bluuebunny/crossref_metadata_2025_split huggingface dataset:
No Change in Running Mechanics With Live High—Train Low Altitude Training in Elite Distance Runners
Authors: Stickford Abigail S.L. , Wilhite Daniel P. , Chapman Robert F. 
Published: April 2016

Investigations into ventilatory, metabolic, and hematological changes with altitude training have been completed; however, there is a lack of research exploring potential gait-kinematic changes after altitude training, despite a common complaint of athletes being a lack of leg "turnover" on return from altitude training.Purpose:To determine if select kinematic variables changed in a group of elite distance runners after 4 wk of altitude training.Methods:Six elite male distance runners completed a 28-d altitude-training intervention in Flagstaff, AZ (2150 m), following a modified “live high–train low” model, wherein higherintensity runs were performed at lower altitudes (945–1150 m) and low-intensity sessions were completed at higher altitudes (1950–2850 m). Gait parameters were measured 2–9 d before departure to altitude and 1 to 2 d after returning to sea level at running speeds of 300–360 m/min.Results:No differences were found in ground-contact time, swing time, or stride length or frequency after altitude training (P > .05).Conclusions:Running mechanics are not affected by chronic altitude training in elite distance runners. The data suggest that either chronic training at altitude truly has no effect on running mechanics or completing the live high–train low model of altitude training, where higher-velocity workouts are completed at lower elevations, mitigates any negative mechanical adaptations that may be associated with chronic training at slower speeds.
Draft Genome Sequence of an Invasive Streptococcus agalactiae Isolate Lacking Pigmentation
Authors: Singh Pallavi , Aronoff David M. , Davies H. Dele , Manning Shannon D. 
Published: April 2016

ABSTRACT

This report provides the whole-genome sequence of
Streptococcus agalactiae
isolate GB00037 isolated from a newborn in Calgary, Canada. This serotype V isolate is unique because it lacks pigment production previously shown to be critical for
S. agalactiae
virulence.
Draft Genome Sequence of Pyrodictium occultum PL19
T
, a Marine Hyperthermophilic Species of
Archaea
That Grows Optimally at 105°C
Authors: Utturkar Sagar M. , Huber Harald , Leptihn Sebastian , Loh Belinda , Brown Steven D. , Stetter Karl O. , Podar Mircea 
Published: April 2016

ABSTRACT

We report here the draft genome sequence of
Pyrodictium occultum
PL19
T
, a marine hyperthermophilic archaeon. The genome provides insights into molecular and cellular adaptation mechanisms to life in extreme environments and the evolution of early organisms on Earth.
Draft Genome Sequence of Pantoea ananatis GB1, a Plant-Growth-Promoting Hydrocarbonoclastic Root Endophyte, Isolated at a Diesel Fuel Phytoremediation Site Planted with
Populus
Authors: Gkorezis Panagiotis , Van Hamme Jonathan D. , Bottos Eric M. , Thijs Sofie , Balseiro-Romero Maria , Monterroso Carmela , Kidd Petra Suzan , Rineau Francois , Weyens Nele , Vangronsveld Jaco 
Published: April 2016

ABSTRACT

We report the 4.76-Mb draft genome of
Pantoea ananatis
GB1, a Gram-negative bacterium of the family
Enterobacteriaceae
, isolated from the roots of poplars planted for phytoremediation of a diesel-contaminated plume at the Ford Motor Company site in Genk, Belgium. Strain GB1 promotes plant growth in various hosts and metabolizes hydrocarbons.
Draft Genome Sequence of Bacillus mycoides M2E15, a Strain Isolated from the Endosphere of Potato
Authors: Yi Yanglei , de Jong Anne , Spoelder Jan , Elzenga J. Theo M. , van Elsas Jan Dirk , Kuipers Oscar P. 
Published: April 2016

ABSTRACT

We present the draft genome sequence of
Bacillus mycoides
M2E15, a bacterium isolated from potato endosphere. Analysis of the 6.08-Mbp draft genome sequence identified 6,386 protein-encoding sequences, including potential plant growth promoting genes. Specifically, genes for proteins involved in phosphate utilization, iron acquisition, and bacteriocin production were identified.
Complete Genome Sequence of Bluetongue Virus Serotype 8, Which Reemerged in France in August 2015
Authors: Bréard Emmanuel , Sailleau Corinne , Quenault Hélène , Lucas Pierrick , Viarouge Cyril , Touzain Fabrice , Fablet Aurore , Vitour Damien , Attoui Houssam , Zientara Stéphan , Blanchard Yannick 
Published: April 2016

ABSTRACT
We announce here the complete genome sequence (coding and noncoding) of the bluetongue virus (BTV) serotype 8, isolated from a ram in Allier department, France, 2015. Sequence analysis confirms the reemergence of the BTV-8 strain that previously circulated in France until 2009 and other European countries until 2010.
Draft Genome Sequence of
Ralstonia solanacearum
Strain Rs-T02, Which Represents the Most Prevalent Phylotype in Guangxi, China
Authors: Zou Chengwu , Wang Kaihao , Meng Jiaorong , Yuan Gaoqing , Lin Wei , Peng Haowen , Li Qiqin 
Published: April 2016

ABSTRACT

Ralstonia solanacearum
strain Rs-T02 was originally isolated from a bacterial wilt of tomato plant in Nanning City of Guangxi Province, China. It represents the most prevalent phylotype in Guangxi. Here, we present the draft genome sequence of this strain, which comprises 5,225 genes and 5,976,011 nucleotides with an average G+C content of 66.79%. There are 968 different genes between this isolate and the previously reported genome sequence of
Ralstonia solanacearum
GMl l000 (race l, biovar 3, phylotype I), and the genome sequence information of this isolate may be useful for comparative genomic studies to determine the genetic diversity in this species.
Complete Genome Characterization of Two Wild-Type Measles Viruses from Vietnamese Infants during the 2014 Outbreak
Authors: Oude Munnink Bas B. , Phan My V. T. , Kellam Paul , Cotten Matthew ,   the VIZIONS Consortium
Published: April 2016

ABSTRACT
A large measles virus outbreak occurred across Vietnam in 2014. We identified and obtained complete measles virus genomes in stool samples collected from two diarrheal pediatric patients in Dong Thap Province. These are the first complete genome sequences of circulating measles viruses in Vietnam during the 2014 measles outbreak.
Draft Genome Sequence of
Lactobacillus crispatus
JCM5810, Which Can Reduce
Campylobacter jejuni
Colonization in Chicken Intestine
Authors: Wooten Jessica , Liu Xiaoji , Miller Michael J. 
Published: April 2016

ABSTRACT

We present the 2.05-Mb draft genome sequence of
Lactobacillus crispatus
JCM5810, a chicken intestinal isolate with the ability to reduce
Campylobacter jejuni
colonization in chickens. The genome sequence will provide insights on the probiotic mechanisms of
L. crispatus
JCM5810.
Draft Genome Sequences of 11 Clinical Isolates of
Acinetobacter baumannii
Authors: Higgins P. G. , Chan J. Z.-M. , Seifert H. , Pallen M. J. , Millard A. D. 
Published: April 2016

ABSTRACT

The development of multidrug-resistant
Acinetobacter baumannii
is of serious concern in the hospital setting. Here, we report draft genome sequences of 11
A. baumannii
isolates that were isolated from a single patient over a 65-day period, during which time the isolates exhibited increased antimicrobial resistance.
Genome Sequence of
Staphylococcus aureus
Strain HUK16, Isolated from Hexachlorocyclohexane-Contaminated Soil
Authors: Gasc Cyrielle , Richard Jean-Yves , Peyret Pierre 
Published: April 2016

ABSTRACT

Staphylococcus aureus
strain HUK16 has been isolated from hexachlorocyclohexane (HCH)-long-term contaminated soil. The genome of strain HUK16 was sequenced to understand the genetic basis of its adaptation to HCH and to find the potential metabolic pathways allowing it to degrade the pesticide. Here, we report the annotated draft genome sequence (~2.7 Mbp) of this strain.
Draft Genome Sequence of
Providencia heimbachae
, Isolated from a Diabetic Foot Ulcer
Authors: Jneid Joanne , Benamar Samia , Pagnier Isabelle , Levy Pierre-Yves , Lavigne Jean-Philippe , La Scola Bernard 
Published: April 2016

ABSTRACT

Providencia
spp. are ubiquitous Gram-negative bacteria of the family
Enterobacteriaceae
that are common opportunistic pathogens. In the present work, we have sequenced, annotated, and compared the draft genome of
Providencia heimbachae
, which was recovered from a diabetic foot ulcer. It is composed of 4.22 Mb and encodes 3,843 protein-coding genes and 79 RNA genes, including 11 rRNA genes.
Draft Genome Sequence of an Environmental
trh
+
Vibrio parahaemolyticus
K23 Strain Isolated from Kerala, India
Authors: Prabhakaran Divya Meparambu , Chowdhury Goutam , Pazhani Gururaja Perumal , Ramamurthy Thandavarayan , Thomas Sabu 
Published: April 2016

ABSTRACT

Vibrio parahaemolyticus
is the leading cause of seafood-related gastroenteritis. Here, we report the draft genome sequence of a
trh
+
strain,
V. parahaemolyticus
K23, isolated from seafood. The sequence will be useful for comparative analysis between environmental and clinical isolates of
V. parahaemolyticus
.
Draft Genome Sequence of Alkane-Degrading
Acinetobacter venetianus
JKSF02, Isolated from Contaminated Sediment of the San Jacinto River in Houston, Texas
Authors: Iyer Rupa , Damania Ashish 
Published: April 2016

ABSTRACT

Acinetobacter venetianus
JKSF02 was isolated from contaminated sediment in eastern Houston, Texas along the San Jacinto River. This microorganism specializes in n-alkane degradation and is well suited for bioremediation of the petroleum hydrocarbon deposited throughout the region by shipping and industrial activity from the Houston Ship Channel.
Complete Genome Sequence of
Streptomyces albus
SM254, a Potent Antagonist of Bat White-Nose Syndrome Pathogen
Pseudogymnoascus destructans
Authors: Badalamenti Jonathan P. , Erickson Joshua D. , Salomon Christine E. 
Published: April 2016

ABSTRACT

We sequenced and annotated the complete 7,170,504-bp genome of a novel secondary metabolite-producing
Streptomyces
strain,
Streptomyces albus
SM254, isolated from copper-rich subsurface fluids at ~220-m depth within the Soudan Iron Mine (Soudan, MN, USA).
Genomic Sequence of Klebsiella pneumoniae IIEMP-3, a Vitamin B
12
-Producing Strain from Indonesian Tempeh
Authors: Yulandi Adi , Sugiokto Febri Gunawan , Febrilina  , Suwanto Antonius 
Published: April 2016

ABSTRACT

Klebsiella pneumoniae
strain IIEMP-3, isolated from Indonesian tempeh, is a vitamin B
12
-producing strain that exhibited a different genetic profile from pathogenic isolates. Here we report the draft genome sequence of strain IIEMP-3, which may provide insights on the nature of fermentation, nutrition, and immunological function of Indonesian tempeh.
Expression study of soybean germin-like gene family reveals a role ofGLP7gene in various abiotic stress tolerances
Authors: Li Yongguang , Zhang Dayong , Li Weina , Mallano Ali Inayat , Zhang Yuhang , Wang Tao , Lu Mo , Qin Zhiwei , Li Wenbin 
Published: April 2016

Germin-like proteins (GLPs) are ubiquitous plant glycoproteins (belonging to the cupin super family) that play diverse roles, including abiotic stress resistance in many plant species. To identify the molecular functions underlying abiotic stress responses, the expression of germin-like protein encoding genes of soybean GmGLPs was analyzed. qRT-PCR analyses of 21 GmGLPs transcripts abundances were conducted in soybean leave tissues. The results showed that GmGLPs transcripts were highly abundant upon treatments with high salinity, PEG6000, abscisic acid (ABA) and methyl viologen (MV). The peaks of transcript copiousness induced by PEG6000 and NaCl were mostly observed after 18 h, while some genes expressed earlier than 4 h after abiotic stress treatment. A specific GmGLP7 gene, that was highly abundant under salinity, drought, ABA and MV conditions, was further characterized. The ectopic overexpression of GmGLP7 (Glyma.08G226800.1) in transgenic Arabidopsis enhanced drought, salt, and oxidative tolerance and resulted in hypersensitive phenotypes toward ABA-mediated seed germination and primary root elongation, compared to the wild-type. Taken together, these results suggest that GmGLP7 positively confers abiotic tolerance in plants.
Holographic Ricci dark energy as running vacuum
Authors: George Paxy , Mathew Titus K. 
Published: April 2016

Holographic Ricci dark energy (DE) that has been proposed ago has faced problems of future singularity. In the present work, we consider the Ricci DE with an additive constant in its density as running vacuum energy. We have analytically solved the Friedmann equations and also the role played by the general conservation law followed by the cosmic components together. We have shown that the running vacuum energy status of the Ricci DE helps to remove the possible future singularity in the model. The additive constant in the density of the running vacuum played an important role, such that, without that, the model predicts either eternal deceleration or eternal acceleration. But along with the additive constant, equivalent to a cosmological constant, the model predicts a late time acceleration in the expansion of the universe, and in the far future of the evolution it tends to de Sitter universe.
Effects of cerium substitution on magnetic properties of naturally layered TbMn6Sn6 compound
Authors: Chen X. X. , Zhao M. , Liu G. Z. , Yao J. L. , Gao J. 
Published: April 2016

The Tb[Formula: see text]Ce[Formula: see text]Mn6Sn6 compounds with [Formula: see text] crystallize in the hexagonal HfFe6Ge6-type structure (space group [Formula: see text]). The cerium (Ce) substitution for Tb increases the magnetization while reduces the Curie and spin-orientation temperatures. The hard magnetic properties are enhanced by the Ce substitution, e.g., from a coercivity of [Formula: see text] kOe for TbMn6Sn6 to [Formula: see text] kOe for the Ce-substituted compounds with [Formula: see text] at 5 K. The role of Ce substitution in the magnetocrystalline anisotropy is discussed based on the single-ion anisotropy model. The substitution of Ce for critical rare-earth atoms provides an opportunity of improving hard magnetic properties of the rare-earth-based intermetallics.
Quantile estimation in dynamic and stationary environments using the theory of stochastic learning
Authors: Yazidi Anis , Hammer Hugo 
Published: April 2016

The goal of our research is to estimate the quantiles of a distribution from a large set of samples that arrive sequentially. Since the data set is large, the model we choose is that the data cannot be stored, but rather that estimates of the quantiles are computed in a real-time setting. In such settings, classical estimators that require storing the whole history of the data (or stream) cannot be deployed. In this paper, we present an incremental quantile estimator of a distribution, i.e., one that utilizes the previously-computed estimates and only resorts to the last sample for updating these estimates. The state-of-the-art work on obtaining incremental quantile estimators is due to Tierney [12], and is based on the theory of stochastic approximation. However, a primary shortcoming of the latter work is the requirement to incrementally build local approximations of the distribution function in the neighborhood of the quantiles. This requirement, unfortunately, increases the complexity of the algorithm.
In addition to treating the case of a constant update parameter, we extend our work to include the case of a decreasing update parameter. Such modification is suitable for the case of a stationary environment where the true quantile is invariant over time. Experimental results demonstrate that our estimator outperforms the state-of-the-art estimators. In addition, it also copes with dynamic environments.
Making Better Chimeric Antigen Receptors for Adoptive T-cell Therapy
Authors: Maus Marcela V. , June Carl H. 
Published: April 2016

AbstractChimeric antigen receptors (CAR) are engineered fusion proteins constructed from antigen recognition, signaling, and costimulatory domains that can be expressed in cytotoxic T cells with the purpose of reprograming the T cells to specifically target tumor cells. CAR T-cell therapy uses gene transfer technology to reprogram a patient's own T cells to stably express CARs, thereby combining the specificity of an antibody with the potent cytotoxic and memory functions of a T cell. In early-phase clinical trials, CAR T cells targeting CD19 have resulted in sustained complete responses within a population of otherwise refractory patients with B-cell malignancies and, more specifically, have shown complete response rates of approximately 90% in patients with relapsed or refractory acute lymphoblastic leukemia. Given this clinical efficacy, preclinical development of CAR T-cell therapy for a number of cancer indications has been actively investigated, and the future of the CAR T-cell field is extensive and dynamic. Several approaches to increase the feasibility and safety of CAR T cells are currently being explored, including investigation into the mechanisms regulating the persistence of CAR T cells. In addition, numerous early-phase clinical trials are now investigating CAR T-cell therapy beyond targeting CD19, especially in solid tumors. Trials investigating combinations of CAR T cells with immune checkpoint blockade therapies are now beginning and results are eagerly awaited. This review evaluates several of the ongoing and future directions of CAR T-cell therapy. Clin Cancer Res; 22(8); 1875–84. ©2016 AACR.See all articles in this CCR Focus section, “Opportunities and Challenges in Cancer Immunotherapy.”
The Where, the When, and the How of Immune Monitoring for Cancer Immunotherapies in the Era of Checkpoint Inhibition
Authors: Hegde Priti S. , Karanikas Vaios , Evers Stefan 
Published: April 2016

Abstract
Clinical trials with immune checkpoint inhibitors have provided important insights into the mode of action of anticancer immune therapies and potential mechanisms of immune escape. Development of the next wave of rational clinical combination strategies will require a deep understanding of the mechanisms by which combination partners influence the battle between the immune system's capabilities to fight cancer and the immune-suppressive processes that promote tumor growth. This review focuses on our current understanding of tumor and circulating pharmacodynamic correlates of immune modulation and elaborates on lessons learned from human translational research with checkpoint inhibitors. Actionable tumor markers of immune activation including CD8+ T cells, PD-L1 IHC as a pharmacodynamic marker of T-cell function, T-cell clonality, and challenges with conduct of trials that ask scientific questions from serial biopsies are addressed. Proposals for clinical trial design, as well as future applications of peripheral pharmacodynamic endpoints as potential surrogates of early clinical activity, are discussed. On the basis of emerging mechanisms of response and immune escape, we propose the concept of the tumor immunity continuum as a framework for developing rational combination strategies. Clin Cancer Res; 22(8); 1865–74. ©2016 AACR.
See all articles in this CCR Focus section, “Opportunities and Challenges in Cancer Immunotherapy.”
Targeting the Heterogeneity of Cancer with Individualized Neoepitope Vaccines
Authors: Türeci Özlem , Vormehr Mathias , Diken Mustafa , Kreiter Sebastian , Huber Christoph , Sahin Ugur 
Published: April 2016

Abstract
Somatic mutations binding to the patient's MHC and recognized by autologous T cells (neoepitopes) are ideal cancer vaccine targets. They combine a favorable safety profile due to a lack of expression in healthy tissues with a high likelihood of immunogenicity, as T cells recognizing neoepitopes are not shaped by central immune tolerance. Proteins mutated in cancer (neoantigens) shared by patients have been explored as vaccine targets for many years. Shared (“public”) mutations, however, are rare, as the vast majority of cancer mutations in a given tumor are unique for the individual patient. Recently, the novel concept of truly individualized cancer vaccination emerged, which exploits the vast source of patient-specific “private” mutations. Concurrence of scientific advances and technological breakthroughs enables the rapid, cost-efficient, and comprehensive mapping of the “mutanome,” which is the entirety of somatic mutations in an individual tumor, and the rational selection of neoepitopes. How to transform tumor mutanome data to actionable knowledge for tailoring individualized vaccines “on demand” has become a novel research field with paradigm-shifting potential. This review gives an overview with particular focus on the clinical development of such vaccines. Clin Cancer Res; 22(8); 1885–96. ©2016 AACR.
See all articles in this CCR Focus section, “Opportunities and Challenges in Cancer Immunotherapy.”
NOTCH1 and SOX10 are Essential for Proliferation and Radiation Resistance of Cancer Stem–Like Cells in Adenoid Cystic Carcinoma
Authors: Panaccione Alex , Chang Michael T. , Carbone Beatrice E. , Guo Yan , Moskaluk Christopher A. , Virk Renu K. , Chiriboga Luis , Prasad Manju L. , Judson Benjamin , Mehra Saral , Yarbrough Wendell G. , Ivanov Sergey V. 
Published: April 2016

Abstract
Purpose: Although the existence of cancer stem cells (CSC) in adenoid cystic carcinoma (ACC) has been proposed, lack of assays for their propagation and uncertainty about molecular markers prevented their characterization. Our objective was to isolate CSC from ACC and provide insight into signaling pathways that support their propagation.
Experimental Design: To isolate CSC from ACC and characterize them, we used ROCK inhibitor-supplemented cell culture, immunomagnetic cell sorting, and in vitro/in vivo assays for CSC viability and tumorigenicity.
Results: We identified in ACC CD133-positive CSC that expressed NOTCH1 and SOX10, formed spheroids, and initiated tumors in nude mice. CD133+ ACC cells produced activated NOTCH1 (N1ICD) and generated CD133− cells that expressed JAG1 as well as neural differentiation factors NR2F1, NR2F2, and p27Kip1. Knockdowns of NOTCH1, SOX10, and their common effector FABP7 had negative effects on each other, inhibited spheroidogenesis, and induced cell death pointing at their essential roles in CSC maintenance. Downstream effects of FABP7 knockdown included suppression of a broad spectrum of genes involved in proliferation, ribosome biogenesis, and metabolism. Among proliferation-linked NOTCH1/FABP7 targets, we identified SKP2 and its substrate p27Kip1. A γ-secretase inhibitor, DAPT, selectively depleted CD133+ cells, suppressed N1ICD and SKP2, induced p27Kip1, inhibited ACC growth in vivo, and sensitized CD133+ cells to radiation.
Conclusions: These results establish in the majority of ACC the presence of a previously uncharacterized population of CD133+ cells with neural stem properties, which are driven by SOX10, NOTCH1, and FABP7. Sensitivity of these cells to Notch inhibition and their dependence on SKP2 offer new opportunities for targeted ACC therapies. Clin Cancer Res; 22(8); 2083–95. ©2016 AACR.