bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft Genome Sequences of Strains TRE 1, TRE D, TRE H, and TRI 7, Isolated from Tamarins and Belonging to Four Putative Novel
Bifidobacterium
Species
Authors: Puglisi Edoardo , Mattarelli Paola , Modesto Monica , Bonetti Andrea , Spiezio Caterina , Sandri Camillo , Morelli Lorenzo 
Published: January 2018

ABSTRACT

Bifidobacterium
sp. strains TRE 1, TRE D, TRE H, and TRI 7 were isolated from two tamarins housed in Parco Natura Viva, Garda Zoological Park S.r.l. (Bussolengo, Verona, Italy). These strains belong to four putative novel species of the genus
Bifidobacterium
. The genome sizes were 2.7 Mb for TRE 1, 2.7 Mb for TRE D, 2.4 Mb for TRE H, and 2.7 Mb for TRI 7. The average GC contents were 63.18% for TRE 1, 58.27% for TRE D, 57.11% for TRE H, and 63.79% for TRI 7.
Completed Genome Sequences of Strains from 36 Serotypes of
Salmonella
Authors: Robertson James , Yoshida Catherine , Gurnik Simone , Rankin Marisa , Nash John H. E. 
Published: January 2018

ABSTRACT

We report here the completed closed genome sequences of strains representing 36 serotypes of
Salmonella
. These genome sequences will provide useful references for understanding the genetic variation between serotypes, particularly as references for mapping of raw reads or to create assemblies of higher quality, as well as to aid in studies of comparative genomics of
Salmonella
.
Whole-Genome Sequence of a
Mycobacterium goodii
Isolate from a Pediatric Patient in South Africa
Authors: Allam Mushal , Joseph Lavania , Ismail Farzana , Said Halima , Ismail Nazir A. , Ismail Arshad , Mtshali Senzo , Mnyameni Florah , Goussard Pierre , Pekeur Jade C. , Lourens Adré , Omar Shaheed V. 
Published: January 2018

ABSTRACT

We describe here the draft genome sequence of a
Mycobacterium goodii
isolate from a pediatric patient in Western Cape, South Africa. To our knowledge, this is the second reported genome of this rapidly growing nontuberculous mycobacterial species.
Genome Sequence of
Trypanosoma cruzi
Strain Bug2148
Authors: Callejas-Hernández Francisco , Gironès Núria , Fresno Manuel 
Published: January 2018

ABSTRACT

Trypanosoma cruzi
belongs to the group of mitochondrion-containing eukaryotes and has a highly plastic genome, unusual gene organization, and complex mechanisms for gene expression (polycistronic transcription). We report here the genome sequence of strain Bug2148, the first genomic sequence belonging to cluster TcV, which has been related to vertical transmission.
Complete Genome Sequence of the Type Strain of
Macrococcus canis
Authors: Gobeli Brawand Stefanie , Rychener Lorenz , Schwendener Sybille , Pantůček Roman , Perreten Vincent 
Published: January 2018

ABSTRACT

The first complete genome sequence of the recently described
Macrococcus canis
species has been determined for the strain KM45013
T
(=DSM 101690
T
= CCOS 969
T
= CCUG 68920
T
= CCM 8748
T
). The strain was isolated from a dog with rhinitis and contains a putative γ-hemolysin and a
mecB
-carrying staphylococcal cassette chromosome
mec
element (SCC
mec
KM45013
).
Deep-basin evidence resolves a 50-year-old debate and demonstrates synchronous onset of Messinian evaporite deposition in a non-desiccated Mediterranean
Authors: Meilijson Aaron , Steinberg Josh , Hilgen Frits , Bialik Or M. , Waldmann Nicolas D. , Makovsky Yizhaq 
Published: January 2018

Abstract
The Messinian salinity crisis (MSC) is perceived as an environmental crisis governed by climatic and tectonic controls, affecting global oceans’ salinity and shaping the Mediterranean Sea’s biochemical composition. Recently drilled offshore wells in the Levant Basin retrieved a sedimentary record of the deep-basin Mediterranean MSC salt deposits and the underlying pre-evaporite unit. In this study, we have concentrated on the pre-evaporite interval and its transition into the overlying evaporites. Analysis of this data set changes the way these deposits have been perceived since the 1970s, when they were first penetrated in their uppermost part during Deep Sea Drilling Project expeditions. Using sedimentology, seismic interpretation, biostratigraphy, and astronomical tuning, we show that Messinian salt deposition in the Eastern Mediterranean began during stage 1 of the MSC. In contrast to the present paradigm, salt was deposited synchronously with gypsum in the marginal and intermediate-depth basins significantly before the 50 k.y. interval coined as the “MSC acme event”, ∼400 k.y. after the crisis began. Thus salt precipitation took place in a non-desiccated deep basin, having a restricted but often open connection with the Atlantic Ocean, substantially altering our understanding of the mechanisms governing the deposition of salt giants. A coeval onset of basinal halite and marginal gypsum precipitation calls for a revaluation of global-scale climatic and oceanographic models of the MSC, taking into account a much older age for the beginning of halite deposition.
T-type Ca2+ Channels: T for Targetable
Authors: Sallán Marta C. , Visa Anna , Shaikh Soni , Nàger Mireia , Herreros Judit , Cantí Carles 
Published: January 2018

Abstract
In the past decade, T-type Ca2+ channels (TTCC) have been unveiled as key regulators of cancer cell biology and thus have been proposed as chemotherapeutic targets. Indeed, in vitro and in vivo studies indicate that TTCC pharmacologic blockers have a negative impact on the viability of cancer cells and reduce tumor size, respectively. Consequently mibefradil, a TTCC blocker approved in 1997 as an antihypertensive agent but withdrawn in 1998 because of drug–drug interactions, was granted 10 years later the orphan drug status by the FDA to investigate its efficacy against brain, ovary, and pancreatic cancer. However, the existence of different channel isoforms with distinct physiologic roles, together with the lack of selective pharmacologic agents, has hindered a conclusive chemotherapeutic evaluation. Here, we review the available evidence on TTCC expression, value as prognostic markers, and effectiveness of their pharmacologic blockade on cancer cells in vitro and in preclinical models. We additionally summarize the status of clinical trials using mibefradil against glioblastoma multiforme. Finally, we discuss the future perspectives and the importance of further development of multidisciplinary research efforts on the consideration of TTCCs as biomarkers or targetable molecules in cancer. Cancer Res; 78(3); 603–9. ©2018 AACR.
Inhibition of FLT3 and PIM Kinases by EC-70124 Exerts Potent Activity in Preclinical Models of Acute Myeloid Leukemia
Authors: Puente-Moncada Noelia , Costales Paula , Antolín Isaac , Núñez Luz-Elena , Oro Patricia , Hermosilla Maria Ana , Pérez-Escuredo Jhudit , Ríos-Lombardía Nicolás , Sanchez-Sanchez Ana M. , Luño Elisa , Rodríguez Carmen , Martín Vanesa , Morís Francisco 
Published: January 2018

Abstract
Internal tandem duplication (ITD) or tyrosine kinase domain mutations of FLT3 is the most frequent genetic alteration in acute myelogenous leukemia (AML) and are associated with poor disease outcome. Despite considerable efforts to develop single-target FLT3 drugs, so far, the most promising clinical response has been achieved using the multikinase inhibitor midostaurin. Here, we explore the activity of the indolocarbazole EC-70124, from the same chemical space as midostaurin, in preclinical models of AML, focusing on those bearing FLT3-ITD mutations. EC-70124 potently inhibits wild-type and mutant FLT3, and also other important kinases such as PIM kinases. EC-70124 inhibits proliferation of AML cell lines, inducing cell-cycle arrest and apoptosis. EC-70124 is orally bioavailable and displays higher metabolic stability and lower human protein plasma binding compared with midostaurin. Both in vitro and in vivo pharmacodynamic analyses demonstrate inhibition of FLT3-STAT5, Akt-mTOR-S6, and PIM-BAD pathways. Oral administration of EC-70124 in FLT3-ITD xenograft models demonstrates high efficacy, reaching complete tumor regression. Ex vivo, EC-70124 impaired cell viability in leukemic blasts, especially from FLT3-ITD patients. Our results demonstrate the ability of EC-70124 to reduce proliferation and induce cell death in AML cell lines, patient-derived leukemic blast and xenograft animal models, reaching best results in FLT3 mutants that carry other molecular pathways' alterations. Thus, its unique inhibition profile warrants EC-70124 as a promising agent for AML treatment based on its ability to interfere the complex oncogenic events activated in AML at several levels. Mol Cancer Ther; 17(3); 614–24. ©2018 AACR.
Robust Antitumor Responses Result from Local Chemotherapy and CTLA-4 Blockade
Authors: Ariyan Charlotte E. , Brady Mary Sue , Siegelbaum Robert H. , Hu Jian , Bello Danielle M. , Rand Jamie , Fisher Charles , Lefkowitz Robert A. , Panageas Kathleen S. , Pulitzer Melissa , Vignali Marissa , Emerson Ryan , Tipton Christopher , Robins Harlan , Merghoub Taha , Yuan Jianda , Jungbluth Achim , Blando Jorge , Sharma Padmanee , Rudensky Alexander Y. , Wolchok Jedd D. , Allison James P. 
Published: January 2018

AbstractClinical responses to immunotherapy have been associated with augmentation of preexisting immune responses, manifested by heightened inflammation in the tumor microenvironment. However, many tumors have a noninflamed microenvironment, and response rates to immunotherapy in melanoma have been &lt;50%. We approached this problem by utilizing immunotherapy (CTLA-4 blockade) combined with chemotherapy to induce local inflammation. In murine models of melanoma and prostate cancer, the combination of chemotherapy and CTLA-4 blockade induced a shift in the cellular composition of the tumor microenvironment, with infiltrating CD8+ and CD4+ T cells increasing the CD8/Foxp3 T-cell ratio. These changes were associated with improved survival of the mice. To translate these findings into a clinical setting, 26 patients with advanced melanoma were treated locally by isolated limb infusion with the nitrogen mustard alkylating agent melphalan followed by systemic administration of CTLA-4 blocking antibody (ipilimumab) in a phase II trial. This combination of local chemotherapy with systemic checkpoint blockade inhibitor resulted in a response rate of 85% at 3 months (62% complete and 23% partial response rate) and a 58% progression-free survival at 1 year. The clinical response was associated with increased T-cell infiltration, similar to that seen in the murine models. Together, our findings suggest that local chemotherapy combined with checkpoint blockade–based immunotherapy results in a durable response to cancer therapy. Cancer Immunol Res; 6(2); 189–200. ©2018 AACR.
COOPERAÇÃO INTERNACIONAL E EFETIVAÇÃO DO DIREITO À SAÚDE: UMA ANÁLISE A PARTIR DA AGENDA DO BRICS
Authors: Martini Sandra Regini , Wünsch Marina Sanches 
Published: January 2018

O presente estudo pretende efetuar uma análise do potencial que a cooperação política entre Brasil, Rússia, China, Índia e África do Sul – países que compõem o Brics – tem de fomentar uma agenda pautada também na efetivação de direitos humanos. Acredita-se que a cooperação internacional seja um instrumento fraterno capaz de acelerar o processo de efetivação dos direitos humanos e que, por meio dela, seja possível não apenas buscar o desenvolvimento econômico, mas também, de fato, efetivar direitos, especialmente os direitos humanos. Nesse sentido, parte-se da ideia de que o marco da agenda de cooperação do Brics apresenta-se como uma possibilidade concreta de novas formas de cooperação internacional, pois se trata de um grupo de países distantes geograficamente, mas que visualizam na cooperação o fortalecimento das relações internacionais. Ademais, essa nova agenda de cooperação atribui um papel de destaque ao direito à saúde, representando um direito social básico para o desenvolvimento humano, que rompe fronteiras ao superar a barreira de Estados soberanos e, assim, possibilita a criação de consensos e pactos.
OPERACIONALIZAÇÃO DO SISTEMA ÚNICO DE SAÚDE E DE SUA ASSISTÊNCIA FARMACÊUTICA DIANTE DA JUDICIALIZAÇÃO: UM ESTUDO DE CASO NO MUNICÍPIO DE SÃO JOSÉ/SC
Authors: Canut Letícia 
Published: January 2018

O presente trabalho baseia-se na premissa de que o Judiciário tem efetivado o direito à saúde sem observância das políticas públicas do setor e na identificação de efeitos negativos dessa judicialização sobre a operacionalização do Sistema Único de Saúde e de sua assistência farmacêutica. Assim procura verificar de que forma esses efeitos negativos da judicialização têm se manifestado nas decisões que condenam o Município de São José (SC) a fornecer medicamentos. Para enfrentar o problema apresentado, selecionaram-se as decisões prolatadas no período de 01/09/2013 a 31/08/2015 pelo Tribunal de Justiça de Santa Catarina, por meio de acórdãos e decisões monocráticas em apelações cíveis interpostas pelo Município de São José. Primeiramente, fez-se necessário explicar a relação entre o direito fundamental à saúde e a sistemática de operacionalização do Sistema Único de Saúde e de sua assistência farmacêutica, incluindo a realidade do município estudado. Na sequência, foram sistematizados os efeitos – positivos e negativos – da judicialização sobre tal operacionalização para, uma vez confirmada a premissa da não aplicação das políticas públicas do setor, verificar como os efeitos negativos sistematizados no trabalho estavam refletidos nas decisões examinadas. Ao final, foi possível identificar e apontar como tais efeitos se manifestaram nas decisões do tribunal catarinense, confirmando um cenário em que a atuação judicial colabora para a desorganização e desestruturação do sistema público de saúde brasileiro e a necessidade de que o Judiciário passe a atuar de forma a fazer com que este sistema funcione como um Sistema Único de Saúde.
Beyond Exacerbating Asymmetry and Sustaining Occupation: An Alternative Approach for United States Intervention in the Israeli-Palestinian Conflict
Authors: Salem Walid 
Published: January 2018

AbstractThird party mediation is critical in pushing forward a new peace process that is based on Israeli and Palestinian compliance in fulfilling previous agreements, including an Israeli freeze on settlements. The freeze will be part of a transformative constructionist process that will allow both sides to negotiate from a more symmetrical position. It will also create more trust among the Palestinians by communicating that Israeli intentions are not about grabbing their land while discussing peace.
Mediating among Mediators: Building a Consensus in Multilateral Interventions
Authors: Spitka Timea 
Published: January 2018

AbstractThe conditions under which multilateral international intervention are effective in ending a violent conflict is a critical question for scholars and practitioners. Scholarly studies have demonstrated the importance of a united intervention but have been in disagreement over the effectiveness of neutral versus partisan intervention. This article examines the conditions under which mediators construct a consensus on the type of intervention process. What are the factors that enable a consensus on a neutral versus a partisan intervention? Distinguishing between four types of international intervention processes – united-neutral, united-partisan, divided-partisan, and divided neutral and partisan intervention – this article argues that it is a united intervention, whether united partisan or united-neutral, that contributes to creating leverage on conflicting parties to end a conflict. The article examines consensus building among mediators within two divergent case studies: Northern Ireland and Bosnia and Herzegovina.
Assimilating All-Sky Himawari-8 Satellite Infrared Radiances: A Case of Typhoon Soudelor (2015)
Authors: Honda Takumi , Miyoshi Takemasa , Lien Guo-Yuan , Nishizawa Seiya , Yoshida Ryuji , Adachi Sachiho A. , Terasaki Koji , Okamoto Kozo , Tomita Hirofumi , Bessho Kotaro 
Published: January 2018

AbstractJapan’s new geostationary satellite Himawari-8, the first of a series of the third-generation geostationary meteorological satellites including GOES-16, has been operational since July 2015. Himawari-8 produces high-resolution observations with 16 frequency bands every 10 min for full disk, and every 2.5 min for local regions. This study aims to assimilate all-sky every-10-min infrared (IR) radiances from Himawari-8 with a regional numerical weather prediction model and to investigate its impact on real-world tropical cyclone (TC) analyses and forecasts for the first time. The results show that the assimilation of Himawari-8 IR radiances improves the analyzed TC structure in both inner-core and outer-rainband regions. The TC intensity forecasts are also improved due to Himawari-8 data because of the improved TC structure analysis.
Indications for Surgical Repair of Type 1 Laryngeal Cleft
Authors: Berzofsky Craig E. , Lando Tali , Ettema Sandra , Nelson Jennifer , Woodson Gayle 
Published: January 2018

Objectives: Type 1 laryngeal cleft (T1LC) is a congenital deficiency in the posterior glottis, resulting in a communication between the hypopharynx and glottis. No consensus treatment paradigm exists for timing and criteria for patient selection for surgical repair. Our goal is to assess whether patient characteristics can help predict improvement after surgery. Methods: After Institutional Review Board exemption, a retrospective chart review was performed for patients undergoing surgery to diagnose a T1LC. Charts were examined for age, presenting symptoms, comorbidities, pre/postoperative videoflouroscopic swallow study reports, and outcomes. Results: Ninety-seven patients with clinical suspicion for T1LC underwent direct laryngoscopy and bronchoscopy, and 63 (64%) were diagnosed with a T1LC. Twenty-two patients (63%) undergoing surgery achieved clinical or radiographic improvement. There was no difference in average age, aspiration, or penetration between clinical improvement and no improvement groups. Of 13 patients with comorbidities that increase their risk of aspiration, 12 were significantly improved. There were 5 complications, which were managed conservatively. Conclusions: Our experience supports the repair of T1LC repair at time of diagnostic laryngoscopy if satisfactory improvement is not noted with conservative treatment. This should be performed without segregation for age, comorbidities, or degree of dysphagia. Our technique is performed with minimal complications and achieves satisfactory results.
A systematic review of risk factors for methamphetamine-associated psychosis
Authors: Arunogiri Shalini , Foulds James A , McKetin Rebecca , Lubman Dan I 
Published: January 2018

Objective: Chronic methamphetamine use is commonly associated with the development of psychotic symptoms. The predictors and correlates of methamphetamine-associated psychosis are poorly understood. We sought to systematically review factors associated with psychotic symptoms in adults using illicit amphetamine or methamphetamine. Methods: A systematic literature search was performed on MEDLINE (OVID), PsycINFO and EMBASE databases from inception to 8 December 2016. The search strategy combined three concept areas: methamphetamine or amphetamine, psychosis and risk factors. Included studies needed to compare adults using illicit methamphetamine or amphetamine, using a validated measure of psychosis, on a range of risk factors. Of 402 identified articles, we removed 45 duplicates, 320 articles based on abstract/title and 17 ineligible full-text articles, leaving 20 included studies that were conducted in 13 populations. Two co-authors independently extracted the following data from each study: country, setting and design; participant demographic and clinical details; sample size; measure/s used and measures of association between psychosis outcomes and risk factors. Individual study quality was assessed using a modified Newcastle-Ottawa Scale, and strength of evidence was assessed using GRADE criteria. Results: Frequency of methamphetamine use and severity of methamphetamine dependence were consistently found to be associated with psychosis, and sociodemographic factors were not. There was inconsistent evidence available for all other risk factors. Individual study quality was low–moderate for the majority of studies. Heterogeneity in study outcomes precluded quantitative synthesis of outcomes across studies. Conclusion: The most consistent correlates of psychotic symptoms were increased frequency of methamphetamine use and dependence on methamphetamine. The findings of this review highlight the need for targeted assessment and treatment of methamphetamine use in individuals presenting with psychosis.
Coronary artery perforation complicating percutaneous coronary intervention
Authors: Mirza Aram J , Taha Abdulsalam Y , Aldoori Jaafar S , Hawas Jawad M , Hassan Kawa W 
Published: January 2018

Background Coronary artery perforation is a rare but serious complication of percutaneous coronary interventions. We aimed to evaluate the management of coronary artery perforation in Sulaimaniyah, Iraq. Methods A retrospective review of our medical records from 2009 to 2016 identified 24 patients (15 males, 9 females) with coronary artery perforation. Mean age was 60 ± 9.2 years (range 40–74 years). Standard diagnostic angiography or percutaneous interventions were performed. Coronary artery perforation was diagnosed by worsening of symptoms, hypotension, or angiographic evidence of type I (extraluminal crater), II (myocardial or pericardial blushing), or III (contrast streaming or cavity spilling) perforation. Stenosis was graded as >85%, 60%–85%, or < 60%. Once coronary artery perforation was diagnosed, heparin was reversed, antiplatelets were stopped, and pericardial effusions were aspirated. Type II and III coronary artery perforations were sealed using covered stents or repeated brief balloon inflations. Results The most frequently injured artery was the left anterior descending ( n = 14, 58.3%). Type II and III coronary artery perforations constituted the majority ( n = 18, 75%). Thirteen (54.2%) patients had severe coronary stenosis. Perforations were caused by stents ( n = 10), angioplasty wires ( n = 8), and balloons ( n = 6). Fifteen perforations were sealed with covered stents, 2 by balloon inflations, and 7 resolved spontaneously. Pericardial effusion was drained in 13 (54.2%) patients. No patient required surgery, and none died. Conclusion The low rate and early management of coronary artery perforations, mainly by covered stents, were the hallmarks of this study.
Semiparametric regression for discrete time-to-event data
Authors: Berger Moritz , Schmid Matthias 
Published: January 2018

Abstract: Time-to-event models are a popular tool to analyse data where the outcome variable is the time to the occurrence of a specific event of interest. Here, we focus on the analysis of time-to-event outcomes that are either intrinsically discrete or grouped versions of continuous event times. In the literature, there exists a variety of regression methods for such data. This tutorial provides an introduction to how these models can be applied using open source statistical software. In particular, we consider semiparametric extensions comprising the use of smooth nonlinear functions and tree-based methods. All methods are illustrated by data on the duration of unemployment of US citizens.