bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fat, weather, and date affect migratory songbirds’ departure decisions, routes, and time it takes to cross the Gulf of Mexico
Authors: Deppe Jill L. , Ward Michael P. , Bolus Rachel T. , Diehl Robert H. , Celis-Murillo Antonio , Zenzal Theodore J. , Moore Frank R. , Benson Thomas J. , Smolinsky Jaclyn A. , Schofield Lynn N. , Enstrom David A. , Paxton Eben H. , Bohrer Gil , Beveroth Tara A. , Raim Arlo , Obringer Renee L. , Delaney David , Cochran William W. 
Published: November 2015

Significance
Bird migration has captivated the attention of scientists and lay people for centuries, but many unanswered questions remain about how birds negotiate large geographic features during migration. We tracked songbirds across the Gulf of Mexico to investigate the factors associated with birds’ departure decisions, arrival at the Yucatan Peninsula (YP), and crossing times. Our findings suggest that a bird’s fat reserves and low humidity, indicative of favorable synoptic weather patterns, shape departure decisions. Fat, date, and wind conditions predict birds’ detection in the YP. This study highlights the complex decision-making process involved in crossing the Gulf and its effects on migratory routes and speeds. A better understanding of the factors influencing migration across these features will inform conservation of migratory animals.
Seasonal fluxes of carbonyl sulfide in a midlatitude forest
Authors: Commane Róisín , Meredith Laura K. , Baker Ian T. , Berry Joseph A. , Munger J. William , Montzka Stephen A. , Templer Pamela H. , Juice Stephanie M. , Zahniser Mark S. , Wofsy Steven C. 
Published: November 2015

SignificanceThe flux of carbonyl sulfide (OCS) provides a quantitative, independent measure of biospheric activity, especially stomatal conductance and carbon uptake, at the ecosystem scale. We describe the factors controlling the hourly, daily, and seasonal fluxes of OCS based on 1 year of observations in a forest ecosystem. Vegetation dominated uptake of OCS, with daytime fluxes accounting for 72% of the total uptake for the year. Nighttime fluxes had contributions from both incompletely closed stomata and soils. Net OCS emission was observed at high temperature in summer. Diurnal and seasonal variations in OCS flux show variable stoichiometry relative to photosynthetic uptake of CO2. An effective model framework is shown, using an explicit representation of ecosystem processing of OCS.
Automatic classification of prostate cancer Gleason scores from multiparametric magnetic resonance images
Authors: Fehr Duc , Veeraraghavan Harini , Wibmer Andreas , Gondo Tatsuo , Matsumoto Kazuhiro , Vargas Herbert Alberto , Sala Evis , Hricak Hedvig , Deasy Joseph O. 
Published: November 2015

Significance
Gleason scores and ultimately the aggressiveness of prostate cancers determined using transrectal ultrasound (TRUS)-guided biopsy procedures could result in incorrect diagnosis in addition to patient discomfort. The Gleason scores determined from TRUS-guided biopsies often differ from immediate repeat biopsies and the biopsies determined following whole excision of the prostate. Our approach presents a highly accurate and automated method for differentiating between the high ≥7 and low Gleason score 6(3+3), as well as between 7(3+4) and 7(4+3) Gleason score cancers through multiparametric MRI combined with texture features computed on the same images. Noninvasive and accurate techniques such as ours can benefit patient care without subjecting them to unnecessary interventions.
Ultrasensitive gas detection of large-area boron-doped graphene
Authors: Lv Ruitao , Chen Gugang , Li Qing , McCreary Amber , Botello-Méndez Andrés , Morozov S. V. , Liang Liangbo , Declerck Xavier , Perea-López Nestor , Cullen David A. , Feng Simin , Elías Ana Laura , Cruz-Silva Rodolfo , Fujisawa Kazunori , Endo Morinobu , Kang Feiyu , Charlier Jean-Christophe , Meunier Vincent , Pan Minghu , Harutyunyan Avetik R. , Novoselov Konstantin S. , Terrones Mauricio 
Published: November 2015

SignificanceThe gas-sensing performance of graphene could be remarkably enhanced by incorporating dopants into its lattice based on theoretical calculations. However, to date, experimental progress on boron-doped graphene (BG) is still very scarce. Here, we achieved the controlled growth of large-area, high-crystallinity BG sheets and shed light on their electronic features associated with boron dopants at the atomic scale. As a proof-of-concept, it is demonstrated that boron doping in graphene could lead to a much enhanced sensitivity when detecting toxic gases (e.g. NO2). Our results will open up new avenues for developing high-performance sensors able to detect trace amount of molecules. In addition, other new fascinating properties can be exploited based on as-synthesized large-area BG sheets.
Single-molecule motions and interactions in live cells reveal target search dynamics in mismatch repair
Authors: Liao Yi , Schroeder Jeremy W. , Gao Burke , Simmons Lyle A. , Biteen Julie S. 
Published: November 2015

Significance
We integrated single-molecule superresolution imaging with biochemical and genomic approaches to understand how the mismatch repair protein MutS efficiently identifies DNA mismatches during real time in living cells. We show that MutS molecules move fast, exploring the entire nucleoid, but can transition to a slow-moving population that is localized at the replisome even before a mismatch is produced. We show that bacterial MutS must initiate mismatch binding in very close proximity to the replisome. We also show that mismatch detection increases MutS speed, supporting the model for MutS sliding clamp formation after mismatch recognition. Our results provide fundamental insight into the searching behavior of single MutS molecules during DNA replication in live cells.
Maternal testosterone exposure increases anxiety-like behavior and impacts the limbic system in the offspring
Authors: Hu Min , Richard Jennifer Elise , Maliqueo Manuel , Kokosar Milana , Fornes Romina , Benrick Anna , Jansson Thomas , Ohlsson Claes , Wu Xiaoke , Skibicka Karolina Patrycja , Stener-Victorin Elisabet 
Published: November 2015

Significance
Polycystic ovary syndrome (PCOS) is the leading cause of anovulatory infertility characterized by excessive androgen secretion. PCOS women are at an increased risk of developing depression and anxiety disorders. Although the etiology of PCOS is unclear, it is proposed to originate during fetal development because of maternal androgen excess. We describe here, in rodent models reflecting the anxiety phenotype of PCOS, evidence for disordered androgen receptor function in the amygdala, together with changes in estrogen receptor-α, serotonergic and GABAergic genes in the amygdala, and hippocampus. These findings define a previously unknown mechanism that may be critical in understanding how maternal androgen excess has the potential to increase the risk of developing anxiety disorders in daughters and sons of PCOS mothers.
Persistent impacts of West Nile virus on North American bird populations
Authors: George T. Luke , Harrigan Ryan J. , LaManna Joseph A. , DeSante David F. , Saracco James F. , Smith Thomas B. 
Published: November 2015

SignificanceSince its introduction to North America, West Nile virus (WNV) has impacted the health of both human and wildlife populations, but the extent of the burden across host species remains poorly understood. Using extensive mark-recapture data from 49 species spanning nearly two decades, combined with recently developed models of WNV risk, we estimated the impacts of this emergent disease on avian populations. We show that WNV has had significant negative effects on survival of 47% of bird species examined. We provide the first in-depth picture of the extent, duration, and phylogenetic signal of WNV impacts on bird populations. Our results suggest that introduced infectious diseases can have significant persistent effects on populations long after initial concerns have waned.
An analysis of ozone damage to historical maize and soybean yields in the United States
Authors: McGrath Justin M. , Betzelberger Amy M. , Wang Shaowen , Shook Eric , Zhu Xin-Guang , Long Stephen P. , Ainsworth Elizabeth A. 
Published: November 2015

SignificanceAlthough it has long been known that ground-level ozone (O3) damages crops and reduces yield, there has never been an estimate of the total loss attributed to ambient O3for field-grown maize and soybean in the United States. Knowing the loss caused by this pollutant would be useful for projecting food supply and setting regulatory standards for pollutant emissions. Here we show that ambient O3has reduced maize and soybean yields in rain-fed fields by ∼10% and 5%, respectively, based on historical observations from the past 31 y. Results suggest that air-quality regulations in the United States have been effective in reducing crop production losses to O3, and indicate that further reductions in ground-level [O3] would be beneficial in the United States and globally.
Community rescue in experimental metacommunities
Authors: Low-Décarie Etienne , Kolber Marcus , Homme Paige , Lofano Andrea , Dumbrell Alex , Gonzalez Andrew , Bell Graham 
Published: November 2015

Significance
Global environmental change is challenging the adaptive capacity of entire ecological communities. Community rescue occurs when populations within a community evolve in response to an environmental stress that was initially lethal to all the constituent organisms. We studied how communities of soil microbes can extend the area they occupy to include conditions that were initially lethal, and how these communities can persist despite the degradation of environmental conditions. Our results suggest that entire communities have the potential to adapt to severe environmental stress. Community rescue is promoted by the initial diversity in the community, is more frequent among communities that have previously experienced intermediate sublethal levels of stress, and is facilitated by the dispersal of organisms across the landscape.
The human hippocampus contributes to both the recollection and familiarity components of recognition memory
Authors: Merkow Maxwell B. , Burke John F. , Kahana Michael J. 
Published: November 2015

SignificanceRecognition memory is thought to be composed of recollection, accompanied by vivid details, and familiarity or a general sense of knowing. A fundamental and long-standing question remains: Which of these processes does the hippocampus support? We measured high-frequency activity (HFA), a spatiotemporally precise signal of neural activation, in subjects undergoing direct brain recordings and found that hippocampal HFA dissociated based on both the stimulus evidence presented and the response choice. Hippocampal HFA predicted overall memory performance as well as individual differences in both recollection and familiarity estimates. Our findings reject the hypothesis that the hippocampus exclusively supports the recollection component of recognition memory and, instead, indicate that this structure is functionally relevant to both processes thought to support recognition.
Filming the formation and fluctuation of skyrmion domains by cryo-Lorentz transmission electron microscopy
Authors: Rajeswari Jayaraman , Huang Ping , Mancini Giulia Fulvia , Murooka Yoshie , Latychevskaia Tatiana , McGrouther Damien , Cantoni Marco , Baldini Edoardo , White Jonathan Stuart , Magrez Arnaud , Giamarchi Thierry , Rønnow Henrik Moodysson , Carbone Fabrizio 
Published: November 2015

Significance
The need for denser storage devices calls for new materials and nanostructures capable of confining single bits of information in a few nanometers. A new topological distribution of spins termed skyrmions is emerging, which promises to robustly confine a small magnetization in a few-nanometers-wide circular domain. A great deal of attention is being devoted to the understanding of these magnetic patterns and their manipulation. We manufactured a large nanoslice supporting over 70,000 skyrmions, and film their evolution in direct-space via cryo-Lorentz transmission electron microscopy. We reveal the octagonal distortion of the skyrmion lattice and show how these distortions and other defects impact its long-range order. These results pave the way to the control of a large two-dimensional array of skyrmions.
An anticomplement agent that homes to the damaged brain and promotes recovery after traumatic brain injury in mice
Authors: Ruseva Marieta M. , Ramaglia Valeria , Morgan B. Paul , Harris Claire L. 
Published: November 2015

SignificanceTraumatic brain injury (TBI) is the leading cause of death in young adults. We describe an inhibitor of complement membrane attack complex (MAC), which homes to sites of complement deposition in the injured brain, inhibits local inflammation and inflammasome activation, and is neuroprotective in experimental TBI, raising the prospect that such agents may provide effective treatment of TBI in man. Targeting anti-MAC therapy to pathology minimizes systemic effects and maintains upstream opsonization pathways essential to fight infections, a major cause of death post-TBI. Critically, we show a significant therapeutic window in the mouse model, raising the prospect that such a homing agent, administered postinjury, would be neuroprotective. We provide a rational basis for developing novel future therapeutic strategies for TBI.
Role of HIV-1 matrix protein p17 variants in lymphoma pathogenesis
Authors: Dolcetti Riccardo , Giagulli Cinzia , He Wangxiao , Selleri Marina , Caccuri Francesca , Eyzaguirre Lindsay M. , Mazzuca Pietro , Corbellini Silvia , Campilongo Federica , Marsico Stefania , Giombini Emanuela , Muraro Elena , Rozera Gabriella , De Paoli Paolo , Carbone Antonino , Capobianchi Maria Rosaria , Ippolito Giuseppe , Fiorentini Simona , Blattner William A. , Lu Wuyuan , Gallo Robert C. , Caruso Arnaldo 
Published: November 2015

Significance
Non-Hodgkin lymphomas (NHLs) are associated with HIV-1 infection, but the HIV1 genome is not detectable in malignant B cells. Here we show that variants of the HIV-1 matrix protein p17 (vp17s) are detected in the NHL specimens of HIV+ patients. These vp17s are more frequently detected in HIV+ patients with NHL than in patients without NHL. These vp17s display a potent B-cell growth-promoting activity, which is exerted by activating the Akt signaling pathway. Results obtained by CD spectroscopy and thermal denaturation suggest that mutation-induced protein destabilization may lead to a conformational change potentially responsible for the viral protein to promote B-cell growth. Our results suggest that vp17s may have a role in sustaining lymphomagenesis, thus offering new opportunities to prevent and/or treat HIV-associated NHLs.
Direct real-time detection of the structural and biochemical events in the myosin power stroke
Authors: Muretta Joseph M. , Rohde John A. , Johnsrud Daniel O. , Cornea Sinziana , Thomas David D. 
Published: November 2015

Significance
Myosins use ATP hydrolysis to power movement, but how they do this remains enigmatic. If we understood exactly how ATP’s chemical energy is coupled to force generation, we would gain insight into the fundamental biophysics of these fascinating and medically important proteins. We combined subnanosecond time-resolved FRET with millisecond-resolved transient kinetics to monitor subnanometer structural transitions in myosin during the actin-activated myosin power stroke. Our results show that the power stroke precedes phosphate release, thus contradicting the dominant model of myosin function, which argues that phosphate release should precede the power stroke. Our work prompts future studies investigating how this coordination is altered by disease-causing mutations and therapies designed to treat these diseases.
JAK inhibition alleviates the cellular senescence-associated secretory phenotype and frailty in old age
Authors: Xu Ming , Tchkonia Tamara , Ding Husheng , Ogrodnik Mikolaj , Lubbers Ellen R. , Pirtskhalava Tamar , White Thomas A. , Johnson Kurt O. , Stout Michael B. , Mezera Vojtech , Giorgadze Nino , Jensen Michael D. , LeBrasseur Nathan K. , Kirkland James L. 
Published: November 2015

Significance
A hallmark of aging is chronic sterile inflammation, which is closely associated with frailty and age-related diseases. We found that senescent fat progenitor cells accumulate in adipose tissue with aging and acquire a senescence-associated secretory phenotype (SASP), with increased production of proinflammatory cytokines compared with nonsenescent cells. These cells provoked inflammation in adipose tissue and induced macrophage migration. The JAK pathway is activated in adipose tissue with aging, and the SASP can be suppressed by inhibiting the JAK pathway in senescent cells. JAK1/2 inhibitors reduced inflammation and alleviated frailty in aged mice. One possible mechanism contributing to reduced frailty is SASP inhibition. Our study points to the JAK pathway as a potential target for countering age-related dysfunction.
Life and extinction of megafauna in the ice-age Arctic
Authors: Mann Daniel H. , Groves Pamela , Reanier Richard E. , Gaglioti Benjamin V. , Kunz Michael L. , Shapiro Beth 
Published: November 2015

Significance
Understanding species extinction is a major concern today, and past extinctions provide valuable lessons. Numerous mammal species became extinct in the Arctic at the end of the ice age, but it is unclear why. By comparing numbers of dated bones with climate records, we find that megafaunal species, like mammoth, horse, and bison, experienced boom and bust cycles during the ice age as they tracked rapid climate changes. For these species to persist, long-distance dispersal was necessary. Their extinction on the North Slope occurred as the ice age ended, because rising sea level severed dispersal routes and spreading peat simultaneously degraded range quality. This finding suggests that arctic mammals can be resilient to environmental changes but only if their habitats remain widely interconnected.
Evolutionary origins of hepatitis A virus in small mammals
Authors: Drexler Jan Felix , Corman Victor M. , Lukashev Alexander N. , van den Brand Judith M. A. , Gmyl Anatoly P. , Brünink Sebastian , Rasche Andrea , Seggewiβ Nicole , Feng Hui , Leijten Lonneke M. , Vallo Peter , Kuiken Thijs , Dotzauer Andreas , Ulrich Rainer G. , Lemon Stanley M. , Drosten Christian ,   the Hepatovirus Ecology Consortium, Akoua-Koffi Chantal G. , Ameneiros Ramón Seage , Goodman Steven M. , Godlevska Elena V. , Tungaluna Guy-Crispin Gembu , Görföl Tamás , Hassanin Alexandre , Koivogui Lamine , Krüger Detlev H. , Lakim Maklarin B. , Lavrenchenko Leonid , Leroy Eric M. , Matthee Sonja , ter Meulen Jan , Adu-Sarkodie Yaw , Oppong Samuel , Preiser Wolfgang , Pereira Maria João Ramos , Reusken Chantal B. E. M. , Schneider Julia , Schmidt-Chanasit Jonas , Fichet-Calvet Elisabeth , Seebens-Hoyer Antje , Gloza-Rausch Florian , Setién Alvaro Aguilar , Tschapka Marco , Wells Konstans , Wegner Tom , Wilkinson David A. 
Published: November 2015

Significance
The origins of human hepatitis A virus (HAV) are unknown. We conducted a targeted search for HAV-related viruses in small mammals sampled globally and discovered highly diversified viruses in bats, rodents, hedgehogs, and shrews. We demonstrate that these viruses share unique biological features with HAV, including structural, genomic, antigenic, and pathogenic properties. We found evidence of major shifts of HAV-related viruses between mammalian hosts in the past, suggesting both an origin of this viral genus in small mammals and a zoonotic origin of human HAV. Our data show that risk assessments for emerging viruses can benefit greatly from the analysis of viral infection patterns that evolved within animal reservoirs.
Twisted photon entanglement through turbulent air across Vienna
Authors: Krenn Mario , Handsteiner Johannes , Fink Matthias , Fickler Robert , Zeilinger Anton 
Published: November 2015

Significance
The spatial structure of photons provides access to a very large state space. It enables the encoding of more information per photon, useful for (quantum) communication with large alphabets and fundamental studies of high-dimensional entanglement. However, the question of the distribution of such photons has not been settled yet, as they are significantly influenced by atmospheric turbulence in free-space transmissions. In the present paper we show that it is possible to distribute quantum entanglement of spatially structured photons over a free-space intracity link. We demonstrate the access to four orthogonal quantum channels in which entanglement can be distributed over large distances. Furthermore, already available technology could provide access to even larger quantum state spaces.
Distinguishing the immunostimulatory properties of noncoding RNAs expressed in cancer cells
Authors: Tanne Antoine , Muniz Luciana R. , Puzio-Kuter Anna , Leonova Katerina I. , Gudkov Andrei V. , Ting David T. , Monasson Rémi , Cocco Simona , Levine Arnold J. , Bhardwaj Nina , Greenbaum Benjamin D. 
Published: November 2015

Significance
Using an approach derived from statistical physics, we quantify transcriptome-wide motif usage in human and murine noncoding RNAs (ncRNAs), determining that most have motif usage consistent with the coding genome. However, an outlier subset of tumor-associated ncRNAs comprises repetitive elements whose motif usage patterns are more typically associated with the genomes of inflammatory pathogens. We demonstrate that a key subset of these elements directly activates the cellular innate immune response. We propose that the innate response in tumors partially originates from direct interaction of immunogenic ncRNAs preferentially expressed in cancer cells with innate pattern recognition receptors.
Pericentromeric satellite repeat expansions through RNA-derived DNA intermediates in cancer
Authors: Bersani Francesca , Lee Eunjung , Kharchenko Peter V. , Xu Andrew W. , Liu Mingzhu , Xega Kristina , MacKenzie Olivia C. , Brannigan Brian W. , Wittner Ben S. , Jung Hyunchul , Ramaswamy Sridhar , Park Peter J. , Maheswaran Shyamala , Ting David T. , Haber Daniel A. 
Published: November 2015

Significance
Unique among the large number of noncoding RNA species, the pericentromeric human satellite II (HSATII) repeat is massively expressed in a broad set of epithelial cancers but is nearly undetectable in normal tissues. Here, we show that deregulation of HSATII expression is tightly linked to growth under nonadherent conditions, and we uncover an unexpected mechanism by which HSATII RNA-derived DNA (rdDNA) leads to progressive elongation of pericentromeric regions in tumors. The remarkable specificity of HSATII overexpression in cancers, together with the consequences of targeting its RT, points to a potential novel vulnerability of cancer cells.
Rising morbidity and mortality in midlife among white non-Hispanic Americans in the 21st century
Authors: Case Anne , Deaton Angus 
Published: November 2015

Significance
Midlife increases in suicides and drug poisonings have been previously noted. However, that these upward trends were persistent and large enough to drive up all-cause midlife mortality has, to our knowledge, been overlooked. If the white mortality rate for ages 45−54 had held at their 1998 value, 96,000 deaths would have been avoided from 1999–2013, 7,000 in 2013 alone. If it had continued to decline at its previous (1979‒1998) rate, half a million deaths would have been avoided in the period 1999‒2013, comparable to lives lost in the US AIDS epidemic through mid-2015. Concurrent declines in self-reported health, mental health, and ability to work, increased reports of pain, and deteriorating measures of liver function all point to increasing midlife distress.