bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ianbruceite, ideally [Zn2(OH)(H2O)(AsO4)](H2O)2, a new arsenate mineral from the Tsumeb mine, Otjikoto (Oshikoto) region, Namibia: description and crystal structure
Authors: Cooper M. A. , Abdu Y. A. , Ball N. A. , Hawthorne F. C. , Back M. E. , Tait K. T. , Schlüter J. , Malcherek T. , Pohl D. , Gebhard G. 
Published: November 2012

AbstractIanbruceite, ideally [Zn2(OH)(H2O)(AsO4)](H2O)2, is a new supergene mineral from the Tsumeb mine, Otjikoto (Oshikoto) region, Namibia. It occurs as thin platy crystals up to 80 μm long and a few μm thick, which form flattened aggregates up to 0.10 mm across, and ellipsoidal aggregates up to 0.5 mm across. It is associated with coarse white leiteite, dark blue köttigite, minor legrandite and adamite. Ianbruceite is sky blue to very pale blue with a white streak and a vitreous lustre; it does not fluoresce under ultraviolet light. It has perfect cleavage parallel to (100), is flexible, and deforms plastically. The Mohs hardness is 1 and the calculated density is 3.197 g cm-3. The refractive indices are α = 1.601, β = 1.660, γ = 1.662, all ±0.002; 2Vobs= 18(2)°, 2Vcalc= 20°, and the dispersion isr<v, weak. Ianbruceite is monoclinic, space groupP21/c, a= 11.793(2),b= 9.1138(14),c= 6.8265(10) Å, β = 103.859(9)°,V= 712.3(3) Å3,Z= 4,a:b:c= 1.2940:1:0.7490. The seven strongest lines in the X-ray powder diffraction pattern [d(Å),I, (hkl)] are as follows: 11.29, 100, (100); 2.922, 17, (130); 3.143, 15, (202); 3.744, 11, (300); 2.655, 9, (230); 1.598, 8, (152); 2.252, 7, (222). Chemical analysis by electron microprobe gave As2O536.27, As2O31.26, Al2O30.37, ZnO 49.72, MnO 0.32, FeO 0.71, K2O 0.25, H2Ocalc19.89, sum 108.79 wt.%; the very high oxide sum is due to the fact that the calculated H2O content is determined from crystal-structure analysis, but H2O is lost under vacuum in the electron microprobe.The crystal structure of ianbruceite was solved by direct methods and refined to anR1index of 8.6%. The As is tetrahedrally coordinated by four O anions with a mean As O distance of 1.687 Å. Zigzag [[5]Zn[6]Znϕ7] chains extend in thecdirection and are linked in thebdirection by sharing corners with (AsO4) tetrahedra to form slabs with a composition [Zn2(OH)(H2O)(AsO4)]. The space between these slabs is filled with disordered (H2O) groups and minor lone-pair stereoactive As3+. The ideal formula derived from chemical analysis and crystal-structure solution and refinement is [Zn2(OH)(H2O)(AsO4)](H2O)2.
Cycling of As, P, Pb and Sb during weathering of mine tailings: implications for fluvial environments
Authors: Kossoff D. , Hudson-Edwards K. A. , Dubbin W. E. , Alfredsson M. , Geraki T. 
Published: November 2012

AbstractThe weathering and oxidation of mine tailings has the potential to contaminate water and soil with toxic elements. To understand the mechanisms, extent and products of the long-term weathering of complex Bolivian tailings from the Cerro Rico de Potosí, and their effects on As, Pb, P and Sb cycling, three-year long laboratory column experiments were carried out to model 20 years of dry- and wet-season conditions in the Pilcomayo basin. Chemical analysis of the leachate and column solids, optical mineralogy, X-ray diffraction, scanning electron microscopy, electron probe microanalysis, microscale X-ray absorption near edge structure spectroscopy, Bureau Commun de Référence sequential extraction and water-soluble chemical extractions, and speciation modelling have shown that the weathering of As-bearing pyrite and arsenopyrite, resulted in a loss of 13–29% of the original mass of As. By contrast, Pb and Sb showed much lower mass losses (0.1–1.1% and 0.6–1.9%, respectively) due to the formation of insoluble Pb- and Sb(V)-rich phases, which were stable at the low pH (~2) conditions that prevailed by the end of the experiment. The experiment also demonstrated a link between the cycling of As, Sb, and the oxidation of Fe(II)-bearing sphalerite, which acted as a nucleation point for an Fe-As-Sb-O phase. Phosphorus was relatively immobile in the tailings columns (up to 0.3% mass loss) but was more mobile in the soil-bearing columns (up to 10% mass loss), due to the formation of soluble P-bearing minerals or mobilization by organic matter. These results demonstrate the influence of mine tailings on the mobility of P from soils and on the potential contamination of ecosystems with As, and strongly suggest that these materials should be isolated from fluvial environments.
Omsite, (Ni, Cu)2Fe3+(OH)6[Sb(OH)6], a new member of the cualstibite group from Oms, France
Authors: Mills S. J. , Kampf A. R. , Housley R. M. , Favreau G. , Pasero M. , Biagioni C. , Merlino S. , Berbain C. , Orlandi P. 
Published: November 2012

AbstractOmsite (IMA 2012-025) is a new mineral from the Correc d'en Llinassos, Oms, Pyrénées-Orientales Department, France. It occurs as bright yellow to amber yellow discoidal tablets, flattened on {001}, which form rosettes typically 50–100 μm in diameter. Omsite generally crystallizes on siderite without associated supergene minerals; it occurs less commonly with glaukosphaerite. Crystals have a vitreous to resinous lustre, and are transparent to translucent. Omsite is not fluorescent in either short-wave or long-wave ultraviolet light. It has an estimated hardness of 3 on the Mohs' scale, is brittle with an irregular fracture, and has one poor cleavage on {001}. The calculated density is 3.378 g cm–3. Crystals are uniaxial (–), with indices of refraction of ω = 1.728(3) and ε = 1.66(1), measured in white light. Pleochroism is ω = orange-yellow, ε = pale orange-yellow; ω > ε. The empirical formula [based on 12 (OH + Cl) p.f.u.] is (Ni1.0992+Cu0.6652+Mg0.107Fe0.0453+)Σ 1.916Fe1.0003+(Sb0.9475+As0.072Na0.029)Σ1.048OH11.967Cl0.033. Omsite crystallizes in space group P, with unit-cell parameters a = 5.3506(8), c = 19.5802(15) Å, V = 485.46(10) Å3 and Z = 2 determined by single crystal X-ray diffraction. The five strongest lines in the X-ray powder diffraction pattern [d in Å, (Irel), (hkl)] are as follows: 4.901, (100), (004); 4.575, (83), (011); 2.3539, (81), (11); 1.8079, (48), (11); 3.781, (34), (103). The crystal structure was solved to R1 = 0.0896 for 356 observed reflections [Fo>4σFo] and 0.1018 for all the 469 unique reflections. Omsite is a layered double hydroxide (LDH) mineral, with a topology consistent with members of the hydrotalcite supergroup and cualstibite group.
Global gene expression of the inner cell mass and trophectoderm of the bovine blastocyst
Authors: Ozawa Manabu , Sakatani Miki , Yao JiQiang , Shanker Savita , Yu Fahong , Yamashita Rui , Wakabayashi Shunichi , Nakai Kenta , Dobbs Kyle B , Sudano Mateus José , Farmerie William G , Hansen Peter J 
Published: November 2012

Abstract

Background
The first distinct differentiation event in mammals occurs at the blastocyst stage when totipotent blastomeres differentiate into either pluripotent inner cell mass (ICM) or multipotent trophectoderm (TE). Here we determined, for the first time, global gene expression patterns in the ICM and TE isolated from bovine blastocysts. The ICM and TE were isolated from blastocysts harvested at day 8 after insemination by magnetic activated cell sorting, and cDNA sequenced using the SOLiD 4.0 system.

Results
A total of 870 genes were differentially expressed between ICM and TE. Several genes characteristic of ICM (for example, NANOG, SOX2, and STAT3) and TE (ELF5, GATA3, and KRT18) in mouse and human showed similar patterns in bovine. Other genes, however, showed differences in expression between ICM and TE that deviates from the expected based on mouse and human.

Conclusion
Analysis of gene expression indicated that differentiation of blastomeres of the morula-stage embryo into the ICM and TE of the blastocyst is accompanied by differences between the two cell lineages in expression of genes controlling metabolic processes, endocytosis, hatching from the zona pellucida, paracrine and endocrine signaling with the mother, and genes supporting the changes in cellular architecture, stemness, and hematopoiesis necessary for development of the trophoblast.
Diversity and extracellular enzymatic activities of yeasts isolated from King George Island, the sub-Antarctic region
Authors: Carrasco Mario , Rozas Juan Manuel , Barahona Salvador , Alcaíno Jennifer , Cifuentes Víctor , Baeza Marcelo 
Published: November 2012

Abstract

Background
Antarctica has been successfully colonized by microorganisms despite presenting adverse conditions for life such as low temperatures, high solar radiation, low nutrient availability and dryness. Although these “cold-loving” microorganisms are recognized as primarily responsible for nutrient and organic matter recycling/mineralization, the yeasts, in particular, remain poorly characterized and understood. The aim of this work was to study the yeast microbiota in soil and water samples collected on King George Island.

Results
A high number of yeast isolates was obtained from 34 soil and 14 water samples. Molecular analyses based on rDNA sequences revealed 22 yeast species belonging to 12 genera, with Mrakia and Cryptococcus genera containing the highest species diversity. The species Sporidiobolus salmonicolor was by far the most ubiquitous, being identified in 24 isolates from 13 different samples. Most of the yeasts were psychrotolerant and ranged widely in their ability to assimilate carbon sources (consuming from 1 to 27 of the 29 carbon sources tested). All species displayed at least 1 of the 8 extracellular enzyme activities tested. Lipase, amylase and esterase activity dominated, while chitinase and xylanase were less common. Two yeasts identified as Leuconeurospora sp. and Dioszegia fristingensis displayed 6 enzyme activities.

Conclusions
A high diversity of yeasts was isolated in this work including undescribed species and species not previously isolated from the Antarctic region, including Wickerhamomyces anomalus, which has not been isolated from cold regions in general. The diversity of extracellular enzyme activities, and hence the variety of compounds that the yeasts may degrade or transform, suggests an important nutrient recycling role of microorganisms in this region. These yeasts are of potential use in industrial applications requiring high enzyme activities at low temperatures.
PCA3 noncoding RNA is involved in the control of prostate-cancer cell survival and modulates androgen receptor signaling
Authors: Ferreira Luciana Bueno , Palumbo Antonio , de Mello Kivvi Duarte , Sternberg Cinthya , Caetano Mauricio S , de Oliveira Felipe Leite , Neves Adriana Freitas , Nasciutti Luiz Eurico , Goulart Luiz Ricardo , Gimba Etel Rodrigues Pereira 
Published: November 2012

Abstract

Background
PCA3 is a non-coding RNA (ncRNA) that is highly expressed in prostate cancer (PCa) cells, but its functional role is unknown. To investigate its putative function in PCa biology, we used gene expression knockdown by small interference RNA, and also analyzed its involvement in androgen receptor (AR) signaling.

Methods
LNCaP and PC3 cells were used as in vitro models for these functional assays, and three different siRNA sequences were specifically designed to target PCA3 exon 4. Transfected cells were analyzed by real-time qRT-PCR and cell growth, viability, and apoptosis assays. Associations between PCA3 and the androgen-receptor (AR) signaling pathway were investigated by treating LNCaP cells with 100 nM dihydrotestosterone (DHT) and with its antagonist (flutamide), and analyzing the expression of some AR-modulated genes (TMPRSS2, NDRG1, GREB1, PSA, AR, FGF8, CdK1, CdK2 and PMEPA1). PCA3 expression levels were investigated in different cell compartments by using differential centrifugation and qRT-PCR.

Results
LNCaP siPCA3-transfected cells significantly inhibited cell growth and viability, and increased the proportion of cells in the sub G0/G1 phase of the cell cycle and the percentage of pyknotic nuclei, compared to those transfected with scramble siRNA (siSCr)-transfected cells. DHT-treated LNCaP cells induced a significant upregulation of PCA3 expression, which was reversed by flutamide. In siPCA3/LNCaP-transfected cells, the expression of AR target genes was downregulated compared to siSCr-transfected cells. The siPCA3 transfection also counteracted DHT stimulatory effects on the AR signaling cascade, significantly downregulating expression of the AR target gene. Analysis of PCA3 expression in different cell compartments provided evidence that the main functional roles of PCA3 occur in the nuclei and microsomal cell fractions.

Conclusions
Our findings suggest that the ncRNA PCA3 is involved in the control of PCa cell survival, in part through modulating AR signaling, which may raise new possibilities of using PCA3 knockdown as an additional therapeutic strategy for PCa control.
Unusual presentation of angiomyomatous hamartoma in an eight-month-old infant: case report and literature review
Authors: Catania Vincenzo Davide , Manzoni Carlo , Novello Mariangela , Lauriola Libero , Coli Antonella 
Published: November 2012

Abstract

Background
Evaluation of palpable neck masses may be a diagnostic problem in pediatric patients, with differential diagnosis including congenital, inflammatory, tumoral and traumatic lesions. Ultrasonography is usually a satisfactory method to make a correct pre-operative evaluation of neck masses, although diagnosis is often challenging for the surgeon and the radiologist and sometimes only possible after a histopathological examination of the resected lesion.

Case presentation
We report an 8-month-old patient with a cervical, anterior midline mass. Ultrasonographic images showed features suggesting a partly cystic lesion, with a preoperative suspect of thyroglossal duct cyst. Histological examination, performed after surgical removal of the mass, led to a diagnosis of lymph node angiomyomatous hamartoma (AH).

Conclusions
AH, a rarely occurring benign lymph node lesion, has been reported in the neck lateral region only twice. This case, presenting as a palpable neck midline mass, is the first reported case occurring in infancy. Although rare, AH should be included in the differential diagnosis of head and neck masses.
The Diabetes Pearl: Diabetes biobanking in The Netherlands
Authors: van’t Riet Esther , Schram Miranda T , Abbink Evertine J , Admiraal Wanda M , Dijk-Schaap Marja W , Holleman Frits , Nijpels Giel , Özcan Behiye , Pijl Hanno , Schaper Nicolaas C , Sijbrands Eric JG , Silvius Bianca , Tack Cees J , de Valk Harold W , Wolffenbuttel Bruce HR , Stehouwer Coen DA , Dekker Jacqueline M 
Published: November 2012

Abstract

Background
Type 2 diabetes is associated with considerable comorbidity and severe complications, which reduce quality of life of the patients and require high levels of healthcare. The Diabetes Pearl is a large cohort of patients diagnosed with type 2 diabetes, covering different geographical areas in the Netherlands. The aim of the study is to create a research infrastructure that will allow the study of risk factors, including biomarkers and genetic determinants for severe diabetes complications.

Methods/design
Baseline examinations began November 2009 and will continue through 2012. By the end of 2012, it is expected that 7000 patients with type 2 diabetes will be included in the Diabetes Pearl cohort. To ensure quality of the data collected, standard operation procedures were developed and used in all 8 recruitment centers. From all patients who provide informed consent, the following information is collected: personal information, medication use, physical examination (antropometry, blood pressure, electrocardiography (ECG), retina photographs, ankle-brachial index, peripheral vibration perception), self-report questionnaire (socio-economic status, lifestyle, (family) history of disease, and psychosocial well-being), laboratory measurements (glucose, A1c, lipid profile, kidney function), biobank material (storage of urine and blood samples and isolated DNA). All gathered clinical data and biobank information is uploaded to a database for storage on a national level. Biobanks are maintained locally at all recruitment centers.

Discussion
The Diabetes Pearl is large-scale cohort of type 2 diabetes patients in the Netherlands aiming to study risk factors, including biomarkers and genetic markers, for disease deterioration and the development of severe diabetes complications. As a result of the well-designed research design and the national coverage, the Diabetes Pearl data can be of great value to national and international researchers with an interest in diabetes related research.
The use of complementary and alternative medicine for patients with traumatic brain injury in Taiwan
Authors: Gau Bih-Shya , Yang Hsiao-Ling , Huang Sheng-Jean , Lou Meei-Fang 
Published: November 2012

Abstract

Background
The use of complementary and alternative medicine (CAM) continues to increase in Taiwan. This study examined the use of CAM and beliefs about CAM as expressed by patients with traumatic brain injury (TBI) in Taiwan.

Methods
TBI patients and their accompanying relatives were interviewed by using a structured questionnaire at an outpatient clinic in a medical center in northern Taiwan.

Results
A total of 101 patients with TBI participated in the study. Sixty-four (63%) patients had used at least one form of CAM after sustaining TBI. CAM users had used an average of 2.72 forms of CAM after sustaining TBI. The most frequently used CAM category was traditional Chinese medicine (37; 57.8%), followed by folk and religious therapies (30; 46.9%), and dietary supplements (30; 46.9%). The majority of the patients (45; 70.3%) did not report CAM use because they felt it was unnecessary to do so. Patients who used CAM had a significantly stronger positive belief in CAM than those who did not (t = −2.72; P = .008). After using CAM, most of the patients (54; 85%) perceived moderate satisfaction (2.89 ± 0.44), according to a 4-point Likert scale.

Conclusion
Although the use of CAM is common for TBI patients receiving conventional medical health care in Taiwan, most patients did not inform health care personnel about their CAM use. TBI patients perceive combined use of CAM and conventional medicine as beneficial for their overall health.
High hydrostatic pressure extract of garlic increases the HDL cholesterol level via up-regulation of apolipoprotein A-I gene expression in rats fed a high-fat diet
Authors: Lee Seohyun , Joo Hyunjin , Kim Chong-Tai , Kim In-Hwan , Kim Yangha 
Published: November 2012

Abstract

Background
Cardiovascular disease (CVD) is the number one cause of mortality worldwide and a low high-density lipoprotein cholesterol (HDL-C) level is an important marker of CVD risk. Garlic (Allium sativum) has been widely used in the clinic for treatment of CVD and regulation of lipid metabolism. This study investigated the effects of a high hydrostatic pressure extract of garlic (HEG) on HDL-C level and regulation of hepatic apolipoprotein A-I (apoA-I) gene expression.

Methods
Male Sprague–Dawley rats were divided into two groups and maintained on a high-fat control diet (CON) or high-fat control diet supplemented with high hydrostatic pressure extract of garlic (HEG) for 5 weeks. Changes in the expression of genes related to HDL-C metabolism were analyzed in liver, together with biometric and blood parameters.

Results
In the HEG group, the plasma triglyceride (TG) and low-density lipoprotein cholesterol (LDL-C) levels were significantly decreased in comparison with the CON group (P < 0.05). Dietary HEG also lowered the hepatic TG and total cholesterol (TC) levels compared to the CON group. While the plasma HDL-C level and mRNA level of hepatic apoA-I, which is one of primarily proteins of HDL-C particle, were significantly increased in the HEG group compared to the CON group (P < 0.05). The gene expression of ATP-binding cassette transporter A1 (ABCA1) and lecithin:cholesterol acyltransferase (LCAT), importantly involved in the biogenesis in HDL, were also up-regulated by dietary HEG.

Conclusions
These results suggest that HEG ameliorates plasma lipid profiles and attenuates hepatic lipid accumulation in the high-fat fed rats. Our findings provides that the effects of HEG on the increase of the plasma HDL-C level was at least partially mediated by up-regulation of hepatic genes expression such as apoA-I, ABCA1, and LCAT in rats fed a high-fat diet.
Magnetic bead-based salivary peptidome profiling for periodontal-orthodontic treatment
Authors: Zhang Jieni , Zhou Shaonan , Li Ruoxuan , Cao Tian , Zheng Hui , Wang Xuedong , Zhou Yanheng , Du Ning , Chen Feng , Lin Jiuxiang 
Published: November 2012

Abstract

Background
Patients with periodontitis seek periodontal-orthodontic treatment to address certain functional and aesthetic problems. However, little is known of the effect of periodontitis on orthodontic treatment. Thus, we compared the differences in peptide mass fingerprints of orthodontic patients with and without periodontitis by MALDI-TOF MS using a magnetic bead-based peptidome analysis of saliva samples. In this way, we aimed to identify and explore a panel of differentially-expressed specific peptides.

Results
Saliva samples from 24 patients (eight orthodontic patients without periodontitis, eight with periodontitis and another eight with periodontitis but no orthodontic treatment) were analyzed, and peptide mass fingerprints were created by scanning MS signals using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) combined with magnetic beads. Nine mass peaks showed significant differences. Orthodontic patients in the group without periodontal disease showed higher mass peaks for seven peptides of the nine, whereas the mass peaks for the other two peptides were higher in the periodontal-orthodontic patients. Besides, these differentially-expressed peptides were sequenced.

Conclusions
The elucidated candidate biomarkers indicated interactions between periodontal condition and orthodontic treatment and their contributions to the changes of saliva protein profiles. Our results provide novel insight into the altered salivary protein profile during periodontal-orthodontic treatment, and may lead to the development of a therapeutic monitoring strategy for periodontics and orthodontics.
Large-scale synthesis and self-organization of silver nanoparticles with Tween 80 as a reductant and stabilizer
Authors: Li Hui-Jun , Zhang An-Qi , Hu Yang , Sui Li , Qian Dong-Jin , Chen Meng 
Published: November 2012

Abstract
Tween 80 (polysorbate 80) has been used as a reducing agent and protecting agent to prepare stable water-soluble silver nanoparticles on a large scale through a one-pot process, which is simple and environmentally friendly. Silver ions can accelerate the oxidation of Tween 80 and then get reduced in the reaction process. The well-ordered arrays such as ribbon-like silver nanostructures could be obtained by adjusting the reaction conditions. High-resolution transmission electron microscopy confirms that ribbon-like silver nanostructures (approximately 50 nm in length and approximately 2 μm in width) are composed of a large number of silver nanocrystals with a size range of 2 to 3 nm. In addition, negative absorbance around 320 nm in the UV-visible spectra of silver nanoparticles has been observed, probably owing to the instability of nanosized silver colloids.