bluuebunny/crossref_metadata_2025 huggingface dataset:
Sidi Khrebish 1971–2: The Pottery
Authors: Kenrick P. M.
Published: February 2016

The pottery so far examined is of great interest, and a full publication of the many sealed groups will undoubtedly form a valuable addition to our knowledge of the Hellenistic and Roman wares of the whole Mediterranean basin. Though little material classifiable as fine wares has yet been recovered belonging to the fourth century A.D. and later, in all other periods the most marked characteristic of the fine wares is their tremendous variety, and the fact that both eastern and western products are represented in comparable quantities. In the Hellenistic period, both Italian and Greek black-glazed wares are found, the latter slightly predominating, as well as a flourishing local industry producing similar shapes in a rather coarser fabric; Megarian bowls are present in limited quantity, principally in an orange micaceous fabric with a glossy slip of varying colour, but at least four other fabrics have been identified, one of them Athenian. The Eastern Sigillata wares A and B both occur in equal quantity, and Çandarli ware is also found; Arretine and its related Italian wares were imported in great quantities, and a certain amount of south and central Gaulish samian regularly occurs, but it is never common. Another red-gloss ware that is notable for its regular presence on this site and for the variety of its forms is that tentatively identified by Dr J. W. Hayes as Cypriot Sigillata: the type series for this ware at Sidi Khrebish will extend considerably that published by Hayes (Report of the Dept. of Antiquities of Cyprus, 1967), and will add many forms that are common to the repertoire of the early Roman Sigillata wares as a whole.
Phytoliths as indicators of grassland dynamics during the Holocene from lake sediments in the Ubari sand sea, Fazzan Basin, Libya
Authors: Parker Adrian , Harris Belinda , White Kevin , Drake Nick
Published: February 2016

This paper presents the first study of phytoliths from the Saharan region. Phytolith analysis shows the potential of reconstructing grassland dynamics during the Holocene, refining our knowledge of palaeoecosystems in the Ubari sand sea, Libya. The lake sediments studied range in age between 3,273–9,440 cal. BP. Tree cover was very low around 3,273–3,436 cal. BP and 6,678–6,796 cal. BP, and the landscape was dominated by C4 grasslands around 6,678–6,796 cal. BP, shifting to a more mixed C3-C4 grassland community around 3,273–3,436 cal. BP. These differences may be caused by the older sample being deposited during the onset of a brief arid period, but a similar phytolith assemblage could arise due to a more pronounced seasonality in the climate, with C3 grasses dominating late and early in the growing season when the climate is cooler and less arid, and C4 grasses becoming dominant in the hot, dry summer season.
The Tomb of Grenna, Cyrene
Authors: Thorn James Copland , Thorn Dorothy May , Cherstich Luca
Published: February 2016

This tomb, recorded by Jean-Raimond Pacho in 1825 and partially excavated in 1848 by Vattier de Bourville, contained four decorated marble sarcophagi, three of them placed in large recesses, the fourth on the floor of the central hall. It was next mentioned in 1949 by Morgan, the Antiquities Officer, and recorded by Cassels in 1954. In 1958 Goodchild and Ward-Perkins partially cleared it, but left no known account of their findings. In 2000 James Thorn found that the interior walls were originally clad with marble veneer and the floor was mosaic, evidently a tomb of imperial grandeur.
Fourqsurbetween the Wadis Islan and Samalus, Cyrenaica
Authors: Bennett Paul , Buzaian Ahmed , al-Muzeini Abdelgader , Abdulkareem Faraj , Khalifa Fathalla , al-Touati Mohammed
Published: February 2016

This brief paper has been prepared to shed light on fourqsurlocated in close proximity to one another on three different sites overlooking an important Haj and caravan route between Soluq in northwestern Cyrenaica and Tamimi to the east, on the Gulf of Bomba. Massively built in mudbrick and faced with stone, eachqasrwas positioned to dominate an adjacent cultivated wadi crossed by the caravan route. Theqsur, with many constructional details in common but in various states of dilapidation, were built on the site of previous settlements and have yet to be conclusively dated. Two possible construction dates are suggested. The buildings may have been constructed in the later Roman period to form part of a system of defence similar to thelimes Tripolitanusin that they were built not only to protect the settlements and roadway that they undoubtedly served but as frontier outposts (and defence ‘in depth’) for the cities of the Pentapolis on the south side of the Gebel Akhdar. It is equally possible that theqsurmay be of post-Roman date, being built not only for a local defensive purpose, but to provide security and hospitality for those travelling the most direct route between Soluq and Tamimi, south of the Gebel.
The Cyrenaican Prehistory Project 2008: the second season of investigations of the Haua Fteah cave and its landscape, and further results from the initial (2007) fieldwork
Authors: Barker Graeme , Basell Laura , Brooks Ian , Burn Lucilla , Cartwright Caroline , Cole Franca , Davison John , Farr Lucy , Grün Rainer , Hamilton Roisin , Hunt Chris , Inglis Robyn , Jacobs Zenobia , Leitch Victoria , Morales Jacob , Morley Iain , Morley Mike , Pawley Steven , Pryor Alex , Rabett Ryan , Reynolds Tim , el-Rishi Hwedi , Roberts Richard , Simpson David , Stimpson Chris , Touati Mohammed , van der Veen Marijke
Published: February 2016

The second (2008) season of fieldwork of the Cyrenaican Prehistory Project has significantly advanced understanding of the Haua Fteah stratigraphy and of the archaeology and geomorphology of the landscape in which the cave is located. The excavations of the McBurney backfill have reached a total depth of 7.5 m below the present ground surface, the depth at which two human mandibles were found in the 1950s excavations. Reconnaissance at the Hagfet ed-Dabba established that the sediments associated with the Upper Palaeolithic ‘Dabban’ industry were more or less entirely removed by the McBurney excavation. Exploratory excavations in the Hagfet al-Gama, a coastal cave west of the Haua Fteah, found evidence of Mesolithic, Neolithic, and Hellenistic occupation. The initial results from the study of botanical remains, both macroscopic and microscopic, obtained in the 2007 season at the Haua Fteah confirm the potential of the site to yield a rich suite of materials to inform on climatic and environmental change, and on human activities in the cave.
DMP II: 2008 fieldwork on burials and identity in the Wadi al-Ajal
Authors: Mattingly David , Dore John , Lahr Marta , Ahmed Muftah , Cole Franca , Crisp Jon , Rodriguez Mireya Gonzalez , Hobson Matt , Ismayer Misbah , Leitch Victoria , Moussa Farès , Nikita Efthymia , Reeds Ian , Savage Toby , Sterry Martin
Published: February 2016

The second season of the Desert Migrations Project took place in January 2008, with work following several substrands. The Burials and Identity component of the project is the subject of this report. Excavation and survey work were concentrated in the Watwat embayment, expanding on, and completing the work begun in 2007. Forty burials have now been excavated from the approximately 2,500 surveyed by the project team in a series of different cemeteries and burial zones within the closed valley that cuts back into the escarpment of the Massak, approximately 3 km southwest of Jarma. The most exciting discovery this year was the recovery of two mummified bodies from the UAT008 cemetery, along with further well-preserved textiles, including some exquisitely woven multi-coloured fragments. Another major discovery was a richly furnished Garamantian burial (UAT050.T5), containing numerous imported vessels (fineware, glass and amphorae) from the Roman world. Additional excavations included two child burials from GSC048, located in a modern quarry due south of Jarma, and a preliminary investigation of one of the Taqallit cemeteries, located approximately 30 km to the west (to be the subject of the main excavation effort in 2009).
Western Marmarica Coastal Survey 2008: a preliminary report
Authors: Hulin Linda
Published: February 2016

This paper reports the preliminary results of a brief survey east of Tobruk over Easter 2008. The survey concentrated upon two areas: between Wadi Qseirat and Wadi Gabar, north of Kambut and around Marsa Lukk. Thirty-four sites were identified, ranging from larger settlements near good harbours (one each at Wadi Duma and Marsa Lukk), to farmsteads, farms and larger inland villages. Eleven sites provided evidence of industrial activity through the presence of kiln waste and at four of them, of the kilns themselves. Dated sites belong to the Early and Late Roman periods, Iron Age and Hellenistic sherds are present in small quantities. Marmaric ware, first identified along the coast of the western desert of Egypt, is shown to extend into this area and may be associated with cairn and enclosure burials.
GUIDING PRINCIPLES FOR GOOD PRACTICES IN HOSPITAL-BASED HEALTH TECHNOLOGY ASSESSMENT UNITS
Authors: Sampietro-Colom Laura , Lach Krzysztof , Pasternack Iris , Wasserfallen Jean-Blaise , Cicchetti Americo , Marchetti Marco , Kidholm Kristian , Arentz-Hansen Helene , Rosenmöller Magdalene , Wild Claudia , Kahveci Rabia , Ulst Margus
Published: February 2016

Objectives: Health technology assessment (HTA) carried out for policy decision making has well-established principles unlike hospital-based HTA (HB-HTA), which differs from the former in the context characteristics and ways of operation. This study proposes principles for good practices in HB-HTA units.

Methods: A framework for good practice criteria was built inspired by the EFQM excellence business model and information from six literature reviews, 107 face-to-face interviews, forty case studies, large-scale survey, focus group, Delphi survey, as well as local and international validation. In total, 385 people from twenty countries have participated in defining the principles for good practices in HB-HTA units.

Results: Fifteen guiding principles for good practices in HB-HTA units are grouped in four dimensions. Dimension 1 deals with principles of the assessment process aimed at providing contextualized information for hospital decision makers. Dimension 2 describes leadership, strategy and partnerships of HB-HTA units which govern and facilitate the assessment process. Dimension 3 focuses on adequate resources that ensure the operation of HB-HTA units. Dimension 4 deals with measuring the short- and long-term impact of the overall performance of HB-HTA units. Finally, nine core guiding principles were selected as essential requirements for HB-HTA units based on the expertise of the HB-HTA units participating in the project.

Conclusions: Guiding principles for good practices set up a benchmark for HB-HTA because they represent the ideal performance of HB-HTA units; nevertheless, when performing HTA at hospital level, context also matters; therefore, they should be adapted to ensure their applicability in the local context.
Mechanism of action of brexpiprazole: comparison with aripiprazole
Authors: Stahl Stephen M.
Published: February 2016

Brexpiprazole is a new therapeutic agent that was recently approved for the treatment of schizophrenia and for the adjunctive treatment of major depressive disorder. Brexpiprazole has features that both overlap and contrast with a related molecule, aripiprazole, and these features are discussed here.
Scanning Electron Microscopy Reveals Two Distinct Classes of Erythroblastic Island Isolated from Adult Mammalian Bone Marrow
Authors: Yeo Jia Hao , McAllan Bronwyn M. , Fraser Stuart T.
Published: February 2016

Erythroblastic islands are multicellular clusters in which a central macrophage supports the development and maturation of red blood cell (erythroid) progenitors. These clusters play crucial roles in the pathogenesis observed in animal models of hematological disorders. The precise structure and function of erythroblastic islands is poorly understood. Here, we have combined scanning electron microscopy and immuno-gold labeling of surface proteins to develop a better understanding of the ultrastructure of these multicellular clusters. The erythroid-specific surface antigen Ter-119 and the transferrin receptor CD71 exhibited distinct patterns of protein sorting during erythroid cell maturation as detected by immuno-gold labeling. During electron microscopy analysis we observed two distinct classes of erythroblastic islands. The islands varied in size and morphology, and the number and type of erythroid cells interacting with the central macrophage. Assessment of femoral marrow isolated from a cavid rodent species (guinea pig,Cavis porcellus) and a marsupial carnivore species (fat-tailed dunnarts,Sminthopsis crassicaudata) showed that while the morphology of the central macrophage varied, two different types of erythroblastic islands were consistently identifiable. Our findings suggest that these two classes of erythroblastic islands are conserved in mammalian evolution and may play distinct roles in red blood cell production.
Ice stream motion facilitated by a shallow-deforming and accreting bed
Authors: Spagnolo Matteo , Phillips Emrys , Piotrowski Jan A. , Rea Brice R. , Clark Chris D. , Stokes Chris R. , Carr Simon J. , Ely Jeremy C. , Ribolini Adriano , Wysota Wojciech , Szuman Izabela
Published: February 2016

Ice streams drain large portions of ice sheets and play a fundamental role in governing their response to atmospheric and oceanic forcing, with implications for sea-level change. The mechanisms that generate ice stream flow remain elusive. Basal sliding and/or bed deformation have been hypothesized, but ice stream beds are largely inaccessible. Here we present a comprehensive, multi-scale study of the internal structure of mega-scale glacial lineations (MSGLs) formed at the bed of a palaeo ice stream. Analyses were undertaken at macro- and microscales, using multiple techniques including X-ray tomography, thin sections and ground penetrating radar (GPR) acquisitions. Results reveal homogeneity in stratigraphy, kinematics, granulometry and petrography. The consistency of the physical and geological properties demonstrates a continuously accreting, shallow-deforming, bed and invariant basal conditions. This implies that ice stream basal motion on soft sediment beds during MSGL formation is accommodated by plastic deformation, facilitated by continuous sediment supply and an inefficient drainage system.
Direct single-shot phase retrieval from the diffraction pattern of separated objects
Authors: Leshem Ben , Xu Rui , Dallal Yehonatan , Miao Jianwei , Nadler Boaz , Oron Dan , Dudovich Nirit , Raz Oren
Published: February 2016

The non-crystallographic phase problem arises in numerous scientific and technological fields. An important application is coherent diffractive imaging. Recent advances in X-ray free-electron lasers allow capturing of the diffraction pattern from a single nanoparticle before it disintegrates, in so-called ‘diffraction before destruction’ experiments. Presently, the phase is reconstructed by iterative algorithms, imposing a non-convex computational challenge, or by Fourier holography, requiring a well-characterized reference field. Here we present a convex scheme for single-shot phase retrieval for two (or more) sufficiently separated objects, demonstrated in two dimensions. In our approach, the objects serve as unknown references to one another, reducing the phase problem to a solvable set of linear equations. We establish our method numerically and experimentally in the optical domain and demonstrate a proof-of-principle single-shot coherent diffractive imaging using X-ray free-electron lasers pulses. Our scheme alleviates several limitations of current methods, offering a new pathway towards direct reconstruction of complex objects.
The T-box transcription factor 3 is a promising biomarker and a key regulator of the oncogenic phenotype of a diverse range of sarcoma subtypes
Authors: Willmer T , Cooper A , Sims D , Govender D , Prince S
Published: February 2016

Sarcomas represent a complex group of malignant neoplasms of mesenchymal origin and their heterogeneity poses a serious diagnostic and therapeutic challenge. There is therefore a need to elucidate the molecular mechanisms underpinning the pathogenesis of the more than 70 distinguishable sarcoma subtypes. The transcription factor TBX3, a critical developmental regulator, is overexpressed in several cancers of epithelial origin where it contributes to tumorigenesis by different molecular mechanisms. However, the status and role of TBX3 in sarcomas have not been reported. Here we show that a diverse subset of soft tissue and bone sarcoma cell lines and patient-derived sarcoma tissues express high levels of TBX3. We further explore the significance of this overexpression using a small interferring RNA approach and demonstrate that TBX3 promotes the migratory ability of chondrosarcoma, rhabdomyosarcoma and liposarcoma cells but inhibits fibrosarcoma cell migration. This suggested that TBX3 may play a key role in the development of different sarcoma subtypes by functioning as either an oncoprotein or as a brake to prevent tumour progression. To further explore this, TBX3 knockdown and overexpression cell culture models were established using chondrosarcoma and fibrosarcoma cells as representatives of each scenario, and the resulting cells were characterized with regard to key features of tumorigenesis. Results from in vitro and in vivo assays reveal that, while TBX3 promotes substrate-dependent and -independent cell proliferation, migration and tumour formation in chondrosarcoma cells, it discourages fibrosarcoma formation. Our findings provide novel evidence linking TBX3 to cancers of mesenchymal origin. Furthermore, we show that TBX3 may be a biomarker for the diagnosis of histologically dynamic sarcoma subtypes and that it impacts directly on their oncogenic phenotype. Indeed, we reveal that TBX3 may exhibit oncogene or tumour suppressor activity in sarcomas, which suggests that its role in cancer progression may rely on cellular context.
Controlling the Two-Photon-Induced Photon Cascade Emission in a Gd3+/Tb3+-Codoped Glass for Multicolor Display
Authors: Yuan Mao-Hui , Fan Hai-Hua , Li Hui , Lan Sheng , Tie Shao-Long , Yang Zhong-Min
Published: February 2016

We reported the first observation of the two-photon-induced quantum cutting phenomenon in a Gd3+/Tb3+-codoped glass in which two photons at ~400 nm are simultaneously absorbed, leading to the cascade emission of three photons in the visible spectral region. The two-photon absorption induced by femtosecond laser pulses allows the excitation of the energy states in Gd3+ which are inactive for single-photon excitation and enables the observation of many new electric transitions which are invisible in the single-photon-induced luminescence. The competition between the two-photon-induced photon cascade emission and the single-photon-induced emission was manipulated to control the luminescence color of the glass. We demonstrated the change of the luminescence color from red to yellow and eventually to green by varying either the excitation wavelength or the excitation power density.
Correction: Corrigendum: Site Specific Genetic Incorporation of Azidophenylalanine in Schizosaccharomyces pombe
Authors: Shao Nan , Singh N. Sadananda , Slade Susan E. , Jones Alexandra M. E. , Balasubramanian Mohan K.
Published: February 2016

Scientific Reports 5: Article number: 17196; published online: 24 November 2015; updated: 22 February 2016 This Article contains errors in the Acknowledgements section: “We express our sincere gratitude to the WPH Proteomics Research Technology Platform for the contribution to the mass spectrometry analysis.
Detection and delineation of oral cancer with a PARP1 targeted optical imaging agent
Authors: Kossatz Susanne , Brand Christian , Gutiontov Stanley , Liu Jonathan T. C. , Lee Nancy Y. , Gönen Mithat , Weber Wolfgang A. , Reiner Thomas
Published: February 2016

Earlier and more accurate detection of oral squamous cell carcinoma (OSCC) is essential to improve the prognosis of patients and to reduce the morbidity of surgical therapy. Here, we demonstrate that the nuclear enzyme Poly(ADP-ribose)Polymerase 1 (PARP1) is a promising target for optical imaging of OSCC with the fluorescent dye PARPi-FL. In patient-derived OSCC specimens, PARP1 expression was increased 7.8 ± 2.6-fold when compared to normal tissue. Intravenous injection of PARPi-FL allowed for high contrastin vivoimaging of human OSCC models in mice with a surgical fluorescence stereoscope and high-resolution imaging systems. The emitted signal was specific for PARP1 expression and, most importantly, PARPi-FL can be used as a topical imaging agent, spatially resolving the orthotopic tongue tumorsin vivo. Collectively, our results suggest that PARP1 imaging with PARPi-FL can enhance the detection of oral cancer, serve as a screening tool and help to guide surgical resections.
Acetaminophen induces accumulation of functional rat CYP3A via polyubiquitination dysfunction
Authors: Santoh Masataka , Sanoh Seigo , Takagi Masashi , Ejiri Yoko , Kotake Yaichiro , Ohta Shigeru
Published: February 2016

Acetaminophen (APAP) is extensively used as an analgesic and antipyretic drug. APAP is partly metabolized to N-acetyl-p-benzoquinone imine, a reactive metabolite, by cytochrome P450 (CYP) 1A2, 2E1 and 3A4. Some reports have indicated that CYP3A protein production and its metabolic activity are induced by APAP in rats in vivo. The CYP3A subfamily is believed to be transcriptionally regulated by chemical compounds. However, the mechanism underlying these responses is not completely understood. To clarify these mechanisms, we assessed the effects of APAP on CYP3A1/23 protein levels according to mRNA synthesis and protein degradation in rat hepatocyte spheroids, a model of liver tissue, in vivo. APAP induced CYP3A1/23 protein levels and metabolic activity. However, no change in CYP3A1/23 mRNA levels was observed. Moreover, APAP prolonged the half-life of CYP3A1/23 protein. CYP3A is known to be degraded via the ubiquitin-proteasome system. APAP significantly was found to decrease levels of polyubiquitinated CYP3A1/23 and glycoprotein 78, an E3 ligase of CYP3A1/23. These findings demonstrate that APAP induces accumulation of functional CYP3A protein via inhibition of protein degradation. Our findings may lead to the determination of novel drug–drug interactions with APAP.
LPS/TLR4-mediated stromal cells acquire an invasive phenotype and are implicated in the pathogenesis of adenomyosis
Authors: Guo Jing , Chen Li , Luo Ning , Li Caixia , Chen Rong , Qu Xiaoyan , Liu Mingmin , Kang Le , Cheng Zhongping
Published: February 2016

The present study tested whether the LPS/TLR4 signal pathway in endometrial stromal cells is essential for the pathogenesis of adenomyosis. We tested the expression of TLR4, MD2 in the endometrium without adenomyosis (CE), the eutopic endometrium with adenomyosis (EuE) and the ectopic endometrium with adenomyosis (EE). We isolated the stromal cells from CE, EuE and EE (CESC, EuESC, EESC), treated with lipopolysaccharide (LPS) and TLR4 antagonist and detected the cell viability. And we also measured the key protein of the TLR4 signal pathway and inflammatory proliferation and invasive growth of experimental cells. We found that the viability of experimental cells treated with LPS was significantly greater than that of the non-treated cells, blocked by the TLR4 antagonist VIPER. TLR4 signal pathway and inflammatory proliferation and invasive growth of experimental cells stimulated by LPS and it was inhibited by VIPER. This study suggested that stromal cells were activated by the TLR4 signalling pathway, which processed the cellular inflammatory proliferation and invasive growth involved in the pathogenesis of adenomyosis.
Short and long time effects of low temperature Plasma Activated Media on 3D multicellular tumor spheroids
Authors: Judée Florian , Fongia Céline , Ducommun Bernard , Yousfi Mohammed , Lobjois Valérie , Merbahi Nofel
Published: February 2016

This work investigates the regionalized antiproliferative effects of plasma-activated medium (PAM) on colon adenocarcinoma multicellular tumor spheroid (MCTS), a model that mimics 3D organization and regionalization of a microtumor region. PAM was generated by dielectric barrier plasma jet setup crossed by helium carrier gas. MCTS were transferred in PAM at various times after plasma exposure up to 48 hours and effect on MCTS growth and DNA damage were evaluated. We report the impact of plasma exposure duration and delay before transfer on MCTS growth and DNA damage. Local accumulation of DNA damage revealed by histone H2AX phosphorylation is observed on outermost layers and is dependent on plasma exposure. DNA damage is completely reverted by catalase addition indicating that H2O2 plays major role in observed genotoxic effect while growth inhibitory effect is maintained suggesting that it is due to others reactive species. SOD and D-mannitol scavengers also reduced DNA damage by 30% indicating that "Equation missing" and OH* are involved in H2O2 formation. Finally, PAM is able to retain its cytotoxic and genotoxic activity upon storage at +4 °C or −80 °C. These results suggest that plasma activated media may be a promising new antitumor strategy for colorectal cancer tumors.
Percutaneous coronary intervention for chronic total occlusion improved prognosis in patients with renal insufficiency at high risk of contrast-induced nephropathy
Authors: Liu Yong , Liu Yuanhui , Li Hualong , Zhou Yingling , Guo Wei , Duan Chongyang , Chen Shiqun , Chen Pingyan , Tan Ning , Chen Jiyan
Published: February 2016

We investigated whether attempted percutaneous coronary intervention (PCI) for chronic total occlusion (CTO) would improve the prognosis in patients with renal insufficiency at high risk of contrast-induced nephropathy (CIN). We analyzed 2,330 consecutive patients with renal insufficiency with or without CTOs who underwent coronary angiography or PCI from prospectively collected data. The long-term death and risk of CIN were evaluated among three groups: patients without CTOs (group A, n = 1,829), patients with un-attempted PCI for CTOs (group B, n = 142) and patients who underwent attempted PCI for CTOs (group C, n = 359). Overall, group B and group C (successful rate, 89%) patients had similar renal function and were not significantly associated with an increased risk of CIN (adjusted odds ratio [OR] = 0.88, 95% confidence interval [CI]: 0.41–1.93, P = 0.758). During a 2.33-year period (median), multivariate analysis demonstrated that attempted PCI for CTOs was independently associated with lower mortality (adjusted hazard ratio for death: 0.38, 95% CI: 0.18–0.83; P = 0.015). Attempted PCI for CTOs improved the long-term prognosis in patients with high-risk renal insufficiency and did not increase the risk of CIN.
Centrifugal photovoltaic and photogalvanic effects driven by structured light
Authors: Wätzel J. , Berakdar J.
Published: February 2016

Much efforts are devoted to material structuring in a quest to enhance the photovoltaic effect. We show that structuring light in a way it transfers orbital angular momentum to semiconductor-based rings results in a steady charge accumulation at the outer boundaries that can be utilized for the generation of an open circuit voltage or a photogalvanic (bulk photovoltaic) type current. This effect which stems both from structuring light and matter confinement potentials, can be magnified even at fixed moderate intensities, by increasing the orbital angular momentum of light which strengthens the effective centrifugal potential that repels the charge outwards. Based on a full numerical time propagation of the carriers wave functions in the presence of light pulses we demonstrate how the charge buildup leads to a useable voltage or directed photocurrent whose amplitudes and directions are controllable by the light pulse parameters.
A large-scale perspective on stress-induced alterations in resting-state networks
Authors: Maron-Katz Adi , Vaisvaser Sharon , Lin Tamar , Hendler Talma , Shamir Ron
Published: February 2016

Stress is known to induce large-scale neural modulations. However, its neural effect once the stressor is removed and how it relates to subjective experience are not fully understood. Here we used a statistically sound data-driven approach to investigate alterations in large-scale resting-state functional connectivity (rsFC) induced by acute social stress. We compared rsfMRI profiles of 57 healthy male subjects before and after stress induction. Using a parcellation-based univariate statistical analysis, we identified a large-scale rsFC change, involving 490 parcel-pairs. Aiming to characterize this change, we employed statistical enrichment analysis, identifying anatomic structures that were significantly interconnected by these pairs. This analysis revealed strengthening of thalamo-cortical connectivity and weakening of cross-hemispheral parieto-temporal connectivity. These alterations were further found to be associated with change in subjective stress reports. Integrating report-based information on stress sustainment 20 minutes post induction, revealed a single significant rsFC change between the right amygdala and the precuneus, which inversely correlated with the level of subjective recovery. Our study demonstrates the value of enrichment analysis for exploring large-scale network reorganization patterns and provides new insight on stress-induced neural modulations and their relation to subjective experience.
Overexpression of Suprabasin is Associated with Proliferation and Tumorigenicity of Esophageal Squamous Cell Carcinoma
Authors: Zhu Jinrong , Wu Geyan , Li Qingyuan , Gong Hui , Song Junwei , Cao Lixue , Wu Shu , Song Libing , Jiang Lili
Published: February 2016

Suprabasin is a recently identified oncoprotein that is upregulated in multiple cancers. However, the clinical significance and biological role of suprabasin in human esophageal squamous cell carcinoma (ESCC) remains unclear. In the current study, we reported that suprabasin was markedly overexpressed in ESCC cell lines and tissues at both mRNA and protein levels and this was associated with advanced clinical stage, tumor-nodes-metastasis (TNM) classification, histological differentiation, tumor size and poorer survival. Furthermore, we found that both proliferation and tumorigenicity of ESCC cells were significantly induced by suprabasin overexpression, but inhibited by suprabasin knock-down. Moreover, we demonstrated that upregulation of suprabasin activated the Wnt/β-catenin signaling pathway and led to nuclear localization of β-catenin and upregulation of Cyclin D1 and c-Myc. Together, our results suggest that suprabasin plays an important oncogenic role in promoting proliferation and tumorigenesis of ESCC.
Multi-target-qubit unconventional geometric phase gate in a multi-cavity system
Authors: Liu Tong , Cao Xiao-Zhi , Su Qi-Ping , Xiong Shao-Jie , Yang Chui-Ping
Published: February 2016

Cavity-based large scale quantum information processing (QIP) may involve multiple cavities and require performing various quantum logic operations on qubits distributed in different cavities. Geometric-phase-based quantum computing has drawn much attention recently, which offers advantages against inaccuracies and local fluctuations. In addition, multiqubit gates are particularly appealing and play important roles in QIP. We here present a simple and efficient scheme for realizing a multi-target-qubit unconventional geometric phase gate in a multi-cavity system. This multiqubit phase gate has a common control qubit but different target qubits distributed in different cavities, which can be achieved using a single-step operation. The gate operation time is independent of the number of qubits and only two levels for each qubit are needed. This multiqubit gate is generic, e.g., by performing single-qubit operations, it can be converted into two types of significant multi-target-qubit phase gates useful in QIP. The proposal is quite general, which can be used to accomplish the same task for a general type of qubits such as atoms, NV centers, quantum dots and superconducting qubits.
That sinking feeling: Suspended sediments can prevent the ascent of coral egg bundles
Authors: Ricardo Gerard F. , Jones Ross J. , Negri Andrew P. , Stocker Roman
Published: February 2016

Spawning synchrony represents a common reproductive strategy in sessile marine organisms and for broadcast spawning corals, buoyancy of egg-sperm bundles is critical to maximise fertilisation at the ocean surface. Here we demonstrate a novel threat to coral reproduction whereby buoyant egg-sperm bundles intercept and are “ballasted” by sediment grains on their journey to the ocean surface, preventing them from reaching the ocean surface and greatly reducing egg-sperm encounter rates. Empirical observations of this mechanism are successfully captured by a mathematical model that predicts the reduction in ascent probability and egg-sperm encounters as a function of sediment load. When applied to 15 m deep reefs, the model predicts that 10% and 50% reductions in egg-sperm encounters occur at 35 mg L−1 and 87 mg L−1 suspended sediment concentrations, respectively and for a 5 m deep reef a 10% reduction occurs at 106 mg L−1. These concentrations are commonly associated with sediment plumes from dredging or natural resuspension events. The potential for sediments to sink coral gametes highlights the need to carefully manage the timing of turbidity-generating human activities near reefs during spawning periods.
Natural thioallyl compounds increase oxidative stress resistance and lifespan in Caenorhabditis elegans by modulating SKN-1/Nrf
Authors: Ogawa Takahiro , Kodera Yukihiro , Hirata Dai , Blackwell T. Keith , Mizunuma Masaki
Published: February 2016

Identification of biologically active natural compounds that promote health and longevity and understanding how they act, will provide insights into aging and metabolism and strategies for developing agents that prevent chronic disease. The garlic-derived thioallyl compounds S-allylcysteine (SAC) and S-allylmercaptocysteine (SAMC) have been shown to have multiple biological activities. Here we show that SAC and SAMC increase lifespan and stress resistance in Caenorhabditis elegans and reduce accumulation of reactive oxygen species (ROS). These compounds do not appear to activate DAF-16 (FOXO orthologue) or mimic dietary restriction (DR) effects, but selectively induce SKN-1 (Nrf1/2/3 orthologue) targets involved in oxidative stress defense. Interestingly, their treatments do not facilitate SKN-1 nuclear accumulation, but slightly increased intracellular SKN-1 levels. Our data also indicate that thioallyl structure and the number of sulfur atoms are important for SKN-1 target induction. Our results indicate that SAC and SAMC may serve as potential agents that slow aging.
Particle alignment reliability in single particle electron cryomicroscopy: a general approach
Authors: Vargas J. , Otón J. , Marabini R. , Carazo J. M. , Sorzano C. O. S.
Published: February 2016

Electron Microscopy is reaching new capabilities thanks to the combined effect of new technologies and new image processing methods. However, the reconstruction process is still complex, requiring many steps and elaborated optimization procedures. Therefore, the possibility to reach a wrong structure exists, justifying the need of robust statistical tests. In this work, we present a conceptually simple alignment test, which does not require tilt-pair images, to evaluate the alignment consistency between a set of projection images with respect to a given 3D density map. We test the approach on a number of problems in 3DEM, especially the ranking and evaluation of initial 3D volumes and high resolution 3D maps, where we show its usefulness in providing an objective evaluation for maps that have recently been subject to a strong controversy in the field. Additionally, this alignment statistical test can be linked to the early stages of structure solving of new complexes, streamlining the whole process.
GATA3 inhibits GCM1 activity and trophoblast cell invasion
Authors: Chiu Yueh Ho , Chen Hungwen
Published: February 2016

Development of human placenta involves the invasion of trophoblast cells from anchoring villi into the maternal decidua. Placental transcription factor GCM1 regulates trophoblast cell invasion via transcriptional activation of HtrA4 gene, which encodes a serine protease enzyme. The GATA3 transcription factor regulates trophoblast cell differentiation and is highly expressed in invasive murine trophoblast giant cells. The regulation of trophoblastic invasion by GCM1 may involve novel cellular factors. Here we show that GATA3 interacts with GCM1 and inhibits its activity to suppress trophoblastic invasion. Immunohistochemistry demonstrates that GATA3 and GCM1 are coexpressed in villous cytotrophoblast cells, syncytiotrophoblast layer and extravillous trophoblast cells of human placenta. Interestingly, GATA3 interacts with GCM1, but not the GCM2 homologue, through the DNA-binding domain and first transcriptional activation domain in GCM1 and the transcriptional activation domains and zinc finger 1 domain in GATA3. While GATA3 did not affect DNA-binding activity of GCM1, it suppressed transcriptional activity of GCM1 and therefore HtrA4 promoter activity. Correspondingly, GATA3 knockdown elevated HtrA4 expression in BeWo and JEG-3 trophoblast cell lines and enhanced the invasion activities of both lines. This study uncovered a new GATA3 function in placenta as a negative regulator of GCM1 activity and trophoblastic invasion.
SGT1 is required in PcINF1/SRC2-1 induced pepper defense response by interacting with SRC2-1
Authors: Liu Zhi-qin , Liu Yan-yan , Shi Lan-ping , Yang Sheng , Shen Lei , Yu Huan-xin , Wang Rong-zhang , Wen Jia-yu , Tang Qian , Hussain Ansar , Khan Muhammad Ifnan , Hu Jiong , Liu Cai-ling , Zhang Yang-wen , Cheng Wei , He Shui-lin
Published: February 2016

PcINF1 was previously found to induce pepper defense response by interacting with SRC2-1, but the underlying mechanism remains uninvestigated. Herein, we describe the involvement of SGT1 in the PcINF1/SRC2-1-induced immunity. SGT1 was observed to be up-regulated by Phytophthora capsici inoculation and synergistically transient overexpression of PcINF1/SRC2-1 in pepper plants. SGT1-silencing compromised HR cell death, blocked H2O2 accumulation and downregulated HR-associated and hormones-dependent marker genes’ expression triggered by PcINF1/SRC2-1 co-overexpression. The interaction between SRC2-1 and SGT1 was found by the yeast two hybrid system and was further confirmed by bimolecular fluorescence complementation and co-immunoprecipitation analyses. The SGT1/SRC2-1 interaction was enhanced by transient overexpression of PcINF1 and Phytophthora capsici inoculation and SGT1-silencing attenuated PcINF1/SRC2-1 interaction. Additionally, by modulating subcellular localizations of SRC2-1, SGT1 and the interacting complex of SGT1/SRC2-1, it was revealed that exclusive nuclear targeting of the SGT1/SRC2-1 complex blocks immunity triggered by formation of SGT1/SRC2-1 and a translocation of the SGT1/SRC2-1 complex from the plasma membrane and cytoplasm to the nuclei upon the inoculation of P. capsici. Our data demonstrate that the SGT1/SRC2-1 interaction and its nucleocytoplasmic partitioning, is involved in pepper’s immunity against P. capsici, thus providing a molecular link between Ca2+ signaling associated SRC2-1 and SGT1-mediated defense signaling.
Graphene oxide-assisted non-immobilized SELEX of okdaic acid aptamer and the analytical application of aptasensor
Authors: Gu Huajie , Duan Nuo , Wu Shijia , Hao Liling , Xia Yu , Ma Xiaoyuan , Wang Zhouping
Published: February 2016

Okadaic acid (OA) is a low-molecular-weight marine toxin from shellfish that causes abdominal pain, vomiting and diarrhea, i.e., diarrheic shellfish poisoning. In this study, a ssDNA aptamer that specifically binds to OA with high affinity was obtained via Systematic Evolution of Ligands by Exponential Enrichment (SELEX) assisted by graphene oxide (GO). This aptamer was then applied to fabricate a novel direct competitive enzyme-linked aptamer assay (ELAA). At the optimized conditions, this ELAA method showed a low detection limit (LOD of 0.01 ng/mL), wide linear range (from 0.025 to 10 ng/mL), good recovery rate (92.86–103.34% in OA-spiked clam samples) and repeatability (RSD of 2.28–4.53%). The proposed method can be used to detect OA in seafood products with high sensitivity and can potentially be adapted for the determination of other small molecular analytes.
Intraspecific and heteroplasmic variations, gene losses and inversions in the chloroplast genome of Astragalus membranaceus
Authors: Lei Wanjun , Ni Dapeng , Wang Yujun , Shao Junjie , Wang Xincun , Yang Dan , Wang Jinsheng , Chen Haimei , Liu Chang
Published: February 2016

Astragalus membranaceus is an important medicinal plant in Asia. Several of its varieties have been used interchangeably as raw materials for commercial production. High resolution genetic markers are in urgent need to distinguish these varieties. Here, we sequenced and analyzed the chloroplast genome of A. membranaceus (Fisch.) Bunge var. mongholicus (Bunge) P.K. Hsiao using the next generation DNA sequencing technology. The genome was assembled using Abyss and then subjected to gene prediction using CPGAVAS and repeat analysis using MISA, Tandem Repeats Finder, and REPuter. Finally, the genome was subjected phylogenetic and comparative genomic analyses. The complete genome is 123,582 bp long, containing only one copy of the inverted repeat. Gene prediction revealed 110 genes encoding 76 proteins, 30 tRNAs, and four rRNAs. Five intra-specific hypermutation loci were identified, three of which are heteroplasmic. Furthermore, three gene losses and two large inversions were identified. Comparative genomic analyses demonstrated the dynamic nature of the Papilionoideae chloroplast genomes, which showed occurrence of numerous hypermutation loci, frequent gene losses, and fragment inversions. Results obtained herein elucidate the complex evolutionary history of chloroplast genomes and have laid the foundation for the identification of genetic markers to distinguish A. membranaceus varieties.
Inter-Strain Differences in Default Mode Network: A Resting State fMRI Study on Spontaneously Hypertensive Rat and Wistar Kyoto Rat
Authors: Huang Sheng-Min , Wu Yi-Ling , Peng Shin-Lei , Peng Hsu-Hsia , Huang Teng-Yi , Ho Kung-Chu , Wang Fu-Nien
Published: February 2016

Genetic divergences among mammalian strains are presented phenotypically in various aspects of physical appearance such as body shape and facial features. Yet how genetic diversity is expressed in brain function still remains unclear. Functional connectivity has been shown to be a valuable approach in characterizing the relationship between brain functions and behaviors. Alterations in the brain default mode network (DMN) have been found in human neuropsychological disorders. In this study we selected the spontaneously hypertensive rat (SHR) and the Wistar Kyoto rat (WKY), two inbred rat strains with close genetic origins, to investigate variations in the DMN. Our results showed that the major DMN differences are the activities in hippocampal area and caudate putamen region. This may be correlated to the hyperactive behavior of the SHR strain. Advanced animal model studies on variations in the DMN may have potential to shed new light on translational medicine, especially with regard to neuropsychological disorders.
Arginine side chain interactions and the role of arginine as a gating charge carrier in voltage sensitive ion channels
Authors: Armstrong Craig T. , Mason Philip E. , Anderson J. L. Ross , Dempsey Christopher E.
Published: February 2016

Gating charges in voltage-sensing domains (VSD) of voltage-sensitive ion channels and enzymes are carried on arginine side chains rather than lysine. This arginine preference may result from the unique hydration properties of the side chain guanidinium group which facilitates its movement through a hydrophobic plug that seals the center of the VSD, as suggested by molecular dynamics simulations. To test for side chain interactions implicit in this model we inspected interactions of the side chains of arginine and lysine with each of the 19 non-glycine amino acids in proteins in the protein data bank. The arginine guanidinium interacts with non-polar aromatic and aliphatic side chains above and below the guanidinium plane while hydrogen bonding with polar side chains is restricted to in-plane positions. In contrast, non-polar side chains interact largely with the aliphatic part of the lysine side chain. The hydration properties of arginine and lysine are strongly reflected in their respective interactions with non-polar and polar side chains as observed in protein structures and in molecular dynamics simulations and likely underlie the preference for arginine as a mobile charge carrier in VSD.
Graphene growth on Ge(100)/Si(100) substrates by CVD method
Authors: Pasternak Iwona , Wesolowski Marek , Jozwik Iwona , Lukosius Mindaugas , Lupina Grzegorz , Dabrowski Pawel , Baranowski Jacek M. , Strupinski Wlodek
Published: February 2016

The successful integration of graphene into microelectronic devices is strongly dependent on the availability of direct deposition processes, which can provide uniform, large area and high quality graphene on nonmetallic substrates. As of today the dominant technology is based on Si and obtaining graphene with Si is treated as the most advantageous solution. However, the formation of carbide during the growth process makes manufacturing graphene on Si wafers extremely challenging. To overcome these difficulties and reach the set goals, we proposed growth of high quality graphene layers by the CVD method on Ge(100)/Si(100) wafers. In addition, a stochastic model was applied in order to describe the graphene growth process on the Ge(100)/Si(100) substrate and to determine the direction of further processes. As a result, high quality graphene was grown, which was proved by Raman spectroscopy results, showing uniform monolayer films with FWHM of the 2D band of 32 cm−1.
Traumatic Brain Injury Causes Aberrant Migration of Adult-Born Neurons in the Hippocampus
Authors: Ibrahim Sara , Hu Weipeng , Wang Xiaoting , Gao Xiang , He Chunyan , Chen Jinhui
Published: February 2016

Traumatic brain injury (TBI) promotes neural stem/progenitor cell (NSC) proliferation in an attempt to initiate innate repair mechanisms. However, all immature neurons in the CNS are required to migrate from their birthplace to their final destination to develop into functional neurons. Here we assessed the destination of adult-born neurons following TBI. We found that a large percentage of immature neurons migrated past their normal stopping site at the inner granular cell layer (GCL), and became misplaced in the outer GCL of the hippocampal dentate gyrus. The aberrant migration of adult-born neurons in the hippocampus occurred 48 hours after TBI, and lasted for 8 weeks, resulting in a great number of newly generated neurons misplaced in the outer GCL in the hippocampus. Those misplaced neurons were able to become mature and differentiate into granular neurons, but located ectopically in the outer GCL with reduced dendritic complexity after TBI. The adult-born neurons at the misplaced position may make wrong connections with inappropriate nearby targets in the pre-existing neural network. These results suggest that although stimulation of endogenous NSCs following TBI might offer new avenues for cell-based therapy, additional intervention is required to further enhance successful neurogenesis for repairing the damaged brain.