bluuebunny/crossref_metadata_2025_split huggingface dataset:
Gradience, allophony, and chain shifts
Authors: Dinkin Aaron J. , Dodsworth Robin 
Published: March 2017

ABSTRACTThe monophthongization of /ay/ in the Southern United States is disfavored by following voiceless consonants (price) relative to voiced or word-final environments (prize). If monophthongization is the trigger for the Southern Shift (Labov, 2010) and chain shifts operate as predicted by a modular feedforward phonological theory (cf. Bermúdez-Otero, 2007), this impliespriceandprizemust be two ends of a phonetic continuum, rather than two discrete allophones. We test this hypothesis via distributional analysis of offglide targets and statistical analysis of the effect of vowel duration. As predicted, we findpriceandprizeshare a continuous distribution in the Inland South, the region where the Southern Shift probably originated (Labov, Ash, & Boberg, 2006). We use Raleigh, North Carolina, outside the Inland South, as a comparison point; there, the same methodologies indicatepriceandprizeare more discretely separated. Our results thus offer empirical support for the phonological theory that motivated the hypothesis.
Regional diversity in social perceptions of (ing)
Authors: Schleef Erik , Flynn Nicholas , Barras William 
Published: March 2017

AbstractThis article examines the perception of the (ing) variants, [ɪŋ] and [ɪn], in three regionally distinct localities in Britain: London in the South of England; Manchester in the North; and Edinburgh in Scotland. Data was gathered in perceptual tests in which respondents from each location rated stimuli doublets, each containing only one of the variants of (ing), on multiple social attribute scales. In London and Manchester, the perception of [ɪŋ] and [ɪn] broadly matches findings made for the United States in that speakers using [ɪŋ] are considered more articulate and hardworking, and less casual than speakers using [ɪn]. In Edinburgh, results are markedly different. We argue that these differences are due to a combination of factors that include the historical development of (ing) in a particular locale, which led to differences in production, variations in language ideology and, as a result, class-specific evaluations that appear to be regionally dependent.
Highly-sensitive capture of circulating tumor cells using micro-ellipse filters
Authors: Chen Hongmei , Cao Baoshan , Sun Bo , Cao Yapeng , Yang Ke , Lin Yu-Sheng 
Published: March 2017

AbstractCirculating tumor cells (CTCs) detection, enumeration and characterization with microfluidic chips has critical significance in cancer prognosis offering a non-invasive “liquid biopsy”. Based on physical differences of size and deformability, we explore micro-ellipse filters consisting of microfuidic slits in series gradually narrowed. Slender tunnels sensitively capture tumor cells with slim chance to escape. Tumor cells could reside at capture sites organized by arrays of micro-ellipse microposts enduring less stress. Circular elliptical microstructures produce smooth flow minimally reducing any damage. “Air Suction” could extremely shorten capture. Capture efficiency comes out to be a robust yield of 90% and percentage obeys Gaussian distribution at various stages. With rare number accurately enumerated, micro-Ellipse filters have been tested high efficiently capturing tumor cells in both whole and lysed blood. To clinically validate the device, the microfluidic chip was utilized to identify and capture CTCs from metastatic breast, colon and non-small-cell lung (NSCLC) cancer patients. CTCs were detected positive in all samples with 4 patients having more than 20 CTCs. Those sensitive results are consistent with theoretical expectation. Efficient micro-ellipse filters enable clinical enumeration of metastasis, on-chip anti-cancer drug responses and biological molecular analysis.
A starvation-induced regulator, RovM, acts as a switch for planktonic/biofilm state transition in Yersinia pseudotuberculosis
Authors: Zhao Ruoxi , Song Yunhong , Dai Qingyun , Kang Yiwen , Pan Junfeng , Zhu Lingfang , Zhang Lei , Wang Yao , Shen Xihui 
Published: March 2017

AbstractThe transition between the planktonic state and the biofilm-associated state is a key developmental decision for pathogenic bacteria. Biofilm formation by Yersinia pestis is regulated by hmsHFRS genes (β-1, 6-N-acetyl-D-glucosamine synthesis operon) in its flea vector and in vitro. However, the mechanism of biofilm formation in Yersinia pseudotuberculosis remains elusive. In this study, we demonstrate that the LysR-type regulator RovM inversely regulates biofilm formation and motility in Y. pseudotuberculosis by acting as a transcriptional regulator of these two functions. RovM is strongly induced during growth in minimal media but strongly repressed in complex media. On one hand, RovM enhances bacterial motility by activating the expression of FlhDC, the master regulator of flagellar genes, via the recognition of an operator upstream of the flhDC promoter. On the other hand, RovM represses β-GlcNAc production under nutrition-limited conditions, negatively regulating hmsHFRS expression by directly binding to the −35 element of its promoter. Compared to wild-type bacteria, the rovM mutant established denser biofilms and caused more extensive mortality in mice and silkworm larvae. These results indicate that RovM acts as a molecular switch to coordinate the expression of genes involved in biofilm formation and motility in response to the availability of nutrients.
Bonobo anatomy reveals stasis and mosaicism in chimpanzee evolution, and supports bonobos as the most appropriate extant mode﻿l for the common ancestor of chimpanzees and humans
Authors: Diogo Rui , Molnar Julia L. , Wood Bernard 
Published: March 2017

AbstractCommon chimps and bonobos are our closest living relatives but almost nothing is known about bonobo internal anatomy. We present the first phylogenetic analysis to include musculoskeletal data obtained from a recent ﻿dissection of bonobos. Notably, chimpanzees, and in particular bonobos, provide a remarkable case of evolutionary stasis for since the chimpanzee-human split c.8 Ma among >120 head-neck (HN) and forelimb (FL) muscles there were only four minor changes in﻿ the chimpanzee clade, and all were reversions to the ancestral condition. Moreover, since the common chimpanzee-bonobo split c.2 Ma there have been no changes in bonobos, so with respect to HN-FL musculature bonobos are the better model for the last common ancestor (LCA) of chimpanzees/bonobos and humans. Moreover, in the hindlimb there are only two muscle absence/presence differences between common chimpanzees and bonobos. Puzzlingly, there is an evolutionary mosaicism between each of these species and humans. We discuss these data in the context of available genomic information and debates on whether the common chimpanzee-bonobo divergence is linked to heterochrony.
Sourdough authentication: quantitative PCR to detect the lactic acid bacterial microbiota in breads
Authors: Pontonio Erica , Di Cagno Raffaella , Mahony Jennifer , Lanera Alessia , De Angelis Maria , van Sinderen Douwe , Gobbetti Marco 
Published: March 2017

AbstractNo national legislation anywhere in the world regulates and protects traditional/typical sourdough breads. Sourdough fermentation is firmly associated with a century-old tradition, and with sensory and nutritional quality of breads. A well-defined cell density of lactic acid bacteria has to be reached at the end of fermentation, and be indirectly detectable in baked breads. A Quantitative PCR (qPCR) method was developed to discriminate between breads made with and without sourdoughs. Universal primers targeting an approximately 178-bp fragment of the 16S rRNA-encoding gene of lactic acid bacteria were designed, covering the known diversity of sourdough lactic acid bacteria and excluding commonly encountered flour bacterial contaminants. A total of 191 breads either made with traditional type I and dried sourdough and baker’s yeast, or by a chemical leavening method were shown to be accurately discriminated by means of qPCR. Discriminating values of gene copy number were only weakly correlated with pH values, and with lactate and acetate concentration, thus questioning the validity of these latter indirect indices. The use of sourdough has to be guaranteed to meet both bakery and consumer expectations, and to fulfil legal requirements; our work presents a reliable authentication method providing a suitable tool to satisfy such requirements.
The role of Lon-mediated proteolysis in the dynamics of mitochondrial nucleic acid-protein complexes
Authors: Kunová Nina , Ondrovičová Gabriela , Bauer Jacob A. , Bellová Jana , Ambro Ľuboš , Martináková Lucia , Kotrasová Veronika , Kutejová Eva , Pevala Vladimír 
Published: March 2017

AbstractMitochondrial nucleoids consist of several different groups of proteins, many of which are involved in essential cellular processes such as the replication, repair and transcription of the mitochondrial genome. The eukaryotic, ATP-dependent protease Lon is found within the central nucleoid region, though little is presently known about its role there. Aside from its association with mitochondrial nucleoids, human Lon also specifically interacts with RNA. Recently, Lon was shown to regulate TFAM, the most abundant mtDNA structural factor in human mitochondria. To determine whether Lon also regulates other mitochondrial nucleoid- or ribosome-associated proteins, we examined the in vitro digestion profiles of the Saccharomyces cerevisiae TFAM functional homologue Abf2, the yeast mtDNA maintenance protein Mgm101, and two human mitochondrial proteins, Twinkle helicase and the large ribosomal subunit protein MrpL32. Degradation of Mgm101 was also verified in vivo in yeast mitochondria. These experiments revealed that all four proteins are actively degraded by Lon, but that three of them are protected from it when bound to a nucleic acid; the Twinkle helicase is not. Such a regulatory mechanism might facilitate dynamic changes to the mitochondrial nucleoid, which are crucial for conducting mitochondrial functions and maintaining mitochondrial homeostasis.
Salivary gland maturation and duct formation in the African malaria mosquito Anopheles gambiae
Authors: Wells Michael B. , Villamor Jordan , Andrew Deborah J. 
Published: March 2017

AbstractMosquito-borne diseases cause one million deaths and hundreds of millions of human infections yearly. With all such diseases, the pathogen must traverse the mosquito salivary gland (SG) for transmission to a new host, making the SGs ideal targets for genetic strategies to block transmission. Prior studies have elucidated details of SG structure by light and electron microscopy and have deeply explored the salivary transcriptome and proteome. Very little is known, however, about how the unique functional architecture of mosquito SGs is achieved. Using immunohistochemistry and confocal microscopy, we address two questions regarding SGs of the malaria vector Anopheles gambiae. How does the distinct cup-shaped morphology of SG secretory cells arise? And, how does the salivary duct, the structure through which saliva and parasites exit the glands, form? We demonstrate that SG cells begin as cuboidal-shaped cells surrounding a matrix-filled lumen that mature into cup-shaped cells through the formation and fusion of a large pre-apical compartment (PAC) to the apical surface. The secretory duct begins as buds of chitin at the apical surface of individual secretory cells. Further chitin deposition connects these chitin buds to form a contiguous duct that largely separates from the apical surface during PAC fusion.
Dyrk1A overexpression leads to increase of 3R-tau expression and cognitive deficits in Ts65Dn Down syndrome mice
Authors: Yin Xiaomin , Jin Nana , Shi Jianhua , Zhang Yanchong , Wu Yue , Gong Cheng-Xin , Iqbal Khalid , Liu Fei 
Published: March 2017

AbstractAlternative splicing of tau exon 10 generates tau isoforms with three or four microtubule-binding repeats, 3R-tau and 4R-tau, which is equally expressed in adult human brain. Imbalanced expression in 3R-tau and 4R-tau has been found in several sporadic and inherited tauopathies, suggesting that dysregulation of tau exon 10 is sufficient to cause neurodegenerative diseases. We previously reported that Dyrk1A, which is overexpressed in Down syndrome brains, regulates alternative splicing of exogenous tau exon 10. In the present study, we investigated the regulation of endogenous tau exon 10 splicing by Dyrk1A. We found that inhibition of Dyrk1A enhanced tau exon 10 inclusion, leading to an increase in 4R-tau/3R-tau ratio in differentiated-human neuronal progenitors and in the neonatal rat brains. Accompanied with overexpression of Dyrk1A, 3R-tau was increased and 4R-tau was decreased in the neonatal brains of Ts65Dn mice, a model of Down syndrome. Treatment with Dyrk1A inhibitor, green tea flavonol epigallocatechin-gallate (EGCG), from gestation to adulthood suppressed 3R-tau expression and rescued anxiety and memory deficits in Ts65Dn mouse brains. Thus, Dyrk1A might be an ideal therapeutic target for Alzheimer’s disease, especially for Down syndrome and EGCG which inhibits Dyrk1A may have potential effect on the treatment or prevention of this disease.
Farnesoid X receptor, a novel proto-oncogene in non-small cell lung cancer, promotes tumor growth via directly transactivating CCND1
Authors: You Wenjie , Chen Bi , Liu Xueqing , Xue Shan , Qin Hui , Jiang Handong 
Published: March 2017

AbstractFarnesoid X receptor (FXR), a nuclear receptor for maintaining bile acid homeostasis, has been recognized as a tumor suppressor in enterohepatic tissues. However, its expression and functional role in non-small cell lung cancer (NSCLC) remain unclear. We report that FXR is significantly increased in NSCLC and that it predicts poor clinical outcomes in NSCLC patients. FXR knockdown in NSCLC cells inhibitedin vitrocell proliferation, blocked xenograft growth in nude mice, and delayed the G1/S transition of the cell cycle, whereas ectopic overexpression of FXR promoted NSCLC cell proliferation. Mechanistic analysis demonstrated that FXR could directly bind to an inverted repeat-0 sequence in theCCND1promoter and activate its transcription. Cyclin D1 overexpression rescued NSCLC cells from the delayed G1/S transition and the impaired cell proliferation induced by FXR knockdown. Importantly, a positive correlation between the expression of FXR and cyclin D1 was confirmed in NSCLC samples, and patients with high expression of both FXR and cyclin D1 had the worst prognosis. In summary, our results suggest that FXR has oncogenic potential in NSCLC development, providing mechanistic insights that could be exploited for both prognostic and therapeutic purposes.
Single laser pulse generates dual photoacoustic signals for differential contrast photoacoustic imaging
Authors: Gao Fei , Feng Xiaohua , Zhang Ruochong , Liu Siyu , Ding Ran , Kishor Rahul , Zheng Yuanjin 
Published: March 2017

AbstractPhotoacoustic sensing and imaging techniques have been studied widely to explore optical absorption contrast based on nanosecond laser illumination. In this paper, we report a long laser pulse induced dual photoacoustic (LDPA) nonlinear effect, which originates from unsatisfied stress and thermal confinements. Being different from conventional short laser pulse illumination, the proposed method utilizes a long square-profile laser pulse to induce dual photoacoustic signals. Without satisfying the stress confinement, the dual photoacoustic signals are generated following the positive and negative edges of the long laser pulse. More interestingly, the first expansion-induced photoacoustic signal exhibits positive waveform due to the initial sharp rising of temperature. On the contrary, the second contraction-induced photoacoustic signal exhibits exactly negative waveform due to the falling of temperature, as well as pulse-width-dependent signal amplitude. An analytical model is derived to describe the generation of the dual photoacoustic pulses, incorporating Gruneisen saturation and thermal diffusion effect, which is experimentally proved. Lastly, an alternate of LDPA technique using quasi-CW laser excitation is also introduced and demonstrated for both super-contrast in vitro and in vivo imaging. Compared with existing nonlinear PA techniques, the proposed LDPA nonlinear effect could enable a much broader range of potential applications.
Systemic frequencies of T helper 1 and T helper 17 cells in patients with age-related macular degeneration: A case-control study
Authors: Singh Amardeep , Subhi Yousif , Krogh Nielsen Marie , Falk Mads Krüger , Matzen Sara Maj Hyldig , Sellebjerg Finn , Sørensen Torben Lykke 
Published: March 2017

AbstractAge-related macular degeneration (AMD) is a degenerative disease of the retina and a leading cause of irreversible vision loss. We investigated the systemic differences in the frequency of T helper (Th) 1 and Th17 cells in patients with non-exudative and exudative AMD and compared to age-matched controls. Flow cytometry was used to determine the systemic frequency of Th1 (CD4+CXCR3+IL12RB2+) and Th17 (CD4+CCR6+IL23R+) cells, and percentage of CD4+ T-cells expressing CXCR3, IL12RB2, CCR6, IL23R, and co-expressing CXCR3 and CCR6. The frequency of Th1 cells and CXCR3+ CD4+ T-cells was lower in patients with exudative AMD. A significant age-dependent decrement in Th1 was observed in controls, but not in non-exudative or exudative AMD. This may be related to the CXCR3+ CD4+ T-cells, which showed similar pattern in controls, but not in non-exudative or exudative AMD. No significant group differences were observed for the frequency of Th17 cells. Correlation networks found several differences between controls and AMD. These data suggests the involvement of the adaptive immune system in AMD and supports the notion of AMD as a systemic disease. Our observations warrant further investigation into the role of the adaptive immune system in the pathogenesis of AMD.
The Arabidopsis Cop9 signalosome subunit 4 (CSN4) is involved in adventitious root formation
Authors: Pacurar Daniel Ioan , Pacurar Monica Lacramioara , Lakehal Abdellah , Pacurar Andrea Mariana , Ranjan Alok , Bellini Catherine 
Published: March 2017

AbstractThe COP9 signalosome (CSN) is an evolutionary conserved multiprotein complex that regulates many aspects of plant development by controlling the activity of CULLIN-RING E3 ubiquitin ligases (CRLs). CRLs ubiquitinate and target for proteasomal degradation a vast number of specific substrate proteins involved in many developmental and physiological processes, including light and hormone signaling and cell division. As a consequence of CSN pleiotropic function, complete loss of CSN activity results in seedling lethality. Therefore, a detailed analysis of CSN physiological functions in adult Arabidopsis plants has been hampered by the early seedling lethality of csn null mutants. Here we report the identification and characterization of a viable allele of the Arabidopsis COP9 signalosome subunit 4 (CSN4). The allele, designated csn4-2035, suppresses the adventitious root (AR) phenotype of the Arabidopsis superroot2-1 mutant, potentially by altering its auxin signaling. Furthermore, we show that although the csn4-2035 mutation affects primary and lateral root (LR) formation in the 2035 suppressor mutant, CSN4 and other subunits of the COP9 complex seem to differentially control AR and LR development.
Flow Cytometric Measurement of Blood Cells with BCR-ABL1 Fusion Protein in Chronic Myeloid Leukemia
Authors: Löf Liza , Arngården Linda , Olsson-Strömberg Ulla , Siart Benjamin , Jansson Mattias , Dahlin Joakim S. , Thörn Ingrid , Christiansson Lisa , Hermansson Monica , Larsson Anders , Ahlstrand Erik , Wålinder Göran , Söderberg Ola , Rosenquist Richard , Landegren Ulf , Kamali-Moghaddam Masood 
Published: March 2017

AbstractChronic myeloid leukemia (CML) is characterized in the majority of cases by a t(9;22)(q34;q11) translocation, also called the Philadelphia chromosome, giving rise to the BCR-ABL1 fusion protein. Current treatment with tyrosine kinase inhibitors is directed against the constitutively active ABL1 domain of the fusion protein, and minimal residual disease (MRD) after therapy is monitored by real-time quantitative PCR (RQ-PCR) of the fusion transcript. Here, we describe a novel approach to detect and enumerate cells positive for the BCR-ABL1 fusion protein by combining the in situ proximity ligation assay with flow cytometry as readout (PLA-flow). By targeting of the BCR and ABL1 parts of the fusion protein with one antibody each, and creating strong fluorescent signals through rolling circle amplification, PLA-flow allowed sensitive detection of cells positive for the BCR-ABL1 fusion at frequencies as low as one in 10,000. Importantly, the flow cytometric results correlated strongly to those of RQ-PCR, both in diagnostic testing and for MRD measurements over time. In summary, we believe this flow cytometry-based method can serve as an attractive approach for routine measurement of cells harboring BCR-ABL1 fusions, also allowing simultaneously assessment of other cell surface markers as well as sensitive longitudinal follow-up.
Mechanical Relaxation-to-Rejuvenation Transition in a Zr-based Bulk Metallic Glass
Authors: Zhang M. , Wang Y. M. , Li F. X. , Jiang S. Q. , Li M. Z. , Liu L. 
Published: March 2017

AbstractThe relaxation of amorphous materials, i.e., aging, would largely endanger their performances in service. Here we report a mechanical relaxation-to-rejuvenation transition of a Zr35Ti30Be27.5Cu7.5 bulk metallic glass (BMG) in elastostatic compression at ambient temperature, thus provide an accessible way to tailor the mechanical properties of amorphous materials. To unravel the structural evolution underlying the observed transition, atomistic simulations parallel with the experimental tests on a typical model glass system Zr60Cu40 were performed, which successfully reproduced and thus upheld the experimentally observed mechanical relaxation-to-rejuvenation transition. The variations of coordination number and atomic volume during the transition are evaluated to indicate a de-mixing tendency of the constituent atoms in the rejuvenation stage. This de-mixing tendency largely explains the difference between mechanical rejuvenation and thermal rejuvenation and reveals a competitive relationship between activation enthalpy and activation entropy in the stress-driven temperature-assisted atomic dynamics of BMG, such as diffusion and plastic deformation etc.
HIP 21539 is not a past very close neighbour of the Sun
Authors: Crifo F. , Soubiran C. , Jasniewicz G. , Katz D. , Sartoretti P. , Panuzzo P. 
Published: March 2017

Aims. A previous study claimed that the star HIP 21539 passed close to the Sun, at a distance of 1.9 pc, around 0.14 Myr ago. We show that this is not the case.
Methods. We redetermined the trajectory of the star relative to the Sun using a new accurate radial velocity from the HARPS spectrograph combined with the recent Gaia-TGAS astrometry.
Results. With this new data, the closest approach of HIP 21539 to the Sun is now 17 pc, instead of 1.9 pc.
Conclusions. At this distance, the star has not perturbed the Oort cloud.