bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mycobacterium wolinskyi: A Rare Strain Isolated in a Persistent Prosthetic Knee Joint Infection
Authors: Bhatnagar Nishit , Poojary Aruna , Maniar Adit , Contractor Armaity , Rohra Seema , Kumar Gaurav 
Published: August 2019

Case:
A patient who underwent first-stage revision procedure elsewhere for prosthetic joint infection (PJI) of the knee with Kocuria rosea presented to us 9 months after the index surgery, with persistent infection. First-stage revision surgery was repeated and Mycobacterium wolinskyi, a rare rapidly growing nontuberculous mycobacterium (RGM), was isolated from samples obtained by sonication of the cement spacer. After a prolonged antibiotic course, definitive implantation surgery was done. One-year postimplantation, patient remains infection free.

Conclusions:
This is only the second known case of knee PJI caused by M. wolinskyi. This case highlights the possibility of RGM getting masked by other organisms.
ANALYSIS OF TRADITIONAL HEALTH CARE IN THREE COMMUNITY HEALTH CENTERS IN WEST JAVA PROVINCE, INDONESIA, 2018
Authors: Wibowo Adik , Diniawati Evita , Sein Than Tun 
Published: August 2019

The National Traditional Health Care set up three objectives for its implementation at the health centers, whereby health staff to be trained on traditional health and provide accupressure care, able to collect data, register and provide technical guidance to traditional healers and guide individuals in the use of traditional medicine and herbs. This qualitative research aimed to analyze the implementation of traditional health care at 3 subdistrict health centers Ciomas, Ciawi and Caringin in district Bogor. Data was collected through document analysis, observation and indepth inteview. Each health center has trained staff in accupressure but care is hindered by lack of room and community prefers to go to traditional masseur. Data collection, registration and technical guidance to traditional healers exist due to support from local funding. Individual guidance on the use of traditional medicine and herbs do not happen due to no fund for home visits. Traditional health care at health centers to focus on the activity that is working which is data collection, registration and technical guidance to traditional healers. District Health Office Bogor should develop local policy and Standard Operating Procedure for traditional health care at health centers.
Clinical and pathological features of idiopathic membranous nephropathy with focal segmental sclerosis
Authors: li jiatong , Chen Bing , Gao Caifeng , Huang Jing , Wang Yongmei , Zhang Shiyin , Xu Ying , Guo Wenkai , Wang Rong 
Published: August 2019

Abstract
Abstract
Background To investigate clinical and pathological features and prognosis of idiopathic membranous nephropathy (IMN) with focal segmental lesions.
Methods In our hospital, 305 patients with biopsy-proven IMN were divided into a non-focal segmental lesion group (FSGS- group) and focal segmental glomerulosclerosis (FSGS) group (FSGS+ group) and retrospectively analyzed. The general clinical and pathological data of both groups were compared, and the effects of different treatment schemes on the prognosis of both groups were observed.
Results The FSGS+ group had longer disease course; higher blood pressure levels; and higher serum creatinine andβ2-microglobulin levels than the FSGS- group (all P < 0.05). Pathologically, the FSGS+ group had increased glomerular sclerosis, glomerular mesangial hyperplasia, acute tubular lesion and chronic tubular lesion rates (all P< 0.05). The remission rate was lower in the FSGS+ group than in the FSGS- group（64.7% vs 82.2%) and was lower in association with calmodulin inhibitors than with cyclophosphamide in the FSGS+ group (P < 0.01). Survival analysis showed that the FSGS+ group had a poor prognosis（χ2=4.377，P=0.036). Risk factor analysis suggested that age at renal biopsy (P=0.006), 24-hour urinary protein quantity (P=0.01), chronic tubulointerstitial lesions (P=0.055), and FSGS lesions (P= 0.062) were risk factors for renal death; 24-hour urinary protein quantity was an independent risk factor for renal death.
Conclusions Membranous nephropathy with FSGS is a risk factor for IMN but not an independent risk factor. Patients with membranous nephropathy with FSGS often present hypertension and tubule injury. Nonselective cyclophosphamide is preferred, and calcineurin inhibitors should be used with caution.
Key words Idiopathic membranous nephropathy; focal segmental sclerosis; cyclophosphamide; calmodulin inhibitor; prognosis;
Immune cell infiltration characteristics and related core genes in lupus nephritis: results from bioinformatic analysis
Authors: Cao Yiling , Tang Weihao , Tang Wanxin 
Published: August 2019

Abstract
Objects Lupus nephritis (LN) is a common complication of systemic lupus erythematosus that presents a high risk of end-stage renal disease. In the present study, we used CIBERSORT and gene set enrichment analysis (GSEA) of gene expression profiles to identify immune cell infiltration characteristics and related core genes in LN.
Methods Datasets from the Gene Expression Omnibus, GSE32591 and GSE113342, were downloaded for further analysis. The GSE32591 dataset, which included 32 LN glomerular biopsy tissues and 14 glomerular tissues of living donors, was analyzed by CIBERSORT. Different immune cell types in LN were analyzed by the Limma software. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis based on GSEA were performed by clusterProfiler software. Lists of core genes were derived from Spearman correlation between the most significant GO term and differentially expressed immune cell gene from CIBERSORT. GSE113342 was employed to validate the association between selected core genes and clinical manifestation.
Result Five types of immune cells revealed important associations with LN, and monocytes emerged to be the prominent differences. GO and KEGG analyses indicated that immune response pathways are significantly enriched in LN. The Spearman correlation indicated that 15 genes, including FCER1G, CLEC7A, MARCO, CLEC7A, PSMB9, and PSMB8, were closely related to clinical features.
Conclusion This study is the first to identify immune cell infiltration with microarray data of glomeruli in LN by using CIBERSORT analysis and provides novel evidence and clues for further research of the molecular mechanisms of LN.
Multiple Iterative Labeling by Antibody Neodeposition (MILAN)
Authors: Cattoretti Giorgio , Bosisio Francesca Maria , Marcelis Lukas , Bolognesi Maddalena Maria 
Published: August 2019

Abstract

Multiplexing, labeling for multiple immunostains the very same cell or tissue section in situ, is of considerable interest. The major obstacles to the diffusion of this technique are high costs in custom antibodies and instruments, low throughput, scarcity of specialized skills or facilities.

We have validated and detail here a method based on common primary and secondary antibodies, diffusely available fluorescent image scanners and routinely processed tissue sections \(FFPE). It entails rounds of four-color indirect immunofluorescence, image acquisition and removal \(stripping) of the antibodies, before another stain is applied. The images are digitally registered and the autofluorescence is subtracted. Removal of antibodies is accomplished by disulphide cleavage. In excess of 50 different antibody stains can be applied to one single section from routinely fixed and embedded tissue. This method requires a modest investment in hardware and materials and uses freeware image analysis software.
Greenhouse Gas Emissions as Influenced by Nitrogen Fertilization and Harvest Residue Management in Sugarcane Production
Authors: Dattamudi Sanku , Wang Jim Jian , Dodla Syam K. , Viator H. P. , DeLaune Ron , Hiscox April , Darapuneni Murali , Jeong Changyoon , Colyer Patrick 
Published: August 2019

Core Ideas
Application of urea led to higher N2O emissions than urea–ammonium nitrate in sugarcane.
Residue retention led to higher N2O and CH4 emissions irrespective of N source.
Both N source and residue management did not affect CO2 emissions.
Sugarcane (Saccharum spp.) is a major row‐crop in the southern United States with high rates of N‐fertilizer application and unique harvest‐residue management. A 2‐yr field experiment was conducted to investigate different N‐fertilizer effects (urea and urea ammonium nitrate, UAN) and harvest‐residue managements (residue‐retain, RR, and residue‐burn, RB) on greenhouse gas (GHG) emissions from soils under sugarcane production. In 2012, a split‐plot design experiment was conducted with residue managements as main‐plots and N‐sources as sub‐plots. In 2013, two experiments were conducted to investigate UAN effect under RR and RB, and N‐source effect under RB on GHG emissions. Nitrogen was applied at 135 and 157 kg ha‒1 in 2012 and 2013, respectively. Soil GHG emissions were monitored using a closed chamber method. Results showed the majority of N2O emissions occurred within 4 wk after N‐application. Average N2O emissions from urea‐treated plots were 1.43 to 1.67 times higher compared with UAN for 2 yr. Urea had a N2O emission factor of 3.52 and 4.45% under RB and RR, respectively, whereas UAN had 1.67 and 2.46% under the same residue management. Higher N2O emission under RR treatment was supported by 15 to 20% more water‐filled pore space (WFPS) in soil than RB plots, which also increased CH4 emissions. Higher correlation was found between N2O emission and WFPS in 2012 compared with 2013 (r2 = 0.52 vs. 0.36) because a majority of the rainfall in 2012 was received within 3 wk following N application. Nitrogen sources had no effect on CH4 and CO2 emissions.
Comparing Methods for Overseeding Winter Rye into Standing Soybean
Authors: Wilson Melissa L. , Allan Deborah L. , Baker John M. , Pagliari Paulo H. 
Published: August 2019

Core Ideas
Several methods of overseeding a winter rye cover crop into soybean were tested.
Tractor‐mounted seeders reduced soybean yield by 4% relative to an aerial seeder.
Each seeder was equally variable across the seeding path with an average CV of 34%.
Rye growth was influenced by weather and possibly by seeding density (a covariate).
Seeding rate and timing may be more important factors than choice of equipment.
In the upper Midwest, short growing seasons make it difficult to establish cover crops in corn (Zea mays L.)–soybean [Glycine max (L.) Merr.] rotations. Overseeding before cash crop harvest may allow more time for growth, but practical methods need to be evaluated. Over 2 yr, this study assessed three winter rye (Secale cereale L.) overseeding techniques into standing soybean in mid‐September: aerial seeding (AS), tractor‐mounted air‐flow spreader (TAF), and tractor‐mounted fertilizer broadcast spreader (TBS). All treatments had equal variability in seeding density across plots. When rye was overseeded using the TAF and TBS treatments, soybean yield was reduced by approximately 4% relative to the AS treatment. In spring, seeding treatments impacted aboveground biomass production and N uptake in a year with good growing conditions (2010–2011), but not in a year with poor growth conditions (2011–2012). The impact of seeding method in the first year of the study was more likely due to differences in seeding density of the treatments, which was used as a covariate in this study. In a year with good growing conditions, the treatments with lower seeding densities had more spring biomass production, likely due to compensatory growth. Overall, measured values of aboveground biomass ranged from 39 to 467 kg ha−1, whereas aboveground N uptake ranged from 2.1 to 15.3 kg ha−1. Based on these findings, research efforts should focus on evaluating optimal seeding rates and timing, rather than choice of seeding method, to reduce impact on soybean yields and maximize cover crop benefits.
Management Considerations for Palmer Amaranth in a Northern Great Plains Soybean Production System
Authors: Van De Stroet Brian , Clay Sharon A. 
Published: August 2019

Core Ideas
Soybean yield loss in South Dakota was dependent on Palmer amaranth density if it emerged before canopy closure.
Soybean yield losses were not Palmer amaranth density dependent when it emerged at the R2 soybean growth stage.
The relative growth rate of Palmer amaranth was rapid and suggests a limited period for effective post‐emergence control.
The South Dakota biotype was insensitive to several broadleaf herbicides that typically are recommended for Palmer amaranth control.
Palmer amaranth (Amaranthus palmeri S. Watson) was first observed in a South Dakota field in 2015. This study assessed Palmer amaranth growth based on planting date (PD), impact on soybean [Glycine max (L.) Merr.] yield, and response of seedlings of South Dakota biotype seedlings to herbicides with different mechanisms of action (MOA). Soybean yield loss was influenced by Palmer amaranth density in 2016 (p = 0.001), with yield losses of 33% at densities greater than 15 plants m−2 (R2 = 0.65), although yield losses at low densities were greater than predicted by the fitted model. In 2017, yield loss was not correlated to Palmer amaranth density when Palmer amaranth established later in the season. Relative growth rates (RGR) of Palmer amaranth (based on plant volumes) were rapid just after transplanting, irrespective of the initial PD (ranging from mid‐May to mid‐June). Late‐planted cohorts had lower final volumes (0.23 m3) at August harvest compared with early planted cohorts (6.5 m3), but even late‐planted cohorts were two to three times larger than other common South Dakota Amaranth species [A. retroflexus L. and A. tuberculatus (Moq.) Sauer], which emerged at similar times. In greenhouse studies, labeled rates of atrazine (6‐chloro‐N‐ethyl‐N‐(1‐methylethyl)‐1,3,5‐triazine‐2,4‐diamine), glyphosate (N‐(phosphonomethyl)glycine)), and mesotrione (2‐[4‐(methysulfonyl)‐2‐nitrobenzoyl]‐1,3‐cyclohexanedione) did not control Palmer amaranth plants grown from SD biotype seed, but were controlled with S‐metolachlor (2‐chloro‐N‐(2‐ethyl‐6‐methylphenyl)‐N‐[(1S)‐2‐methoxy‐1‐methyethyl]acetamide), dicamba [3,6‐dichloro‐2‐methoxybenzoic acid], and glufosinate (2‐amino‐4(hydroxymethylphosphinyl)butanoic acid). However, Palmer amaranth biotypes resistant to S‐metolachlor, dicamba, and several other herbicides have been reported, so techniques to limit future herbicide resistance should be followed.
Phosphorus in Agriculture: A Review of Results from 175 Years of Research at Rothamsted, UK
Authors: Johnston A. E. , Poulton P. R. 
Published: August 2019

Insight into the role of phosphorus (P) in soil fertility and crop nutrition at Rothamsted, UK, and its involvement in associated environmental issues, has come from long‐term field experiments initially started by J. B. Lawes in 1843 and continued by others, together with experiments on different soils. Results from the 1940s confirmed that residues of P applied in fertilizers and manures build up reserves of P in soil. There is a strong relationship between crop yield and plant‐available P (Olsen P), and a critical level of Olsen P can be determined. For soils near the critical level, P‐use efficiency is high when the P applied and offtake by the crop is nearly equal. Soil inorganic P is associated with various soil components and is held there with a range of bonding energies so that when no P is applied, the decline in Olsen P follows a smooth curve. We conceptualize inorganic soil P as being in four pools of vastly varying size, availability for uptake, and extractability by reagents used in routine soil analysis, and with reversible transfer of P between pools. For very disparate soils at Rothamsted and in the United States, there is a strong relationship between the change in Olsen P and P removal/input ratios, suggesting an underlying similarity in inorganic P behavior. Maintaining soil near the critical level should optimize yield and the use of the global P resource while minimizing the risk of transfer of large amounts of P to the aquatic environment.Core Ideas
Lawes started long‐term experiments on P in the 1840s.
Insights into role of P in soil fertility and crop growth comes from field experiments.
P residues build up a reserve of plant‐available P.
Olsen's method is used to establish critical level of available P in soil for optimum yield.
Inorganic P transfers between 4 pools of different size/extractability/availability.
A new (Mg0.5Fe0.53+)(Si0.5Al0.53+)O3 LiNbO3-type phase synthesized at lower mantle conditions
Authors: Liu Zhaodong , Dubrovinsky Leonid , McCammon Catherine , Ovsyannikov Sergey V. , Koemets Iuliia , Chen Luyao , Cui Qi , Su Na , Cheng Jinguang , Cui Tian , Liu Bingbing , Katsura Tomoo 
Published: August 2019

Abstract
A new (Mg0.5Fe0.53+)(Si0.5Al0.53+)O3 LiNbO3-type phase was synthesized at 27 GPa and 2000 K under highly oxidized conditions using an advanced multi-anvil apparatus. Single crystals for this phase are 0.2–0.3 mm in dimension and maroon in color. They crystallize in a noncentrosymmetric structure with space group R3c and lattice parameters of a = b = 4.8720(6) Å, c = 12.898(2) Å, and V = 265.14(8) Å3. Fe3+ and Al3+ cations substitute into A (Mg2+) and B (Si4+) sites through charge-coupled substitution mechanism, respectively. The distortion of BO6 (B = Si0.5Al0.53+) octahedra is 1.6 times higher than that of AO6 (A = Mg0.5Fe0.53+) octahedra. This phase is probably recovered from bridgmanite at lower-mantle conditions by a diffusionless transition because of the displacement of A cations and distortion of BO6 octahedra on releasing pressure. Bridgmanite can thus contain the FeAlO3 component (50 mol%) beyond previously reported solubility limit (37 mol%). The present study shows that the Earth's most abundant elements form a new Fe3+- and Al3+-rich LiNbO3-type compound from bridgmanite at lower mantle conditions. This new compound provides a new insight into the complicated crystal chemistry of LiNbO3-type phase/bridgmanite and constrains the pressure and temperature conditions for shocked meteorites.
A Cr3+ luminescence study of natural topaz Al2SiO4(F,OH)2 up to 60 GPa
Authors: O'Bannon Earl F. , Williams Quentin 
Published: August 2019

Abstract
Topaz [Al2SiO4(F,OH)2] is a subduction-related mineral that is found in metasediments and has a large pressure and temperature stability field. Here, we use luminescence spectroscopy of Cr3+ to probe the Al site in topaz at pressures up to ~60 GPa, which corresponds to a depth of ~1400 km in the Earth. This technique allows us to probe all three unique Al environments (i.e., [AlO4(OH)2]7–, [AlO4(F)2]7–, and [AlO4OH,F]7–) simultaneously under high pressure. We find that the R-line luminescence from all three Al environments shift linearly to longer wavelength to ~40 GPa. Above ~40 GPa, they shift nonlinearly and begin to flatten out at ~48 GPa, with a pressure shift of ~0 cm–1/GPa from ~48–55 GPa. Our results, combined with previous high-pressure single-crystal X-ray diffraction studies to ~45 GPa, strongly indicate that there is a change in the compression mechanism in topaz above ~40 GPa. Our high-pressure room-temperature results show that the metastable persistence of topaz on compression represents one of the most extreme cases among tetrahedrally coordinated silicates.
Thermal diffusivity and thermal conductivity of granitoids at 283–988 K and 0.3–1.5 GPa
Authors: Fu Huangfei , Zhang Baohua , Ge Jianhua , Xiong Zili , Zhai Shuangmeng , Shan Shuangming , Li Heping 
Published: August 2019

AbstractThe thermal diffusivity and thermal conductivity of four natural granitoid samples were simultaneously measured at high pressures (up to 1.5 GPa) and temperatures (up to 988 K) in a multi-anvil apparatus using the transient plane–source method. Experimental results show that thermal diffusivity and thermal conductivity decreased with increasing temperature (<600 K) and remain constant or slightly increase at a temperature range from 700 to 988 K. Thermal conductivity decreases 23–46% between room temperature and 988 K, suggesting typical manifestations of phonon conductivity. At higher temperatures, an additional radiative contribution is observed in four natural granitoids. Pressure exerts a weak but clear and positive influence on thermal transport properties. The thermal diffusivity and thermal conductivity of all granitoid samples exhibit a positive linear dependence on quartz content, whereas a negative linear dependence on plagioclase content appears. Combining these results with the measured densities, thermal diffusivity, and thermal conductivity, and specific heat capacities of end-member minerals, the thermal diffusivity and thermal conductivity and bulk heat capacities for granitoids predicted from several mixing models are found to be consistent with the present experimental data. Furthermore, by combining the measured thermal properties and surface heat flows, calculated geotherms suggest that the presence of partial melting induced by muscovite or biotite dehydration likely occurs in the upper-middle crust of southern Tibet. This finding provides new insights into the origin of low-velocity and high-conductivity anomaly zones revealed by geophysical observations in this region.
Is ceramsite the last straw for sewage sludge disposal: a review of sewage sludge disposal by producing ceramsite in China
Authors: He Bifan , Wang Guangjin 
Published: August 2019

Abstract
With the rapid development of urbanization, the amount of urban sewage treatment is increasing. Waste activated sludge (WAS) is a by-product of sewage treatment, and its output is increasing year by year. How to properly handle WAS is related to the sustainable development of the sewage treatment industry. The production of ceramsite from WAS is an effective way to realize the utilization of sludge. This paper comprehensively describes the use of WAS as raw material, adding clay, cement, glass powder, shale, coal gangue, river sediment, pulverized fly ash and other auxiliary materials (AM) to produce sintered sewage sludge ceramsite and non-sintered sludge ceramsite. This paper analyzes the advantages and disadvantages of the process of making ceramsite from WAS. The research points out the development prospect of ceramsite from WAS.