bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analysis of four complete linkage sequence variants within a novel lncRNA located in a growth QTL on chromosome 1 related to growth traits in chickens
Authors: Li Wenya , Jing Zhenzhu , Cheng Yingying , Wang Xiangnan , Li Donghua , Han Ruili , Li Wenting , Li Guoxi , Sun Guirong , Tian Yadong , Liu Xiaojun , Kang Xiangtao , Li Zhuanjian 
Published: April 2020

AbstractAn increasing number of studies have shown that quantitative trait loci (QTLs) at the end of chromosome 1 identified in different chicken breeds and populations exert significant effects on growth traits in chickens. Nevertheless, the causal genes underlying the QTL effect remain poorly understood. Using an updated gene database, a novel lncRNA (named LncFAM) was found at the end of chromosome 1 and located in a growth and digestion QTL. This study showed that the expression level of LncFAM in pancreas tissues with a high weight was significantly higher than that in pancreas tissues with a low weight, which indicates that the expression level of LncFAM was positively correlated with various growth phenotype indexes, such as growth speed and body weight. A polymorphism screening identified four polymorphisms with strong linkage disequilibrium in LncFAM: a 5-bp indel in the second exon, an A/G base mutation, and 7-bp and 97-bp indels in the second intron. A study of a 97-bp insertion in the second intron using an F2 chicken resource population produced by Anka and Gushi chickens showed that the mutant individuals with genotype II had the highest values for body weight (BW) at 0 days and 2, 4, 6, 8, 10 and 12 weeks, shank girth (SG) at 4, 8 and 12 weeks, chest width (CW) at 4, 8 and 12 weeks, body slant length (BSL) at 8 and 12 weeks, and pelvic width (PW) at 4, 8 and 12 weeks, followed by ID and DD genotypes. The amplification and typing of 2,716 chickens from ten different breeds, namely, the F2 chicken resource population, dual-type chickens, including Xichuan black-bone chickens, Lushi green-shell layers, Dongxiang green-shell layers, Changshun green-shell layers, and Gushi chickens, and commercial broilers, including Ross 308, AA, Cobb and Hubbard broilers, revealed that II was the dominant genotype. Interestingly, only genotype II existed among the tested populations of commercial broilers. Moreover, the expression level in the pancreas tissue of Ross 308 chickens was significantly higher than that in the pancreas tissue of Gushi chickens (P &lt; 0.001), which might be related to the conversion rates among different chickens. The prediction and verification of the target gene of LncFAM showed that LncFAM might regulate the expression of its target gene FAM48A through cis-expression. Our results provide useful information on the mutation of LncFAM, which can be used as a potential molecular breeding marker.
Biological Parameters of Two Triatoma rubida Subspecies (Hemiptera: Reduviidae) and Their Laboratory Hybrids
Authors: Martínez-Ibarra José Alejandro , Nogueda-Torres Benjamín , Montañez-Valdez Oziel Dante , Michel-Parra J Guadalupe , Valenzuela-Campos Ricardo 
Published: April 2020

Abstract
Chagas disease is one of the most important vector-borne diseases in Latin America, including Mexico. Recently, autochthonous cases have also been detected in the United States of America. It is suspected that two subspecies of Triatoma rubida (Uhler), T. r. sonoriana (Usinger) and T. r. uhleri (Usinger), considered efficient vectors of Trypanosoma cruzi Chagas in Mexico, could interbreed and potentially generate offspring with superior biological characteristics. In this study, the biological parameters of T. r. sonoriana, T. r. uhleri and their laboratory hybrids were evaluated. Hybrids of the two subspecies surpassed both parental subspecies, T. r. sonoriana and T. r. uhleri, in three (numbers of required blood meals to molt [16–20], feeding [10.5–17 min] and defecation times [˂1 min post-feeding]) of nine studied biological parameters. Moreover, the hybrids surpassed T. r. uhleri in two additional parameters, development time (298 d) and mortality (39–42%). Both the hybrid and the two parental cohorts had comparable results in the remaining four (onset of feeding, number of obtained females, number of eggs laid, and eclosion rate) of nine studied parameters. Thus, we conclude that hybrid vigor could result in an increased risk of T. cruzi transmission to humans and animals.
Laboratory Studies of Questing Behavior in Colonized Nymphal Amblyomma maculatum Ticks (Acari: Ixodidae)
Authors: Portugal José Santos , Wills Robert , Goddard Jerome 
Published: April 2020

AbstractEnvironmental factors affect host-seeking behavior in ticks. In this study, 80 nymphal Amblyomma maculatum Koch were released in an observation arena containing four different heights of broomsedge stems (Andropogon virginicus L.) anchored in sand. Observations were made over three days as to proportion of ticks questing, questing height, and stem height distribution This scenario was replicated three times with different cohorts of ticks (n = 80 per replicate) for each of three treatment combinations of temperature and humidity: High temperature/high humidity (HTHH), high temperature/low humidity (HTLH), and low temperature/high humidity (LTHH). A fourth treatment utilizing the same size cohort and number of replicates included Wind (HTHHW+/−) by alternating days of wind and no-wind conditions over four days. Mean questing height for ticks under HTHH, HTLH, and LTHH conditions ranged from 4.45 to 6.03 cm with ticks questing significantly higher in HTHH. A significantly lower proportion ticks quested in HTLH (8.64%) than HTHH (14.06%) and LTHH (15.33%). In HTHH and LTHH, a significantly higher proportion of ticks were observed questing on 5-cm stems. Wind significantly reduced average questing height, and when absent, ticks on 20- and 30-cm stems quested significantly higher. These data indicate that A. macuatum nymphs randomly select stems to quest upon and climb upward until environmental conditions are prohibitive/ideal. Conditions with reduced vapor pressure deficit (VPD) led to higher questing frequency and height. Relatively low questing heights observed correspond with size of preferred hosts and may explain infrequency of collection by dragcloth in the field.
Fine structure of Aldrovanda vesiculosa L: the peculiar lifestyle of an aquatic carnivorous plant elucidated by electron microscopy using cryo-techniques
Authors: Atsuzawa Kimie , Kanaizumi Daiki , Ajisaka Mizuki , Kamada Tasuku , Sakamoto Kimie , Matsushima Hisashi , Kaneko Yasuko 
Published: April 2020

AbstractThe aquatic carnivorous plant Aldrovanda vesiculosa L. is critically endangered worldwide; its peculiar lifestyle raises many questions and poses problems both intriguing on their own and relevant to conservation. While establishing a culture system for its propagation and restoring its natural habitat in Hozoji pond in Saitama, Japan, we conducted ultrastructural observations to examine the various aspects of Aldrovanda’s way of life. Electron microscopic observation in combination with cryo-techniques produced novel information which could not be obtained by other methods. Some of the results are: phosphorous is stored in petiole cells of turions during winter; mucilaginous guides are provided for pollen tubes in parietal placental ovaries; storage of potassium in the vicinity of the midrib of carnivorous leaves may contribute to the rapid closing of the carnivorous leaves; dynamic sequential changes of the ultrastructure of digestive glands are involved in the synthesis and secretion of digestive enzymes, including protease and acid phosphatase. These results should contribute significantly to our understanding of Aldrovanda and the detailed mechanisms of its life.
Do hepatic artery infusion pumps cause recurrent pleural effusions?
Authors: Harris Emily Ann , Castillon Rafael Garza , Bhakta Priya 
Published: April 2020

Abstract
Hepatic artery infusion pump chemotherapy (HAIPC) for colorectal liver metastasis (CRLM) is a new technique in the treatment of CRLM, whose side effects are not well studied. Case Report: This paper aims to understand the side effect profile of HAIPC as it relates to recurrent pleural effusions. This is a case report of a 48-year-old male with CRLM being treated with HAIPC, who presents with recurrent pleural effusions found to be benign/transudative after right-side video-assisted thoracoscopic surgery. Discussion: This study suggests that HAIPC causes recurrent sympathetic pleural effusions as a side effect of the perihepatic inflammation of the localized chemotherapy treatment. Furthermore, we question if sympathetic pleural effusions are a prelude to hepatic toxicity from HAIPC. Lastly, this paper aims to guide the differential diagnosis of pleural effusions in the cancer patient being treated with HAIPC.
Large-scale structures in the ΛCDM Universe: network analysis and machine learning
Authors: Tsizh Maksym , Novosyadlyj Bohdan , Holovatch Yurij , Libeskind Noam I 
Published: April 2020

ABSTRACT
We perform an analysis of the cosmic web as a complex network, which is built on a Λ cold dark matter (ΛCDM) cosmological simulation. For each of nodes, which are in this case dark matter haloes formed in the simulation, we compute 10 network metrics, which characterize the role and position of a node in the network. The relation of these metrics to topological affiliation of the halo, i.e. to the type of large-scale structure, which it belongs to, is then investigated. In particular, the correlation coefficients between network metrics and topology classes are computed. We have applied different machine learning methods to test the predictive power of obtained network metrics and to check if one could use network analysis as a tool for establishing topology of the large-scale structure of the Universe. Results of such predictions, combined in the confusion matrix, show that it is not possible to give a good prediction of the topology of cosmic web (score is ≈70 ${{\rm per\ cent}}$ in average) based only on coordinates and velocities of nodes (haloes), yet network metrics can give a hint about the topological landscape of matter distribution.
EX draconis: using eclipses to separate outside-in and inside-out outbursts
Authors: Court J M C , Scaringi S , Littlefield C , Castro Segura N , Long K S , Maccarone T , Altamirano D , Degenaar N , Wijnands R , Shahbaz T , Zhan Z 
Published: April 2020

ABSTRACT
We present a study of the eclipses in the accreting white dwarf EX draconis (EX Dra) during TESS Cycles 14 and 15. During both of the two outbursts present in this data set, the eclipses undergo a hysteretic loop in eclipse-depth/out-of-eclipse-flux space. In each case, the direction in which the loops are executed strongly suggests an outburst that is triggered near the inner edge of the accretion disc and propagates outwards. This in turn suggests that the outbursts in EX Dra are ‘inside out’ outbursts; events predicted by previous hydrodynamic studies of dwarf nova accretion discs and confirmed spectroscopically in a number of other accreting white dwarf systems. We therefore propose that the direction of the loop executed in eclipse-depth/out-of-eclipse flux space be used as a test to phenomenologically distinguish between ‘inside out’ and ‘outside in’ outbursts in other eclipsing dwarf novae; a reliable and purely photometric test to differentiate between these phenomena.
On the ejection of dark matter from globular clusters
Authors: Hurst Travis J , Zentner Andrew R 
Published: April 2020

ABSTRACT
We investigate analytically whether in a close encounter with a star, a dark matter (DM) particle can be accelerated above the escape speed of a globular cluster and be ejected. We find that this mechanism is not sufficient to eject a massive, extended DM halo by this time. Combined with observations of isolated globular clusters that may not have had their haloes tidally stripped, these results cast doubt on the scenario in which globular clusters formed in DM haloes.
Ion irradiation of acetylene ice in the ISM and the outer Solar system: laboratory simulations
Authors: Pereira R C , de Barros A L F , da Costa C A P , Oliveira P R B , Fulvio D , da Silveira E F 
Published: April 2020

ABSTRACT)3
Acetylene, C2H2, has been observed in the interstellar medium, mostly around young stellar objects, as well as in molecular clouds and cometary comae, representing an important species of astrophysical interest. In this work, we present a laboratory study of the C2H2 radiolysis at 45 K for three different beams and energies: 1.0 MeV H+ and He+, and 1.0 and 1.5 MeV N+ beams. Fourier transform infrared spectroscopy was used for monitoring the molecular changes induced by the ion processing. Two different sample thicknesses were irradiated; for the thicker one, implantation had occurred. Spectra and absorbance evolutions for the thin and thick films are qualitatively different. Four C2H2 bands are observed at 3225, 1954, 1392, and 763 cm−1. The C2H2 compaction and apparent destruction cross-sections are determined. For the case of the H+ beam, the compaction cross-section dominates. Concerning molecular synthesis by irradiation, New product bands were not observed in the thin ice irradiations; for the thicker film ice, the daughter species CH4, C2H4, C3H6, and C4H4 have been identified and their destruction and formation cross-sections determined. The apparent destruction cross-section was found to be a function of the electronic stopping power (Se) as σd ∝ S$_\mathrm{ e}^{3/2}$. The half-life of the C2H2 bombarded by galactic cosmic rays is estimated. The current findings are a contribution to the understanding of how the molecules synthesized upon irradiation of Interstellar and outer Solar system ices participate to the molecular enrichment and to the physicochemical evolution of the Universe.
A new and simple prescription for planet orbital migration and eccentricity damping by planet–disc interactions based on dynamical friction
Authors: Ida Shigeru , Muto Takayuki , Matsumura Soko , Brasser Ramon 
Published: April 2020

ABSTRACT
During planet formation, gravitational interaction between a planetary embryo and the protoplanetary gas disc causes orbital migration of the planetary embryo, which plays an important role in shaping the final planetary system. While migration sometimes occurs in the supersonic regime, wherein the relative velocity between the planetary embryo and the gas is higher than the sound speed, migration prescriptions proposed thus far describing the planet–disc interaction force and the time-scales of orbital change in the supersonic regime are inconsistent with one another. Here we discuss the details of existing prescriptions in the literature and derive a new simple and intuitive formulation for planet–disc interactions based on dynamical friction, which can be applied in both supersonic and subsonic cases. While the existing prescriptions assume particular disc models, ours include the explicit dependence on the disc parameters; hence, it can be applied to discs with any radial surface density and temperature dependence (except for the local variations with radial scales less than the disc scale height). Our prescription will reduce the uncertainty originating from different literature formulations of planet migration and will be an important tool to study planet accretion processes, especially when studying the formation of close-in low-mass planets that are commonly found in exoplanetary systems.
Imprints of the redshift evolution of double neutron star merger rate on the signal-to-noise ratio distribution
Authors: Kastha Shilpa , Saleem M , Arun K G 
Published: April 2020

ABSTRACT
Proposed third-generation gravitational wave interferometers such as Cosmic Explorer (CE) will have the sensitivity to observe double neutron star mergers (DNS) up to a redshift of ∼5 with good signal-to-noise ratios (SNRs). We argue that the comoving spatial distribution of DNS mergers leaves a unique imprint on the statistical distribution of SNRs of the detected DNS mergers. Hence, the SNR distribution of DNS mergers will facilitate a novel probe of their redshift evolution independent of the luminosity distance measurements. We consider detections of DNS mergers by the CE and study the SNR distribution for different possible redshift evolution models of DNSs and employ Anderson Darling p-value statistic to demonstrate the distinguishability between these different models. We find that a few hundreds of DNS mergers in the CE era will allow us to distinguish between different models of redshift evolution. We further apply the method for various SNR distributions arising due to different merger delay-time and star formation rate (SFR) models and show that for a given SFR model, the SNR distributions are sensitive to the delay-time distributions. Finally, we investigate the effects of sub-threshold events in distinguishing between different merger rate distribution models.
Omega Centauri: weak MgH band in red giants directly traces the helium content
Authors: Reddy Arumalla B S 
Published: April 2020

ABSTRACT
High spectral resolution and high signal-to-noise ratio optical spectra of red giants in the globular cluster Omega Centauri are analysed for stellar parameters and chemical abundances of 15 elements including helium by either line equivalent widths or synthetic spectrum analyses. The simultaneous abundance analysis of MgH and Mg lines adopting theoretical photospheres and a combination of He/H ratios proved to be the only powerful probe to evaluate helium abundances of red giants cooler than 4400 K, wherein otherwise helium line transitions (He i 10830 and 5876 Å) present for a direct spectral line analysis. The impact of helium-enhanced model photospheres on the resulting abundance ratios is smaller than 0.15 dex, in agreement with past studies. The first indirect spectroscopic helium abundances measured in this paper for the most metal-rich cluster members reveal the discovery of seven He-enhanced giants ($\Delta Y=+0.15 \pm 0.04$), the largest such sample found spectroscopically to date. The average metallicity of −0.79 ± 0.06 dex and abundances for O, Na, Al, Si, Ca, Ti, Ni, Ba, and La are consistent with values found for the red giant branch (RGB-a) and subgiant branch (SGB-a) populations of Omega Centauri, suggesting an evolutionary connection among samples. The He enhancement in giants is associated with larger s-process elemental abundances, which correlate with Al and anticorrelate with O. These results support the formation of He-enhanced, metal-rich population of Omega Centauri out of the interstellar medium enriched with the ejecta of fast rotating massive stars, binaries exploding as supernovae, and asymptotic giant branch (AGB) stars.
Mapping and characterization of cosmic filaments in galaxy cluster outskirts: strategies and forecasts for observations from simulations
Authors: Kuchner Ulrike , Aragón-Salamanca Alfonso , Pearce Frazer R , Gray Meghan E , Rost Agustín , Mu Chunliang , Welker Charlotte , Cui Weiguang , Haggar Roan , Laigle Clotilde , Knebe Alexander , Kraljic Katarina , Sarron Florian , Yepes Gustavo 
Published: April 2020

ABSTRACT
Upcoming wide-field surveys are well suited to studying the growth of galaxy clusters by tracing galaxy and gas accretion along cosmic filaments. We use hydrodynamic simulations of volumes surrounding 324 clusters from The ThreeHundred project to develop a framework for identifying and characterizing these filamentary structures and associating galaxies with them. We define three-dimensional reference filament networks reaching 5R200 based on the underlying gas distribution and quantify their recovery using mock galaxy samples mimicking observations such as those of the WEAVE Wide-Field Cluster Survey. Since massive galaxies trace filaments, they are best recovered by mass-weighting galaxies or imposing a bright limit (e.g. &gt;L*) on their selection. We measure the transverse gas density profile of filaments, derive a characteristic filament radius of ≃ 0.7–1 h−1Mpc, and use this to assign galaxies to filaments. For different filament extraction methods, we find that at R &gt; R200, ∼15–$20{{\ \rm per\ cent}}$ of galaxies with M* &gt; 3 × 109M⊙ are in filaments, increasing to $\sim 60{{\ \rm per\ cent}}$ for galaxies more massive than the Milky Way. The fraction of galaxies in filaments is independent of cluster mass and dynamical state and is a function of cluster-centric distance, increasing from ∼13 per cent at 5R200 to ∼21 per cent at 1.5R200. As a bridge to the design of observational studies, we measure the purity and completeness of different filament galaxy selection strategies. Encouragingly, the overall three-dimensional filament networks and ∼67 per cent of the galaxies associated with them are recovered from two-dimensional galaxy positions.
The hydrogen Balmer lines and jump in absorption in accretion disc modelling – an ultraviolet–optical spectral analysis of the dwarf novae UZ Serpentis and CY Lyrae
Authors: Godon Patrick , Sion Edward M , Szkody Paula , Blair William P 
Published: April 2020

ABSTRACT
The spectra of disc-dominated cataclysmic variables (CVs) often deviate from the spectra of accretion disc models; in particular, the Balmer jump and absorption lines are found to be shallower in the observations than in the models. We carried out a combined ultraviolet–optical spectral analysis of two dwarf novae (DNe): UZ Ser in outburst, decline, and quiescence, and CY Lyr on the rise to outburst and in outburst. We fit the Balmer jump and absorption lines, the continuum flux level and slope by adjusting the accretion rate, inclination, and disc outer radius. For both systems, we find an accretion rate $\dot{M} \approx 8 \times 10^{-9}\,\mathrm{ M}_\odot\,\mathrm{ yr}^{-1}$ in outburst, and $\dot{M} \approx 2-3 \times 10^{-9}\,\mathrm{ M}_\odot\,\mathrm{ yr}^{-1}$ for the rise and decline phases. The outer disc radius we derive is smaller than expected (Rdisc ≈ 0.2a, where a is the binary separation), except during late rise (for CY Lyr) where Rdisc = 0.3a. UZ Ser also reveals a 60 000 K white dwarf. These results show that during a DN cycle the radius of the disc is the largest just before the peak of the outburst, in qualitative agreement with the disc instability model for DN outbursts. We suspect that an additional emitting component (e.g. disc wind) is also at work to reduce the slope of the continuum and size of the Balmer jump and absorption lines. We stress that both the outer disc radius and disc wind need to be taken into account for more realistic disc modelling of CVs.
LIST-S2: taxonomy based sorting of deleterious missense mutations across species
Authors: Malhis Nawar , Jacobson Matthew , Jones Steven J M , Gsponer Jörg 
Published: April 2020

Abstract
The separation of deleterious from benign mutations remains a key challenge in the interpretation of genomic data. Computational methods used to sort mutations based on their potential deleteriousness rely largely on conservation measures derived from sequence alignments. Here, we introduce LIST-S2, a successor to our previously developed approach LIST, which aims to exploit local sequence identity and taxonomy distances in quantifying the conservation of human protein sequences. Unlike its predecessor, LIST-S2 is not limited to human sequences but can assess conservation and make predictions for sequences from any organism. Moreover, we provide a web-tool and downloadable software to compute and visualize the deleteriousness of mutations in user-provided sequences. This web-tool contains an HTML interface and a RESTful API to submit and manage sequences as well as a browsable set of precomputed predictions for a large number of UniProtKB protein sequences of common taxa. LIST-S2 is available at: https://list-s2.msl.ubc.ca/