bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft Genome Sequence of
Bacillus
Species from the Rhizosphere of the Desert Plant
Rhazya stricta
Authors: Abo-Aba S. E. M. , Sabir Jamal S. M. , Baeshen Mohammed N. , Sabir Meshaal J. , Mutwakil Mohammed H. Z. , Baeshen Nabih A. , D’Amore Rosalinda , Hall Neil 
Published: November 2015

ABSTRACT

In order to better understand the ecology and diversity of microbes in the rhizosphere of desert plants, we undertook a survey of
Bacillus
species isolated from soil around
Rhazya stricta
plants from the area around Jeddah, in The Kingdom, Saudi Arabia. We have sequenced the genomes of 8
Bacillus
isolates representing four different species.
Complete Genome Sequences of Four Escherichia coli ST95 Isolates from Bloodstream Infections
Authors: Stephens Craig M. , Skerker Jeffrey M. , Sekhon Manraj S. , Arkin Adam P. , Riley Lee W. 
Published: November 2015

ABSTRACT

Finished genome sequences are presented for four
Escherichia coli
strains isolated from bloodstream infections at San Francisco General Hospital. These strains provide reference sequences for four major
fimH
-identified sublineages within the multilocus sequence type (MLST) ST95 group, and provide insights into pathogenicity and differential antimicrobial susceptibility within this group.
Draft Genome Sequence of Pseudoalteromonas tetraodonis Strain UCD-SED8 (Phylum
Gammaproteobacteria
)
Authors: Lee Ruth D. , Jospin Guillaume , Lang Jenna M. , Eisen Jonathan A. , Coil David A. 
Published: November 2015

ABSTRACT

Here, we present the draft genome sequence of
Pseudoalteromonas tetraodonis
UCD-SED8, a marine bacterium normally associated with the production of tetrodotoxin in pufferfish. This strain was isolated from sediment samples surrounding
Zostera marina
roots collected from Bodega Marine, California. The assembly consists of 4,017,727 bp contained in 35 contigs.
Complete Genome Sequence of the Human Gut Symbiont Roseburia hominis
Authors: Travis Anthony J. , Kelly Denise , Flint Harry J. , Aminov Rustam I. 
Published: November 2015

ABSTRACT

We report here the complete genome sequence of the human gut symbiont
Roseburia hominis
A2-183
T
(= DSM 16839
T
= NCIMB 14029
T
), isolated from human feces. The genome is represented by a 3,592,125-bp chromosome with 3,405 coding sequences. A number of potential functions contributing to host-microbe interaction are identified.
Genome Sequence of
Citrobacter
sp. CtB7.12, Isolated from the Gut of the Desert Subterranean Termite
Heterotermes aureus
Authors: Fontes-Perez Héctor , Olvera-García Myrna , Chávez-Martínez America , Rodriguez-Almeida Felipe A. , Arzola-Alvarez Claudio A. , Sanchez-Flores Alejandro , Corral-Luna Agustín 
Published: November 2015

ABSTRACT

The draft genome of
Citrobacter
sp. CtB7.12, isolated from termite gut, is presented here. This organism has been reported as a cellulolytic bacterium, which is biotechnologically important because it can be used as a gene donor for the ethanol and biofuel industries.
Draft Genome Sequences of Nine Streptococcus suis Strains Isolated in the United States
Authors: Hau Samantha J. , Bayles Darrell O. , Alt David P. , Brockmeier Susan L. , Frana Timothy S. , Nicholson Tracy L. 
Published: November 2015

ABSTRACT

Streptococcus suis
is a swine pathogen responsible for economic losses to the pig industry worldwide. Additionally, it is a zoonotic agent that can cause severe infections in those in close contact with infected pigs and/or who consume uncooked or undercooked pork products. Here, we report nine draft genome sequences of
S. suis
.
Genome Sequence of Porphyromonas gingivalis Strain AJW4
Authors: Xie Gary , Chastain-Gross Ryan P. , Bélanger Myriam , Kumar Dibyendu , Whitlock Joan A. , Liu Li , Farmerie William G. , Daligault Hajnalka E. , Han Cliff S. , Brettin Thomas S. , Progulske-Fox Ann 
Published: November 2015

ABSTRACT

Porphyromonas gingivalis
is associated with oral and systemic diseases. Strain-specific
P. gingivalis
invasion phenotypes have been correlated with disease presentation in infected laboratory animals. Here, we present the genome sequence of AJW4, a minimally invasive strain, with a single contig of 2,372,492 bp and a G+C content of 48.27%.
Draft Genome Sequence of “
Candidatus
Liberibacter asiaticus” from
Diaphorina citri
in Guangdong, China
Authors: Wu F. , Zheng Z. , Deng X. , Cen Y. , Liang G. , Chen J. 
Published: November 2015

ABSTRACT

The draft genome sequence of “
Candidatus
Liberibacter asiaticus” strain YCPsy from an Asian citrus psyllid (
Diaphorina citri
) in Guangdong, China, is reported here. The YCPsy strain has a genome size of 1,233,647 bp, 36.5% G+C content, 1,171 open reading frames (ORFs), and 53 RNAs.
Genome Sequence of Acinetobacter baumannii Strain 10441_14 Belonging to ST451, Isolated from India
Authors: Kumar Sunil , Patil Prashant P. , Midha Samriti , Ray Pallab , Patil Prabhu B. , Gautam Vikas 
Published: November 2015

ABSTRACT

Acinetobacter baumannii
resistance to carbapenems is of global concern. Here, we report the 3.9 Mb draft genome of a cerebrospinal fluid isolate of
A. baumannii
strain 10441_14 which is carbapenem resistant and belongs to ST451. This genome will further help in the understanding of the drug resistance mechanism, epidemiology, and pathology of this bacterium.
Discovery of Serum Proteomic Biomarkers for Prediction of Response to Moxibustion Treatment in Rats with Collagen-Induced Arthritis: An Exploratory Analysis
Authors: Xu Xiao , Wang Miao-Miao , Sun Zhi-ling , Zhou Dan-ping , Wang Ling , Wang Fu-qiang , Xu Zhi-yang , Ma Qian 
Published: November 2015

Objective To examine the possible impact of moxibustion on the serum proteome of the collagen-induced arthritis (CIA) rat model. Materials and Methods Thirty-six male Sprague-Dawley rats were included in this experiment. The CIA animal model was prepared by injection of type II bovine collagen in Freund's adjuvant on the first and seventh day. The 36 rats were randomly divided into two groups: the untreated CIA group (control), and the CIA plus treatment with moxibustion (CIA+moxi) group. Moxibustion was administered daily at ST36 and BL23 for 7, 14 or 21 days (n=12 rats each). Arthritis score was used to assess the severity of arthritis. At the end of each 7 day treatment, blood samples from the control group and the CIA+moxi group were collected. After removal of high abundance proteins from serum samples, two-dimensional gel combined with matrix-assisted laser desorption ionisation time-of-flight MS/MS (MALDI-TOF-MS/MS) techniques were performed to examine serum protein expression patterns of the CIA rat model with and without moxibustion treatment. In addition, the relevant proteins were further analysed with the use of bioinformatics analysis. Results Moxibustion significantly decreased arthritis severity in the rats in the CIA+moxi group, when compared with the rats in the CIA group 35 days after the first immunisation (p=0.001). Seventeen protein spots which changed >1.33 or <0.77 at p<0.05 using Bonferonni correction for multiple testing were found to be common to all three comparisons, and these proteins were used for classification of functions using the Gene Ontology method. Consequently, with the use of the Ingenuity Pathway Analysis, the top canonical pathways and a predicted proteomic network related to the moxibustion effect of CIA were established. Conclusions Using the proteomics technique, we have identified novel candidate proteins that may be involved in the mechanisms of action underlying the beneficial effects of moxibustion in rats with CIA. Our findings suggest that immune responses and metabolic processes may be involved in mediating the effects of moxibustion. Moreover, periodxiredoxin I (PRDX1) and inositol 1,4,5-triphosphate receptor (IP3R) may be potential targets.
Making comparative performance information more comprehensible: an experimental evaluation of the impact of formats on consumer understanding
Authors: Damman Olga C , De Jong Anco , Hibbard Judith H , Timmermans Danielle R M 
Published: November 2015

Study objectivesWe aimed to investigate how different presentation formats influence comprehension and use of comparative performance information (CPI) among consumers.MethodsAn experimental between-subjects and within-subjects design with manipulations of CPI presentation formats. We enrolled both consumers with lower socioeconomic status (SES)/cognitive skills and consumers with higher SES/cognitive skills, recruited through an online access panel. Respondents received fictitious CPI and completed questions about interpretation and information use. Between subjects, we tested (1) displaying an overall performance score (yes/no); (2) displaying a small number of quality indicators (5 vs 9); and (3) displaying different types of evaluative symbols (star ratings, coloured dots and word icons vs numbers and bar graphs). Within subjects, we tested the effect of a reduced number of healthcare providers (5 vs 20). Data were analysed using descriptive analysis, analyses of variance and paired-sampled t tests.ResultsA total of 902 (43%) respondents participated. Displaying an overall performance score and the use of coloured dots and word icons particularly enhanced consumer understanding. Importantly, respondents provided with coloured dots most often correctly selected the top three healthcare providers (84.3%), compared with word icons (76.6% correct), star ratings (70.6% correct), numbers (62.0%) and bars (54.2%) when viewing performance scores of 20 providers. Furthermore, a reduced number of healthcare providers appeared to support consumers, for example, when provided with 20 providers, 69.5% correctly selected the top three, compared with 80.2% with five providers.DiscussionParticular presentation formats enhanced consumer understanding of CPI, most importantly the use of overall performance scores, word icons and coloured dots, and a reduced number of providers displayed. Public report efforts should use these formats to maximise impact on consumers.
Assessment of v‐gel supraglottic airway device placement in cats performed by inexperienced veterinary students
Authors: Barletta M. , Kleine S. A. , Quandt J. E. 
Published: November 2015

Endotracheal intubation has been associated with several complications in cats. The v‐gel supraglottic airway device (SGAD) has been developed to adapt to the unique oropharynx of the cat and to overcome these complications. Thirty‐three cats were randomly assigned to receive an endotracheal tube (ETT group) or a v‐gel SGAD (v‐gel group) after induction of general anaesthesia. Third year veterinary students without previous clinical experience placed these devices under direct supervision of an anaesthesiologist. Amount of propofol, number of attempts, time required to secure the airway, leakage around the device, signs of upper airway discomfort and food consumption were compared between the two groups. The v‐gel group required less propofol (P=0.03), less time (P<0.01) and fewer attempts (P<0.01) to secure the cats’ airway. The incidence of leakage was lower for the v‐gel group immediately after placement of the device (P<0.01) and 60 minutes after induction of general anaesthesia (P=0.04). Cats that received the v‐gel SGAD presented a lower incidence of upper airway discomfort immediately after the device was removed (P=0.03) and recorded a higher food consumption score (P=0.03). The v‐gel SGAD is a feasible way to secure the airway of healthy cats when performed by inexperienced personnel.
Mechanical, electronic and thermodynamic properties of full Heusler compounds Fe2VX(X = Al, Ga)
Authors: Khalfa M. , Khachai H. , Chiker F. , Baki N. , Bougherara K. , Yakoubi A. , Murtaza G. , Harmel M. , Abu-Jafar M. S. , Omran S. Bin , Khenata R. 
Published: November 2015

The electronic structure, mechanical and thermodynamic properties of Fe2VX, (with X = Al and Ga), have been studied self consistently by employing state-of-the-art full-potential linearized approach of augmented plane wave plus local orbitals (FP-LAPW + lo) method. The exchange-correlation potential is treated with the local density and generalized gradient approximations (LDA and GGA). Our predicted ground state properties such as lattice constants, bulk modulus and elastic constants appear more accurate when we employed the GGA rather than the LDA, and these results are in very good agreement with the available experimental and theoretical data. Further, thermodynamic properties of Fe2VAl and Fe2VGa are predicted with pressure and temperature in the ranges of 0–40 GPa and 0–1500 K using the quasi-harmonic Debye model. We have obtained successfully the variations of the heat capacities, primitive cell volume and volume expansion coefficient.
Connexin 43 Inhibition Sensitizes Chemoresistant Glioblastoma Cells to Temozolomide
Authors: Murphy Susan F. , Varghese Robin T. , Lamouille Samy , Guo Sujuan , Pridham Kevin J. , Kanabur Pratik , Osimani Alyssa M. , Sharma Shaan , Jourdan Jane , Rodgers Cara M. , Simonds Gary R. , Gourdie Robert G. , Sheng Zhi 
Published: November 2015

Abstract
Resistance of glioblastoma (GBM) to the front-line chemotherapeutic agent temozolomide (TMZ) continues to challenge GBM treatment efforts. The repair of TMZ-induced DNA damage by O-6-methylguanine-DNA methyltransferase (MGMT) confers one mechanism of TMZ resistance. Paradoxically, MGMT-deficient GBM patients survive longer despite still developing resistance to TMZ. Recent studies indicate that the gap junction protein connexin 43 (Cx43) renders GBM cells resistant to TMZ through its carboxyl terminus (CT). In this study, we report insights into how Cx43 promotes TMZ resistance. Cx43 levels were inversely correlated with TMZ sensitivity of GBM cells, including GBM stem cells. Moreover, Cx43 levels inversely correlated with patient survival, including as observed in MGMT-deficient GBM patients. Addition of the C-terminal peptide mimetic αCT1, a selective inhibitor of Cx43 channels, sensitized human MGMT-deficient and TMZ-resistant GBM cells to TMZ treatment. Moreover, combining αCT1 with TMZ-blocked AKT/mTOR signaling, induced autophagy and apoptosis in TMZ-resistant GBM cells. Our findings suggest that Cx43 may offer a biomarker to predict the survival of patients with MGMT-independent TMZ resistance and that combining a Cx43 inhibitor with TMZ could enhance therapeutic responses in GBM, and perhaps other TMZ-resistant cancers. Cancer Res; 76(1); 139–49. ©2015 AACR.
Nitric Oxide Regulates Gene Expression in Cancers by Controlling Histone Posttranslational Modifications
Authors: Vasudevan Divya , Hickok Jason R. , Bovee Rhea C. , Pham Vy , Mantell Lin L. , Bahroos Neil , Kanabar Pinal , Cao Xing-Jun , Maienschein-Cline Mark , Garcia Benjamin A. , Thomas Douglas D. 
Published: November 2015

Abstract
Altered nitric oxide (•NO) metabolism underlies cancer pathology, but mechanisms explaining many •NO-associated phenotypes remain unclear. We have found that cellular exposure to •NO changes histone posttranslational modifications (PTM) by directly inhibiting the catalytic activity of JmjC-domain containing histone demethylases. Herein, we describe how •NO exposure links modulation of histone PTMs to gene expression changes that promote oncogenesis. Through high-resolution mass spectrometry, we generated an extensive map of •NO-mediated histone PTM changes at 15 critical lysine residues on the core histones H3 and H4. Concomitant microarray analysis demonstrated that exposure to physiologic •NO resulted in the differential expression of over 6,500 genes in breast cancer cells. Measurements of the association of H3K9me2 and H3K9ac across genomic loci revealed that differential distribution of these particular PTMs correlated with changes in the level of expression of numerous oncogenes, consistent with epigenetic code. Our results establish that •NO functions as an epigenetic regulator of gene expression mediated by changes in histone PTMs. Cancer Res; 75(24); 5299–308. ©2015 AACR.
ERRα Is a Marker of Tamoxifen Response and Survival in Triple-Negative Breast Cancer
Authors: Manna Subrata , Bostner Josefine , Sun Yang , Miller Lance D. , Alayev Anya , Schwartz Naomi S. , Lager Elin , Fornander Tommy , Nordenskjöld Bo , Yu Jane J. , Stål Olle , Holz Marina K. 
Published: November 2015

Abstract
Purpose: Estrogen-related receptor alpha (ERRα) signaling has recently been implicated in breast cancer. We investigated the clinical value of ERRα in randomized cohorts of tamoxifen-treated and adjuvant-untreated patients.
Experimental Design: Cox proportional hazards regression was used to evaluate the significance of associations between ERRα gene expression levels and patient DMFS in a previously published microarray dataset representing 2,000 breast tumor cases derived from multiple medical centers worldwide. The 912 tumors used for immunostaining were from a tamoxifen-randomized primary breast cancer trial conducted in Stockholm, Sweden, during 1976–1990. Mouse model was used to study the effect of tamoxifen treatment on lung colonization of MDA-MB-231 control cells and MDA-MB-231 cells with stable knockdown of ERRα. The phenotypic effects associated with ERRα modulation were studied using immunoblotting analyses and wound-healing assay.
Results: We found that in ER-negative and triple-negative breast cancer (TNBC) adjuvant-untreated patients, ERRα expression indicated worse prognosis and correlated with poor outcome predictors. However, in tamoxifen-treated patients, an improved outcome was observed with high ERRα gene and protein expression. Reduced ERRα expression was oncogenic in the presence of tamoxifen, measured by in vitro proliferation and migration assays and in vivo metastasis studies.
Conclusions: Taken together, these data show that ERRα expression predicts response to tamoxifen treatment, and ERRα could be a biomarker of tamoxifen sensitivity and a prognostic factor in TNBC. Clin Cancer Res; 22(6); 1421–31. ©2015 AACR.
O MODELO TRIDIMENSIONAL FÍSICO COMO INSTRUMENTO DE SIMULAÇÃO NA HABITAÇÃO SOCIAL
Authors: Imai Cesar , Azuma Mauricio Hidemi , Rodrigues Rodrigo , Zalite Marcela G. Albuquerque 
Published: November 2015

<p class="Autores">A utilização dos modelos tridimensionais é uma prática antiga na história da Arquitetura. Eles tinham por objetivo comunicar conceitos a serem concretizados pelos projetos e pelas edificações. Esses modelos buscam transmitir ideias e valores, ao mesmo tempo que comunicam as intenções do projeto, principalmente para os usuários ou pessoas que possuem o poder decisório sobre a concretização do objeto arquitetônico. O presente trabalho apresenta uma proposta de um protótipo de simulação tridimensional, buscando aplicar simulações de projetos habitacionais e avaliar a dimensão subjetiva do comportamento humano em relação ao espaço habitacional. Esse protótipo difere da maquete arquitetônica tradicional por utilizar mecanismos de registro de informações e delimitação de parâmetros mínimos de utilização dos ambientes. O artigo relata a aplicação de um estudo piloto que tem como objetivo verificar como um protótipo tridimensional, com características especificas, pode auxiliar na identificação das demandas subjetivas e das prioridades dos usuários da habitação, com especial atenção aos usuários idosos. Para tanto, o protótipo do presente estudo foi desenvolvido com o objetivo de ser o mais didático possível para essa parcela da população. Essas simulações foram aplicadas com um grupo de usuários, de forma individual e separadamente com cada um, seguindo um roteiro de questões a serem abordadas durante o procedimento. Os dados coletados na pesquisa permitem identificar as limitações e vantagens da utilização do protótipo tridimensional na comunicação entre o usuário leigo e o projetista técnico, identificando as potencialidades do instrumento enquanto processo auxiliar de avaliação prévia do projeto. Ao mesmo tempo, foi possível compreender os valores, os ideais e a forma de compreensão do problema por parte dos usuários, de tal maneira a auxiliar na revisão dos procedimentos de futuras pesquisas com protótipos. </p>
Microsomal Prostaglandin E Synthase-1–Derived PGE
2
Inhibits Vascular Smooth Muscle Cell Calcification
Authors: Gao Cheng , Fu Yi , Li Yanhui , Zhang Xu , Zhang Lu , Yu Fang , Xu Susanna S. , Xu Qingbo , Zhu Yi , Guan Youfei , Wang Xian , Kong Wei 
Published: November 2015

Objective—
Chronic administration of selective cyclooxygenase-2 (COX-2) inhibitors leads to an increased risk of adverse cardiovascular events, including myocardial infarction and stroke. Vascular smooth muscle cell (VSMC) calcification, a common complication of chronic kidney disease, is directly related to cardiovascular morbidity and mortality. Here, we tested whether specific COX-2 inhibition affects vascular calcification during chronic renal failure.

Approach and Results—

The COX-2–specific inhibitors NS398 and SC236 significantly increased high–phosphate (Pi)-induced VSMC calcification. Similarly, COX-2
−/−
VSMCs, COX-2
−/−
aortas rings treated with high Pi and adenine diet–induced COX-2
−/−
chronic renal failure mice displayed enhanced calcium deposition. Metabolomic analysis revealed the differential suppression of PGE
2
production by COX-1– and COX-2–specific inhibitors in high–Pi-stimulated VSMCs, indicating the involvement of PGE
2
during COX-2 inhibition-aggravated vascular calcification. Indeed, exogenous PGE
2
reduced alkaline phosphatase activity, osteogenic transdifferentiation, apoptosis, and calcification of VSMCs. In accordance, downregulation of microsomal prostaglandin E synthase (mPGES)-1 in VSMCs, mPGES-1
−/−
aorta with high-Pi stimulation and mPGES-1
−/−
chronic renal failure mice resulted in enhanced vascular mineralization. Further applications of RNAi and specific antagonists for PGE
2
receptors indicated EP4 may mediate PGE
2
-inhibited vascular calcification.

Conclusions—

Our data revealed the pivotal role of COX-2–mPGES-1–PGE
2
axis in vascular calcification. The selective inhibition of COX-2 or mPGES-1 may increase the risk of calcification and subsequent adverse cardiovascular events during chronic renal failure.
Atypical Fast-Slow Atrioventricular Nodal Reentrant Tachycardia Incorporating a “Superior” Slow Pathway
Authors: Kaneko Yoshiaki , Naito Shigeto , Okishige Kaoru , Morishima Itsuro , Tobiume Takeshi , Nakajima Tadashi , Irie Tadanobu , Ota Masaki , Iijima Takafumi , Iizuka Takashi , Tamura Mio , Tamura Shuntaro , Saito Akihiro , Igawa Osamu , Kato Ritsushi , Matsumoto Kazuo , Suzuki Fumio , Kurabayashi Masahiko 
Published: November 2015

Background—
The existence of an atypical fast-slow (F/S) atrioventricular nodal reentrant tachycardia (AVNRT) including a superior (sup) pathway with slow conductive properties and an atrial exit near the His bundle has not been confirmed.

Methods and Results—
We studied 6 women and 2 men (age, 74±7 years) with sup-F/S-AVNRT who underwent successful radiofrequency ablation near the His bundle. Programmed ventricular stimulation induced retrograde conduction over a superior SP with an earliest atrial activation near the His bundle, a mean shortest spike-atrial interval of 378±119 milliseconds, and decremental properties in all patients. sup-F/S-AVNRT was characterized by a long-RP interval; a retrograde atrial activation sequence during tachycardia identical to that over a sup-SP during ventricular pacing; ventriculoatrial dissociation during ventricular overdrive pacing of the tachycardia in 5 patients or atrioventricular block occurring during tachycardia in 3 patients, excluding atrioventricular reentrant tachycardia; termination of the tachycardia by ATP; and a V-A-V activation sequence immediately after ventricular induction or entrainment of the tachycardia, including dual atrial responses in 2 patients. Elimination or modification of retrograde conduction over the sup-SP by ablation near the right perinodal region or from the noncoronary cusp of Valsalva eliminated and confirmed the diagnosis of AVNRT in 4 patients each.

Conclusions—
sup-F/S-AVNRT is a distinct supraventricular tachycardia, incorporating an SP located above the Koch triangle as the retrograde limb, that can be eliminated by radiofrequency ablation.