bluuebunny/crossref_metadata_2025_split huggingface dataset:
Rifampin-resistant Tuberculosis in the United States, 1998–2014
Authors: Sharling Lisa , Marks Suzanne M , Goodman Michael , Chorba Terence , Mase Sundari 
Published: June 2019

Abstract

Background
Monoresistance to rifamycins necessitates longer and more toxic regimens for tuberculosis (TB). We examined characteristics and mortality associated with rifampin-monoresistant (RMR) TB in the United States.

Methods
We analyzed Mycobacterium tuberculosis culture-positive cases reported to the National TB Surveillance System (excluding California) between 1998 and 2014. We defined RMR TB found on initial drug susceptibility testing and possible acquired rifampin-resistant (ARR) TB. We assessed temporal trends in RMR TB. For both classifications of rifampin resistance, we calculated adjusted risk ratios (adjRRs) and 95% confidence intervals (CIs) for characteristics associated with mortality when compared with drug-susceptible TB in multivariable models using backward selection.

Results
Of 180 329 TB cases, 126 431 (70%) were eligible for analysis, with 359 (0.28%) of eligible cases reported as RMR. The percentage of RMR TB cases with HIV declined 4% annually between 1998 and 2014. Persons with HIV and prior TB were more likely to have RMR TB (adjRR, 25.9; 95% CI, 17.6–38.1), as were persons with HIV and no prior TB (adjRR, 3.1; 95% CI, 2.4–4.1) vs those without either characteristic, controlling for other statistically significant variables. RMR cases had greater mortality (adjRR, 1.4; 95% CI, 1.04–1.8), controlling for HIV and other variables. Persons with HIV had greater risk of ARR than persons without HIV (adjRR, 9.6; 95% CI, 6.9–13.3), and ARR was also associated with increased mortality, controlling for HIV and other variables.

Conclusions
All forms of rifampin resistance were positively associated with HIV infection and increased mortality.
Ecosystem-based reference points under varying plankton productivity states and fisheries management strategies
Authors: Guo Chuanbo , Fu Caihong , Forrest Robyn E , Olsen Norm , Liu Huizhu , Verley Philippe , Shin Yunne-Jai 
Published: June 2019

AbstractIn the context of ecosystem-based fisheries management, which should consider changing and uncertain environmental conditions, the development of ecosystem-based biological reference points (EBRPs) to account for important multi-species (MS) interactions, fishery operations, and climate change, is of paramount importance for sustainable fisheries management. However, EBRPs under varying plankton productivity states and fisheries management strategies are seldom developed, and the ecosystem effects of these changes are still largely unknown. In this study, ecosystem-based FMSY (fishing mortality rate at MSY) values were estimated within an end-to-end ecosystem model (OSMOSE) for three focused fish species (Pacific Herring, Clupea pallasii; Pacific Cod, Gadus macrocephalus; Lingcod, Ophiodon elongatus) under three plankton productivity states of differing plankton biomass at high, current, and low levels. In addition, ecosystem effects were compared across different plankton productivity and fisheries management strategies with the latter consisting of two fishery scenarios (i.e. single-species-focused (SS) and MS-focused), various fishing mortality rates, and two harvest policies (with and without harvest control rules, HCRs). Main findings of this study include: (i) plankton productivity change affected the values of ecosystem-based FMSY, which increased as plankton productivity states changed from low to high plankton biomass; (ii) ecosystem-based FMSY for Pacific Herring and Pacific Cod stocks increased when fishery scenarios shifted from SS-focused to MS-focused; (iii) fisheries management incorporating HCR yielded more stable system catch and system biomass; and (iv) high plankton biomass combined with fisheries management using HCR could maintain stable ecosystem production and sustainable fisheries. Based on our findings, we highlight possible adaptive fisheries management strategies in the face of future climate and ocean changes. Overall, EBRPs complement SS stock assessments by incorporating key ecological processes and ecosystem properties, thus providing supporting evidence for better incorporation of ecosystem considerations into scientific advice for sustainable fisheries management.
Development, Spatial Distribution, and Presence on Grapevine of Nymphs of Orientus ishidae (Hemiptera: Cicadellidae), a New Vector of Flavescence Dorée Phytoplasmas
Authors: Lessio Federico , Bocca Federico , Alma Alberto 
Published: June 2019

Abstract
Orientus ishidae (Matsumura) (subfamily Deltocephalinae) is an Asian species now widespread in Europe, and a vector of 16SrV phytoplasmas agents of grapevine Flavescence dorée (FDP). Embryonic and post-embryonic development, spatial distribution, and relationships with grapevine of nymphs were studied under field and laboratory conditions. Egg-hatching dynamics and post-embryonic development of nymphs were studied by collecting grapevine wood from managed and unmanaged vineyards (including bot European Vitis vinifera L., and wild American rootstocks) and storing it inside rearing cages at T = 21–23°C. Field sampling of nymphs were made on both grapevine and two elective host plants of O. ishidae: hazelnut and hornbeam. Taylor’s Power Law was applied to assess the aggregation coefficient of early- (first and second) and late- (third to fifth) life instars on leaves and shoots of host plants. More nymphs were obtained from wood collected in unmanaged rather than managed vineyards. Under lab conditions, the embryonic development lasted 34–48 d, whereas the whole post-embryonic development averaged 27 d. Under field conditions, early instars peaked at the end of May, and late instars peaked 2–4 wk later. The aggregation patterns decreased from early to late instars, and from leaves to shoots. Very few nymphs were observed on unmanaged grapevine, either European or American, and none on managed European grapevine. Some behavioral and FDP epidemiological consequences of the results obtained are discussed.
Trends in Mortality Due to Cancer in the United States by Age and County-Level Income, 1999–2015
Authors: Withrow Diana R , Berrington de González Amy , Spillane Susan , Freedman Neal D , Best Ana F , Chen Yingxi , Shiels Meredith S 
Published: June 2019

Abstract
Disparities in cancer mortality by county-level income have increased. It is unclear whether these widening disparities have affected older and younger adults equally. National death certificate data were utilized to ascertain cancer deaths during 1999–2015. Average annual percent changes in mortality rates and mortality rate ratios (RRs) were estimated by county-level income quintile and age (25–64 vs ≥65 years). Among 25- to 64-year-olds, cancer mortality rates were 30% higher (RR = 1.30, 95% confidence interval [CI] = 1.29 to 1.31) in the lowest-vs the highest-income counties in 1999–2001 and 56% higher (RR = 1.56, 95% CI = 1.55 to 1.57) in 2013–2015; the disparities among those 65 years and older were smaller but also widened over time (RR1999–2001 = 1.04, 95% CI = 1.03 to 1.05; RR2013–2015 = 1.14, 95% CI = 1.13 to 1.14). Widening disparities occurred across cancer sites. If all counties had the mortality rates of the highest-income counties, 21.5% of cancer deaths among 25- to 64-year-olds and 7.3% of cancer deaths in those 65 years and older would have been avoided in 2015. These results highlight an ongoing need for equity-focused interventions, particularly among younger adults.
GRB 161219B/SN 2016jca: a powerful stellar collapse
Authors: Ashall C , Mazzali P A , Pian E , Woosley S E , Palazzi E , Prentice S J , Kobayashi S , Holmbo S , Levan A , Perley D , Stritzinger M D , Bufano F , Filippenko A V , Melandri A , Oates S , Rossi A , Selsing J , Zheng W , Castro-Tirado A J , Chincarini G , D’Avanzo P , De Pasquale M , Emery S , Fruchter A S , Hurley K , Moller P , Nomoto K , Tanaka M , Valeev A F 
Published: June 2019

ABSTRACT
We report observations and analysis of the nearby gamma-ray burst GRB 161219B (redshift z = 0.1475) and the associated Type Ic supernova (SN) 2016jca. GRB 161219B had an isotropic gamma-ray energy of ∼1.6 × 1050 erg. Its afterglow is likely refreshed at an epoch preceding the first photometric points (0.6 d), which slows down the decay rates. Combined analysis of the SN light curve and multiwavelength observations of the afterglow suggest that the GRB jet was broad during the afterglow phase (full opening angle ∼42° ± 3°). Our spectral series shows broad absorption lines typical of GRB supernovae (SNe), which testify to the presence of material with velocities up to ∼0.25c. The spectrum at 3.73 d allows for the very early identification of an SN associated with a GRB. Reproducing it requires a large photospheric velocity ($35\, 000 \pm 7000$ km s−1). The kinetic energy of the SN is estimated through models to be Ekin≈4 × 1052 erg in spherical symmetry. The ejected mass in the explosion was Mej≈6.5 ± 1.5 M⊙, much less than that of other GRB-SNe, demonstrating diversity among these events. The total amount of 56Ni in the explosion was 0.27 ± 0.05 M⊙. The observed spectra require the presence of freshly synthesized 56Ni at the highest velocities, at least three times more than a standard GRB-SN. We also find evidence for a decreasing 56Ni abundance as a function of decreasing velocity. This suggests that SN 2016jca was a highly aspherical explosion viewed close to on-axis, powered by a compact remnant. Applying a typical correction for asymmetry, the energy of SN 2016jca was ∼(1–3) × 1052 erg, confirming that most of the energy produced by GRB-SNe goes into the kinetic energy of the SN ejecta.
Atmospheric oscillations provide simultaneous measurement of neutron star mass and radius
Authors: Bollimpalli D A , Wielgus M , Abarca D , Kluźniak W 
Published: June 2019

ABSTRACT
Neutron stars with near-Eddington observable luminosities were shown to harbour levitating atmospheres, suspended above their surfaces. We report a new method to simultaneously measure the mass and radius of a neutron star based on oscillations of such atmospheres. In this paper, we present an analytic derivation of a family of relativistic, oscillatory, spherically symmetric eigenmodes of the optically and geometrically thin levitating atmospheres, including the damping effects induced by the radiation drag. We discover characteristic maxima in the frequencies of the damped oscillations and show that from a measurement of the frequency maximum and of the luminosity one can determine the mass and radius of the neutron star. In addition to the stellar parameters, observation of the variation of the oscillation frequencies with flux would allow us to estimate the stellar luminosity and therefore the distance to the source with an accuracy of a few per cent. We also show that the ratio of any two undamped eigenfrequencies depends only on the adiabatic index of the atmosphere, while for the damped eigenfrequencies, this ratio varies with the luminosity. The damping coefficient is independent of the mode number of the oscillations. Signatures of the dynamics of such atmospheres will be reflected in the source’s X-ray light curves.
ROAD† and K2 photometry of V348 Sgr: probing the pulsation dust connection
Authors: Jeffery C S , Hambsch F-J 
Published: June 2019

ABSTRACTV348 Sgr is simultaneously an active hot R Coronae Borealis (RCB) variable, a peculiar extreme helium star, and the hydrogen-deficient central star of a planetary nebula. Explaining the RCB-type variability has been difficult since the star spends much of its time at minimum light. We present new ground-based multicolour photometry covering five observing seasons and 80 d of continuous photometry from space. The latter demonstrate small-amplitude (&lt;0.01 mag) variability at maximum light on time-scales typical for strange-mode pulsation in hot helium supergiants. These could provide a trigger for frequent dust-production episodes; other mechanisms must also be considered. Multicolour photometry probes the reddening properties of extinction events from minimum to maximum light. The latter are comparable with extinction events due to carbonaceous grains seen in cooler RCB stars. Minimal reddening at minimum light is indicative that starlight scattered from circumstellar dust into the line of sight dominates transmitted light.
Searching for fast extragalactic X-ray transients in Chandra surveys
Authors: Yang (杨光) G , Brandt W N , Zhu (朱世甫) S F , Bauer F E , Luo (罗斌) B , Xue (薛永泉) Y Q , Zheng (郑学琛) X C 
Published: June 2019

ABSTRACT
Recent works have discovered two fast (≈10 ks) extragalactic X-ray transients in the Chandra Deep Field-South (CDF-S XT1 and XT2). These findings suggest that a large population of similar extragalactic transients might exist in archival X-ray observations. We develop a method that can effectively detect such transients in a single Chandra exposure, and systematically apply it to Chandra surveys of CDF-S, CDF-N, DEEP2, UDS, COSMOS, and E-CDF-S, totaling 19 Ms of exposure. We find 13 transient candidates, including CDF-S XT1 and XT2. With the aid of available excellent multiwavelength observations, we identify the physical nature of all these candidates. Aside from CDF-S XT1 and XT2, the other 11 sources are all stellar objects, and all of them have z-band magnitudes brighter than 20. We estimate an event rate of ${59^{+77}_{-38}\ \rm {evt\ yr^{-1}\, deg^{-2}}}$ for CDF-S XT-like transients with 0.5–7 keV peak fluxes log Fpeak ≳ −12.6 (erg cm−2 s−1). This event rate translates to ${\approx 15^{+20}_{-10}}$ transients existing among Chandra archival observations at Galactic latitudes |b| &gt; 20°, which can be probed in future work. Future missions such as Athena and the Einstein Probe with large grasps (effective area × field of view) are needed to discover a large sample (∼thousands) of fast extragalactic X-ray transients.
TRAF6 mediates human DNA2 polyubiquitination and nuclear localization to maintain nuclear genome integrity
Authors: Meng Yuan , Liu Changwei , Shen Lei , Zhou Mian , Liu Wenpeng , Kowolik Claudia , Campbell Judith L , Zheng Li , Shen Binghui 
Published: June 2019

Abstract
The multifunctional human DNA2 (hDNA2) nuclease/helicase is required to process DNA ends for homology-directed recombination repair (HDR) and to counteract replication stress. To participate in these processes, hDNA2 must localize to the nucleus and be recruited to the replication or repair sites. However, because hDNA2 lacks the nuclear localization signal that is found in its yeast homolog, it is unclear how its migration into the nucleus is regulated during replication or in response to DNA damage. Here, we report that the E3 ligase TRAF6 binds to and mediates the K63-linked polyubiquitination of hDNA2, increasing the stability of hDNA2 and promoting its nuclear localization. Inhibiting TRAF6-mediated polyubiquitination abolishes the nuclear localization of hDNA2, consequently impairing DNA end resection and HDR. Thus, the current study reveals a mechanism for the regulation of hDNA2 localization and establishes that TRAF6-mediated hDNA2 ubiquitination activates DNA repair pathways to maintain nuclear genome integrity.
Co-SELECT reveals sequence non-specific contribution of DNA shape to transcription factor binding in vitro
Authors: Pal Soumitra , Hoinka Jan , Przytycka Teresa M 
Published: June 2019

Abstract
Understanding the principles of DNA binding by transcription factors (TFs) is of primary importance for studying gene regulation. Recently, several lines of evidence suggested that both DNA sequence and shape contribute to TF binding. However, the following compelling question is yet to be considered: in the absence of any sequence similarity to the binding motif, can DNA shape still increase binding probability? To address this challenge, we developed Co-SELECT, a computational approach to analyze the results of in vitro HT-SELEX experiments for TF–DNA binding. Specifically, Co-SELECT leverages the presence of motif-free sequences in late HT-SELEX rounds and their enrichment in weak binders allows Co-SELECT to detect an evidence for the role of DNA shape features in TF binding. Our approach revealed that, even in the absence of the sequence motif, TFs have propensity to bind to DNA molecules of the shape consistent with the motif specific binding. This provides the first direct evidence that shape features that accompany the preferred sequence motifs also bestow an advantage for weak, sequence non-specific binding.
Associations Between Exposure and Receptivity to Branded Cigarette Advertising and Subsequent Brand Preference Among US Young Adults
Authors: Moran Meghan Bridgid , Soneji Samir , Tan Andy S L , Choi Kelvin 
Published: June 2019

Abstract

Introduction
Exposure and receptivity to cigarette advertising are well-established predictors of cigarette use overall. However, less is known about whether exposure and receptivity to advertising for specific brands of cigarettes (ie, Marlboro, Camel, and Newport) are longitudinally associated with any subsequent cigarette use and subsequent use of those specific brands.

Methods
We analyzed data from a US sample of 7325 young adults aged 18–24 years who completed both Wave 1 and Wave 2 of the Population Assessment of Tobacco and Health study. Weighted logistic regression models were used to examine (1) among Wave 1 never-smokers, associations between Wave 1 exposure and receptivity to advertising for Marlboro, Camel, and Newport and subsequent overall and brand-specific smoking initiation at Wave 2, and (2) among Wave 1 ever-smokers, associations between Wave 1 exposure and receptivity to advertising for Marlboro, Camel, and Newport and subsequent preference of those brands at Wave 2.

Results
Among Wave 1 young-adult never-smokers, exposure to Camel advertising, but not Marlboro or Newport, was associated with smoking initiation with any brand of cigarettes at Wave 2. Among Wave 1 young-adult ever-smokers, receptivity to Marlboro, Camel, and Newport advertising was associated with subsequent preference for each brand, respectively, at Wave 2.

Conclusions
This study found evidence for the association between receptivity to branded cigarette marketing and subsequent use of that brand. These findings provide evidence regarding the pathways through which cigarette marketing attracts young adults to use cigarettes and can inform tobacco prevention and counter-marketing efforts.

Implications
This study extends prior work on the effects of cigarette advertising exposure and receptivity by illustrating the brand specificity of this advertising. These findings provide evidence that receptivity to branded cigarette advertising is longitudinally associated with preference for those specific cigarette brands.
Workers’ recovery from concussions presenting to the emergency department
Authors: Gaudet L A , Eliyahu L , Beach J , Mrazik M , Cummings G , Voaklander D C , Rowe B H 
Published: June 2019

AbstractBackgroundThe emergency department (ED) is the first point of care for many patients with concussion, and post-concussion syndrome can impact vocational outcomes like successful return to work. Evaluation of concussion in general adult populations is needed.AimsTo document the occurrence and outcomes of work-related concussion presenting to the ED for treatment.MethodsThis study enrolled adults presenting with concussion to three urban Canadian EDs. Baseline ED interviews, physician questionnaires and patient phone interviews at 30 and 90 days documented work-related events, ED management, discharge advice, patient adherence and symptom severity. Work-related injury and return to work were modelled using logistic or linear regression, as appropriate.ResultsOverall, 172 enrolled workers completed at least one follow-up. Work-related concussions were uncommon (n = 28). Most employees (80%) missed at least 1 day of work (median = 7; interquartile range: 3–14). Most (91%) employees returned to work within 90 days, while 41% reported persistent symptoms. Manual labour and self-reported history of attention deficit hyperactivity disorder were associated with work-related concussion, while days of missed work increased with marital status (divorced), history of sleep disorder and physician’s advice to avoid work.ConclusionWork-related concussions are infrequent; however, most workers who sustain a concussion will miss work, and many return while still experiencing symptoms. Work-related concussion and days of missed work are mainly affected by non-modifiable factors. Workers, employers and the workers’ compensation system should take necessary precautions to ensure that workers return to work safely and successfully following a concussion.
Excessive daytime sleepiness and alcohol consumption among commercial drivers
Authors: Filomeno R , Ikeda A , Maruyama K , Wada H , Tanigawa T 
Published: June 2019

Abstract

Background
Commercial drivers suffering from excessive daytime sleepiness (EDS) have been identified as a major cause of road traffic accidents. Alcohol usage directly affects sleep, adversely affecting next-day alertness and performance.

Aims
To examine the relationship between alcohol consumption and EDS among commercial truck drivers in Japan and the implications of this on public health.

Methods
All participants in this cross-sectional study were commercial motor vehicle drivers from Tokyo and Niigata Prefecture. Participants completed a self-administered questionnaire with details of their age, body mass index, alcohol consumption, Epworth Sleepiness Scale (ESS) score and tobacco usage. Participants’ oxygen desaturation index was determined by a pulse oximetry device that participants took home.

Results
A total of 1422 males registered with the Japan Trucking Association and aged 20–69 years participated. The multivariate-adjusted odds ratio (OR) of EDS among participants aged <43 years was 0.81 (95% confidence interval (CI) 0.47–1.40) for light drinkers, 0.93 (95% CI 0.51–1.70) for moderate drinkers and 0.61 (95% CI 0.21–1.79) for heavy drinkers, compared to non-drinkers. The multivariate-adjusted OR among participants aged ≥43 years was 1.42 (95% CI 0.59–3.45) for light drinkers, 1.53 (95% CI 0.63–3.75) for moderate drinkers and 3.37 (95% CI 1.14–9.96) for heavy drinkers (P for interaction = 0.05).

Conclusion
We found that the association between ESS and alcohol intake was more evident among those aged ≥43 years, who reported higher levels of EDS with increased alcohol consumption.