bluuebunny/crossref_metadata_2025_split huggingface dataset:
Single‐base methylome profiling of the giant kelp Saccharina japonica reveals significant differences in DNA methylation to microalgae and plants
Authors: Fan Xiao , Han Wentao , Teng Linhong , Jiang Peng , Zhang Xiaowen , Xu Dong , Li Chang , Pellegrini Matteo , Wu Chunhui , Wang Yitao , Kaczurowski Michelle Joyce Slade , Lin Xin , Tirichine Leila , Mock Thomas , Ye Naihao 
Published: August 2019

Summary

Brown algae have convergently evolved plant‐like body plans and reproductive cycles, which in plants are controlled by differential DNA methylation. This contribution provides the first single‐base methylome profiles of haploid gametophytes and diploid sporophytes of a multicellular alga.

Although only c. 1.4% of cytosines in Saccharina japonica were methylated mainly at CHH sites and characterized by 5‐methylcytosine (5mC), there were significant differences between life‐cycle stages. DNA methyltransferase 2 (DNMT2), known to efficiently catalyze tRNA methylation, is assumed to methylate the genome of S. japonica in the structural context of tRNAs as the genome does not encode any other DNA methyltransferases. Circular and long noncoding RNA genes were the most strongly methylated regulatory elements in S. japonica.

Differential expression of genes was negatively correlated with DNA methylation with the highest methylation levels measured in both haploid gametophytes. Hypomethylated and highly expressed genes in diploid sporophytes included genes involved in morphogenesis and halogen metabolism.

The data herein provide evidence that cytosine methylation, although occurring at a low level, is significantly contributing to the formation of different life‐cycle stages, tissue differentiation and metabolism in brown algae.
Healthy Life Trajectories Initiative: Summary of the evidence base for pregnancy‐related interventions to prevent overweight and obesity in children
Authors: Grobler Liesl , Visser Marianne , Siegfried Nandi 
Published: August 2019

SummaryThis overview of systematic reviews (SRs) aimed to identify dietary and lifestyle interventions in pregnant women that reduce the prevalence of overweight, obesity, and/or risk factors thereof, in their children. Following identification of eligible SRs, a matrix of all included studies identified overlap between SRs. The most recent, comprehensive, high‐quality SRs were selected for further dissagregation. We developed a Grading of Recommendations, Assessment, Development and Evaluations (GRADE)‐based effectiveness matrix incorporating effect size and study quality to prioritise interventions as (1) beneficial or harmful, (2) possibly beneficial or possibly harmful, (3) no effect, (4) possibly no effect, or (5) uncertain effect. Of the 27 SRs identified, 16 SRs were excluded due to overlap. From 11 remaining SRs, five discrete interventions were ranked “beneficial” or “possibly beneficial” for reducing risk factors for childhood obesity: (1) balanced energy/protein supplements, (2) dietary counseling alone, (3) low glycemic index dietary advice, (4) diet and exercise counseling, (5) diet counseling and supervised exercise. High protein supplementation was ranked “harmful” as it increased the risk of small‐for‐gestational age (SGA) infants in normal‐weight pregnant women. Evidence of the impact of pregnancy‐related diet or lifestyle interventions, on childhood obesity was limited. Five dietary interventions, alone or in combination with exercise, showed beneficial effects on the risk factors for childhood obesity.
Infant and young child feeding interventions targeting overweight and obesity: A narrative review
Authors: Koplin Jennifer J. , Kerr Jessica A. , Lodge Caroline , Garner Carley , Dharmage Shyamali C. , Wake Melissa , Allen Katrina J. 
Published: August 2019

SummarySummary findings from systematic reviews into infant feeding and later adiposity are largely negative. World Health Organization (WHO) is auspicing Healthy Life Trajectories Initiative (HeLTI), a suite of trials aiming to prevent overweight/obesity in childhood. To inform planning, this narrative review sought to detail potentially effective components of nutrition‐related interventions involving children aged 0 to 2 years. Systematic searches of PubMed and the Cochrane Library (2006‐2016) identified 108 systematic reviews. These included 31 randomized trials in the age group of interest. Of these, 11 reported greater than or equal to 1 statistically significant (P < 0.05) benefit on body weight and/or composition. Six multicomponent trials whose interventions incorporated education to promote breastfeeding (four trials), responsive feeding (two trials), and healthy diet (eg, increasing fruit and vegetables and limiting unhealthy snack foods; five trials), delivered through home visits or at baby health clinics, reported relative reductions in body mass index (BMI) at the end of intervention. Early benefits were not maintained in the two trials reporting follow‐up 1 to 3 years later. Other potentially effective approaches included lower protein formulas in formula‐fed infants and education around reducing sugar‐sweetened beverages. There is some evidence that infant feeding interventions can have a transient positive impact on a child's BMI. It is not known whether ongoing intervention can avoid the subsequent expected wash‐out.
The dynamics of the oral microbiome and oral health among patients receiving clear aligner orthodontic treatment
Authors: Zhao Rui , Huang Renhuan , Long Hu , Li Yan , Gao Meiya , Lai Wenli 
Published: August 2019

AbstractObjectivesThis 6‐month prospective clinical study assessed the impacts of Invisalign appliances on the oral bacterial community and oral health of patients.MethodsSalivary samples were obtained from twenty‐five adult patients receiving Invisalign aligner treatment before the treatment (Group B) and at a 6‐month follow‐up (Group P). The bacterial composition of each sample was determined using Illumina MiSeq sequencing of the bacterial 16S rRNA. Intra‐ and intergroup biodiversity was analyzed. Clinical periodontal parameters and daily oral hygiene habits were recorded.ResultsReduction in plaque, increased daily brushing frequency, and decreased dessert intake were observed in Group P compared with that in Group B. A total of 1,853,952 valid reads were obtained from the 50 salivary samples, with 37,904 sequences per sample. No significant differences were detected in the intra‐ and intergroup biodiversity comparisons between the two groups. By clustering, 8,885 OTUs were identified and categorized into six major phyla: Firmicutes, Proteobacteria, Bacteroidetes, Fusobacteria, Actinobacteria, and Candidate_division_TM7_norank. At the genus level, compared with Group B, Group P demonstrated significantly increased Bacillus abundance and decreased Prevotella abundance.ConclusionsOur results suggested that the general biodiversity and salivary microbial community structure did not change significantly and that patients had increased beneficial oral hygiene habits and awareness during the first six months of Invisalign treatment. Hence, on the basis of this study, it appears that Invisalign aligner treatment did not induce deterioration of oral health nor significant biodiversity changes in oral bacterial communities, assuming that detailed oral hygiene instructions for both teeth and aligners were provided.
Good Outcomes of Combined Femoral Derotation Osteotomy and Medial Retinaculum Plasty in Patients with Recurrent Patellar Dislocation
Authors: Yang Guang‐min , Wang Yan‐yang , Zuo Li‐xiong , Li Fa‐quan , Dai Yi‐ke , Wang Fei 
Published: August 2019

ObjectivesTo report the clinical outcomes of combined femoral derotation osteotomy and medial retinaculum plasty for recurrent patellar dislocation in patients with excessive femoral anteversion.MethodsFrom January 2015 to March 2018, 20 knees in 20 patients (18 female, 2 male) with a mean age of 21 ± 4.2 years (range, 16 to 28 years) were retrospectively reviewed. All patients had undergone femoral derotation osteotomy and medial retinaculum plasty for recurrent patellar dislocation and excessive femoral anteversion angle (FAA > 25°). CT and X‐rays were used to assess the correction of the femoral anteversion angle, the tibia tuberosity‐trochlear groove (TT‐TG) distance, patellar tilt, and the congruence angle following the combinatory operations. Subjective scores, such as Kujala, International Knee Documentation Committee (IKDC), Tegner, and visual analogue scale (VAS) scores, were used to evaluate knee function preoperatively and postoperatively.ResultsNo recurrence of patellar dislocation occurred in these patients during an average of 18 months (range, 12 to 23 months) of follow‐up. The mean of the FAA was corrected to 15.80° ± 3.58° postoperatively compared with 31.42° ± 4.95° preoperatively (P < 0.001). The TT‐TG distance was decreased from 22.17 ± 5.28 mm before surgery to 19.42 ± 4.57 mm after surgery (P = 0.03). The patellar tilt and congruence angle were improved from 30.43° ± 5.30°, 43.30° ± 11.04° to 15.80° ± 3.94°, 16.64° ± 9.98°, respectively (P < 0.001). The Kujala score was improved from 72.4 ± 19.90 before the surgery to 88.2 ± 12.25 after the surgery (P < 0.001). The IKDC score was improved from 70.56 ± 21.44 to 90.78 ± 14.32, and the VAS score was decreased from 4.23 ± 2.11 preoperatively to 1.27 ± 1.08 postoperatively (P < 0.001). No significant difference in Tegner score (5.46 ± 2.49 vs 5.79 ± 1.44) was found before and after the surgery (P = 0.2). Patients younger than 20 years old had lower Kujala (83.46 ± 14.56 vs. 90.84 ± 7.74, P = 0.02) and IKDC (83.49 ± 17.35 vs 92.46 ± 9.28, P = 0.04) scores than those older than 20 years.ConclusionGood knee function, pain relief, and improved patellofemoral congruence were achieved with the combined femoral derotation osteotomy and medial retinaculum plasty. The combined operations serve as an ideal treatment for recurrent patellar dislocation and address the primary risk factors.
Remaining Systemic Treatment Options: A Valuable Predictor of Survival and Functional Outcomes after Surgical Treatment for Spinal Metastasis
Authors: Chang Sam Yeol , Chang Bong‐Soon , Lee Choon‐Ki , Kim Hyoungmin 
Published: August 2019

ObjectivesTo evaluate survival and functional outcomes in surgically‐treated spinal metastasis patients and to identify the prognostic value of the remaining options for systemic treatment.MethodsThe current study reviewed 100 consecutive patients who received surgery for spinal metastasis in a single center from March 2012 to June 2016. The decision for surgery had been made in a weekly multidisciplinary tumor board after considering multiple factors. Among these factors, those associated with the functional outcome were identified using crosstab and logistic regression analyses. Survival analysis applying the Kaplan–Meier curve and the Cox proportional hazards model was used to identify factors associated with improved survival.ResultsOf the 100 patients, there were 62 men and 38 women, with a mean age of 60.4 years at the time of surgery. The median postoperative survival of the whole cohort was 16.2 months (95% confidence interval: 10.1–22.3). When patients were stratified by the functional outcome, a significantly large proportion of patients with good functional outcome (Eastern Cooperative Oncology Group performance status better than 3) had an available option for systemic treatment at the time of surgery (P < 0.001, Pearson χ2‐test). Logistic regression analysis found that the presence of remaining options for systemic treatment at the time of decision‐making for surgery was associated with improved postoperative functional performance status (P = 0.004, odds ratio = 7.59). Survival analysis also found that the availability of remaining options for systemic treatment was associated with improved survival (P = 0.001, hazard ratio = 0.22). This finding was statistically more significant in a group of patients with a low revised Tokuhashi score of 0 to 8 (P < 0.001) when compared to the group of patients with a high revised Tokuhashi score of 9 to 15 (P = 0.082).ConclusionsAvailability of remaining options for systemic treatment is an important factor to consider when deciding on surgical treatment for spinal metastasis.
F‐Shaped Osteotomy Combined with Basal Opening Wedge Osteotomy for Severe Hallux Valgus
Authors: Li Chang , Lu Liang , Zhang Yu , Ai‐Xin‐Jue‐Luo Qi‐cheng , Wang Zhen‐tang , Wang Jun‐feng 
Published: August 2019

ObjectiveTo evaluate the safety and effectiveness of osteotomy adjacent to the articular surface of the metatarsal head combined with basal opening wedge osteotomy for severe hallux valgus.MethodsThe double osteotomy procedure was carried out in 56 patients (72 feet) with severe hallux valgus deformity, with an average follow‐up of 25 months from March 2010 to February 2019. Hallux valgus angle (HVA), distal metatarsal articular angle (DMAA), intermetatarsal angle (IMA), and distal articular set angle (DASA) were measured for all patients via weight‐bearing anteroposterior (AP) X‐ray images. In addition, the American Orthopedic Foot & Ankle Society (AOFAS) scale was used for evaluating the function of the hallux.ResultsThe HVA, IMA, and DMAA reduced from 49.30 ± 6.60, 19.33 ± 4.70, and 29.85 ± 10.96 to 13.19 ± 6.10, 5.97 ± 3.13, and 5.63 ± 3.44, respectively (P < 0.01). DASA decreased from 4.33 ± 2.34 to 4.08 ± 1.91 and did not show a statistically significant difference (P = 0.48). Among the 72 feet, 69 feet healed normally, and 3 feet had bone resorption at the osteotomy edges. No cases of bone sclerosis, bone necrosis, bone nonunion, or ankylosis were observed. On average, the AOFAS score improved from 34.66 ± 12.07 (preoperative) to 88.78 ± 5.73 (postoperative).ConclusionsThe proposed double osteotomy procedure can maintain the match metatarsophalangeal joints without ischemic necrosis of bones, and is demonstrated to be safe, effective, and feasible for correcting severe hallux valgus.
Efficacy and Safety of Tranexamic Acid in Intertrochanteric Fractures: A Single‐Blind Randomized Controlled Trial
Authors: Zhou Xin‐die , Zhang Yi , Jiang Li‐feng , Zhang Jun‐jie , Zhou Dong , Wu Li‐dong , Huang Yong , Xu Nan‐wei 
Published: August 2019

ObjectiveTo investigate the efficacy and safety of tranexamic acid (TXA) in the reduction of bleeding and the need for transfusion in elderly intertrochanteric fracture patients.MethodsA total of 100 patients with intertrochanteric fractures undergoing surgery were enrolled and randomly allocated to the TXA group in which patients (75.10 ± 8.27 years old) were treated with 1 g of TXA, or the control group (77.82 ± 6.42 years old) treated with a placebo. Surgery was performed by two senior orthopaedic surgeons from two institutions. The proximal femoral nail antirotation (PFNA) was conducted using the standard procedure. Three outcome measures, including blood loss, transfusion, and complications, were recorded. Blood loss and transfusion were investigated to assess TXA's effectiveness, while complications were investigated to assess TXA's safety. Statistical indicators for blood loss included total, intraoperative, postoperative, and hidden blood loss volumes, calculated by hemoglobin levels, hematocrit levels, and drainage volume. The number and amount of blood transfusions were recorded. Complications associated with surgery, including deep vein thrombosis, pulmonary embolism, wound hematoma, wound infection, cardiovascular and cerebrovascular accidents, and respiratory infections, were also recorded.ResultsAll patients were followed up for 1 month after surgery. There were no significant differences in demographic and clinical characteristics between the two groups. The TXA group suffered significantly less total blood loss (563.37 ± 197.51 vs 819.25 ± 273.96 mL, 95% CI: −349.49 to −162.27, P < 0.01), intraoperative blood loss (140.3 ± 80.64 vs 230.5 ± 130.56 mL, 95% CI −132.74 to −47.66, P < 0.01), and hidden blood loss (410.42 ± 178.23 vs 571.19 ± 218.13 mL, 95% CI: −238.85 to −82.69, P < 0.01) than the control group. However, postoperative total blood loss was not significantly different (97.5 ± 20.93 vs 94.7 ± 35.78 mL; P = 0.63). A total of 5 patients from the TXA group and 27 from the control group received packed RBC for postoperative transfusion, but the mean number of transfusion units was not significantly different between groups. Complications including deep vein thrombosis, pulmonary embolism, myocardial infarction, ischemic cerebral infarction, hematoma, and infection were observed in both groups, but no significant differences were found.ConclusionsIn intertrochanteric fracture surgery performed using PFNA, intravenous administration of TXA significantly reduced the risk of intraoperative, total and hidden blood loss, in addition to the need for allogeneic transfusion, without increasing the rate of complications.
Dynamic infection of Verticillium dahliae in upland cotton
Authors: Zhang J. , Hu H.‐L. , Wang X.‐N. , Yang Y.‐H. , Zhang C.‐J. , Zhu H.‐Q. , Shi L. , Tang C.‐M. , Zhao M.‐W. 
Published: August 2019

Abstract

Verticillium wilt, an infection caused by the soilborne fungus Verticillium dahliae, is one of the most serious diseases in cotton. No effective control method against V. dahliae has been established, and the infection mechanism of V. dahliae in upland cotton remains unknown.

GFP‐tagged V. dahliae isolates with different pathogenic abilities were used to analyse the colonisation and infection of V. dahliae in the roots and leaves of different upland cotton cultivars, the relationships among infection processes, the immune responses and the resistance ability of different cultivars against V. dahliae.

Here, we report a new infection model for V. dahliae in upland cotton plants. V. dahliae can colonise and infect any organ of upland cotton plants and then spread to the entire plant from the infected organ through the surface and interior of the organ.

Vascular tissue was found to not be the sole transmission route of V. dahliae in cotton plants. In addition, the rate of infection of a V. dahliae isolate with strong pathogenicity was notably faster than that of an isolate with weak pathogenicity. The resistance of upland cotton to Verticillium wilt was related to the degree of the immune response induced in plants infected with V. dahliae. These results provide a theoretical basis for studying the mechanism underlying the interaction between V. dahliae and upland cotton. These results provide a theoretical basis for studying the mechanism underlying the interaction between V. dahliae and upland cotton.
Tuberculous pleural effusion
Authors: Shaw Jane A. , Diacon Andreas H. , Koegelenberg Coenraad F.N. 
Published: August 2019

ABSTRACTTuberculous effusion is a common disease entity with a spectrum of presentations from a largely benign effusion, which resolves completely, to a complicated effusion with loculations, pleural thickening and even frank empyema, all of which may have a lasting effect on lung function. The pathogenesis is a combination of true pleural infection and an effusive hypersensitivity reaction, compartmentalized within the pleural space. Diagnostic thoracentesis with thorough pleural fluid analysis including biomarkers such as adenosine deaminase and gamma interferon achieves high accuracy in the correct clinical context. Definitive diagnosis may require invasive procedures to demonstrate histological evidence of caseating granulomas or microbiological evidence of the organism on smear or culture. Drug resistance is an emerging problem that requires vigilance and extra effort to acquire a complete drug sensitivity profile for each tuberculous effusion treated. Nucleic acid amplification tests such as Xpert MTB/RIF can be invaluable in this instance; however, the yield is low in pleural fluid. Treatment consists of standard anti‐tuberculous therapy or a guideline‐based individualized regimen in the case of drug resistance. There is low‐quality evidence that suggests possible benefit from corticosteroids; however, they are not currently recommended due to concomitant increased risk of adverse effects. Small studies report some short‐ and long‐term benefit from interventions such as therapeutic thoracentesis, intrapleural fibrinolytics and surgery but many questions remain to be answered.
Trade liberalization and volatility: Evidence from Indian firms
Authors: Sundaram Asha 
Published: August 2019

AbstractI look at the impact of trade liberalization on sales growth volatility of firms. Exploiting India’s externally imposed trade reform to identify trade liberalization effects, I find that while a fall in the tariff on the final product produced by the firm is associated with an increase in volatility in Indian manufacturing firms, a fall in the tariff on intermediate inputs is associated with a decrease in volatility, with the latter effect dominating the former. I hence propose an additional channel for gains from trade liberalization to the ones documented in the literature.
Farmers’ Perceptions of Climate Change in Context: Toward a Political Economy of Relevance
Authors: Houser Matthew , Gunderson Ryan , Stuart Diana 
Published: August 2019

AbstractSociologists commonly hypothesise that experiencing the impacts of climate change will lead actors, including farmers, to desire to address climate change. It is increasingly clear that farmers can detect the regional biophysical expressions and impacts of climate change. However, this has not led farmers to desire to take action on climate change. This begs the question: how then are farmers interpreting these experiences? We argue that political‐economic context, the structural conditions of capitalist production, contributes to how farmers perceive and understand the impacts of climate change. We draw from our novel political economy of relevance theoretical framework and apply this framework to a sample of over 100 qualitative interviews with Iowa and Indiana row‐crop farmers. We focus on their experiences with heavy rain events, a key impact of climate change in the Midwest. Our findings suggest that farmers become aware of, interpret and respond to heavy rain events within the context of capitalist production. This leads most farmers to see heavy rain events as barriers to achieving capitalist goals, rather than as signals of the reconsider climate scepticism or the need to mitigate contributions to climate change.