bluuebunny/crossref_metadata_2025_split huggingface dataset:
The responses of soil, litter and root carbon stocks to the conversion of forest regrowth to crop and tree production systems used by smallholder farmers in eastern Amazonia
Authors: Lemos E. C. M. , Vasconcelos S. S. , Santiago W. R. , de Oliveira Junior M. C. M. , de A. Souza C. M. 
Published: November 2016

AbstractThe impact of substituting forests for smallholder agricultural production systems on soil carbon (C) stocks is not well understood in Brazilian Amazonia. Most surveys of soil C stocks are restricted to the top 30 cm of soil and do not include measurements of litter and root stocks. Here, we quantify the stocks of C in soil (0–100 cm depth), aboveground litter and coarse roots of traditional (slash‐and‐burn) and alternative (Schizolobium amazonicum‐planted forest and silvopastoral system) smallholder agricultural systems, which were compared with a reference area (forest regrowth) in the eastern Amazonia. The soil C stocks in the 0–100 cm layer were larger in the forest regrowth treatment (156.8 ± 15.5 Mg/ha) than in the other treatments (S. amazonicum = 85.3 ± 6.5, silvopastoral = 108.0 ± 4.4 Mg/ha) but did not differ from the soil C stock in the slash‐and‐burn treatment (127.2 ± 6.1 Mg/ha). The soil C stocks at the 0–30 cm layer, which represented 33–50% of the total C of the 0–100 cm layer, did not differ among the treatments. The litter C stocks were ranked in the following order: silvopastoral > forest regrowth > S. amazonicum > slash‐and‐burn. The forest regrowth treatment had a greater coarse root C stock (0.84 ± 0.10 Mg/ha) than the other treatments (silvopastoral = 0.28 ± 0.03, S. amazonicum = 0.18 ± 0.03, slash‐and‐burn = 0.27 ± 0.04 Mg/ha). Soil, litter and root C stocks were negatively impacted by the conversion of forest regrowth to cultivation systems.
Genome Sequences of Eight Prophages Isolated from Lactococcus lactis Dairy Strains
Authors: Oliveira Joana , Mahony Jennifer , Lugli Gabriele Andrea , Hanemaaijer Laurens , Kouwen Thijs , Ventura Marco , van Sinderen Douwe 
Published: November 2016

ABSTRACT

P335 group phages represent the most divergent phage group infecting dairy
Lactococcus lactis
strains and have significant implications for the dairy processing industry. Here, we report the complete genome sequences of eight lactococcal prophages chemically induced from industrial lactococcal strains that propagate lytically on one of two laboratory strains.
Complete Genome Sequences of Group III
Campylobacter
Bacteriophages PC5 and PC14
Authors: Janež Nika , Peterka Matjaž , Accetto Tomaž 
Published: November 2016

ABSTRACT

Here, we present the whole-genome sequences of bacteriophages PC5 and PC14 specific for
Campylobacter jejuni
, a leading cause of gastroenteritis in developed countries. Their genomes are syntenic to those of group III
Campylobacter
bacteriophages and share more than 90% identity at the nucleotide level with members of this group.
Draft Genome Sequence of Microcystis aeruginosa NIES-98, a Non-Microcystin-Producing Cyanobacterium from Lake Kasumigaura, Japan
Authors: Yamaguchi Haruyo , Suzuki Shigekatsu , Sano Tomoharu , Tanabe Yuuhiko , Nakajima Nobuyoshi , Kawachi Masanobu 
Published: November 2016

ABSTRACT

Microcystis aeruginosa
is a well-known bloom-forming cyanobacterium. We newly sequenced the whole genome of
M. aeruginosa
NIES-98, which is a non-microcystin-producing strain isolated from Lake Kasumigaura, Japan. The genome contains approximately 5.0 Mbp, with an average G+C content of 42.41% and 5,140 predicted protein-coding genes.
Complete Genome Sequence of Leptospira alstonii Serovar Room22 Strain GWTS #1
Authors: Nally Jarlath E. , Bayles Darrell O. , Hurley Daniel , Fanning Séamus , McMahon Barry J. , Arent Zbigniew 
Published: November 2016

ABSTRACT

We report here the complete genome sequence of
Leptospira alstonii
serovar Room22 strain GWTS #1. This is the first isolate of
L. alstonii
to be cultured from a mammal and in western Europe, and it represents a new serovar of pathogenic leptospires.
Draft Genome Sequence of the Type Strain Desulfuribacillus alkaliarsenatis AHT28, an Obligately Anaerobic, Sulfidogenic Bacterium Isolated from Russian Soda Lake Sediments
Authors: Abin Christopher A. , Hollibaugh James T. 
Published: November 2016

ABSTRACT

Desulfuribacillus alkaliarsenatis
AHT28
T
is an obligately anaerobic, sulfur- and arsenate-reducing haloalkaliphile that was isolated from Russian soda lake sediments. Here, we present the 3.1-Mb draft genome sequence for this strain, consisting of 36 contigs with a G+C content of 37.5% and 2,978 protein-coding sequences.
Draft Genome Sequences of Two Ralstonia pickettii Strains with Different Aminoglycoside Resistance Phenotypes
Authors: Vaz-Moreira Ivone , Tamames Javier , Martínez José Luis , Manaia Célia M. 
Published: November 2016

ABSTRACT

The genomes of two
Ralstonia pickettii
strains (H2Cu2 and H2Cu5), isolated from hospital effluent in a selective medium containing CuSO
4,
were sequenced. They presented MICs of >256 and 6 µg/ml for the aminoglycoside gentamicin, respectively. The 5.2-Mb draft genomes have 40 contigs for strain H2Cu2 and 113 for H2Cu5.
Genome Sequence of Bellavista Virus, a Novel Orthobunyavirus Isolated from a Pool of Mosquitoes Captured near Iquitos, Peru
Authors: Hang Jun , Yang Yu , Kuschner Robert A. , Evangelista Julio , Astete Helvio , Halsey Eric S. , Kochel Tadeusz J. , Forshey Brett M. 
Published: November 2016

ABSTRACT

A novel orthobunyavirus, Bellavista virus, was isolated from
Culex (Melanoconion) portesi
mosquitoes in the Bellavista neighborhood of Iquitos, Peru, in 2009. The assembled segment L, M, and S sequences of strain PRD0552 are 6,950, 4,469, and 1,256 bases in length, respectively, comprising complete protein-coding sequences and partial terminal untranslated sequences.
Draft Genome Sequence of Mycobacterium bovis Strain D-10-02315 Isolated from Wild Boar
Authors: Branger Maxime , Hauer Amandine , Michelet Lorraine , Karoui Claudine , Cochard Thierry , De Cruz Krystel , Henault Sylvie , Boschiroli María Laura , Biet Franck 
Published: November 2016

ABSTRACT

Mycobacterium bovis
is the etiologic agent of bovine tuberculosis, a chronic infectious disease, affecting livestock, wild animals, and sometimes humans. We report the draft genome sequence of a
Mycobacterium bovis
strain isolated from wild boar of spoligotype SB0120 (or BCG-like) also present in wildlife-livestock multi-host systems.
Complete Genome Sequence of a Colistin Resistance Gene (
mcr-1
)-Bearing Isolate of Escherichia coli from the United States
Authors: Meinersmann Richard J. , Ladely Scott R. , Bono James L. , Plumblee Jodie R. , Hall M. Carolina , Genzlinger Linda L. , Cook Kimberly L. 
Published: November 2016

ABSTRACT

Transmissible colistin resistance conferred by the
mcr-1
gene-bearing IncI2 plasmid has been recently reported in
Escherichia coli
in the United States. We report here the completed genome sequence of a second
E. coli
strain isolated from swine in the United States that carried the
mcr-1
gene on an IncI2-type plasmid.
Complete Genome Sequence of Aggregatibacter actinomycetemcomitans Strain IDH781
Authors: May Anthony C. , Ehrlich Rachel L. , Balashov Sergey , Ehrlich Garth D. , Shanmugam Mayilvahanan , Fine Daniel H. , Ramasubbu Narayanan , Mell Joshua Chang , Cugini Carla 
Published: November 2016

ABSTRACT

We report here the complete genomic sequence and methylome of
Aggregatibacter actinomycetemcomitans
strain IDH781. This rough strain is used extensively as a model organism to characterize localized aggressive periodontitis pathogenesis, the basic biology and oral cavity colonization of
A. actinomycetemcomitans
, and its interactions with other members of the oral microbiome.
Recurrence and return to play after shoulder instability events in young and adolescent athletes: a systematic review and meta-analysis
Authors: Zaremski Jason L , Galloza Juan , Sepulveda Fernando , Vasilopoulos Terrie , Micheo William , Herman Daniel C 
Published: November 2016

BackgroundShoulder instability in athletics is a common occurrence. However, there is controversy as to whether non-operative versus operative management is the most effective treatment in youth athletes. We systematically reviewed recurrence and return to play (RTP) after shoulder instability events in youth athletes based on surgical versus non-surgical intervention.DesignThe systematic review concerned studies published before August 2016. Statistical analysis was performed to compare rates of recurrence for each extracted risk factor. Pooled ORs were analysed using random-effects meta-analysis.Results17 studies comprising 654 total shoulder instability events met the criteria for inclusion (438 men and 158 women; 507 cases traumatic and 20 atraumatic). Patients were grouped by whether they received non-operative or operative treatment. The primary non-operative group was more likely to have recurrence compared to the primary operative group (OR=13.41; 99% CI 3.60 to 49.93, p<0.001). Patients <14 years old in the primary non-operative group were less likely to recur compared to those aged ≥14 years (OR=0.16; 99% CI 0.06 to 0.43, p<0.001). The rate of recurrence in patients aged <14 years was high (44.44%). For RTP, there is evidence that RTP rates were higher for primary operative patients (95.3%) versus primary non-operative (41.3%, Z=6.12, p<0.001) and secondary operative patients (77.6%, Z=2.66, p=0.008).ConclusionsThis meta-analysis summarises a mix of 17 acceptable quality level II and III prospective and retrospective cohort studies. Given the superior rates of recurrence and RTP, primary operative treatment for shoulder instability should be considered in youth athletes aged ≥14 years. Additionally, the recurrence rate in athletes aged <14 years is significant.
Patterns of health-related behaviours among adolescents: a cross-sectional study based on the National Survey of School Health Brazil 2012
Authors: Azeredo Catarina Machado , Levy Renata Bertazzi , Peres Maria Fernanda Tourinho , Menezes Paulo Rossi , Araya Ricardo 
Published: November 2016

ObjectivesThe aim of this study was to analyse the clustering of multiple health-related behaviours among adolescents and describe which socio-demographic characteristics are associated with these patterns.DesignCross-sectional study.SettingBrazilian schools assessed by the National Survey of School Health (PeNSE, 2012).Participants104 109 Brazilian ninth-grade students from public and private schools (response rate=82.7%).MethodsExploratory and confirmatory factor analyses were performed to identify behaviour clustering and linear regression models were used to identify socio-demographic characteristics associated with each one of these behaviour patterns.ResultsWe identified a good fit model with three behaviour patterns. The first was labelled ‘problem-behaviour’ and included aggressive behaviour, alcohol consumption, smoking, drug use and unsafe sex; the second was labelled ‘health-compromising diet and sedentary behaviours’ and included unhealthy food indicators and sedentary behaviour; and the third was labelled ‘health-promoting diet and physical activity’ and included healthy food indicators and physical activity. No differences in behaviour patterns were found between genders. The problem-behaviour pattern was associated with male gender, older age, more developed region (socially and economically) and public schools (compared with private). The ‘health-compromising diet and sedentary behaviours’ pattern was associated with female gender, older age, mothers with higher education level and more developed region. The ‘health-promoting diet and physical activity’ pattern was associated with male gender and mothers with higher education level.ConclusionsThree health-related behaviour patterns were found among Brazilian adolescents. Interventions to decrease those negative patterns should take into account how these behaviours cluster together and the individuals most at risk.
Protective factors for child development at age 2 in the presence of poor maternal mental health: results from the All Our Babies (AOB) pregnancy cohort
Authors: McDonald Sheila W , Kehler Heather L , Tough Suzanne C 
Published: November 2016

ObjectiveTo identify the combination of factors most protective of developmental delay at age 2 among children exposed to poor maternal mental health.DesignObservational cohort study.SettingPregnant women were recruited from primary healthcare offices, the public health laboratory service and community posters in Calgary, Alberta, Canada.Participants1596 mother–child dyads who participated in the All Our Babies study and who completed a follow-up questionnaire when their child was 2 years old. Among participants who completed the 2-year questionnaire and had complete mental health data (n=1146), 305 women (27%) were classified as high maternal mental health risk.Primary measuresChild development at age 2 was described and a resilience analysis was performed among a subgroup of families at maternal mental health risk. The primary outcome was child development problems. Protective factors were identified among families at risk, defined as maternal mental health risk, a composite measure created from participants’ responses to mental health life course questions and standardised mental health measures.ResultsAt age 2, 18% of children were classified as having development problems, 15% with behavioural problems and 13% with delayed social–emotional competencies. Among children living in a family with maternal mental health risk, protective factors against development problems included higher social support, higher optimism, more relationship happiness, less difficulty balancing work and family responsibilities, limiting the child's screen time to <1 hour per day and the child being able to fall asleep in <30 min and sleeping through the night by age 2.ConclusionsAmong families where the mother has poor mental health, public health and early intervention strategies that support interpersonal relationships, social support, optimism, work–life balance, limiting children's screen time and establishing good sleep habits in the child's first 2 years show promise to positively influence early child development.
Wordless intervention for people with epilepsy and learning disabilities (WIELD): a randomised controlled feasibility trial
Authors: Mengoni Silvana E , Gates Bob , Parkes Georgina , Wellsted David , Barton Garry , Ring Howard , Khoo Mary Ellen , Monji-Patel Deela , Friedli Karin , Zia Asif , Irvine Lisa , Durand Marie-Anne 
Published: November 2016

ObjectiveTo investigate the feasibility of a full-scale randomised controlled trial of a picture booklet to improve quality of life for people with epilepsy and learning disabilities.Trial designA randomised controlled feasibility trial. Randomisation was not blinded and was conducted using a centralised secure database and a blocked 1:1 allocation ratio.SettingEpilepsy clinics in 1 English National Health Service (NHS) Trust.ParticipantsPatients with learning disabilities and epilepsy who had: a seizure within the past 12 months, meaningful communication and a carer with sufficient proficiency in English.InterventionParticipants in the intervention group used a picture booklet with a trained researcher, and a carer present. These participants kept the booklet, and were asked to use it at least twice more over 20 weeks. The control group received treatment as usual, and were provided with a booklet at the end of the study.Outcome measures7 feasibility criteria were used relating to recruitment, data collection, attrition, potential effect on epilepsy-related quality of life (Epilepsy and Learning Disabilities Quality of Life Scale, ELDQOL) at 4-week, 12-week and 20-week follow-ups, feasibility of methodology, acceptability of the intervention and potential to calculate cost-effectiveness.OutcomeThe recruitment rate of eligible patients was 34% and the target of 40 participants was reached. There was minimal missing data and attrition. An intention-to-treat analysis was performed; data from the outcome measures suggest a benefit from the intervention on the ELDQOL behaviour and mood subscales at 4 and 20 weeks follow-up. The booklet and study methods were positively received, and no adverse events were reported. There was a positive indication of the potential for a cost-effectiveness analysis.ConclusionsAll feasibility criteria were fully or partially met, therefore confirming feasibility of a definitive trial.Trial registration numberISRCTN80067039.
Cohort profile: the Finnish Genetics of Pre-eclampsia Consortium (FINNPEC)
Authors: Jääskeläinen Tiina , Heinonen Seppo , Kajantie Eero , Kere Juha , Kivinen Katja , Pouta Anneli , Laivuori Hannele 
Published: November 2016

PurposeThe Finnish Genetics of Pre-eclampsia Consortium (FINNPEC) Study was established to set up a nationwide clinical and DNA database on women with and without pre-eclampsia (PE), including their partners and infants, in order to identify genetic risk factors for PE.ParticipantsFINNPEC is a cross-sectional case–control cohort collected from 5 university hospitals in Finland during 2008–2011. A total of 1450 patients with PE and 1065 pregnant control women without PE (aged 18–47 years) were recruited. Altogether, there were 1377 full triads (625 PE and 752 control triads).Findings to dateThe established cohort holds both clinical and genetic information of mother–infant–father triads representing a valuable resource for studying the pathogenesis of the disease. Furthermore, maternal biological samples (first and third trimester serum and placenta) will provide additional information for PE research. Until now, research has encompassed studies on candidate genes, Sanger and next-generation sequencing, and various studies on the placenta. FINNPEC has also participated in the InterPregGen study, which is the largest investigation on maternal and fetal genetic factors underlying PE until now.Future plansOngoing studies focus on elucidating the role of immunogenetic and metabolic factors in PE. Data on morbidity and mortality will be collected from mothers and fathers through links to the nationwide health registers.
Computed tomography interobserver agreement in the assessment of aneurysmal subarachnoid hemorrhage and predictors for clinical outcome
Authors: Woo Peter Y M , Tse Teresa P K , Chan Robert S K , Leung Lianne N Y , Liu Stephanie K K , Leung Andrew Y T , Wong Hoi-Tung , Chan Kwong-Yau 
Published: November 2016

BackgroundThe severity of aneurysmal subarachnoid hemorrhage (SAH) is often assessed by the clinical state of the patient on presentation, but radiological evaluation of the extent of hemorrhage has rarely been examined in the literature. Several CT scan based grading systems exist yet only a few studies have investigated interobserver agreement. We evaluated five radiological grading systems and assessed their clinical value for early prognostication.MethodologyThis was a retrospective study of patients diagnosed with aneurysmal SAH with a CT scan performed within 72 hours of symptom onset. Four independent observers, blinded to patient outcome, evaluated each scan using the five grading systems. A separate assessor determined 6 month outcome from clinical records. The primary outcome was interobserver agreement for each grading system using the Fleiss κ statistic. The secondary endpoint was the 6 month modified Rankin Scale score, with poor outcome defined as a score of 4–6.Results165 patients with a mean age of 59 years were assessed. Interobserver agreement for the Fisher, modified Fisher, Claassen, Barrow Neurological Institute, and Hijdra grading systems were as follows: k=0.53 (moderate), k=0.42 (moderate), k=0.38 (mild), k=0.20 (poor), and k=0.66 (good), respectively. The only independent clinical risk factor for poor outcome was a World Federation of Neurological Surgeons (WFNS) grade of 4 or 5 (adjusted OR 6.55; p<0.05). After adjusting for confounders, Fisher grade 4 (adjusted OR 17.84), modified Fisher grade 4 (adjusted OR 5.65), and Hijdra grade 3 (adjusted OR 3.34) were associated with poor outcome. Receiver operator characteristic analysis revealed that the Hijdra grading system (area under the curve=0.76) was more predictive of outcome compared with the Fisher and modified Fisher systems. A Hijdra cut-off score of 22 was associated with poor outcome (adjusted OR 5.92).ConclusionsThe Hijdra grading system had the best interobserver agreement and was a better independent early predictor for 6 month clinical outcome than the other systems. A Hijdra score ≥22 was associated with poor outcome.
Outcomes of ischaemic mitral regurgitation in anterior versus inferior ST elevation myocardial infarction
Authors: Mentias Amgad , Raza Mohammad Q , Barakat Amr F , Hill Elizabeth , Youssef Dalia , Krishnaswamy Amar , Desai Milind Y , Griffin Brian , Ellis Stephen , Menon Venu , Tuzcu E Murat , Kapadia Samir R 
Published: November 2016

BackgroundIschaemic mitral regurgitation (IMR) is a detrimental complication of ST elevation myocardial infarction (STEMI).ObjectiveWe sought to determine patient characteristics and outcomes of patients with IMR with focus on anterior or inferior location of STEMI.MethodsAll patients presenting with STEMI complicated by IMR to our centre who underwent primary percutaneous coronary intervention within the first 12 hours of presentation from 1995 to 2014 were included. IMR was graded from 1+ to 4+ within 3 days of index myocardial infarction by echocardiography, divided into 2 groups based on infarct location and outcomes were compared.ResultsOverall, 805 patients were included. There were 302 (17.8%) patients with mitral regurgitation (MR) out of the 1700 patients with anterior STEMI while 503 (21.8%) had MR out of the 2305 patients with inferior STEMI. There was no significant difference between both groups in comorbidities, clinical presentation or door-to-balloon time (DBT; median 104 vs 106 min, p=0.5). 30-day and 1-year mortality were higher in anterior STEMI compared with inferior STEMI (14.9% vs 6.8% and 26.4% vs 14.3%, respectively, p<0.001 both), as well as 5-year mortality (39.7% vs 24.8%, p<0.01). When analysis was performed for each grade of IMR, anterior was associated with worse outcomes in every grade. On multivariate cox survival analysis, after adjustment for age, gender, comorbidities, grade of IMR, ejection fraction and DBT, anterior STEMI was still associated with worse outcomes (HR 1.62 (95% CI 1.23 to 2.12), p<0.001).ConclusionsAlthough IMR occurs more frequently with inferior infarction, outcomes are worse following anterior infarction.
A Short Note on the 1, 2-Good-Neighbor Diagnosability of Balanced Hypercubes
Authors: GU MEI-MEI , HAO RONG-XIA , YANG DOND-XUE 
Published: November 2016

Let tc(G) and tg(G) be the conditional diagnosability and g-good-neighbor diagnosability, respectively, of a graph G. The notion of the g-good-neighbor conditional diagnosability is less restrictive as compared with that of the conditional diagnosability in general. Particularly, the conditional faulty set notion requires that, any vertex, faulty or not, have at least one non-faulty neighbor; while the 1-good-neighbor faulty only requires that a non-faulty vertex have at least one non-faulty neighbor. Compared with conditional diagnosability, g-good-neighbor diagnosability is interesting since it characterizes a stronger tolerance capability. In this paper, we investigate the equal relation between t1(BHn) and tc(BHn) for the balanced hypercubes BHn. That is [Formula: see text] for [Formula: see text] under the PMC model and [Formula: see text] for [Formula: see text] under the MM model; Furthermore, the 2-good-neighbor diagnosability t2(BHn) = 4n − 1 for n ≥ 2 under the PMC model and the MM model is obtained.