bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft Genome Sequence of “
Terrisporobacter othiniensis
” Isolated from a Blood Culture from a Human Patient
Authors: Lund Lars Christian , Sydenham Thomas Vognbjerg , Høgh Silje Vermedal , Skov Marianne , Kemp Michael , Justesen Ulrik Stenz 
Published: March 2015

ABSTRACT
“Terrisporobacter othiniensis” (proposed species) was isolated from a blood culture. Genomic DNA was sequenced using a MiSeq benchtop sequencer (Illumina) and assembled using the SPAdes genome assembler. This resulted in a draft genome sequence comprising 3,980,019 bp in 167 contigs containing 3,449 coding sequences, 7 rRNAs, and 58 tRNAs.
Whole-Genome Sequence of Listeria monocytogenes Serovar 4b Strain IZSAM_Lm_hs2008, Isolated from a Human Infection in Italy
Authors: Centorame Patrizia , Acciari Vicdalia Aniela , Orsini Massimiliano , Torresi Marina , Iannetti Luigi , Angius Andrea , Di Giammartino Dante , Prencipe Vincenza Annunziata , Migliorati Giacomo 
Published: March 2015

ABSTRACT

Listeria monocytogenes
is one of the most important foodborne pathogens. In this report, we present the complete and annotated genome of
L. monocytogenes
sequence type 06 (ST06) serovar 4b strain IZSAM_Lm_hs2008, isolated from an adult immunocompetent patient who developed the disease and died.
Burkholderia cenocepacia Strain CEIB S5-1, a Rhizosphere-Inhabiting Bacterium with Potential in Bioremediation
Authors: Martínez-Ocampo Fernando , Lozano-Aguirre Beltrán Luis Fernando , Hernández-Mendoza Armando , Rojas-Espinoza Luis Enrique , Popoca-Ursino Elida Carolina , Ortiz-Hernández María Laura , Sánchez-Salinas Enrique , Ramos Quintana Fernando , Dantán-González Edgar 
Published: March 2015

ABSTRACT

Burkholderia cenocepacia
is considered an opportunistic pathogen from humans and may cause disease in plants. A bioprospection from a plaguicide-contaminated agricultural field in Mexico identified several methyl parathion-degrading bacteria. Here, we report the draft genome sequence of
B. cenocepacia
strain CEIB S5-1, which gave us clues into ecological biodiversity.
Complete Genome Sequence of the Urethral Catheter Isolate Myroides sp. A21
Authors: Burghartz Melanie , Bunk Boyke , Spröer Cathrin , Voget Sonja , Daniel Rolf , Overmann Jörg , Jahn Martina 
Published: March 2015

ABSTRACT
Myroides sp. A21, isolated from a urethral catheterized patient without symptoms of a urinary tract infection in Germany, proved to be extensively drug resistant. Here, we report the 4.16-Mb complete genome sequence of strain A21, carrying unusual pathogenicity islands and explaining the features of multidrug resistance.
Draft Genome Sequences of Six Actinobacillus pleuropneumoniae Serotype 8 Brazilian Clinical Isolates: Insight into New Applications
Authors: Pereira Monalessa Fábia , Rossi Ciro César , de Carvalho Fabíola Marques , de Almeida Luiz Gonzaga Paula , Souza Rangel Celso , de Vasconcelos Ana Tereza Ribeiro , Bazzolli Denise Mara Soares 
Published: March 2015

ABSTRACT

Actinobacillus pleuropneumoniae
is the causative agent of swine pleuropneumonia, a highly contagious disease associated with pigs of all ages that results in severe economic losses to the industry. Here, we report for the first time six genome sequences of
A. pleuropneumoniae
clinical isolates of serotype 8, found worldwide.
T-cell primary leptomeningeal lymphoma in cerebellopontine angle
Authors: Briongos-Figuero Laisa Socorro , Gómez-Traveso Tamara , Pérez-Castrillon José Luis 
Published: March 2015

Primary meningeal lymphomas are very rare and those derived from T cells are even more infrequent (less than 5% of primary central nervous system lymphomas). Cerebellopontine angle involvement in the primary T-cell lymphoma is exceptional. Clinical presentation depends on the type of lesions, and histological diagnosis is needed. We present a rare case of a 50-year-old woman who presented with clinical cerebellar syndrome with posterior opsoclonus-myoclonus syndrome. Necropsy evaluation revealed primary diffuse leptomeningeal non-Hodgkin's T-cell lymphoma.
Patterns and trends in sources of information about sex among young people in Britain: evidence from three National Surveys of Sexual Attitudes and Lifestyles
Authors: Tanton Clare , Jones Kyle G , Macdowall Wendy , Clifton Soazig , Mitchell Kirstin R , Datta Jessica , Lewis Ruth , Field Nigel , Sonnenberg Pam , Stevens Amy , Wellings Kaye , Johnson Anne M , Mercer Catherine H 
Published: March 2015

ObjectiveTo assess progress in meeting young people's sex education needs in Britain by examining the current situation and changes over the past 20 years in sources of information about sexual matters and unmet information needs.DesignCross-sectional probability sample surveys.SettingBritish general population.Participants3869 men and women aged 16–24 years, interviewed 2010–2012 for the third National Survey of Sexual Attitudes & Lifestyles (Natsal-3), compared with 16–24 year-olds in Natsal-1 (1990–1991; 792 men and women) and Natsal-2 (1999–2001; 2673 men and women).Main outcome measuresReported source of information about sexual matters, unmet information needs and preferred source of additional information.ResultsBetween 1990 and 2012, the proportion citing school lessons as their main source of information about sexual matters increased from 28.2% (95% CI 24.6 to 32.1) to 40.3% (95% CI 38.6 to 42.1). In 2010–2012, parents were reported as a main source by only 7.1% (95% CI 5.8 to 8.7) of men and 14.1% (95% CI 12.6 to 15.7) of women and, for women, were less commonly reported than in 1999–2001 (21.7%; 95% CI 19.6 to 24.0). Most young people reported not knowing enough when they first felt ready for sexual experience (68.1% men, 70.6% women), and this did not change substantially over time. They wanted more information about psychosexual matters (41.6% men, 46.8% women), as well as sexually transmitted infections (27.8% men, 29.8% women) and, for women, contraception (27.5%). Young people primarily wanted this information from school, parents or health professionals.ConclusionsOver the past 20 years, young people have increasingly identified school lessons as their main source of information about sex, although they continue to report needing more information on a broad range of topics. The findings support the expressed need for improved sex and relationships education in schools alongside greater involvement of parents and health professionals.
A survey of patients’ experience of pain and other symptoms while receiving care from palliative care services
Authors: Pidgeon Tanya , Johnson Claire E , Currow David , Yates Patsy , Banfield Maree , Lester Leanne , Allingham Sam F , Bird Sonia , Eagar Kathy 
Published: March 2015

ContextIn Australia, patients at the end of life with complex symptoms and needs are often referred to palliative care services (PCSs), but little is known about the symptoms of patients receiving palliative care in different settings.ObjectiveTo explore patients’ levels of pain and other symptoms while receiving care from PCSs.MethodPCSs registered through Australia's national Palliative Care Outcomes Collaboration (PCOC) were invited to participate in a survey between 2008 and 2011. Patients (or if unable, a proxy) were invited to complete the Palliative Care Outcome Scale.ResultsQuestionnaires were completed for 1800 patients. One-quarter of participants reported severe pain, 20% reported severe ‘other symptoms’, 20% reported severe patient anxiety, 45% reported severe family anxiety, 66% experienced depressed feelings and 19% reported severe problems with self-worth. Participants receiving care in major cities reported higher levels of depressed feelings than participants in inner regional areas. Participants receiving care in community and combined service settings reported higher levels of need for information, more concerns about wasted time, and lower levels of family anxiety and depressed feelings when compared to inpatients. Participants in community settings had lower levels of concern about practical matters than inpatients.ConclusionsPatients receiving care from Australian PCSs have physical and psychosocial concerns that are often complex and rated as ‘severe’. Our findings highlight the importance of routine, comprehensive assessment of patients’ concerns and the need for Specialist Palliative Care clinicians to be vigilant in addressing pain and other symptoms in a timely, systematic and holistic manner, whatever the care setting.
The online use of Violence and Journey metaphors by patients with cancer, as compared with health professionals: a mixed methods study
Authors: Semino Elena , Demjén Zsófia , Demmen Jane , Koller Veronika , Payne Sheila , Hardie Andrew , Rayson Paul 
Published: March 2015

ObjectiveTo compare the frequencies with which patients with cancer and health professionals use Violence and Journey metaphors when writing online; and to investigate the use of these metaphors by patients with cancer, in view of critiques of war-related metaphors for cancer and the adoption of the notion of the ‘cancer journey’ in UK policy documents.DesignComputer-assisted quantitative and qualitative study of two data sets totalling 753 302 words.SettingA UK-based online forum for patients with cancer (500 134 words) and a UK-based website for health professionals (253 168 words).Participants56 patients with cancer writing online between 2007 and 2012; and 307 health professionals writing online between 2008 and 2013.ResultsPatients with cancer use both Violence metaphors and Journey metaphors approximately 1.5 times per 1000 words to describe their illness experience. In similar online writing, health professionals use each type of metaphor significantly less frequently. Patients’ Violence metaphors can express and reinforce negative feelings, but they can also be used in empowering ways. Journey metaphors can express and reinforce positive feelings, but can also be used in disempowering ways.ConclusionsViolence metaphors are not by default negative and Journey metaphors are not by default a positive means of conceptualising cancer. A blanket rejection of Violence metaphors and an uncritical promotion of Journey metaphors would deprive patients of the positive functions of the former and ignore the potential pitfalls of the latter. Instead, greater awareness of the function (empowering or disempowering) of patients’ metaphor use can lead to more effective communication about the experience of cancer.
Assessment and management of the malignant colorectal polyp
Authors: Neilson Laura J , Rutter Matthew D , Saunders Brian P , Plumb Andrew , Rees Colin J 
Published: March 2015

Colorectal cancer is the second most common cancer affecting men and women in England. The introduction of National Bowel Cancer Screening in 2006 has led to a rise in the proportion of colorectal cancers detected at an early stage. Many screen-detected cancers are malignant colorectal polyps and may potentially be cured with endoscopic resection, without recourse to the risk of major surgery or prolonged adjuvant therapies. Endoscopic decision making is crucial to select those early lesions that may be suitable for local endoscopic excision as well as identifying lesions for surgical resection, thus avoiding unnecessary surgical intervention in some and ensuring potentially curative surgery in others. This paper uses the current evidence base to provide a structured approach to the assessment of potentially malignant polyps and their management.http://group.bmj.com/products/journals/instructions-for-authors/licence-forms
A comparison of the pathological, clinical and radiographical, features of cryptogenic organising pneumonia, acute fibrinous and organising pneumonia and granulomatous organising pneumonia
Authors: Feinstein Marc B , DeSouza Shilpa A , Moreira Andre L , Stover Diane E , Heelan Robert T , Iyriboz Tunç A , Taur Ying , Travis William D 
Published: March 2015

AimsCryptogenic organising pneumonia (COP) and acute fibrinous and organising pneumonia (AFOP) are recognised patterns of organising pneumonia (OP), a condition that resembles pneumonia but is not caused by infection. We have recognised granulomatous organising pneumonia (GOP) to be a similar histopathological entity where non-necrotising granulomata are intimately associated with the organising connective tissue. To what degree COP, AFOP and GOP represent distinct clinical and pathological disorders is unknown. This cross-sectional study sought to compare the pathological, clinical, and radiographical features of these OP patterns.MethodsSurgical lung biopsy specimens were reviewed for consecutive patients referred with OP to a metropolitan cancer centre. Clinical information and CT images were acquired from the hospital electronic medical record to determine the clinical and CT characteristics of each OP pattern.ResultsSixty-one patients (35 men, 26 women), mean age 61.5 years (range 8–85 years), were available for analysis. Of these, 43 patients (70%) had at least one prior cancer; 27 (44%) had received chemotherapy and 18 (30%) had received radiation. Approximately, half (32 patients) had respiratory symptoms, most commonly cough, dyspnoea and/or wheezing. While symptoms and mortality rates were not different among OP groups, AFOP patients more commonly had fever (p=0.04). GOP patients less commonly had received chemotherapy (p=0.03) and were more likely to present as masses/nodules (p=0.04).ConclusionsAFOP and GOP, a newly described OP form, possess clinical and pathological findings that set it apart from a COP, suggesting an emerging spectrum of OP.
Clinical abnormalities in working donkeys and their associations with behaviour
Authors: Regan (nee Ashley) F. H. , Hockenhull J. , Pritchard J. C. , Waterman‐Pearson A. E. , Whay H. R. 
Published: March 2015

IntroductionsWorking donkeys are at risk of developing multiple, acute and chronic health problems. The ability to recognise and assess pain in donkeys associated with these health problems is important for people responsible for their care and treatment, including owners and veterinary or animal health workers.Aims and objectivesThe aims of this study were firstly to quantify the prevalence of a range of clinical abnormalities within a sample of working donkeys; and secondly to find out whether these abnormalities were associated with potential behavioural indicators of pain.Materials and methodsOne hundred and thirty‐three entire male adult working donkeys were observed for ten minutes before and after a one‐hour rest period. Using an ethogram developed and refined in associated studies, posture and event behaviours were recorded by a single observer. The health of each donkey was then assessed by a veterinarian for specific clinical abnormalities.ResultsWorking donkeys have a high prevalence of clinical abnormalities and a number of behaviours are associated with these. Significant associations were found between observed behaviours and systemic, ocular and limb‐related clinical abnormalities. Cumulative clinical scores for limb‐related problems were associated with a higher frequency of leg trembling, knuckling of the forelimb, leg‐lifting and weight‐shifting behaviours (all R≥0.4; P<0.001) and with a lower frequency of weight‐bearing evenly on all four feet (R=‐0.458; P<0.001).ConclusionsThe specific behaviour changes associated with clinical abnormalities identified in this study, together with general changes in demeanour identified in related studies, may be useful in assessing the presence and severity of pain in working donkeys and their response to medical and palliative interventions.
Morbidity and disease management in pet rats: a study of 375 cases
Authors: Rey F. , Bulliot C. , Bertin N. , Mentré V. ,   REMORA Team, Berthelet A. , Bertin N. , Boinot C. , Bulliot C. , Chesnoy C. , Duranceau S. , Mentré V. , Rey F. 
Published: March 2015

Typical diseases are well described in pet rats, but their prevalence and management are largely unknown. During a six‐month period, standardised records were obtained for 375 rats presenting in three French centres to determine the diagnoses made and the treatments prescribed. Rhinitis, healthy animal and mammary gland tumours accounted for the majority of diagnoses. The 10 most common diagnoses accounted for 66.9 per cent of all cases. Inappropriate environment was a risk factor for respiratory disease (P<0.001). Mean age of presentation of rats with respiratory disease was lower for rats living in non‐appropriate environment (P=0.049). Twenty‐two per cent of animals underwent surgery, with a significant difference according to sex because of the higher rate of mammary gland tumours in females (P=0.006). Tumourectomy, ovariohysterectomy or castration accounted for 70 per cent of all procedures. Training veterinarians on 10 clinical situations, 3 surgical procedures and 3 therapeutic classes would improve the management of most of the pet rats. An early visit to provide owners with all recommendations and information on appropriate maintenance, and one visit around 15 months of age to detect any mass at an early stage, could help to reduce respiratory disease and improve clinical outcomes.
Green Synthesis and Radial Breathing Modes inTiNanoparticles
Authors: Britto-Hurtado R. , Cortez-Valadez M. , Alvarez Ramón A. B. , Horta-Fraijo P. , Bocarando-Chacon J.-G. , Gámez-Corrales R. , Pérez-Rodríguez A. , Martínez-Suárez F. , Rodríguez-Melgarejo F. , Arizpe-Chavez H. , Flores-Acosta M. 
Published: March 2015

This work presents the synthesis of metallic nanoparticles of titanium. The extract from the nopal (Opuntia ficus-indica) plant was used as the redactor agent. The results of transmission electronic microscopy (TEM) show that nanoparticles have a sphere-like shape with an approximate diameter of 1–4 nm. The presence of Ti in these particles was corroborated by energy dispersive X-ray spectroscopy (EDS). Optical properties were detected with the presence of absorption bands centered in 295 nm and 355 nm, similar to those reported in the literature. Two Raman bands centered at 359 cm-1and 404 cm-1were observed after the synthesis of titanium nanoparticles. Afterwards, structural and vibrational parameters of small clusters of Ti ( Tin, n = 3–13) were analyzed by the density functional theory (DFT) at the B3LYP level of approximation combined with the basis set LANL2DZ. Radial breathing modes (RBMs) were detected in the vibrational spectrum of each cluster, placed around 298–387 cm-1.
Chaperone Hsp47 Drives Malignant Growth and Invasion by Modulating an ECM Gene Network
Authors: Zhu Jieqing , Xiong Gaofeng , Fu Hanjiang , Evers B. Mark , Zhou Binhua P. , Xu Ren 
Published: March 2015

Abstract
The extracellular matrix (ECM) is a determining factor in the tumor microenvironment that restrains or promotes malignant growth. In this report, we show how the molecular chaperone protein Hsp47 functions as a nodal hub in regulating an ECM gene transcription network. A transcription network analysis showed that Hsp47 expression was activated during breast cancer development and progression. Hsp47 silencing reprogrammed human breast cancer cells to form growth-arrested and/or noninvasive structures in 3D cultures, and to limit tumor growth in xenograft assays by reducing deposition of collagen and fibronectin. Coexpression network analysis also showed that levels of microRNA(miR)-29b and -29c were inversely correlated with expression of Hsp47 and ECM network genes in human breast cancer tissues. We found that miR-29 repressed expression of Hsp47 along with multiple ECM network genes. Ectopic expression of miR-29b suppressed malignant phenotypes of breast cancer cells in 3D culture. Clinically, increased expression of Hsp47 and reduced levels of miR-29b and -29c were associated with poor survival outcomes in breast cancer patients. Our results show that Hsp47 is regulated by miR-29 during breast cancer development and progression, and that increased Hsp47 expression promotes cancer progression in part by enhancing deposition of ECM proteins. Cancer Res; 75(8); 1580–91. ©2015 AACR.
Notch Suppresses Angiogenesis and Progression of Hepatic Metastases
Authors: Banerjee Debarshi , Hernandez Sonia L. , Garcia Alejandro , Kangsamaksin Thaned , Sbiroli Emily , Andrews John , Forrester Lynn Ann , Wei Na , Kadenhe-Chiweshe Angela , Shawber Carrie J. , Kitajewski Jan K. , Kandel Jessica J. , Yamashiro Darrell J. 
Published: March 2015

Abstract
The Notch pathway plays multiple key roles in tumorigenesis, and its signaling components have therefore aroused great interest as targets for emerging therapies. Here, we show that inhibition of Notch, using a soluble receptor Notch1 decoy, unexpectedly caused a remarkable increase in liver metastases from neuroblastoma and breast cancer cells. Increased liver metastases were also seen after treatment with the γ-secretase inhibitor PF-03084014. Transgenic mice with heterozygous loss of Notch1 demonstrated a marked increase in hepatic metastases, indicating that Notch1 signaling acts as metastatic suppressor in the liver microenvironment. Inhibition of DLL1/4 with ligand-specific Notch1 decoys increased sprouting of sinusoidal endothelial cells into micrometastases, thereby supporting early metastatic angiogenic growth. Inhibition of tumor-derived JAG1 signaling activated hepatic stellate cells, increasing their recruitment to vasculature of micrometastases, thereby supporting progression to macrometastases. These results demonstrate that inhibition of Notch causes pathologic activation of liver stromal cells, promoting angiogenesis and growth of hepatic metastases. Our findings have potentially serious implications for Notch inhibition therapy. Cancer Res; 75(8); 1592–602. ©2015 AACR.
IKKβ Enforces a LIN28B/TCF7L2 Positive Feedback Loop That Promotes Cancer Cell Stemness and Metastasis
Authors: Chen Chong , Cao Fengqi , Bai Lipeng , Liu Yan , Xie Junling , Wang Wei , Si Qin , Yang Jian , Chang Antao , Liu Dong , Liu Dachuan , Chuang Tsung-Hsien , Xiang Rong , Luo Yunping 
Published: March 2015

Abstract
Considerable evidence suggests that proinflammatory pathways drive self-renewal of cancer stem-like cells (CSC), but the underlying mechanisms remain mainly undefined. Here we report that the let7 repressor LIN28B and its regulator IKBKB (IKKβ) sustain cancer cell stemness by interacting with the Wnt/TCF7L2 (TCF4) signaling pathway to promote cancer progression. We found that LIN28B expression correlated with clinical progression and stemness marker expression in breast cancer patients. Functional studies demonstrated that the stemness properties of LIN28B-expressing human breast and lung cancer cells were enhanced by IKKβ, whereas loss of LIN28B abolished stemness properties in these settings. These phenomena were driven through interactions with TCF7L2, which enhanced LIN28B expression by direct binding to intron 1 of the LIN28B gene, which in turn promoted TCF7L2 mRNA translation through a positive feedback loop. Notably, RNAi-mediated silencing of LIN28B or pharmacologic inhibition of IKKβ was sufficient to suppress primary and metastatic tumor growth in vivo. Together, our results establish the LIN28B/TCF7L2 interaction loop as a central mediator of cancer stemness driven by proinflammatory processes during progression and metastasis, possibly offering a new therapeutic target for generalized interventions in advanced cancers. Cancer Res; 75(8); 1725–35. ©2015 AACR.