bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft Genome Sequence of the Nylon Oligomer-Degrading Bacterium
Arthrobacter
sp. Strain KI72
Authors: Takehara Ikki , Kato Dai-Ichiro , Takeo Masahiro , Negoro Seiji 
Published: April 2017

ABSTRACT

We report here the 4.6-Mb genome sequence of a nylon oligomer-degrading bacterium,
Arthrobacter
sp. strain KI72. The draft genome sequence of strain KI72 consists of 4,568,574 bp, with a G+C content of 63.47%, 4,372 coding sequences (CDSs), 54 tRNAs, and six rRNAs.
Draft Genome Sequence of the Yeast
Starmerella bacillaris
(syn.,
Candida
zemplinina
) FRI751 Isolated from Fermenting Must of Dried Raboso Grapes
Authors: Lemos Junior Wilson José Fernandes , Treu Laura , Duarte Vinícius da Silva , Campanaro Stefano , Nadai Chiara , Giacomini Alessio , Corich Viviana 
Published: April 2017

ABSTRACT

Starmerella bacillaris
is an ascomycetous yeast commonly present in enological environments. Here, we report the first draft genome sequence of
S. bacillaris
FRI751, which will facilitate the study of the characteristics of this interesting enological yeast.
Complete Genome Sequences of Identical
Zika virus
Isolates in a Nursing Mother and Her Infant
Authors: Blohm Gabriela M. , Lednicky John A. , Márquez Marilianna , White Sarah K. , Loeb Julia C. , Pacheco Carlos A. , Nolan David J. , Paisie Taylor , Salemi Marco , Rodríguez-Morales Alfonso J. , Morris J. Glenn , Pulliam Juliet R. C. , Carrillo Alejandra S. , Plaza Juan D. , Paniz-Mondolfi Alberto E. 
Published: April 2017

ABSTRACT
Complete genome sequences were obtained for Zika viruses isolated from the breast milk of a Venezuelan patient and her child, who was exclusively breastfeeding at the time. These sequences are the first to be reported from a presumptive autochthonous postnatal transmission case from mother to child in Venezuela.
Complete Genome Sequence of Bordetella pertussis Pelita III, the Production Strain for an Indonesian Whole-Cell Pertussis Vaccine
Authors: Efendi Yusuf Sofyan , Susanti Dwi , Tritama Erman , Pasier Michelle Lueders , Niwan Putri Gilang Nadia , Raharso Sugeng , Iskandar  , Aditiawati Pingkan , Giri-Rachman Ernawati Arifin , Mukhopadhyay Biswarup , Purwantini Endang 
Published: April 2017

ABSTRACT

PT Bio Farma, the sole World Health Organization-approved Indonesian vaccine producer, manufactures a whole-cell whooping cough vaccine (wP) that, as part of a pentavalent diphtheria-tetanus-pertussis/hepatitis B/
Haemophilus influenzae
b (DTP/HB/Hib) vaccine, is used in Indonesia and many other countries. We report here the whole-genome sequence for
Bordetella pertussis
Pelita III, PT Bio Farma’s wP production strain.
Genome Sequence of “
Candidatus
Carsonella ruddii” Strain BC, a Nutritional Endosymbiont of
Bactericera cockerelli
Authors: Riley Alex B. , Kim Dohyup , Hansen Allison K. 
Published: April 2017

ABSTRACT

Here, we report the genome of “
Candidatus
Carsonella ruddii” strain BC, a nutritional endosymbiont of the tomato psyllid
Bactericera cockerelli
. The 173,802-bp genome contains 198 protein-coding genes, with a G+C content of 14.8%.
Complete Genome Sequence of a Paenalcaligenes hominis Strain Isolated from a Paraplegic Patient with Neurogenic Bladder Using Single-Molecule Real-Time Sequencing Technology
Authors: Mukhopadhyay Rituparna , Joaquin Joselita , Hogue Robin , Kilaru Austin , Jospin Guillaume , Mars Kristin , Eisen Jonathan A. , Chaturvedi Vishnu 
Published: April 2017

ABSTRACT

The genome of
Paenalcaligenes hominis
, isolated from a paraplegic patient with neurogenic bladder, was sequenced with the Pacific Biosciences RSII platform. The genome size is 2.68 Mb and includes 3,096 annotated coding sequences, including genes associated with quinone cofactors, which play crucial roles in the virulence of Gram-negative bacteria.
Isolation of Two Virus-Like Circular DNAs from Commercially Available Milk Samples
Authors: Falida Konstantina , Eilebrecht Sebastian , Gunst Karin , zur Hausen Harald , de Villiers Ethel-Michele 
Published: April 2017

ABSTRACT
Epidemiological data indicate a potential relationship between milk and dairy product consumption and the incidence of breast cancer, as well as neurodegenerative diseases. We report the isolation of two novel circular DNA molecules isolated from commercially available milk.
Draft Genome Sequences of “
Candidatus
Synechococcus spongiarum,” Cyanobacterial Symbionts of the Mediterranean Sponge
Aplysina aerophoba
Authors: Slaby Beate M. , Hentschel Ute 
Published: April 2017

ABSTRACT

We report here four draft genome sequences belonging to clade F of the cyanobacterium “
Candidatus
Synechococcus spongiarum” of the marine sponge
Aplysina aerophoba
, which were collected from two nearby locations in the northern Adriatic Sea. The sequences provide the basis for within-clade comparisons between members of this widespread group of cyanobacterial sponge symbionts.
Draft Genome Sequence of Plantibacter flavus Strain 251 Isolated from a Plant Growing in a Chronically Hydrocarbon-Contaminated Site
Authors: Lumactud Rhea , Fulthorpe Roberta , Sentchilo Vladimir , van der Meer Jan Roelof 
Published: April 2017

ABSTRACT

Plantibacter flavus
isolate 251 is a bacterial endophyte isolated from an
Achillea millefolium
plant growing in a natural oil seep soil located in Oil Springs, Ontario, Canada. We present here a draft genome sequence of an infrequently reported genus
Plantibacter
, highlighting an endophytic lifestyle and biotechnological potential.
Long-term outcomes of orbital fat decompression in Graves’ orbitopathy
Authors: Cheng Anny M , Wei Yi-Hsuan , Tighe Sean , Sheha Hosam , Liao Shu-Lang 
Published: April 2017

PurposeTo evaluate the long-term clinical efficacy of orbital fat decompression in treating proptosis in Graves' ophthalmopathy (GO).MethodsRetrospective review of 1604 eyes of 845 patients with symmetric (1518 eyes) and asymmetric (86 eyes) proptosis who received orbital fat decompression between 2003 and 2014. Changes in Hertel values were evaluated at baseline, 6 months postoperatively and yearly thereafter. Recurrence of proptosis, diplopia and other complications that required additional surgeries were documented and analysed. The surgical outcome was defined as complete success if there was proptosis reduction with no recurrence and improved or no diplopia. Partial success was considered if there was proptosis reduction without recurrence yet persistent or new-onset diplopia. Failure was considered if there was recurrence of proptosis regardless of diplopia. The patient’s quality of life was also evaluated as a long-term outcome.ResultsAfter follow-up for 37.9±24.4 months, 1365 eyes (85.1%) achieved complete success, 219 eyes (13.7%) achieved partial success and 20 eyes (1.2%) had failure. Newly onset diplopia and secondary decompression occurrence rate remained low at 3.3% and 0.6%, respectively. The total proptosis reduction was 4.1±1.3 mm, which was consistent all through the intermediate and long-term (5–10 years) follow-up. The amount of orbital fat removal (4.5±1.1 mL) played a significant role in the long-term Hertel change. Importantly, the overall quality of life increased significantly for GO patients after undergoing orbital fat decompression.ConclusionsOrbital fat decompression has a long-term efficacy in correcting disfiguring proptosis with a low complication rate and without the need of secondary decompression procedures. This was also associated with a significant improvement in quality of life.
Barriers to evidence-based acute stroke care in Ghana: a qualitative study on the perspectives of stroke care professionals
Authors: Baatiema Leonard , de-Graft Aikins Ama , Sav Adem , Mnatzaganian George , Chan Carina K Y , Somerset Shawn 
Published: April 2017

ObjectiveDespite major advances in research on acute stroke care interventions, relatively few stroke patients benefit from evidence-based care due to multiple barriers. Yet current evidence of such barriers is predominantly from high-income countries. This study seeks to understand stroke care professionals’ views on the barriers which hinder the provision of optimal acute stroke care in Ghanaian hospital settings.DesignA qualitative approach using semistructured interviews. Both thematic and grounded theory approaches were used to analyse and interpret the data through a synthesis of preidentified and emergent themes.SettingA multisite study, conducted in six major referral acute hospital settings (three teaching and three non-teaching regional hospitals) in Ghana.ParticipantsA total of 40 participants comprising neurologists, emergency physician specialists, non-specialist medical doctors, nurses, physiotherapists, clinical psychologists and a dietitian.ResultsFour key barriers and 12 subthemes of barriers were identified. These include barriers at the patient (financial constraints, delays, sociocultural or religious practices, discharge against medical advice, denial of stroke), health system (inadequate medical facilities, lack of stroke care protocol, limited staff numbers, inadequate staff development opportunities), health professionals (poor collaboration, limited knowledge of stroke care interventions) and broader national health policy (lack of political will) levels. Perceived barriers varied across health professional disciplines and hospitals.ConclusionBarriers from low/middle-income countries differ substantially from those in high-income countries. For evidence-based acute stroke care in low/middle-income countries such as Ghana, health policy-makers and hospital managers need to consider the contrasts and uniqueness in these barriers in designing quality improvement interventions to optimise patient outcomes.
Losing a partner: the varying financial and practical impacts of bereavement in different sociodemographic groups
Authors: Lancaster Harriet , Johnson Tom 
Published: April 2017

ObjectivesThe purpose of this study was to describe the financial and practical impacts of the death of a life partner, up to 5 years after bereavement. The study compared the impact felt by different sociodemographic groups and evaluated the role of financial and caring organisations in improving these impacts.MethodsAn evidence review of the subject area was conducted and a qualitative assessment of the target population (individuals whose partner had died in the past 3 years) was carried out using a semistructured interview (n=6). Subsequently, a multiple choice survey was constructed to collect data from a wider target population (individuals whose partner had died in the past 5 years) and covered topics including finances, interaction with organisations and management of daily tasks (n=500).ResultsThe results of the multiple choice survey have been interpreted here using basic descriptive statistical analysis. 69% of people who lost a partner were unprepared, either financially or practically, for bereavement. Women and those under the age of 50 experienced the most significant financial impact and practical changes continued beyond 3 years postbereavement. To manage this disruption, 61% of participants reported that they felt they needed more help from financial and caring organisations postbereavement.ConclusionsThe results of this survey demonstrate some of the key struggles each demographic group faces immediately after bereavement and into the future. It is clear that preparation and bereavement support have a profound effect on mitigating the negative impacts seen here.
Clinical relevance of detecting anti-infliximab antibodies with a drug-tolerant assay: post hoc analysis of the TAXIT trial
Authors: Van Stappen Thomas , Vande Casteele Niels , Van Assche Gert , Ferrante Marc , Vermeire Séverine , Gils Ann 
Published: April 2017

ObjectiveTo evaluate the clinical relevance of antidrug antibodies (ADAs) measured using a drug-tolerant assay in a post hoc analysis of the Trough Concentration (TC) Adapted Infliximab Treatment (TAXIT) randomised controlled trial.DesignADA in serum samples (n=221) of 76 patients enrolled in TAXIT, who presented with an infliximab TC <3 µg/mL at screening, were reanalysed after optimisation and at the end of the study using a drug-tolerant ADA assay. Patients underwent dose escalation to achieve therapeutic TCs between 3 µg/mL and 7 µg/mL prior to randomisation. Patients were grouped into quartiles (Q1–4) according to ADA concentration at screening.ResultsUsing a drug-tolerant assay, the immunogenicity detection rate increased from 21% (drug-sensitive assay) to 63% at screening, from 0% to 51% after optimisation and from 3% to 42% at the end of TAXIT. Patients in ADA Q4 required a higher cumulative infliximab dose (2390 (880–2998) mg) to achieve target TCs, resulting in a higher drug cost (€10 712 (4120–13 596)) compared with ADA-negative patients (€2060 (1648–3296)) and patients in ADA Q1/Q2 (€2060 (1648–4120)/€2060 (1751–3296), p<0.001). However, all but one patient belonging to ADA Q4 were also ADA-positive using a drug-sensitive assay.ConclusionsUpon dose intensification, low concentration ADAs, not detectable using a drug-sensitive assay, disappear in more than half of the patients over time and are clinically non-relevant. In contrast, high concentration ADAs which are typically also detected in a drug-sensitive assay, persist over time and necessitate a higher cumulative dose and drug cost. In the latter group, proactive drug switching may be more cost-efficient.Clinical Trials Register2011-002061-38; Post-results.
Composite biomarker panel for prediction of severity and diagnosis of acute GVHD with T-cell-depleted allogeneic stem cell transplants—single centre pilot study
Authors: Min San San , Mehra Varun , Clay Jennifer , Cross Gemma F , Douiri Abdel , Dew Tracy , Basu Tanya N , Potter Victoria , Ceesay M Mansour , Pagliuca Antonio , Sherwood Roy A , Vincent Royce P 
Published: April 2017

AimsAcute graft-versus-host disease (aGVHD) is a leading cause of morbidity and mortality following allogeneic haematopoietic stem cell transplantation (HSCT). The aim of this study was to evaluate the clinical utility of a composite biomarker panel to help identify individuals at risk of developing aGVHD, and to help predict and differentiate between severity of aGVHD following T-cell-depleted allogeneic HSCT.MethodsWe retrospectively analysed our cohort of biopsy confirmed patients with aGVHD, who underwent T-cell-depleted HSCT and matched them with negative controls without any evidence of aGVHD. Post-transplant serum samples on days 0 and 7 and at onset of aGVHD were analysed for elafin, regenerating islet-derived 3-α, soluble tumour necrosis factor receptor-1, soluble interleukin-2 receptor-α and hepatocyte growth factor. Biomarker data were combined as composite panels A–F (table 2) using logistic regression analysis. Receiver operating characteristic analysis was performed to study sensitivity and specificity of the composite panels.ResultsOur composite biomarker panels significantly differentiated between aGVHD and no GVHD patients at time of onset (panel E) and reliably predicted severity of GVHD grades at days 0 and 7 post-transplant (panels B and D). The area under the curve for the composite panel at time of onset was 0.65 with specificity, sensitivity, positive and negative predictive values of 100%, 55.6%, 100% and 78.9%, respectively (p=0.03).ConclusionsThis pilot data support the usefulness of these composite biomarker panels in the prediction of severity and diagnosis of aGVHD in patients undergoing T-cell-depleted reduced intensity allogeneic HSCT.
Barriers to timely discharge from the general medicine service at an academic teaching hospital
Authors: Ragavan Meera V , Svec David , Shieh Lisa 
Published: April 2017

ABSTRACTBackgroundReducing delays for patients who are safe to be discharged is important for minimising complications, managing costs and improving quality. Barriers to discharge include placement, multispecialty coordination of care and ineffective communication. There are a few recent studies that describe barriers from the perspective of all members of the multidisciplinary team.Study objectiveTo identify the barriers to discharge for patients from our medicine service who had a discharge delay of over 24 hours.MethodologyWe developed and implemented a biweekly survey that was reviewed with attending physicians on each of the five medicine services to identify patients with an unnecessary delay. Separately, we conducted interviews with staff members involved in the discharge process to identify common barriers they observed on the wards.ResultsOver the study period from 28 October to 22 November 2013, out of 259 total discharges, 87 patients had a delay of over 24 hours (33.6%) and experienced a total of 181 barriers. The top barriers from the survey included patient readiness, prolonged wait times for procedures or results, consult recommendations and facility placement. A total of 20 interviews were conducted, from which the top barriers included communication both between staff members and with the patient, timely notification of discharge and lack of discharge standardisation.ConclusionsThere are a number of frequent barriers to discharge encountered in our hospital that may be avoidable with planning, effective communication methods, more timely preparation and tools to standardise the discharge process.
Novel Methodology for Triage and Prioritizing Using “Big Data” Patients with Chronic Heart Diseases Through Telemedicine Environmental
Authors: Salman O. H. , Zaidan A. A. , Zaidan B. B. , Naserkalid  , Hashim M. 
Published: April 2017

Problem Statement: Improper triage and prioritization of big-data patients may result in erroneous strategic decisions. An example of such wrong decision making includes the triage of patients with chronic heart disease to low-priority groups. Incorrect decisions may jeopardize the patients’ health.Objective: This study aims to evaluate and score the big data of patients with chronic heart disease and of those who require urgent attention. The assessment is based on multicriteria decision making in a telemedical environment to improve the triage and prioritization processes.Methods: A hands-on study was performed. A total of 500 patients with chronic heart disease manifested in different symptoms and under various emergency levels were evaluated on the basis of the following four main measures. An electrocardiogram sensor was used to measure the electrical signals of the contractile activity of the heart over time. A SpO2sensor was employed to determine the blood oxygen saturation levels of the patients. A blood pressure sensor was used to obtain the physiological data of the systolic and diastolic blood pressures of the patients. Finally, a non-sensory measurement (text frame) was conducted to assess chest pain and breathing. The patients were prioritized on the basis of a set of measurements by utilizing integrated back-forward adjustment for weight computation and technique for order performance by similarity to ideal solution.Discussion Results: Patients with the most urgent cases were given the highest priority level, whereas those with the least urgent cases were assigned with the lowest priority level among all patients’ scores. The first three patients assigned to the medical committee of doctors were proven to be the most critical emergency cases with the highest priority level on the basis of their clinical symptoms. By contrast, the last three patients were proven to be the least critical emergency cases and given the lowest priority levels relative to other patients. The throughput measurement in terms of scalability based on our proposed algorithm was more efficient than that of the benchmark algorithm. Finally, the new method for determining the “big data” patients characteristics based on “4Vs” was suggested.
A review of deformation bands in reservoir sandstones: geometries, mechanisms and distribution
Authors: Fossen Haakon , Soliva Roger , Ballas Gregory , Trzaskos Barbara , Cavalcante Carolina , Schultz Richard A. 
Published: April 2017

Abstract

Deformation bands are common subseismic structures in porous sandstones that vary with respect to deformation mechanisms, geometries and distribution. The amount of cataclasis involved largely determines how they impact fluid flow, and cataclasis is generally promoted by coarse grain size, good sorting, high porosity and overburden (usually >500–1000 m). Most bands involve a combination of shear and compaction, and a distinction can be made between those where shear displacement greatly exceeds compaction (compactional shear bands or CSB), where the two are of similar magnitude (shear-enhanced compaction bands or SECB), and pure compaction bands (PCB). The latter two only occur in the contractional regime, are characterized by high (70–100°) dihedral angles (SECB) or perpendicularity (PCB) to σ
1
(the maximum principal stress) and are restricted to layers with very high porosity. Contraction generally tends to produce populations of well-distributed deformation bands, whereas in the extensional regime the majority of bands are clustered around faults. Deformation bands also favour highly porous parts of a reservoir, which may result in a homogenization of the overall reservoir permeability and enhance sweep during hydrocarbon production. A number of intrinsic and external variables must therefore be considered when assessing the influence of deformation bands on reservoir performance.
Characterization of a Dual Rac/Cdc42 Inhibitor MBQ-167 in Metastatic Cancer
Authors: Humphries-Bickley Tessa , Castillo-Pichardo Linette , Hernandez-O’Farrill Eliud , Borrero-Garcia Luis D. , Forestier-Roman Ingrid , Gerena Yamil , Blanco Manuel , Rivera-Robles Michael J. , Rodriguez-Medina José R. , Cubano Luis A. , Vlaar Cornelis P. , Dharmawardhane Suranganie 
Published: April 2017

Abstract
The Rho GTPases Rac (Ras-related C3 botulinum toxin substrate) and Cdc42 (cell division control protein 42 homolog) regulate cell functions governing cancer malignancy, including cell polarity, migration, and cell-cycle progression. Accordingly, our recently developed Rac inhibitor EHop-016 (IC50, 1,100 nmol/L) inhibits cancer cell migration and viability and reduces tumor growth, metastasis, and angiogenesis in vivo. Herein, we describe MBQ-167, which inhibits Rac and Cdc42 with IC50 values of 103 and 78 nmol/L, respectively, in metastatic breast cancer cells. Consequently, MBQ-167 significantly decreases Rac and Cdc42 downstream effector p21-activated kinase (PAK) signaling and the activity of STAT3, without affecting Rho, MAPK, or Akt activities. MBQ-167 also inhibits breast cancer cell migration, viability, and mammosphere formation. Moreover, MBQ-167 affects cancer cells that have undergone epithelial-to-mesenchymal transition by a loss of cell polarity and inhibition of cell surface actin-based extensions to ultimately result in detachment from the substratum. Prolonged incubation (120 hours) in MBQ-167 decreases metastatic cancer cell viability with a GI50 of approximately 130 nmol/L, without affecting noncancer mammary epithelial cells. The loss in cancer cell viability is due to MBQ-167–mediated G2–M cell-cycle arrest and subsequent apoptosis, especially of the detached cells. In vivo, MBQ-167 inhibits mammary tumor growth and metastasis in immunocompromised mice by approximately 90%. In conclusion, MBQ-167 is 10× more potent than other currently available Rac/Cdc42 inhibitors and has the potential to be developed as an anticancer drug, as well as a dual inhibitory probe for the study of Rac and Cdc42. Mol Cancer Ther; 16(5); 805–18. ©2017 AACR.