bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft Genome Sequence of Clostridium botulinum Strain 277-00 Type B2
Authors: Mazuet Christelle , Bouchier Christiane , Popoff Michel-Robert 
Published: April 2015

ABSTRACT

We report the draft genome sequence of
Clostridium botulinum
strain 277-00, which encodes a botulinum neurotoxin B2 associated with a
ha
gene locus. Strain 277-00 was isolated from a cheese responsible for an outbreak of botulism in Iran in 1997. This strain is closed to the bivalent B2/FA strain IBCA10-7060.
Draft Genome Sequence of Pseudomonas toyotomiensis KF710, a Polychlorinated Biphenyl-Degrading Bacterium Isolated from Biphenyl-Contaminated Soil
Authors: Watanabe Takahito , Yamazoe Atsushi , Hosoyama Akira , Fujihara Hidehiko , Suenaga Hikaru , Hirose Jun , Futagami Taiki , Goto Masatoshi , Kimura Nobutada , Furukawa Kensuke 
Published: April 2015

ABSTRACT

Pseudomonas toyotomiensis
KF710 utilizes biphenyl and degrades polychlorinated biphenyls (PCBs). Here, we report the genome sequence of the KF710 strain, consisting of 5,596,721 bp with 5,155 coding sequences. The biphenyl catabolic genes were almost identical to those of
Pseudomonas pseudoalcaligenes
KF707, one of the most well-characterized biphenyl-utilizing strains.
Draft Genome Sequence of Aneurinibacillus migulanus Strain Nagano
Authors: Alenezi Faizah N. , Weitz Hedda J. , Belbahri Lassaad , Ben Rebah Hassen , Luptakova Lenka , Jaspars Marcel , Woodward Stephen 
Published: April 2015

ABSTRACT

Aneurinibacillus migulanus
is characterized by inhibition of growth of a range of plant-pathogenic bacteria and fungi. Here, we report the high-quality draft genome sequences of A. migulanus Nagano.
Genome Sequence of Bacillus mycoides B38V, a Growth-Promoting Bacterium of Sunflower
Authors: Ambrosini Adriana , Sant’Anna Fernando Hayashi , de Souza Rocheli , Tadra-Sfeir Michele , Faoro Helisson , Alvarenga Samuel M. , Pedrosa Fabio Oliveira , Souza Emanuel Maltempi , Passaglia Luciane M. P. 
Published: April 2015

ABSTRACT

Bacillus mycoides
B38V is a bacterium isolated from the sunflower rhizosphere that is able to promote plant growth and N uptake. The genome of the isolate has approximately 5.80 Mb and presents sequence codifiers for plant growth-promoting characteristics, such as nitrate reduction and ammonification and iron-siderophore uptake.
Next-Generation Sequencing: Targeting Targeted Therapies
Authors: McCutcheon Justine N. , Giaccone Giuseppe 
Published: April 2015

Abstract
Next-generation sequencing (NGS) has given new perspective in oncology. With the ongoing development of targeted therapies, NGS is evolving molecular diagnostics by providing comprehensive interrogation of clinically actionable genomic aberrations in tumors. Having this assay as the primary testing method produces clinically beneficial results. Clin Cancer Res; 21(16); 3584–5. ©2015 AACR.
See related article by Drilon et al., p. 3631
Multivariate fMRI and Eye Tracking Reveal Differential Effects of Visual Interference on Recognition Memory Judgments for Objects and Scenes
Authors: O'Neil Edward B. , Watson Hilary C. , Dhillon Sonya , Lobaugh Nancy J. , Lee Andy C. H. 
Published: April 2015

Abstract
Recent work has demonstrated that the perirhinal cortex (PRC) supports conjunctive object representations that aid object recognition memory following visual object interference. It is unclear, however, how these representations interact with other brain regions implicated in mnemonic retrieval and how congruent and incongruent interference influences the processing of targets and foils during object recognition. To address this, multivariate partial least squares was applied to fMRI data acquired during an interference match-to-sample task, in which participants made object or scene recognition judgments after object or scene interference. This revealed a pattern of activity sensitive to object recognition following congruent (i.e., object) interference that included PRC, prefrontal, and parietal regions. Moreover, functional connectivity analysis revealed a common pattern of PRC connectivity across interference and recognition conditions. Examination of eye movements during the same task in a separate study revealed that participants gazed more at targets than foils during correct object recognition decisions, regardless of interference congruency. By contrast, participants viewed foils more than targets for incorrect object memory judgments, but only after congruent interference. Our findings suggest that congruent interference makes object foils appear familiar and that a network of regions, including PRC, is recruited to overcome the effects of interference.
A Parameterization of Convective Dust Storms for Models with Mass-Flux Convection Schemes
Authors: Pantillon Florian , Knippertz Peter , Marsham John H. , Birch Cathryn E. 
Published: April 2015

Abstract
Cold pool outflows, generated by downdrafts from moist convection, can generate strong winds and therefore uplift of mineral dust. These so-called haboob convective dust storms occur over all major dust source areas worldwide and contribute substantially to emissions in northern Africa, the world’s largest source. Most large-scale models lack convective dust storms because they do not resolve moist convection, relying instead on convection schemes. The authors suggest a parameterization of convective dust storms to account for their contribution in such large-scale models. The parameterization is based on a simple conceptual model, in which the downdraft mass flux from the convection scheme spreads out radially in a cylindrical cold pool. The parameterization is tested with a set of Met Office Unified Model runs for June and July 2006 over West Africa. It is calibrated with a convection-permitting run and applied to a convection-parameterized run. The parameterization successfully produces the extensive area of dust-generating winds from cold pool outflows over the southern Sahara. However, this area extends farther to the east and dust-generating winds occur earlier in the day than in the convection-permitting run. These biases are caused by biases in the convection scheme. It is found that the location and timing of dust-generating winds are weakly sensitive to the parameters of the conceptual model. The results demonstrate that a simple parameterization has the potential to correct a major and long-standing limitation in global dust models.
Evaluation of Near-Surface Variables and the Vertical Structure of the Boundary Layer in CMIP5 Models
Authors: Svensson Gunilla , Lindvall Jenny 
Published: April 2015

Abstract
The diurnal cycles of near-surface variables and turbulent heat fluxes are evaluated in 16 models from phase 5 of CMIP (CMIP5) and compared with observations from 26 flux tower sites. The diurnal cycle of 2-m temperature agrees well in general with what is observed. The amplitude of the diurnal cycle of wind speed shows a large intermodel spread and is often overestimated at midlatitude grassland sites and underestimated at midlatitude forest sites. There is a substantial systematic negative bias in the nighttime net surface radiative flux, which is partly compensated for by the turbulent heat fluxes. Four models (CESM1, BCC_CSM1.1, HadGEM2-A, and IPSL-CM5A) are evaluated in more detail, including the vertical structure of the atmospheric boundary layer, at the ARM Southern Great Plains site in Oklahoma. At that site, all models tend to frequently overestimate the boundary layer depth and the wind turning in the boundary layer reveals large intermodel differences. In summer, these models exhibit a substantial warm bias with particularly high daytime temperatures. These high temperatures are associated with very small latent heat fluxes, indicating that the soil is too dry, which is likely to impact climate change scenarios.
Some comments on “The analysis of multivariate longitudinal data: A review”
Authors: Gebregziabher Mulugeta 
Published: April 2015

We provide a commentary on “The analysis of multivariate longitudinal data: a review” by Verbeke et al. The authors provide a comprehensive review of the issues in the analysis of multivariate longitudinal data and use examples to demonstrate the pros and cons of several approaches. In this commentary, we indicate some important omissions in their review paper.
First Metatarsophalangeal Joint Arthrodesis Technique With Interposition Allograft Bone Block
Authors: Luk Pamela C. , Johnson Jeffrey E. , McCormick Jeremy J. , Klein Sandra E. 
Published: April 2015

Background: We present a technique of first metatarsophalangeal joint arthrodesis utilizing an interposition allograft bone block with a bipolar reaming technique that creates congruent fusion surfaces on both ends of the graft-host bone interface. In addition, we examined the union rates, fusion position, patient satisfaction, and functional outcome of this technique. Methods: Fifteen patients underwent first metatarsophalangeal joint arthrodesis with an interposition allograft bone block between September 2004 and October 2013. Charts and radiographs were reviewed. Six measures were compared on preoperative and postoperative radiographs. Clinical outcomes were measured using a telephone questionnaire, pre- and postoperative visual analog scale pain scale, and Foot and Ankle Ability Measure. Average follow-up was 46 weeks (range, 19 to 97). Results: Thirteen of 15 (87%) patients achieved bony union at an average of 21 weeks. One patient underwent revision arthrodesis for their nonunion. Symptomatic hardware was removed in 3 cases. Improvement was noted in visual analog scale pain scores (6 to 2) and functional scores as measured by the Foot and Ankle Ability Measure. There were no postoperative wound complications or infections. Average length of the first ray on anteroposterior radiograph increased from 10.7 to 11.3 cm and from 10.0 to 10.7 cm on the lateral radiograph. Thirteen of 14 patients were very satisfied or satisfied. One patient expressed dissatisfaction with the procedure. One patient was not available for clinical follow-up. Conclusion: First metatarsophalangeal joint allograft bone block arthrodesis using the bipolar reaming technique achieved high bony union rates and satisfactory radiographic and clinical outcomes. This procedure was an effective salvage option for managing bone loss on 1 or both sides of the joint. Level of Evidence: Level IV, retrospective case series.
Antagonism between MCL-1 and PUMA governs stem/progenitor cell survival during hematopoietic recovery from stress
Authors: Delbridge Alex R. D. , Opferman Joseph T. , Grabow Stephanie , Strasser Andreas 
Published: April 2015

Abstract
Understanding the critical factors that govern recovery of the hematopoietic system from stress, such as during anticancer therapy and bone marrow transplantation, is of clinical significance. We investigated the importance of the prosurvival proteins myeloid cell leukemia-1 (MCL-1) and B-cell lymphoma–extra large (BCL-XL) in stem/progenitor cell survival and fitness during hematopoietic recovery from stress. Loss of a single Mcl-1 allele, which reduced MCL-1 protein levels, severely compromised hematopoietic recovery from myeloablative challenge and following bone marrow transplantation, whereas BCL-XL was dispensable in both contexts. We identified inhibition of proapoptotic p53 upregulated modulator of apoptosis (PUMA) as the key role of MCL-1 in both settings, with Mcl-1+/−;Puma−/− mice completely protected from the deleterious effects of loss of 1 Mcl-1 allele. These results reveal the molecular mechanisms that govern cell survival during hematopoietic recovery from stress.
AAO-assisted synthesis of highly ordered, large-scale TiO2 nanowire arrays via sputtering and atomic layer deposition
Authors: Yao Zhao , Wang Cong , Li Yang , Kim Nam-Young 
Published: April 2015

Abstract
Highly ordered nanoporous anodic aluminum oxide (AAO) thin films were fabricated in oxalic acid under a constant voltage via a two-step anodization process. To investigate the high-aspect-ratio (7.5:1) filling process, both sputtering and atomic layer deposition (ALD) were used to form TiO2 nanowires. Field emission scanning electron microscopy and high-resolution transmission electron microscopy images indicated that mushroom-like TiO2 structures were sputtered onto the AAO template surface, and the ALD-coated TiO2 exhibited fine filling results and clear crystal grain boundaries. Large-scale and free-standing TiO2 nanowire arrays were liberated by selectively removing the aluminum substrate and AAO template via a wet etching process with no collapsing or agglomeration after the drying process. ALD-deposited TiO2 nanowire arrays that were 67 nm in diameter and 400 nm high were transferred from the AAO template. The ALD process enabled the rapid, simple synthesis of highly ordered TiO2 nanowire arrays with desired parameters such as diameter, density, and thickness determined using diverse AAO templates.
Electrospun nanofiber sorbents for the pre-concentration of urinary 1-hydroxypyrene
Authors: Ifegwu Okechukwu Clinton , Anyakora Chimezie , Chigome Samuel , Torto Nelson 
Published: April 2015

Abstract

Background
Synthetic polymers have some qualities that make them good candidates for pre concentration of trace analytes biological fluids because of their great potentials to be functionalized and electrospun into nanofibres.

Methods
In this study, Electrospun nanofiber sorbents fabricated from 11 polymers {poly(styrene-co-methacrylic acid), poly(styrene-co-divinylbenzene) (SDVB), poly(styrene-co-acrylamide), poly(styrene-co-p-sodium styrene sulfonate), polystyrene, poly(vinyl benzyl chloride), cellulose acetate, polyethylene terephthalate (PET), polysulfone, nylon 6} were evaluated for the extraction and pre-concentration of 1-hydroxypyrene from a water sample.

Results
Scanning electron microscopy (SEM) studies revealed the formation of continuous fine bead-free and randomly arrayed fibers with their average diameters ranging from 110 to 650 nm. The percentage recoveries were highest for nylon 6 with 72%, SDVB with 70%, whereas PET achieved the lowest recovery at 34%. Under optimized conditions, the analyte followed a linear relationship for all sorbents in the concentration range of 1 to 1,000 μg/L. The coefficient of determination (r
2) was between 0.9990 to 0.9999, with precision (%relative standard deviation (RSD)) ≤ 9.51% (n = 6) for all the analysis. The %RSD for intra- and inter-day precision at three different concentrations, 10, 25, and 50 μg/L, was ≤7.88% for intraday and ≤8.04% inter-day (3 days), respectively, for all evaluated sorbents. The LOD and LOQ were found to be between 0.054 and 0.16 μg/L and 0.18 and 0.53 μg/L, respectively, using a fluorescent detector.

Conclusions
The study suggested that if packed into cartridges, nylon 6 and SDVB nanofiber sorbents could serve as alternatives to the conventional C-18 sorbents in the pre-concentration and clean-up of the tumorigenic biomarker, 1-hydroxypyrene in human urine. The fabrication of selective nanofibers could also extend and simplify sample preparation for organic and biological analytes.
A case of biliary cystic tumor with repeated hemobilia
Authors: Takahashi Gen , Kuroda Shintaro , Tashiro Hirotaka , Kobayashi Tsuyoshi , Ishiyama Kohei , Ide Kentaro , Tahara Hiroyuki , Ohira Masahiro , Arihiro Koji , Ohdan Hideki 
Published: April 2015

Abstract
Intraductal papillary neoplasm of the bile duct (IPNB) is classified as a biliary cystic tumor with a tendency of causing obstruction. Neoplastic cases involving hemobilia are rarely reported. We herein describe a case of biliary cystic tumor with repeated hemobilia. A 57-year-old woman was histologically diagnosed with cavernous hemangioma. During the follow-up period after transcatheter arterial embolization (TAE), she experienced repeated hemobilia, and multiple other TAE sessions were performed for hemostasis. She was referred to our hospital 8 years after the first surgery owing to a growing tumor. Histopathological examination after extended right hepatectomy and caudate lobectomy indicated IPNB with an associated invasive carcinoma. Six months thereafter, computed tomography revealed a recurrent liver tumor and a nodule in the abdominal cavity. She died 36 months after the second surgery, despite chemotherapy. Our experience suggests that IPNB should be considered during differential diagnosis of dilated hepatobiliary tumors with hemobilia.
Phase II Study of Gemcitabine, Carboplatin, and Iniparib As Neoadjuvant Therapy for Triple-Negative and BRCA1/2 Mutation–Associated Breast Cancer With Assessment of a Tumor-Based Measure of Genomic Instability: PrECOG 0105
Authors: Telli Melinda L. , Jensen Kristin C. , Vinayak Shaveta , Kurian Allison W. , Lipson Jafi A. , Flaherty Patrick J. , Timms Kirsten , Abkevich Victor , Schackmann Elizabeth A. , Wapnir Irene L. , Carlson Robert W. , Chang Pei-Jen , Sparano Joseph A. , Head Bobbie , Goldstein Lori J. , Haley Barbara , Dakhil Shaker R. , Reid Julia E. , Hartman Anne-Renee , Manola Judith , Ford James M. 
Published: April 2015

Purpose This study was designed to assess efficacy, safety, and predictors of response to iniparib in combination with gemcitabine and carboplatin in early-stage triple-negative and BRCA1/2 mutation–associated breast cancer. Patients and Methods This single-arm phase II study enrolled patients with stage I to IIIA (T ≥ 1 cm) estrogen receptor–negative (≤ 5%), progesterone receptor–negative (≤ 5%), and human epidermal growth factor receptor 2–negative or BRCA1/2 mutation–associated breast cancer. Neoadjuvant gemcitabine (1,000 mg/m2 intravenously [IV] on days 1 and 8), carboplatin (area under curve of 2 IV on days 1 and 8), and iniparib (5.6 mg/kg IV on days 1, 4, 8, and 11) were administered every 21 days for four cycles, until the protocol was amended to six cycles. The primary end point was pathologic complete response (no invasive carcinoma in breast or axilla). All patients underwent comprehensive BRCA1/2 genotyping, and homologous recombination deficiency was assessed by loss of heterozygosity (HRD-LOH) in pretreatment core breast biopsies. Results Among 80 patients, median age was 48 years; 19 patients (24%) had germline BRCA1 or BRCA2 mutations; clinical stage was I (13%), IIA (36%), IIB (36%), and IIIA (15%). Overall pathologic complete response rate in the intent-to-treat population (n = 80) was 36% (90% CI, 27 to 46). Mean HRD-LOH scores were higher in responders compared with nonresponders (P = .02) and remained significant when BRCA1/2 germline mutations carriers were excluded (P = .021). Conclusion Preoperative combination of gemcitabine, carboplatin, and iniparib is active in the treatment of early-stage triple-negative and BRCA1/2 mutation–associated breast cancer. The HRD-LOH assay was able to identify patients with sporadic triple-negative breast cancer lacking a BRCA1/2 mutation, but with an elevated HRD-LOH score, who achieved a favorable pathologic response. Confirmatory controlled trials are warranted.
Profiles of 21-Carbon Steroids in 21-hydroxylase Deficiency
Authors: Turcu Adina F. , Rege Juilee , Chomic Robert , Liu Jiayan , Nishimoto Hiromi K. , Else Tobias , Moraitis Andreas G. , Palapattu Ganesh S. , Rainey William E. , Auchus Richard J. 
Published: April 2015

Context:
Marked elevations of 17-hydroxyprogesterone (17OHP) are characteristic of classic 21-hydroxylase deficiency (21OHD). Testing of 17OHP provides the basis for 21OHD diagnosis, although it suffers from several pitfalls. False-positive or false-negative results and poor discrimination of nonclassic 21OHD from carriers limit the utility of serum 17OHP and necessitate dynamic testing after cosyntropin stimulation when values are indeterminate.

Objective:
The objective was to provide a detailed characterization of 21-carbon (C21) steroids in classic 21OHD, which might identify other candidate steroids that could be employed for the diagnosis of 21OHD.

Setting and Participants:
Patients (11 women, 10 men) with classic 21OHD and 21 sex- and age-matched controls seen in a tertiary referral center were studied.

Methods:
C21 steroids in the peripheral sera from all subjects, as well as in media from cultured testicular adrenal rest tumor (TART) cells and normal adrenal (NA) cells, were analyzed using liquid chromatography/tandem mass spectrometry (10 steroids). Additionally, the dynamics of C21 steroid metabolism in TART and NA cells were assessed with radiotracer studies.

Results:
Five C21 steroids were significantly higher in 21OHD patients: 17OHP (67-fold; P &lt; .01), 21-deoxycortisol (21dF; 35-fold; P &lt; .01), 16α-hydroxyprogesterone (16OHP; 28-fold; P &lt; .01), progesterone (2-fold; P &lt; .01), and 11β-hydroxyprogesterone (11OHP; not detected in controls; P &lt; .01). The same steroids were the highest in media from TART cells relative to the NA cells: 11OHP, 58- to 65-fold; 21dF, 30- to 41-fold; 17OHP, 9-fold; progesterone, 9- to 12-fold; and 16OHP, 7-fold.

Conclusion:
Measurement of 16OHP and 11OHP along with 17OHP and 21dF by liquid chromatography/tandem mass spectrometry might comprise a biomarker panel to accurately diagnose all forms of 21OHD.
Planning and Budgeting Personnel Costs of the Organization (Lecture 5)
Authors: Митрофанова  , Mitrofanova Elena , Эсаулова  , Esaulova Irena 
Published: April 2015

This article continues the abstract of lectures on discipline “Economics of personnel management” under the bachelor program.
The article reveals the concept of planning and budgeting personnel costs based on the assessment of the contribution of human resources and staff management
system in achieving the objectives of the organization. Presents the stages of the budgeting process in personnel costs. Consistently contents of the main
tasks of budgeting personnel costs: evaluation plans for personnel management, evaluation complexity of work to plan implementation in the fi eld of personnel
management, the calculation of staff costs and costing of the activities for each planned direction, budget development, staff costs, protection and approval
of the budget, the monitoring of budget execution.
Russian Economy’s Macro Financial Forecasting: Current Problems and Solutions
Authors: Говтвань  , Govtvan Oleg , Ивантер  , Ivantyer Viktor , Панфилов  , Panfilov V. 
Published: April 2015

The main methodological, methodical and applied features in the macro financial forecasting, developed
by the Institute of National Economic Forecasting of the Russian Academy of Sciences (INEF-RAS) are
considered in this paper.
To a Question of Formation of Organizational Behavior Modern Manager
Authors: Саванович  , Savanovich S. , Сербулов  , Serbulov A. , Герасимова  , Gerasimova A. 
Published: April 2015

Results of the research conducted from 2011 to 2013 in the organizations of various branches of economy of
Kaliningrad and the Kaliningrad region are presented in the present article. Authors set a task on the basis of
empirical data to reveal the impact which had by the head on organizational behavior of employees to define
factors of increase of competitiveness of the modern Russian head. Relevance of statement of a problem of
research in this context is caused, on the one hand, by insufficient attention of theoretical researches to the
considered problem, on the other hand, requirements of practice.