure, 1, 3 and 5% Nd3+ doped lead iodide, respectively. The clear blue luminescence has been observed at 440 nm and 466 nm when excited at 250 nm and 280 nm respectively. Dielectric and ac electrical conductivity was also measured and discussed.
Ultra-wideband polarization conversion metasurface and its application cases for antenna radiation enhancement and scattering suppression
Authors: Zheng Yuejun , Zhou Yulong , Gao Jun , Cao Xiangyu , Yang Huanhuan , Li Sijia , Xu Liming , Lan Junxiang , Jidi Liaori 
Published: November 2017

AbstractA double-layer complementary metasurface (MS) with ultra-wideband polarization conversion is presented. Then, we propose two application cases by applying the polarization conversion structures to aperture coupling patch antenna (ACPA). Due to the existence of air-filled gap of ACPA, air substrate and dielectric substrate are used to construct the double-layer MS. The polarization conversion bandwidth is broadened toward low-frequency range. Subsequently, two application cases of antenna are proposed and investigated. The simultaneous improvement of radiation and scattering performance of antenna is normally considered as a contradiction. Gratifyingly, the contradiction is addressed in these two application cases. According to different mechanism of scattering suppression (i.e., polarization conversion and phase cancellation), the polarization conversion structures are utilized to construct uniform and orthogonal arrangement configurations. And then, the configurations are integrated into ACPA and two different kinds of metasurface-based (MS-based) ACPA are formed. Radiation properties of the two MS-based ACPAs are improved by optimizing the uniform and orthogonal arrangement configurations. The measured results suggest that ultra-wideband polarization conversion properties of the MS are achieved and radiation enhancement and scattering suppression of the two MS-based ACPAs are obtained. These results demonstrate that we provide novel approach to design high-performance polarization conversion MS and MS-based devices.
Lysine Possesses the Optimal Chain Length for Histone Lysine Methyltransferase Catalysis
Authors: Temimi Abbas H. K. Al , Reddy Y. Vijayendar , White Paul B. , Guo Hong , Qian Ping , Mecinović Jasmin 
Published: November 2017

AbstractHistone lysine methyltransferases (KMTs) represent an important class of epigenetic enzymes that play essential roles in regulation of gene expression in humans. Members of the KMT family catalyze the transfer of the methyl group fromS-adenosylmethionine (SAM) to lysine residues in histone tails and core histones. Here we report combined MALDI-TOF MS experiments, NMR analyses and quantum mechanical/molecular dynamics studies on human KMT-catalyzed methylation of the most related shorter and longer lysine analogues, namely ornithine and homolysine, in model histone peptides. Our experimental work demonstrates that while lysine is an excellent natural substrate for KMTs, ornithine and homolysine are not. This study reveals that ornithine does not undergo KMT-catalyzed methylation reactions, whereas homolysine can be methylated by representative examples of human KMTs. The results demonstrate that the specificity of KMTs is highly sensitive to the side chain length of the residue to be methylated. The origin for the degree of the observed activities of KMTs on ornithine and homolysine is discussed.
Prokaryotic soluble expression and purification of bioactive human fibroblast growth factor 21 using maltose-binding protein
Authors: Nguyen Anh Ngoc , Song Jung-A , Nguyen Minh Tan , Do Bich Hang , Kwon Grace G. , Park Sang Su , Yoo Jiwon , Jang Jaepyeong , Jin Jonghwa , Osborn Mark J. , Jang Yeon Jin , Thi Vu Thu Trang , Oh Heung-Bum , Choe Han 
Published: November 2017

AbstractHuman fibroblast growth factor 21 (hFGF21) has been characterized as an important regulator of glucose and lipid metabolism homeostasis. Here, to produce hFGF21 efficiently in Escherichia coli, the expression and solubility of hFGF21 were tested and optimised by fusing the protein with one of eight tags: hexahistidine (His6), thioredoxin (Trx), small ubiquitin-related modifier (Sumo), glutathione S-transferase (GST), maltose-binding protein (MBP), N-utilisation substance protein A (NusA), human protein disulphide isomerase (PDI), and the b′a′ domain of PDI (PDIb′a′). Each tag increased solubility of the protein when the expression temperature was 18°C. Unlike many other tags that were tested, MBP significantly enhanced the solubility of the protein also in the culture condition at 37°C. Thus, the MBP-hFGF21 construct was further pursued for optimisation of affinity chromatography purification. After tag removal, 8.1 mg of pure hFGF21 was obtained as a final product from 500 mL of starting culture. The protein was then characterised by mass spectroscopy and an in vitro functional assay using NIH-3T3 cells transfected with a β-klotho reporter gene. These characteristics are similar to those of commercial hFGF21. Thus, the MBP tag is useful for efficient prokaryotic production and purification of bioactive hFGF21.
An in vivo biosensing, biomimetic electrochemical transistor with applications in plant science and precision farming
Authors: Coppedè Nicola , Janni Michela , Bettelli Manuele , Maida Calogero Leandro , Gentile Francesco , Villani Marco , Ruotolo Roberta , Iannotta Salvatore , Marmiroli Nelson , Marmiroli Marta , Zappettini Andrea 
Published: November 2017

AbstractThein vivomonitoring of key plant physiology parameters will be a key enabler of precision farming. Here, a biomimetic textile-based biosensor, which can be inserted directly into plant tissue is presented: the device is able to monitor,in vivoand in real time, variations in the solute content of the plant sap. The biosensor has no detectable effect on the plant’s morphology even after six weeks of continuous operation. The continuous monitoring of the sap electrolyte concentration in a growing tomato plant revealed a circadian pattern of variation. The biosensor has the potential to detect the signs of abiotic stress, and therefore might be exploited as a powerful tool to study plant physiology and to increase tomato growth sustainability. Also, it can continuously communicate the plant health status, thus potentially driving the whole farm management in the frame of smart agriculture.
Centiloid method evaluation for amyloid PET of subcortical vascular dementia
Authors: Yun Hyuk Jin , Moon Seung Hwan , Kim Hee Jin , Lockhart Samuel N. , Choe Yearn Seong , Lee Kyung Han , Na Duk L. , Lee Jong-Min , Seo Sang Won 
Published: November 2017

AbstractReference region selection is important for proper amyloid PET analysis, especially in subcortical vascular dementia (SVaD) patients. We investigated reference region differences between SVaD and Alzheimer’s disease (AD) using Centiloid scores. In 57 [C-11] Pittsburgh compound B (PiB) positive (+) AD and 23 PiB (+) SVaD patients, we assessed standardized PiB uptake and Centiloid scores in disease-specific cortical regions, with several reference regions: cerebellar gray (CG), whole cerebellum (WC), WC with brainstem (WC + B), pons, and white matter (WM). We calculated disease group differences from young controls (YC) and YC variance according to reference region. SVaD patients showed large effect sizes (Cohen’s d > 0.8) using all reference regions. WM and pons showed larger YC variances than other regions. Findings were similar for AD patients. CG, WC, and WC + B, but not WM or pons, are reliable reference regions for amyloid imaging analysis in SVaD.
Can Niche Modeling and Geometric Morphometrics Document Competitive Exclusion in a Pair of Subterranean Rodents (Genus Ctenomys) with Tiny Parapatric Distributions?
Authors: Kubiak Bruno B. , Gutiérrez Eliécer E. , Galiano Daniel , Maestri Renan , Freitas Thales R. O. de 
Published: November 2017

AbstractSpecies with similar ecological requirements coexisting in the same geographic region are prone to competitively exclude each other. Alternatively, they may coexist if character displacement acts to change the niche requirements of one or both species. We used two methodological approaches (ecological niche modeling [ENM] and geometric morphometrics) to test two hypotheses: given their behavioral, morphological, and ecological similarities, one species competitively excludes the other; and, character displacement enables their coexistence at two sites in which the species are known to occur in sympatry. The results from the ENM-based approach did not provide evidence for competitive exclusion; however, the morphometric analyses documented displacement in size of C. minutus. This result, suggests that C. minutus might exclude C. flamarioni from areas with softer soils and higher food availability. We stress the importance of using multiple methodological approaches when testing prediction of competitive exclusion. However, both methods had limited explanatory power given that the focal species possess truly peculiar distributions, being largely parapatric and restricted to narrow, small geographic areas with a strange distribution and there is a need to search for additional methods. We discuss the idiosyncrasy of the ENM-based approach when applied to organisms with subterranean habits.
Gene Therapy Restores Mfrp and Corrects Axial Eye Length
Authors: Velez Gabriel , Tsang Stephen H. , Tsai Yi-Ting , Hsu Chun-Wei , Gore Anuradha , Abdelhakim Aliaa H. , Mahajan MaryAnn , Silverman Ronald H. , Sparrow Janet R. , Bassuk Alexander G. , Mahajan Vinit B. 
Published: November 2017

AbstractHyperopia (farsightedness) is a common and significant cause of visual impairment, and extreme hyperopia (nanophthalmos) is a consequence of loss-of-function MFRP mutations. MFRP deficiency causes abnormal eye growth along the visual axis and significant visual comorbidities, such as angle closure glaucoma, cystic macular edema, and exudative retinal detachment. The Mfrp
rd6
/Mfrp
rd6
mouse is used as a pre-clinical animal model of retinal degeneration, and we found it was also hyperopic. To test the effect of restoring Mfrp expression, we delivered a wild-type Mfrp to the retinal pigmented epithelium (RPE) of Mfrp
rd6
/Mfrp
rd6
mice via adeno-associated viral (AAV) gene therapy. Phenotypic rescue was evaluated using non-invasive, human clinical testing, including fundus auto-fluorescence, optical coherence tomography, electroretinography, and ultrasound. These analyses showed gene therapy restored retinal function and normalized axial length. Proteomic analysis of RPE tissue revealed rescue of specific proteins associated with eye growth and normal retinal and RPE function. The favorable response to gene therapy in Mfrp
rd6
/Mfrp
rd6
mice suggests hyperopia and associated refractive errors may be amenable to AAV gene therapy.
Towards personalised allele-specific CRISPR gene editing to treat autosomal dominant disorders
Authors: Christie Kathleen A. , Courtney David G. , DeDionisio Larry A. , Shern Connie Chao , De Majumdar Shyamasree , Mairs Laura C. , Nesbit M. Andrew , Moore C. B. Tara 
Published: November 2017

AbstractCRISPR/Cas9 holds immense potential to treat a range of genetic disorders. Allele-specific gene disruption induced by non-homologous end-joining (NHEJ) DNA repair offers a potential treatment option for autosomal dominant disease. Here, we successfully delivered a plasmid encoding S. pyogenes Cas9 and sgRNA to the corneal epithelium by intrastromal injection and acheived long-term knockdown of a corneal epithelial reporter gene, demonstrating gene disruption via NHEJ in vivo. In addition, we used TGFBI corneal dystrophies as a model of autosomal dominant disease to assess the use of CRISPR/Cas9 in two allele-specific systems, comparing cleavage using a SNP-derived PAM to a guide specific approach. In vitro, cleavage via a SNP-derived PAM was found to confer stringent allele-specific cleavage, while a guide-specific approach lacked the ability to distinguish between the wild-type and mutant alleles. The failings of the guide-specific approach highlights the necessity for meticulous guide design and assessment, as various degrees of allele-specificity are achieved depending on the guide sequence employed. A major concern for the use of CRISPR/Cas9 is its tendency to cleave DNA non-specifically at “off-target” sites. Confirmation that S. pyogenes Cas9 lacks the specificity to discriminate between alleles differing by a single base-pair regardless of the position in the guide is demonstrated.