bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prenatal vitamin A supplementation associated with adverse child behavior at 3 years in a prospective birth cohort in Japan
Authors: Ishikawa Yohei , Tanaka Haruka , Akutsu Taisuke , Koide Kentaro , Sakuma Mio , Okazaki Minoru , Ida Hiroyuki , Urashima Mitsuyoshi 
Published: January 2016

AbstractBackgroundMany pregnant women take vitamin supplements during pregnancy. The aim of this paper was to clarify the effects of dietary supplementation prior to and/or during pregnancy on child behavior.MethodsA prospective birth cohort study from pregnancy to 3 years of age involving 1271 pairs of Japanese pregnant women and their newborns, was carried out. The women completed a self‐administered questionnaire during the third trimester of pregnancy. To evaluate deviations in child behavior as an endpoint, each mother completed the Japanese Child Behavior Checklist for ages 2–3 years after 3 years of birth. Participant characteristics were compared between supplement takers and non‐takers.ResultsAmong many kinds of supplements, intake of supplemental vitamin A/β‐carotene prior to and/or during pregnancy was associated with hazardous effects on child behavior at 3 years of age (total t‐score, P = 0.003; internal t‐score, P = 0.027; external t‐score, P = 0.013). This association held true even after adjusting for age, number of deliveries, infertility treatment, consumption of fast food, smoking status, maternal and paternal education, maternal and paternal income, gestational age at birth, anthropometry at birth (weight, height, head circumference and body circumference), and the State–Trait Anxiety Inventory at 3 years of age by means of multiple imputation.ConclusionsIntake of supplemental vitamin A prior to and/or during pregnancy may worsen child behavior at 3 years of age.
Large‐scale molecular phylogeny of Cryptorhynchinae (Coleoptera, Curculionidae) from multiple genes suggests American origin and later Australian radiation
Authors: RIEDEL ALEXANDER , TÄNZLER RENE , PONS JOAN , SUHARDJONO YAYUK R. , BALKE MICHAEL 
Published: January 2016

AbstractThe monophyly of the highly diverse weevil subfamily Cryptorhynchinae is tested with a dataset of 203 taxa representing 159 genera of Curculionoidea, 105 of them Cryptorhynchinae s.l. We construct a phylogeny based on an alignment of 5523 bp, consisting of fragments from two mitochondrial genes (two fragments of COI, 16S) and seven nuclear genes (ArgK, CAD, EF1α, enolase, H4, 18S, 28S). Analyses of maximum likelihood and Bayes inference recovered largely congruent results. Groups with different morphology of the rostral furrow (e.g. Aedemonini, Camptorhinini, Cryptorhynchini, Ithyporini) are not closely related to each other. However, most taxa with a mesosternal receptacle are monophyletic and here defined as Cryptorhynchinae s.s., comprising Cryptorhynchini, Gasterocercini, Torneumatini and Psepholacini, but also Arachnopodini and Idopelma Faust. The genus Phyrdenus LeConte is excluded from Cryptorhynchinae and transferred to Conotrachelini of Molytinae. Thus defined, the group still comprises several thousand species with centres of its diversity in South America and Australia. The early lineages we find in America and the Palearctic, while the extremely diverse faunas of Australia and neighbouring islands mainly belong to a more recent, species‐rich radiation. This also includes a clade comprising the majority of litter‐inhabiting species of New Zealand and the genus Miocalles Pascoe. Flightlessness was attained repeatedly and resulted in convergent evolution of a similar habitus in different zoogeographic regions, mainly exhibited by the polyphyletic genus Acalles Schoenherr.
The Effects of a Crosslinked, Modified Hyaluronic Acid (xCMHA‐S) Gel on Equine Tendon Healing
Authors: Jann Henry W. , Hart James C. A. , Stein Larry E. , Ritchey Jerry , Blaik Margaret , Payton Mark , Fackelman Gustave E. , Rezabek Grant B. , Mann Brenda K. 
Published: January 2016

ObjectiveTo assess the effects of a crosslinked, modified hyaluronic acid (xCMHA‐S) gel on equine tendon healing using an in vivo surgical model.Study DesignIn vivo experimental study.AnimalsAdult horses (n = 5).MethodsFull thickness bilateral forelimb window tenectomies were surgically created in both forelimb superficial digital flexor tendons and xCMHA‐S gel was implanted intraoperatively into the right forelimb lesion of each horse whereas the left forelimb served as the untreated control. Healing was monitored by serial ultrasound examinations every 14 days over the course of the 84 day study. In addition, gross pathology, scanning electron microscopy for fiber diameter, and histological scoring were completed on tendon samples harvested after euthanasia at 84 days.ResultsUltrasound assessment demonstrated a significant decrease in mean lesion size of treated (0%) compared to control (30%) tendons at 84 days. Mean (±SD) cumulative histologic tendon scores for control tendons (17.7 ± 2.7) were significantly higher than treated tendons (13.6 ± 1.9), indicating less advanced healing in the control group. Tendon cell density was increased and neovascularization, intensity of inflammation, and uniformity of fiber diameter were increased in control compared to treated tendons. There were no differences in fibroblast shape, levels of intralesional hemorrhage, linearity of collagen fibers, or collagen fiber diameter or distribution between treated and control tendons.ConclusionTendons treated with xCMHA‐S gel at the time of model induction had superior histologic healing scores and sonographically smaller lesions compared to controls, suggesting that xCMHA‐S gel may aid the natural healing process.
4D ML reconstruction as a tool for volumetric PET‐based treatment verification in ion beam radiotherapy
Authors: De Bernardi E. , Ricotti R. , Riboldi M. , Baroni G. , Parodi K. , Gianoli C. 
Published: January 2016

Purpose:An innovative strategy to improve the sensitivity of positron emission tomography (PET)‐based treatment verification in ion beam radiotherapy is proposed.Methods:Low counting statistics PET images acquired during or shortly after the treatment (Measured PET) and a Monte Carlo estimate of the same PET images derived from the treatment plan (Expected PET) are considered as two frames of a 4D dataset. A 4D maximum likelihood reconstruction strategy was adapted to iteratively estimate the annihilation events distribution in a reference frame and the deformation motion fields that map it in the Expected PET and Measured PET frames. The outputs generated by the proposed strategy are as follows: (1) an estimate of the Measured PET with an image quality comparable to the Expected PET and (2) an estimate of the motion field mapping Expected PET to Measured PET. The details of the algorithm are presented and the strategy is preliminarily tested on analytically simulated datasets.Results:The algorithm demonstrates (1) robustness against noise, even in the worst conditions where 1.5 × 104 true coincidences and a random fraction of 73% are simulated; (2) a proper sensitivity to different kind and grade of mismatches ranging between 1 and 10 mm; (3) robustness against bias due to incorrect washout modeling in the Monte Carlo simulation up to 1/3 of the original signal amplitude; and (4) an ability to describe the mismatch even in presence of complex annihilation distributions such as those induced by two perpendicular superimposed ion fields.Conclusions:The promising results obtained in this work suggest the applicability of the method as a quantification tool for PET‐based treatment verification in ion beam radiotherapy. An extensive assessment of the proposed strategy on real treatment verification data is planned.
A validated tumor control probability model based on a meta‐analysis of low, intermediate, and high‐risk prostate cancer patients treated by photon, proton, or carbon‐ion radiotherapy
Authors: Walsh Seán , Roelofs Erik , Kuess Peter , Lambin Philippe , Jones Bleddyn , Georg Dietmar , Verhaegen Frank 
Published: January 2016

Purpose:A fully heterogeneous population averaged mechanistic tumor control probability (TCP) model is appropriate for the analysis of external beam radiotherapy (EBRT). This has been accomplished for EBRT photon treatment of intermediate‐risk prostate cancer. Extending the TCP model for low and high‐risk patients would be beneficial in terms of overall decision making. Furthermore, different radiation treatment modalities such as protons and carbon‐ions are becoming increasingly available. Consequently, there is a need for a complete TCP model.Methods:A TCP model was fitted and validated to a primary endpoint of 5‐year biological no evidence of disease clinical outcome data obtained from a review of the literature for low, intermediate, and high‐risk prostate cancer patients (5218 patients fitted, 1088 patients validated), treated by photons, protons, or carbon‐ions. The review followed the preferred reporting item for systematic reviews and meta‐analyses statement. Treatment regimens include standard fractionation and hypofractionation treatments. Residual analysis and goodness of fit statistics were applied.Results:The TCP model achieves a good level of fit overall, linear regression results in a p‐value of <0.000 01 with an adjusted‐weighted‐R2 value of 0.77 and a weighted root mean squared error (wRMSE) of 1.2%, to the fitted clinical outcome data. Validation of the model utilizing three independent datasets obtained from the literature resulted in an adjusted‐weighted‐R2 value of 0.78 and a wRMSE of less than 1.8%, to the validation clinical outcome data. The weighted mean absolute residual across the entire dataset is found to be 5.4%.Conclusions:This TCP model fitted and validated to clinical outcome data, appears to be an appropriate model for the inclusion of all clinical prostate cancer risk categories, and allows evaluation of current EBRT modalities with regard to tumor control prediction.
Transkingdom control of viral infection and immunity in the mammalian intestine
Authors: Pfeiffer Julie K. , Virgin Herbert W. 
Published: January 2016

Microbial villages shape viral infections
Viruses infecting the intestinal tract, such as noroviruses and rotaviruses, are major human pathogens. Despite facing an extreme environment within their hosts, which includes pH gradients, digestive enzymes, and the billions of microbes that inhabit human guts, these viruses somehow manage to survive and often thrive. Pfeiffer and Virgin review the complex microbial encounters that occur between enteric viruses and gut microbiota. Trans-kingdom interactions (that is, between viruses, bacteria, archaea, helminthes, fungi, and phage) are particularly important in shaping the course of a viral infection and the ensuing host immune response.

Science
, this issue p.
10.1126/science.aad5872
Complete Genome Sequence of Helicobacter pylori Strain 29CaP Isolated from a Mexican Patient with Gastric Cancer
Authors: Mucito-Varela Eduardo , Castillo-Rojas Gonzalo , Cevallos Miguel A. , Lozano Luis , Merino Enrique , López-Leal Gamaliel , López-Vidal Yolanda 
Published: January 2016

ABSTRACT

Helicobacter pylori
infection is a risk factor for the development of gastric cancer and other gastroduodenal diseases. We report here the complete genome sequence of
H. pylori
strain 29CaP, isolated from a Mexican patient with gastric cancer. The genomic data analysis revealed a
cag
-negative
H. pylori
strain that contains a prophage sequence.
Draft Genome Sequences of Achromobacter piechaudii GCS2,
Agrobacterium
sp. Strain SUL3,
Microbacterium
sp. Strain GCS4,
Shinella
sp. Strain GWS1, and
Shinella
sp. Strain SUS2 Isolated from Consortium with the Hydrocarbon-Producing Alga
Botryococcus braunii
Authors: Jones Katy J. , Moore Karen , Sambles Christine , Love John , Studholme David J. , Aves Stephen J. 
Published: January 2016

ABSTRACT

A variety of bacteria associate with the hydrocarbon-producing microalga
Botryococcus braunii
, some of which may influence its growth. We report here the genome sequences for
Achromobacter piechaudii
GCS2,
Agrobacterium
sp. strain SUL3,
Microbacterium
sp. strain GCS4, and
Shinella
sp. strains GWS1 and SUS2, isolated from a laboratory culture of
B. braunii
, race B, strain Guadeloupe.
Complete Genome Sequence of Enterococcus faecalis Strain P8-1 Isolated from Wild Magellanic Penguin (Spheniscus magellanicus) Feces on the South Coast of Brazil
Authors: Prichula Janira , Campos Fabricio Souza , Pereira Rebeca Inhoque , Cardoso Leonardo Almansa , Wachholz Guilherme Raffo , Pieta Luiza , Mariot Roberta Fogliatto , de Moura Tiane Martin , Tavares Maurício , d'Azevedo Pedro Alves , Frazzon Jeverson , Frazzon Ana Paula Guedes 
Published: January 2016

ABSTRACTEnterococcus faecalisstrains have a ubiquitous nature that allows them to survive in different niches. Studies involving enterococci isolated from marine animals are scarce. Therefore, in this study, we report the complete genome sequence ofE. faecalisstrain P8-1 isolated from feces of a Magellanic penguin on the south coast of Brazil.
Complete Genome Sequence of the Hyperthermophilic and Piezophilic Archaeon Thermococcus barophilus Ch5, Capable of Growth at the Expense of Hydrogenogenesis from Carbon Monoxide and Formate
Authors: Oger Philippe , Sokolova Tatyana G. , Kozhevnikova Darya A. , Taranov Evgeny A. , Vannier Pauline , Lee Hyun Sook , Kwon Kae Kyoung , Kang Sung Gyun , Lee Jung-Hyun , Bonch-Osmolovskaya Elizaveta A. , Lebedinsky Alexander V. 
Published: January 2016

ABSTRACT

We report here the complete sequence and fully manually curated annotation of the genome of strain Ch5, a new member of the piezophilic hyperthermophilic species
Thermococcus barophilus
.
Draft Genome Sequence of a Novel
Desulfobacteraceae
Member from a Sulfate-Reducing Bioreactor Metagenome
Authors: Almstrand Robert , Pinto Ameet J. , Figueroa Linda A. , Sharp Jonathan O. 
Published: January 2016

ABSTRACT

Sulfate-reducing bacteria are important players in the global sulfur cycle and of considerable commercial interest. The draft genome sequence of a sulfate-reducing bacterium of the family
Desulfobacteraceae
, assembled from a sulfate-reducing bioreactor metagenome, indicates that heavy-metal– and acid-resistance traits of this organism may be of importance for its application in acid mine drainage mitigation.
Genome Sequence of Nitrosomonas communis Strain Nm2, a Mesophilic Ammonia-Oxidizing Bacterium Isolated from Mediterranean Soil
Authors: Kozlowski Jessica A. , Kits K. Dimitri , Stein Lisa Y. 
Published: January 2016

ABSTRACTThe complete genome sequence ofNitrosomonas communisstrain Nm2, a mesophilic betaproteobacterial ammonia oxidizer isolated from Mediterranean soils in Corfu, Greece, is reported here. This is the first genome to describe a cluster 8Nitrosomonasspecies and represents an ammonia-oxidizing bacterium commonly found in terrestrial ecosystems.
Draft Genome Sequence of the Oral Commensal Streptococcus oralis 89a with Interference Activity against Respiratory Pathogens
Authors: Sidjabat Hanna E. , Grahn Håkansson Eva , Cervin Anders 
Published: January 2016

ABSTRACT

We report the draft genome sequence of the oral commensal
Streptococcus oralis
89a isolated from the throat of a healthy child during a streptococcal tonsillitis outbreak in Umeå, Sweden.
S. oralis
89a was known to have interference activity against respiratory pathogens in which the colicin V was the potential bacteriocin-encoding gene.
Complete Genome Sequence of Klebsiella pneumoniae subsp.
pneumoniae
KP617, Coproducing OXA-232 and NDM-1 Carbapenemases, Isolated in South Korea
Authors: Kwon Taesoo , Yang Ji Woo , Lee Sanghyun , Yun Mi-ran , Yoo Won Gi , Kim Hwa Su , Cha Jeong-Ok , Kim Dae-Won 
Published: January 2016

ABSTRACT

The prevalence of
Klebsiella pneumoniae
coproducing carbapenemase metallo-β-lactamase 1 (NDM-1) and OXA-48 has been increasing globally since 2013. The complete genome of KP617 was sequenced and assembled into a circular chromosome and two plasmids. This sequence provides the genetic background for understanding the evolution of carbapenemase genes in
K. pneumoniae
KP617.
Draft Genome Sequence of Altererythrobacter troitsensis JCM 17037, Isolated from the Sea Urchin
Strongylocentrotus intermedius
Authors: Zhou Peng , Wu Yue-Hong , Cheng Hong , Wang Chun-Sheng , Xu Xue-Wei 
Published: January 2016

ABSTRACT

The habitats of the genus
Altererythrobacter
are various, including marine sediment, seawater, rhizosphere of wild rice, desert sand, etc. The genome of the type strain of
Altererythrobacter troitsensis
JCM 17037, isolated from sea urchin, was sequenced. This study would not only facilitate the understanding of the physiology, adaptation, and evolution of the
Altererythrobacter
species, but also provide a good resource for the study of synthesis of astaxanthin, since several enzymes involved in the production of astaxanthin were predicted.
Draft Genome Sequences of Two Novel
Acidimicrobiaceae
Members from an Acid Mine Drainage Biofilm Metagenome
Authors: Pinto Ameet J. , Sharp Jonathan O. , Yoder Michael J. , Almstrand Robert 
Published: January 2016

ABSTRACT

Bacteria belonging to the family
Acidimicrobiaceae
are frequently encountered in heavy metal-contaminated acidic environments. However, their phylogenetic and metabolic diversity is poorly resolved. We present draft genome sequences of two novel and phylogenetically distinct
Acidimicrobiaceae
members assembled from an acid mine drainage biofilm metagenome.
Genome Sequences of Rotavirus A Strains Ty-1 and Ty-3, Isolated from Turkeys in Ireland in 1979
Authors: Fujii Yuji , Mitake Hiromichi , Yamada Daigo , Nagai Makoto , Okadera Kota , Ito Naoto , Okada Kazuma , Nakagawa Kento , Mizutani Tetsuya , Sugiyama Makoto 
Published: January 2016

ABSTRACT
To obtain complete genome sequences of turkey rotavirus A strains Ty-1 and Ty-3, we sequenced the gene segments that had not been decoded previously. The genotype constellations of the respective strains were determined to be G17-P[38]-I4-R4-C4-M4-A16-N4-T4-E4-H4 and G7-P[35]-I4-R4-C4-M4-A16-N4-T4-E11-H14. Notably, their VP4 and NSP5 genes were classified into novel genotypes.
Complete Genome Sequence of
Arthrobacter
sp. Strain LS16, Isolated from Agricultural Soils with Potential for Applications in Bioremediation and Bioproducts
Authors: Hassan Ikrema , Eastman Alexander W. , Weselowski Brian , Mohamedelhassan Eltayeb , Yanful Ernest K. , Yuan Ze-Chun 
Published: January 2016

ABSTRACT

Here we report the complete genomic sequence of the bacterium
Arthrobacter
sp. strain LS16, consisting of a single circular chromosome of 3.85 Mb with no identified plasmid. Data contained within will facilitate future genetic modification and engineering of the
Arthrobacter
sp. LS16 metabolic network to enhance traits relevant to bioremediation and bioproducts.
Permanent Draft Genome Sequences for Two Variants of
Frankia
sp. Strain CpI1, the First
Frankia
Strain Isolated from Root Nodules of
Comptonia peregrina
Authors: Oshone Rediet , Hurst Sheldon G. , Abebe-Akele Feseha , Simpson Stephen , Morris Krystalynne , Thomas W. Kelley , Tisa Louis S. 
Published: January 2016

ABSTRACT

Frankia
stains CpI1-S and CpI1-P are members of
Frankia
lineage Ia that are able to reinfect plants of the
Betulaceae
and
Myricaceae
families. Here, we report two 7.6-Mbp draft genome sequences with 6,396 and 6,373 candidate protein-coding genes for CpI1-S and CpI1-P, respectively.
Proliferation of gynaecological scientific societies and their financial transparency: an Italian survey
Authors: Vercellini Paolo , Viganò Paola , Frattaruolo Maria Pina , Somigliana Edgardo 
Published: January 2016

ObjectivesTo determine the number of Italian obstetrical and gynaecological societies, and to ascertain their financial transparency.DesignInternet-based national survey and website content analysis.ParticipantsCurrently active, not privately owned, non-religious, apolitical, obstetrical and gynaecological associations.MethodsFrom October 2014 to June 2015, scientific societies were identified using combinations of search terms, and examining the website of the two main Italian obstetrical and gynaecological organisations. Individual societies’ websites were scrutinised by two independent investigators.Primary and secondary outcome measuresNumber of Italian obstetrical and gynaecological associations and its variation over time; 12 information categories defining the general characteristics of the societies and their websites, and the financial transparency of the associations.ResultsThe initial web search yielded 56 professional obstetrical and gynaecological associations but nine were excluded for various reasons. Of the remaining 47 professional associations, 17 covered both obstetrics and gynaecology, four were specialised in obstetrics, 26 in gynaecology and 46 provided continuing medical education (CME) activities. The number of societies has quadrupled in the last 35 years, increasing at a mean rate of one additional society per year. The headquarters of the associations were located in the offices of a professional congress organiser in 15 instances, and advertisements or links to industry products were present in 12 societies’ websites. Bylaws were accessible in 32 websites. No information was publicly available regarding competing interests, financial statements and quantitative external funding.ConclusionsThe number of obstetrical and gynaecological societies is remarkably high in Italy, particularly in the gynaecological area. Despite CME activity provision, transparency of societies regarding financial issues and competing interests was almost non-existent. Policies addressing the interactions between medical associations and industry are available and should be implemented.
Association between toothbrushing and risk factors for cardiovascular disease: a large-scale, cross-sectional Japanese study
Authors: Kuwabara Masanari , Motoki Yoko , Ichiura Kayoko , Fujii Mizue , Inomata Chisato , Sato Hiroki , Morisawa Taichiro , Morita Yoshinori , Kuwabara Kazumichi , Nakamura Yosikazu 
Published: January 2016

ObjectivesTo clarify the association between toothbrushing and risk factors for cardiovascular disease—namely, hypertension (HT), diabetes mellitus (DM), dyslipidaemia (DL), hyperuricaemia (HUA) and chronic kidney disease (CKD).DesignA large-scale, single-centre, cross-sectional study.SettingSt Luke's International Hospital, Center for Preventive Medicine, Tokyo, Japan, between January 2004 and June 2010.ParticipantsThis study examined the toothbrushing practices of 85 866 individuals according to the 3-category frequency criterion: ‘after every meal’, ‘at least once a day’ and ‘less than once a day’. The ORs by frequency were calculated for the prevalences of HT, DM, DL, HUA and CKD according to binominal logistic regression analyses adjusted for age, gender, body mass index and lifestyle habits—smoking, drinking, walk time and sleep time.ResultsThe prevalences of the risk factors were as follows: HT (‘after every meal’: 13.3%, ‘at least once a day’: 17.9% and ‘less than once a day’: 31.0%), DM (3.1%, 5.3% and 17.4%, respectively), DL (29.0%, 42.1% and 60.3%, respectively), HUA (8.6%, 17.5% and 27.2%, respectively) and CKD (3.8%, 3.1% and 8.3%, respectively). The prevalences were significantly higher in the ‘less than once a day’ group than in the ‘after every meal’ group for DM (OR=2.03; 95% CI 1.29 to 3.21) and DL (OR=1.50; 95% CI 1.06 to 2.14), but not for HT, HUA and CKD.ConclusionsEven taking into account lifestyle habits, a lower frequency of toothbrushing was associated with high prevalences of DM and DL. Toothbrushing practices may be beneficial for oral health improvement and also for prevention of certain systemic diseases.