bluuebunny/crossref_metadata_2025_split huggingface dataset:
Barometric-pumping controls fugitive gas emissions from a vadose zone natural gas release
Authors: Forde Olenka N. , Cahill Aaron G. , Beckie Roger D. , Mayer K. Ulrich 
Published: October 2019

AbstractSubsurface natural gas release from leaking oil and gas wells is a major environmental concern. Gas migration can cause aquifer contamination, explosive conditions in soil gas, and greenhouse gas emissions. Gas migration is controlled by complex interacting processes, thus constraining the distribution and magnitude of “fugitive gas” emissions remains a challenge. We simulated wellbore leakage in the vadose zone through a controlled release experiment and demonstrate that fugitive gas emissions can be directly influenced by barometric pressure changes. Decreases in barometric-pressure led to surface gas breakthroughs (>20-fold increase in <24 hours), even in the presence of low-permeability surficial soils. Current monitoring strategies do not consider the effect of barometric pressure changes on gas migration and may not provide adequate estimates of fugitive gas emissions. Frequent or continuous monitoring is needed to accurately detect and quantify fugitive gas emissions at oil and gas sites with a deep water table.
Transcriptomic comparison between beetle strains selected for short and long durations of death feigning
Authors: Uchiyama Hironobu , Sasaki Ken , Hinosawa Shogo , Tanaka Keisuke , Matsumura Kentarou , Yajima Shunsuke , Miyatake Takahisa 
Published: September 2019

AbstractThe molecular basis of death feigning, an antipredator behavior that has received much attention recently, was analyzed. We compared the gene expression profiles of strains with different behaviors, i.e., different durations of death feigning, in the beetle Tribolium castaneum. Beetles artificially selected for short (S) and long (L) durations of death feigning for many generations were compared thoroughly by RNA sequencing. We identified 518 differentially expressed genes (DEGs) between the strains. The strains also showed divergence in unexpected gene expression regions. As expected from previous physiological studies, genes associated with the metabolic pathways of tyrosine, a precursor of dopamine, were differentially expressed between the S and L strains; these enzyme-encoding genes were expressed at higher levels in the L strain than in the S strain. We also found that several genes associated with insulin signaling were expressed at higher levels in the S strain than in the L strain. Quantitative real-time PCR analysis showed that the relative expression levels of Tchpd (encoding 4-hydroxyphenylpyruvate dioxygenase, Hpd) and Tcnat (encoding N-acetyltransferase, Nat) were significantly higher in the L strain than in the S strain, suggesting the influence of these enzymes on the supply of dopamine and duration of death feigning.
Ipsilateral S2 nerve root transfer to pudendal nerve for restoration of external anal and urethral sphincter function: an anatomical study
Authors: Zhu Lei , Zhou Zhi-bin , Shen Di , Chen Ai-min 
Published: September 2019

AbstractPatients suffer bilateral sacral plexus injuries experience severe problems with incontinence. We performed a cadaveric study to explore the anatomical feasibility of transferring ipsilateral S2 nerve root combined with a sural nerve graft to pudendal nerve for restoration of external anal and urethral sphincter function. The sacral nerve roots and pudendal nerve roots on the right side were exposed in 10 cadavers. The length from S2 nerve root origin to pudendal nerve at inferior border of piriformis was measured. The sural nerve was used as nerve graft. The diameters and nerve cross-sectional areas of S2 nerve root, pudendal nerve and sural nerve were measured and calculated, so as the number of myelinated axons of three nerves on each cadaver specimen. The length from S2 nerve root to pudendal nerve was 10.69 ± 1.67 cm. The cross-sectional areas of the three nerves were 8.57 ± 3.03 mm2 for S2, 7.02 ± 2.04 mm2 for pudendal nerve and 6.33 ± 1.61 mm2 for sural nerve. The pudendal nerve contained approximately the same number of axons (5708 ± 1143) as the sural nerve (5607 ± 1305), which was a bit less than that of the S2 nerve root (6005 ± 1479). The S2 nerve root in combination with a sural nerve graft is surgically feasible to transfer to the pudendal nerve for return of external urethral and anal sphincter function, and may be suitable for clinical application in patients suffering from incontinence following sacral plexus injuries.
Characterization of the Long Terminal Repeat of the Endogenous Retrovirus-derived microRNAs in the Olive Flounder
Authors: Lee Hee-Eun , Jo Ara , Im Jennifer , Cha Hee-Jae , Kim Woo-Jin , Kim Hyun Hee , Kim Dong-Soo , Kim Won , Yang Tae-Jin , Kim Heui-Soo 
Published: September 2019

AbstractEndogenous retroviruses (ERVs) have been identified at different copy numbers in various organisms. The long terminal repeat (LTR) element of an ERV has the capacity to exert regulatory influence as both a promoter and enhancer of cellular genes. Here, we describe olive flounder (OF)-ERV9, derived from chromosome 9 of the olive flounder. OF-ERV9-LTR provide binding sites for various transcription factors and showed enhancer activity. The OF-ERV9-LTR demonstrates high sequence similarity with the 3′ untranslated region (UTR) of various genes that also contain seed sequences (TGTTTTG) that bind the LTR-derived microRNA(miRNA), OF-miRNA-307. Additionally, OF-miRNA-307 collaborates with transcription factors located in OF-ERV9-LTR to regulate gene expression. Taken together, our data facilitates a greater understanding of the molecular function of OF-ERV families and suggests that OF-miRNA-307 may act as a super-enhancer miRNA regulating gene activity.
Identification of Indian Spiders through DNA barcoding: Cryptic species and species complex
Authors: Tyagi Kaomud , Kumar Vikas , Kundu Shantanu , Pakrashi Avas , Prasad Priya , Caleb John T. D. , Chandra Kailash 
Published: October 2019

AbstractSpiders are mega diverse arthropods and play an important role in the ecosystem. Identification of this group is challenging due to their cryptic behavior, sexual dimorphism, and unavailability of taxonomic keys for juveniles. To overcome these obstacles, DNA barcoding plays a pivotal role in spider identification throughout the globe. This study is the first large scale attempt on DNA barcoding of spiders from India with 101 morphospecies of 72 genera under 21 families, including five endemic species and holotypes of three species. A total of 489 barcodes was generated and analyzed, among them 85 novel barcodes of 22 morphospecies were contributed to the global database. The estimated delimitation threshold of the Indian spiders was 2.6% to 3.7% K2P corrected pairwise distance. The multiple species delimitation methods (BIN, ABGD, GMYC and PTP) revealed a total of 107 molecular operational taxonomic units (MOTUs) for 101 morphospecies. We detected more than one MOTU in 11 morphospecies with discrepancies in genetic distances and tree topologies. Cryptic diversity was detected inPardosa pusiola,Cyclosa spirifera, andHeteropoda venatoria. The intraspecies distances which were as large as our proposed delimitation threshold were observed inPardosa sumatrana,Thiania bhamoensis, andCheiracanthium triviale. Further, shallow genetic distances were detected inCyrtophora cicatrosa,Hersilia savignyi,Argiope versicolor,Phintella vittata, andOxyopes birmanicus. Two morphologically distinguished species (Plexippus paykulliandPlexippus petersi) showed intra-individual variation within their DNA barcode data. Additionally, we reinstate the original combination forLinyphia sikkimensisbased on both morphology and DNA barcoding. These data show that DNA barcoding is a valuable tool for specimen identification and species discovery of Indian spiders.
Short Stature is Associated with Increased Risk of Dyslipidemia in Korean Adolescents and Adults
Authors: Oh Na-Kyung , Song Yun-Mi , Kim Shin-Hye , Park Mi Jung 
Published: October 2019

AbstractAdults with short stature have been previously reported to have increased risk of cardiovascular events and hyper-LDL-cholesterolemia. We aimed to assess the association between height and lipid profiles among Korean adolescents and adults. We analyzed data from the Korea National Health and Nutrition Examination Survey from 2007 to 2015, from 37,889 individuals (aged 12–59 years). In adolescents, total cholesterol (TC) and low density lipoprotein-cholesterol (LDL-C) levels had profound associations with height in both boys and girls, while high density lipoprotein-cholesterol (HDL-C) levels had an inverse association with height only in boys. Height was inversely associated with TC, triglycerides (TG), and LDL-C concentrations in men and women and positively correlated with HDL-C concentration in women. In boys, the odds ratios (ORs) for hypercholesterolemia, hypertriglyceridemia, hyper-LDL-cholesterolemia were higher for shorter subjects (ORs = 2.38~7.01), while only the OR of hyper-LDL-cholesterolemia was significantly higher in girls with short stature (OR = 3.12). In adults, the ORs for hypercholesterolemia, hypo-HDL-cholesterolemia, and hyper-LDL-cholesterolemia were significantly higher in short subjects than in tall subjects after controlling for covariates (ORs = 1.50~2.61). Also, short men showed significantly higher ORs for hypertriglyceridemia (OR = 1.85) than tall men. Short stature was significantly associated with adverse lipid profiles in both adolescents and adults.
A bizarre Eocene dasyatoid batomorph (Elasmobranchii, Myliobatiformes) from the Bolca Lagerstätte (Italy) reveals a new, extinct body plan for stingrays
Authors: Marramà Giuseppe , Carnevale Giorgio , Giusberti Luca , Naylor Gavin J. P. , Kriwet Jürgen 
Published: October 2019

AbstractIn the last few years, the detailed revision of the Eocene cartilaginous fishes (Chondrichthyes) from the Bolca Lagerstätte (Italy) has provided new insights into the fish biodiversity of the western Tethys. The morphological analysis of three previously undescribed specimens from the Pesciara deposit of Bolca revealed the existence of a new stingray taxon, †Lessiniabatis aenigmatica gen. et sp. nov., which is unique among the myliobatiform batoids in having the following unique combination of characters: low number of vertebrae posterior to the pelvic girdle (65–68); thoracolumbar synarcual extending backward beyond the pelvic girdle; tail extremely short not protruding from the posterior edge of the pectoral disc; radials proximally fused to each other; pelvic girdle extremely small and strongly arched; dorsal and caudal fins absent; tail stings and cartilaginous tail rod absent; and teeth of dasyatoid morphology with smooth enameloid surface. The phylogenetic analysis suggests that †Lessiniabatis gen. nov. is deeply nested within the benthic stingrays (Dasyatoidea) representing the sister to all dasyatids and potamotrygonids. Its unique anatomy clearly reveals the existence of a new hitherto unknown body plan experimented by benthic stingrays, whose evolution can be possibly linked to the adaptive fish radiation in the aftermath of the end-Cretaceous extinction.
Non-toxic printed supercapacitors operating in sub-zero conditions
Authors: Railanmaa Anna , Lehtimäki Suvi , Keskinen Jari , Lupo Donald 
Published: October 2019

AbstractAqueous supercapacitors offer a safe alternative for intermediate energy storage in energy harvesting applications, but their performance is limited to relatively warm temperatures. We report the performance of glycerol as a non-toxic anti-freeze for a water-based electrolyte from room temperature to −30 °C at various concentrations. The supercapacitors are manufactured with graphite and activated carbon as current collector and electrode on a flexible polyester (PET) substrate by stencil printing, with a sodium chloride solution as the electrolyte. The devices are characterized at various constant temperatures for electrical performance, as well as in room temperature for mass loss and development of performance over time. It is shown that supercapacitors with glycerol function well in the decreased temperatures compared to water: the capacitance experiences only a slight decrease and the leakage current is significantly reduced. The equivalent series resistance is affected the most by the reduced temperatures, and should be considered the primary limiting factor in low-temperature applications. Electrolytes with 30–40% glycerol perform the best in commercial freezer temperatures, but below −20 °C a higher concentration of 45% glycerol retains better function. The results show great promise for a non-toxic alternative for improving the temperature range of printed supercapacitors.
Distinct patterns of natural selection determine sub-population structure in the fire blight pathogen, Erwinia amylovora
Authors: Singh Jugpreet , Khan Awais 
Published: September 2019

AbstractThe fire blight pathogen, Erwinia amylovora (EA), causes significant economic losses in rosaceae fruit crops. Recent genome sequencing efforts have explored genetic variation, population structure, and virulence levels in EA strains. However, the genomic aspects of population bottlenecks and selection pressure from geographical isolation, host range, and management practices are yet unexplored. We conducted a comprehensive analysis of whole genome sequences of 41 strains to study genetic diversity, population structure, and the nature of selection affecting sub-population differentiation in EA. We detected 72,741 SNPs and 2,500 Indels, representing about six-fold more diversity than previous reports. Moreover, nonsynonymous substitutions were identified across the effector regions, suggesting a role in defining virulence of specific strains. EA plasmids had more diversity than the chromosome sequence. Population structure analysis identified three distinct sub-groups in EA strains, with North American strains displaying highest genetic diversity. A five kilobase genomic window scan showed differences in genomic diversity and selection pressure between these three sub-groups. This analysis also highlighted the role of purifying and balancing selection in shaping EA genome structure. Our analysis provides novel insights into the genomic diversity and selection forces accompanying EA population differentiation.
Characterization of Cardiometabolic Risks in Different Combination of Anthropometric Parameters and Percentage Body Fat
Authors: Chen Yuan-Yuei , Fang Wen-Hui , Wang Chung-Ching , Kao Tung-Wei , Chang Yaw-Wen , Yang Hui-Fang , Wu Chen-Jung , Sun Yu-Shan , Chen Wei-Liang 
Published: October 2019

AbstractThe prevalence of obesity was increasing and became a growing problem worldwide. Obesity increased the risk of developing metabolic abnormalities and was associated adverse health outcomes. Our aim was to examine the associations among different combinations of obesity phenotypes (high body mass index > 27 kg/m2 (O), high waist circumference (male > 90 cm, female > 80 cm) (W), fatty liver (F) and percentage body fat in top 40% (P)) and cardiometabolic diseases (type 2 diabetes mellitus (DM), hypertension (HTN), metabolic syndrome (MetS)). A total of 48426 eligible subjects were categorized based on the different definitions. After adjusting for all covariables, participants with O + F + P combination were more likely associated with the presence of DM. Participants with O + W combination were more associated with the presence of HTN than others. Participants with O + W + F + P had higher risk for the presence of MetS than others. The study addressed the associations between different obesity phenotypes and DM and HTN in the adult population. Better understanding the pathophysiological mechanisms underlined individual vulnerability and progression of cardiometabolic insults.
IL-12 signaling drives the differentiation and function of a TH1-derived TFH1-like cell population
Authors: Powell Michael D. , Read Kaitlin A. , Sreekumar Bharath K. , Jones Devin M. , Oestreich Kenneth J. 
Published: September 2019

AbstractCD4+ T follicular helper (TFH) cells provide help to B cells and promote antibody-mediated immune responses. Increasing evidence supports the existence of TFH populations that secrete cytokines typically associated with the effector functions of other CD4+ T cell subsets. These include T helper 1 (TH1)-biased TFH (TFH1) cells that have recognized roles in both immune responses to pathogens and also the pathogenesis of autoimmune disease. Given their apparent importance to human health, there is interest in understanding the mechanisms that regulate TFH1 cell formation and function. However, their origin and the molecular requirements for their differentiation are unclear. Here, we describe a population of murine TH1-derived, TFH1-like cells that express the chemokine receptor Cxcr3 and produce both the TH1 cytokine interferon-γ and the TFH-associated cytokine interleukin-21 (IL-21). Furthermore, these TFH1-like cells promote B cell activation and antibody production at levels indistinguishable from conventional IL-6-derived TFH-like cells. Regarding their regulatory requirements, we find that IL-12 signaling is necessary for the differentiation and function of this TFH1-like cell population. Specifically, IL-12-dependent activation of STAT4, and unexpectedly STAT3, promotes increased expression of IL-21 and the TFH lineage-defining transcription factor Bcl-6 in TFH1-like cells. Taken together, these findings provide insight into the potential origin and differentiation requirements of TFH1 cells.
Diversity, Co-occurrence and Implications of Fungal Communities in Wastewater Treatment Plants
Authors: Assress Hailemariam Abrha , Selvarajan Ramganesh , Nyoni Hlengilizwe , Ntushelo Khayalethu , Mamba Bhekie B. , Msagati Titus A. M. 
Published: October 2019

AbstractThree wastewater treatment plants (WWTPs) located in Gauteng province in South Africa were investigated to determine the diversity, co-occurrence and implications of their fungal communities using illumina sequencing platform and network analysis. Phylogenetic taxonomy revealed that members of the fungal communities were assigned to 6 phyla and 361 genera. Basidiomycota and Ascomycota were the most abundant phyla, dominated by the genera Naumovozyma, Pseudotomentella, Derxomyces, Ophiocordyceps, Pulchromyces and Paecilomyces. Phylogenetic analysis revealed the existence of fungal OTUs related to class lineages such as Agaricomycetes, Eurotiomycetes and Sordariomycetes indicating new fungal diversity in WWTPs. Dominant and rare fungal genera that can potentially be used in bioremediation such as Trichoderma, Acremonium, Talaromyces, Paecilomyces, cladophialophora and Saccharomyces were detected. Conversely, genera whose members are known to be pathogenic to human and plant such as Olpidium, Paecilomyces, Aspergillus, Rhodotorula, Penicillium, Candida, Synchytrium, Phyllosticta and Mucor were also detected in all WWTPs. Phylotype analysis confirmed that some fungal phylotypes were highly similar to the reported fungal pathogens of concern. Co-occurrence network analysis revealed that the fungal genera such as Minimedusa, Glomus, Circinella, Coltricia, Caloplaca, Phylosticta, Peziza, Candida, and Hydnobolites were the major networking hub in the WWTPs. The overall results in this study highlighted that WWTPs represent a potential source of beneficial fungi for bioremediation of pollutants in the ecosystem and the need to consider human and plant fungal pathogens during safety evaluation of treated wastewater for reuse.
Heat wave Intensity Duration Frequency Curve: A Multivariate Approach for Hazard and Attribution Analysis
Authors: Mazdiyasni Omid , Sadegh Mojtaba , Chiang Felicia , AghaKouchak Amir 
Published: October 2019

AbstractAtmospheric warming is projected to intensify heat wave events, as quantified by multiple descriptors, including intensity, duration, and frequency. While most studies investigate one feature at a time, heat wave characteristics are often interdependent and ignoring the relationships between them can lead to substantial biases in frequency (hazard) analyses. We propose a multivariate approach to construct heat wave intensity, duration, frequency (HIDF) curves, which enables the concurrent analysis of all heat wave properties. Here we show how HIDF curves can be used in various locations to quantitatively describe the likelihood of heat waves with different intensities and durations. We then employ HIDF curves to attribute changes in heat waves to anthropogenic warming by comparing GCM simulations with and without anthropogenic emissions. For example, in Los Angeles, CA, HIDF analysis shows that we can attribute the 21% increase in the likelihood of a four-day heat wave (temperature > 31 °C) to anthropogenic emissions.
Unveiling the hidden genetic diversity and chloroplast type of marine benthic ciliate Mesodinium species
Authors: Kim Miran , Park Myung Gil 
Published: October 2019

AbstractCiliate Mesodinium species are commonly distributed in diverse aquatic systems worldwide. Among Mesodinium species, M. rubrum is closely associated with microbial food webs and red tide formation and is known to acquire chloroplasts from its cryptophyte prey for use in photosynthesis. For these reasons, Mesodinium has long received much attention in terms of ecophysiology and chloroplast evolution. Mesodinium cells are easily identifiable from other organisms owing to their unique morphology comprising two hemispheres, but a clear distinction among species is difficult under a microscope. Recent taxonomic studies of Mesodinium have been conducted largely in parallel with molecular sequence analysis, and the results have shown that the best-known planktonic M. rubrum in fact comprises eight genetic clades of a M. rubrum/M. major complex. However, unlike the planktonic Mesodinium species, little is known of the genetic diversity of benthic Mesodinium species, and to our knowledge, the present study is the first to explore this. A total of ten genetic clades, including two clades composed of M. chamaeleon and M. coatsi, were found in marine sandy sediments, eight of which were clades newly discovered through this study. We report the updated phylogenetic relationship within the genus Mesodinium comprising heterotrophic/mixotrophic as well as planktonic/benthic species. Furthermore, we unveiled the wide variety of chloroplasts of benthic Mesodinium, which were related to the green cryptophyte Chroomonas/Hemiselmis and the red cryptophyte Rhodomonas/Storeatula/Teleaulax groups.