bluuebunny/crossref_metadata_2025_split huggingface dataset:
A lake data set for the Tibetan Plateau from the 1960s, 2005, and 2014
Authors: Wan Wei , Long Di , Hong Yang , Ma Yingzhao , Yuan Yuan , Xiao Pengfeng , Duan Hongtao , Han Zhongying , Gu Xingfa 
Published: June 2016

AbstractLong-term datasets of number and size of lakes over the Tibetan Plateau (TP) are among the most critical components for better understanding the interactions among the cryosphere, hydrosphere, and atmosphere at regional and global scales. Due to the harsh environment and the scarcity of data over the TP, data accumulation and sharing become more valuable for scientists worldwide to make new discoveries in this region. This paper, for the first time, presents a comprehensive and freely available data set of lakes’ status (name, location, shape, area, perimeter, etc.) over the TP region dating back to the 1960s, including three time series, i.e., the 1960s, 2005, and 2014, derived from ground survey (the 1960s) or high-spatial-resolution satellite images from the China-Brazil Earth Resources Satellite (CBERS) (2005) and China’s newly launched GaoFen-1 (GF-1, which means high-resolution images in Chinese) satellite (2014). The data set could provide scientists with useful information for revealing environmental changes and mechanisms over the TP region.

Design Type(s)
time series design • observation design • data integration objective

Measurement Type(s)
lake topography

Technology Type(s)
remote sensing

Factor Type(s)

Sample Characteristic(s)
Tibetan Plateau • Qaidam Basin • Amu Darya • Brahmaputra River • River Ganges • Hexi District • Indus River • Mekong River • Salween River • Tarim Basin • Yangtze River • Yellow River • endorheic lake • exorheic lake

Machine-accessible metadata file describing the reported data (ISA-Tab format)
A database of marine phytoplankton abundance, biomass and species composition in Australian waters
Authors: Davies Claire H. , Coughlan Alex , Hallegraeff Gustaaf , Ajani Penelope , Armbrecht Linda , Atkins Natalia , Bonham Prudence , Brett Steve , Brinkman Richard , Burford Michele , Clementson Lesley , Coad Peter , Coman Frank , Davies Diana , Dela-Cruz Jocelyn , Devlin Michelle , Edgar Steven , Eriksen Ruth , Furnas Miles , Hassler Christel , Hill David , Holmes Michael , Ingleton Tim , Jameson Ian , Leterme Sophie C. , Lønborg Christian , McLaughlin James , McEnnulty Felicity , McKinnon A. David , Miller Margaret , Murray Shauna , Nayar Sasi , Patten Renee , Pausina Sarah A. , Pritchard Tim , Proctor Roger , Purcell-Meyerink Diane , Raes Eric , Rissik David , Ruszczyk Jason , Slotwinski Anita , Swadling Kerrie M. , Tattersall Katherine , Thompson Peter , Thomson Paul , Tonks Mark , Trull Thomas W. , Uribe-Palomino Julian , Waite Anya M. , Yauwenas Rouna , Zammit Anthony , Richardson Anthony J. 
Published: June 2016

AbstractThere have been many individual phytoplankton datasets collected across Australia since the mid 1900s, but most are unavailable to the research community. We have searched archives, contacted researchers, and scanned the primary and grey literature to collate 3,621,847 records of marine phytoplankton species from Australian waters from 1844 to the present. Many of these are small datasets collected for local questions, but combined they provide over 170 years of data on phytoplankton communities in Australian waters. Units and taxonomy have been standardised, obviously erroneous data removed, and all metadata included. We have lodged this dataset with the Australian Ocean Data Network (http://portal.aodn.org.au/) allowing public access. The Australian Phytoplankton Database will be invaluable for global change studies, as it allows analysis of ecological indicators of climate change and eutrophication (e.g., changes in distribution; diatom:dinoflagellate ratios). In addition, the standardised conversion of abundance records to biomass provides modellers with quantifiable data to initialise and validate ecosystem models of lower marine trophic levels.
A protocol to convert spatial polyline data to network formats and applications to world urban road networks
Authors: Karduni Alireza , Kermanshah Amirhassan , Derrible Sybil 
Published: June 2016

AbstractThe study of geographical systems as graphs, and networks has gained significant momentum in the academic literature as these systems possess measurable and relevant network properties. Crowd-based sources of data such as OpenStreetMaps (OSM) have created a wealth of worldwide geographic information including on transportation systems (e.g., road networks). In this work, we offer a Geographic Information Systems (GIS) protocol to transfer polyline data into a workable network format in the form of; a node layer, an edge layer, and a list of nodes/edges with relevant geographic information (e.g., length). Moreover, we have developed an ArcGIS tool to perform this protocol on OSM data, which we have applied to 80 urban areas in the world and made the results freely available. The tool accounts for crossover roads such as ramps and bridges. A separate tool is also made available for planar data and can be applied to any line features in ArcGIS.
Biocontrol of the oriental armyworm, Mythimna separata, by the tachinid fly Exorista civilis is synergized by Cry1Ab protoxin
Authors: Jiang Xingfu , Zhang Lei , Yang Haixia , Sappington Thomas W. , Cheng Yunxia , Luo Li zhi 
Published: June 2016

AbstractTritrophic interactions between Mythimna separata, its tachinid parasite Exorista civilis and the Cry1Ab were examined. Although 6th instar M. separata mortality increased with increasing Cry1Ab concentration, some tolerance was evident. Likewise, parasitization by E. civilis resulted in only 18% host mortality. However, combination of Cry1Ab and E. civilis parasitization resulted in a significant Cry1Ab dose-dependent increase in mortality over that of either alone, including a 50–56% synergistic increase in efficacy at the two concentrations tested. Pupal weight, adult emergence and lifetime fecundity of M. separata derived from larvae surviving both agents were negatively affected. The ability of E. civilis to parasitize and subsequently develop on the host was not adversely influenced by Cry1Ab. Instead, pupation rate increased significantly among host larvae fed 3.125 μg/g Cry1Ab diet. Overall, our results demonstrate that use of Cry1Ab to control M. separata not only is compatible with the use of the tachinid parasitoid, but that the two methods can act synergistically to manage this destructive pest, provide support for the safety of transgenic Cry1Ab Bt plants in China. This example of two independent pest management strategies acting synergistically against a difficult pest offers a new perspective of broad significance in striving for agricultural sustainability.
The polysialic acid mimetics 5-nonyloxytryptamine and vinorelbine facilitate nervous system repair
Authors: Saini Vedangana , Lutz David , Kataria Hardeep , Kaur Gurcharan , Schachner Melitta , Loers Gabriele 
Published: June 2016

AbstractPolysialic acid (PSA) is a large negatively charged glycan mainly attached to the neural cell adhesion molecule (NCAM). Several studies have shown that it is important for correct formation of brain circuitries during development and for synaptic plasticity, learning and memory in the adult. PSA also plays a major role in nervous system regeneration following injury. As a next step for clinical translation of PSA based therapeutics, we have previously identified the small organic compounds 5-nonyloxytryptamine and vinorelbine as PSA mimetics. Activity of 5-nonyloxytryptamine and vinorelbine had been confirmed in assays with neural cells from the central and peripheral nervous system in vitro and shown to be independent of their function as serotonin receptor 5-HT1B/1D agonist or cytostatic drug, respectively. As we show here in an in vivo paradigm for spinal cord injury in mice, 5-nonyloxytryptamine and vinorelbine enhance regain of motor functions, axonal regrowth, motor neuron survival and remyelination. These data indicate that 5-nonyloxytryptamine and vinorelbine may be re-tasked from their current usage as a 5-HT1B/1D agonist or cytostatic drug to act as mimetics for PSA to stimulate regeneration after injury in the mammalian nervous system.
Efficient generation of transgenic cattle using the DNA transposon and their analysis by next-generation sequencing
Authors: Yum Soo-Young , Lee Song-Jeon , Kim Hyun-Min , Choi Woo-Jae , Park Ji-Hyun , Lee Won-Wu , Kim Hee-Soo , Kim Hyeong-Jong , Bae Seong-Hun , Lee Je-Hyeong , Moon Joo-Yeong , Lee Ji-Hyun , Lee Choong-Il , Son Bong-Jun , Song Sang-Hoon , Ji Su-Min , Kim Seong-Jin , Jang Goo 
Published: June 2016

AbstractHere, we efficiently generated transgenic cattle using two transposon systems (Sleeping Beauty and Piggybac) and their genomes were analyzed by next-generation sequencing (NGS). Blastocysts derived from microinjection of DNA transposons were selected and transferred into recipient cows. Nine transgenic cattle have been generated and grown-up to date without any health issues except two. Some of them expressed strong fluorescence and the transgene in the oocytes from a superovulating one were detected by PCR and sequencing. To investigate genomic variants by the transgene transposition, whole genomic DNA were analyzed by NGS. We found that preferred transposable integration (TA or TTAA) was identified in their genome. Even though multi-copies (i.e. fifteen) were confirmed, there was no significant difference in genome instabilities. In conclusion, we demonstrated that transgenic cattle using the DNA transposon system could be efficiently generated, and all those animals could be a valuable resource for agriculture and veterinary science.
Factors influencing immunologic response to hepatitis B vaccine in adults
Authors: Yang Shigui , Tian Guo , Cui Yuanxia , Ding Cheng , Deng Min , Yu Chengbo , Xu Kaijin , Ren Jingjing , Yao Jun , Li Yiping , Cao Qing , Chen Ping , Xie Tiansheng , Wang Chencheng , Wang Bing , Mao Chen , Ruan Bing , Jiang Tian’an , Li Lanjuan 
Published: June 2016

AbstractHepatitis B was still a worldwide health problem. This study aimed to conducted a systematic review and meta-analysis to assess a more precise estimation of factors that influence the response to hepatitis B vaccine in adults. Our included studies examined seroprotection rates close to the end of vaccination schedules in healthy adult populations. This meta-analysis including 21053 adults in 37 articles showed that a significantly decreased response to hepatitis B vaccine appeared in adults (age ≥ 40) (RR:1.86, 95% CI:1.55–2.23), male adults (RR:1.40, 95% CI:1.22–1.61), BMI ≥ 25 adults (RR:1.56, 95% CI:1.12–2.17), smoker (RR:1.53, 95% CI:1.21–1.93), and adults with concomitant disease (RR:1.39, 95% CI:1.04–1.86). Meanwhile, we further found a decreased response to hepatitis B vaccine appeared in adults (age ≥ 30) (RR:1.77, 95% CI:1.48–2.10), and adults (age ≥ 60) (RR:1.30, 95% CI:1.01–1.68). However, there were no difference in response to hepatitis B vaccine both in alcoholic (RR:0.90, 95% CI:0.64–1.26) and 0-1-12 vs. 0-1-6 vaccination schedule (RR:1.39, 95% CI:0.41–4.67). Pooling of these studies recommended the sooner the better for adult hepatitis B vaccine strategy. More vaccine doses, supplemental/additional strengthening immunity should be emphasized on the susceptible population of increasing aged, male, BMI ≥ 25, smoking and concomitant disease. The conventional 0-1-6 vaccination schedule could be still worth to be recommended.
Optimizing the robustness of electrical power systems against cascading failures
Authors: Zhang Yingrui , Yağan Osman 
Published: June 2016

AbstractElectrical power systems are one of the most important infrastructures that support our society. However, their vulnerabilities have raised great concern recently due to several large-scale blackouts around the world. In this paper, we investigate the robustness of power systems against cascading failures initiated by a random attack. This is done under a simple yet useful model based on global and equal redistribution of load upon failures. We provide a comprehensive understanding of system robustness under this model by (i) deriving an expression for the final system size as a function of the size of initial attacks; (ii) deriving the critical attack size after which system breaks down completely; (iii) showing that complete system breakdown takes place through a first-order (i.e., discontinuous) transition in terms of the attack size; and (iv) establishing the optimal load-capacity distribution that maximizes robustness. In particular, we show that robustness is maximized when the difference between the capacity and initial load is the same for all lines; i.e., when all lines have the same redundant space regardless of their initial load. This is in contrast with the intuitive and commonly used setting where capacity of a line is a fixed factor of its initial load.
A Simplified Direct Lipid Mixing Lipoplex Preparation: Comparison of Liposomal-, Dimethylsulfoxide-, and Ethanol-Based Methods
Authors: Meisel Joseph W. , Gokel George W. 
Published: June 2016

AbstractEstablished transfection methodology often uses commercial reagents, which must be formed into liposomes in a sequence of about half a dozen steps. The simplified method reported here is a direct lipid mixing approach that requires fewer steps, less manipulation, and is less time-consuming. Results are comparable to those obtained with more commonly used methods, as judged by a variety of analytical techniques and by comparisons of transfection results. The method reported here may be applied to non-liposome-forming compounds, thereby greatly expanding the range of structures that can be tested for transfection ability.
Improvement of the reverse tetracycline transactivator by single amino acid substitutions that reduce leaky target gene expression to undetectable levels
Authors: Roney Ian J. , Rudner Adam D. , Couture Jean-François , Kærn Mads 
Published: June 2016

AbstractConditional gene expression systems that enable inducible and reversible transcriptional control are essential research tools and have broad applications in biomedicine and biotechnology. The reverse tetracycline transcriptional activator is a canonical system for engineered gene expression control that enables graded and gratuitous modulation of target gene transcription in eukaryotes from yeast to human cell lines and transgenic animals. However, the system has a tendency to activate transcription even in the absence of tetracycline and this leaky target gene expression impedes its use. Here, we identify single amino-acid substitutions that greatly enhance the dynamic range of the system in yeast by reducing leaky transcription to undetectable levels while retaining high expression capacity in the presence of inducer. While the mutations increase the inducer concentration required for full induction, additional sensitivity-enhancing mutations can compensate for this effect and confer a high degree of robustness to the system. The novel transactivator variants will be useful in applications where tight and tunable regulation of gene expression is paramount.
The embryological basis of subclinical hypertrophic cardiomyopathy
Authors: Captur Gabriella , Ho Carolyn Y. , Schlossarek Saskia , Kerwin Janet , Mirabel Mariana , Wilson Robert , Rosmini Stefania , Obianyo Chinwe , Reant Patricia , Bassett Paul , Cook Andrew C. , Lindsay Susan , McKenna William J. , Mills Kevin , Elliott Perry M. , Mohun Timothy J. , Carrier Lucie , Moon James C. 
Published: June 2016

AbstractHypertrophic cardiomyopathy (HCM) is caused by mutations in sarcomeric proteins, the commonest being MYBPC3 encoding myosin-binding protein C. It is characterised by left ventricular hypertrophy but there is an important pre-hypertrophic phenotype with features including crypts, abnormal mitral leaflets and trabeculae. We investigated these during mouse cardiac development using high-resolution episcopic microscopy. In embryonic hearts from wildtype, homozygous (HO) and heterozygous (HET) Mybpc3-targeted knock-out (KO) mice we show that crypts (one or two) are a normal part of wildtype development but they almost all resolve by birth. By contrast, HO and HET embryos had increased crypt presence, abnormal mitral valve formation and alterations in the compaction process. In scarce normal human embryos, crypts were sometimes present. This study shows that features of the human pre-hypertrophic HCM phenotype occur in the mouse. In an animal model we demonstrate that there is an embryological HCM phenotype. Crypts are a normal part of cardiac development but, along with the mitral valve and trabeculae, their developmental trajectory is altered by the presence of HCM truncating Mybpc3 gene mutation.
Real world ocean rogue waves explained without the modulational instability
Authors: Fedele Francesco , Brennan Joseph , Ponce de León Sonia , Dudley John , Dias Frédéric 
Published: June 2016

AbstractSince the 1990s, the modulational instability has commonly been used to explain the occurrence of rogue waves that appear from nowhere in the open ocean. However, the importance of this instability in the context of ocean waves is not well established. This mechanism has been successfully studied in laboratory experiments and in mathematical studies, but there is no consensus on what actually takes place in the ocean. In this work, we question the oceanic relevance of this paradigm. In particular, we analyze several sets of field data in various European locations with various tools and find that the main generation mechanism for rogue waves is the constructive interference of elementary waves enhanced by second-order bound nonlinearities and not the modulational instability. This implies that rogue waves are likely to be rare occurrences of weakly nonlinear random seas.
Brain hemodynamic activity during viewing and re-viewing of comedy movies explained by experienced humor
Authors: Jääskeläinen Iiro P. , Pajula Juha , Tohka Jussi , Lee Hsin-Ju , Kuo Wen-Jui , Lin Fa-Hsuan 
Published: June 2016

AbstractHumor is crucial in human social interactions. To study the underlying neural processes, three comedy clips were shown twice to 20 volunteers during functional magnetic resonance imaging (fMRI). Inter-subject similarities in humor ratings, obtained immediately after fMRI, explained inter-subject correlation of hemodynamic activity in right frontal pole and in a number of other brain regions. General linear model analysis also indicated activity in right frontal pole, as well as in additional cortical areas and subcortically in striatum, explained by humorousness. The association of the right frontal pole with experienced humorousness is a novel finding, which might be related to humor unfolding over longer time scales in the movie clips. Specifically, frontal pole has been shown to exhibit longer temporal receptive windows than, e.g., sensory areas, which might have enabled processing of humor in the clips based on holding information and reinterpreting that in light of new information several (even tens of) seconds later. As another novel finding, medial and lateral prefrontal areas, frontal pole, posterior-inferior temporal areas, posterior parietal areas, posterior cingulate, striatal structures and amygdala showed reduced activity upon re-viewing of the clips, suggesting involvement in processing of humor related to novelty of the comedic events.
Ocean acidification reduces transfer of essential biomolecules in a natural plankton community
Authors: Bermúdez J. Rafael , Riebesell Ulf , Larsen Aud , Winder Monika 
Published: June 2016

AbstractOcean acidification (OA), a process of increasing seawater acidity caused by the uptake of anthropogenic carbon dioxide (CO2) by the ocean, is expected to change surface ocean pH to levels unprecedented for millions of years, affecting marine food web structures and trophic interactions. Using an in situ mesocosm approach we investigated effects of OA on community composition and trophic transfer of essential fatty acids (FA) in a natural plankton assemblage. Elevated pCO2 favored the smallest phytoplankton size class in terms of biomass, primarily picoeukaryotes, at the expense of chlorophyta and haptophyta in the nano-plankton size range. This shift in community composition and size structure was accompanied by a decline in the proportion of polyunsaturated FA (PUFA) to total FA content in the nano- and picophytoplankton size fractions. This decline was mirrored in a continuing reduction in the relative PUFA content of the dominant copepod, Calanus finmarchicus, which primarily fed on the nano-size class. Our results demonstrate that a shift in phytoplankton community composition and biochemical composition in response to rising CO2 can affect the transfer of essential compounds to higher trophic levels, which rely on their prey as a source for essential macromolecules.
Malaria transmission potential could be reduced with current and future climate change
Authors: Murdock C. C. , Sternberg E. D. , Thomas M. B. 
Published: June 2016

AbstractSeveral studies suggest the potential for climate change to increase malaria incidence in cooler, marginal transmission environments. However, the effect of increasing temperature in warmer regions where conditions currently support endemic transmission has received less attention. We investigate how increases in temperature from optimal conditions (27 °C to 30 °C and 33 °C) interact with realistic diurnal temperature ranges (DTR: ± 0 °C, 3 °C and 4.5 °C) to affect the ability of key vector species from Africa and Asia (Anopheles gambiae and An. stephensi) to transmit the human malaria parasite, Plasmodium falciparum. The effects of increasing temperature and DTR on parasite prevalence, parasite intensity and mosquito mortality decreased overall vectorial capacity for both mosquito species. Increases of 3 °C from 27 °C reduced vectorial capacity by 51–89% depending on species and DTR, with increases in DTR alone potentially halving transmission. At 33 °C, transmission potential was further reduced for An. stephensi and blocked completely in An. gambiae. These results suggest that small shifts in temperature could play a substantial role in malaria transmission dynamics, yet few empirical or modeling studies consider such effects. They further suggest that rather than increase risk, current and future warming could reduce transmission potential in existing high transmission settings.
Non-homologous end joining repair in Xenopus egg extract
Authors: Zhu Songli , Peng Aimin 
Published: June 2016

AbstractNon-homologous end joining (NHEJ) is a major DNA double-strand break (DSB) repair mechanism. We characterized here a series of plasmid-based DSB templates that were repaired in Xenopus egg extracts via the canonical, Ku-dependent NHEJ pathway. We showed that the template with compatible ends was efficiently repaired without end processing, in a manner that required the kinase activity of DNA-PKcs but not ATM. Moreover, non-compatible ends with blunt/3′-overhang, blunt/5′-overhang and 3′-overhang/5′-overhang were predominantly repaired with fill-in and ligation without the removal of end nucleotides. In contrast, 3′-overhang/3′-overhang and 5′-overhang/5′-overhang templates were processed by resection of 3–5 bases and fill-in of 1–4 bases prior to end ligation. Therefore, the NHEJ machinery exhibited a strong preference for precise repair; the presence of neither non-compatible ends nor protruding single strand DNA sufficiently warranted the action of nucleases. ATM was required for the efficient repair of all non-compatible ends including those repaired without end processing by nucleases, suggesting its role beyond phosphorylation and regulation of Artemis. Finally, dephosphorylation of the 5′-overhang/3′-overhang template reduced the efficiency of DNA repair without increasing the risk of end resection, indicating that end protection via prompt end ligation is not the sole mechanism that suppresses the action of nucleases.