bluuebunny/crossref_metadata_2025_split huggingface dataset:
Not All Breast Implants Are Equal: A 13-Year Review of Implant Longevity and Reasons for Explantation
Authors: Van Slyke Aaron C. , Carr Michael , Carr Nicholas J. 
Published: June 2018

Background:
Augmentation mammaplasty is the most common aesthetic procedure. Textured implants control implant position and have improved capsular contracture rates; however, the impact of texturing on longevity and clinical findings at explantation is unclear.

Methods:
All cases of explantation between January of 2005 and April of 2017 from an aesthetic practice were reviewed retrospectively. Patient demographics, implant characteristics, time to explantation, and clinical presentation and intraoperative findings at explantation were analyzed.

Results:
Five hundred thirty-nine breast implants were explanted during the study period: 249 saline, 147 smooth gel, 123 Biocell, and 20 other nonaggressively textured breast implants. Average time from placement to explantation was 7.5, 5.6, 4.9, and 4.0 years for saline, other textured, smooth gel, and Biocell implants, respectively (p = 3.25e-08). The percentage of implants removed associated with implant performance failure was 50.3, 57.4, 75.0, and 85.4 percent for smooth gel, saline, other textured, and Biocell implants, respectively (p = 7.25e-09). In addition, 21.1 percent of Biocell implants versus 1.4 percent of all other implants presented with pain (p = 2.71e-15). Forty-five Biocell implants had double capsules; this phenomenon was not observed with any other implant type (p = 5.85e-37). Seven Biocell implants had late seromas, compared to three late seromas with any other implant type (p = 0.0013).

Conclusions:
Here, the authors provide evidence that Biocell implants have the shortest time to explantation and the highest proportion of implants associated with implant performance failure. This information should complement the informed consent process when selecting an appropriate implant.
Robotic Nipple-Sparing Mastectomy with Immediate Prosthetic Breast Reconstruction: Surgical Technique
Authors: Sarfati Benjamin , Struk Samuel , Leymarie Nicolas , Honart Jean-François , Alkhashnam Heba , Kolb Frédéric , Rimareix Françoise 
Published: June 2018

Summary:
Robotic nipple-sparing mastectomy could be a significant advancement in the treatment and prophylaxis of selected breast cancers. Motion-scaling, high-resolution, three-dimensional optics; tremor elimination; and instruments with enhanced precision with 7 degrees of freedom have allowed surgeons to overcome the limitations experienced with the endoscopic approach in breast surgery. Advantages of this procedure, in comparison with the open technique, are a shorter and more acceptable scar located in the lateral thoracic region, and greater respect for the vascularization of the mastectomy skin flap, because there is no incision on the breast and no retractors are used. The authors recently received approval from both the French health authorities and the ethics committee to carry out a clinical trial in their institution to assess feasibility, reproducibility, and safety of robotic nipple-sparing mastectomy with immediate prosthetic breast reconstruction. The aims of this article are to describe the surgical technique they have developed, and to share, through a video, the clinical experience gained from over 60 procedures performed so far.
Prevention of infectious diseases in patients with Good syndrome
Authors: Multani Ashrit , Gomez Carlos A. , Montoya José G. 
Published: June 2018

Purpose of review
Good syndrome is a profoundly immunocompromising condition with heterogeneous immune deficits characterized by the presence of thymoma, low-to-absent B-lymphocyte counts, hypogammaglobulinemia, and impaired cell-mediated immunity. Opportunistic infectious diseases associated with Good syndrome represent a diagnostic and therapeutic challenge, given their protean clinical manifestations. Although these infectious complications have been reviewed in prior publications, recommendations regarding their prevention have been lacking.

Recent findings
Good syndrome usually occurs in adult patients between the ages of 40 and 70 years. Immunologically, it is characterized by low or absent peripheral blood B lymphocytes, hypogammaglobulinemia, and variable defects in cell-mediated immunity including low CD4+ T counts, inverted CD4+:CD8+ T-lymphocyte ratio, and reduced T-lymphocyte mitogen proliferative responses. Patients with Good syndrome are susceptible to a variety of infectious diseases, of which the most common are recurrent bacterial sinopulmonary infections, mucocutaneous candidiasis, and CMV tissue-invasive disease. Preventive guidelines including targeted antimicrobial prophylaxis and vaccination strategies can mitigate infectious complications in patients with Good syndrome.

Summary
Immunological deficits and infectious complications in Good syndrome have been described for over 60 years. Further research is needed to elucidate its exact pathogenesis and define the mechanistic relationship between thymoma and hypogammaglobulinemia. However, tailored prophylactic strategies can be recommended for patients with Good syndrome.
Neuroimaging advances in Parkinson's disease
Authors: Rispoli Vittorio , Schreglmann Sebastian R. , Bhatia Kailash P. 
Published: June 2018

Purpose of review
Neuroimaging in Parkinson's disease is an evolving field, providing in-vivo insights into the structural and biochemical changes of the condition, although its diagnosis remains clinical. Here, we aim to summarize the most relevant recent advances in neuroimaging in Parkinson's disease to assess the underlying disease process, identify a biomarker of disease progression and guide or monitor therapeutic interventions.

Recent findings
The clinical applications of imaging technology increasingly allow to quantify pigments (iron, neuromelanin) on MRI, proteins (tau), cell markers (phosphodiesterases, microglia) and neurotransmitter receptors (dopamine, serotonin, noradrenalin, cholin) via PET protocols, activity maps by resting-state and task-dependent functional MRI, as well as microstructural changes (free water) through diffusion-based assessments. Their application provides increasing insight on the temporal and spatial dynamics of dopaminergic and other neurotransmitter systems as well as anatomical structures and circuits in Parkinson's disease. An expanding list of PET tracers increases the yield of functional studies.

Summary
This review summarizes the most recent, relevant advances in neuroimaging technology in Parkinson's disease. In particular, the combination of different imaging techniques seems promising to maximize the scope of future work, which should, among others, aim at identifying the best imaging marker of disease progression.
Genome-wide abundance of 5-hydroxymethylcytosine in breast tissue reveals unique function in dynamic gene regulation and carcinogenesis
Authors: Wilkins Owen M. , Johnson Kevin C. , Houseman E. Andres , King Jessica E. , Marsit Carmen J. , Christensen Brock C. 
Published: June 2018

Abstract5-hydroxymethylcytosine (5hmC) is generated by oxidation of 5-methylcytosine (5mC), however little is understood regarding the distribution and functions of 5hmC in mammalian cells. We determined the genome-wide distribution of 5hmC and 5mC in normal breast tissue from disease-free women. Although less abundant than 5mC, 5hmC is differentially distributed, and consistently enriched among breast-specific enhancers and transcriptionally active chromatin. In contrast, regulatory regions associated with transcriptional inactivity were relatively depleted of 5hmC. Gene regions containing abundant 5hmC were significantly associated with lactate oxidation, immune cell function, and prolactin signaling pathways. In independent data sets, normal breast tissue 5hmC was significantly enriched among CpG loci demonstrated to have altered methylation in pre-invasive breast cancer and invasive breast tumors. Our findings provide a genome-wide map of nucleotide-level 5hmC in normal breast tissue and demonstrate that 5hmC is positioned to contribute to gene regulatory functions which protect against carcinogenesis.
The effect of the stress hormone cortisol on the metatranscriptome of the oral microbiome
Authors: Duran-Pinedo Ana E. , Solbiati Jose , Frias-Lopez Jorge 
Published: June 2018

ABSTRACTImbalances of the microbiome also referred to as microbial dysbiosis, could lead to a series of different diseases. One factor that has been shown to lead to dysbiosis of the microbiome is exposure to psychological stressors. Throughout evolution microorganisms of the human microbiome have developed systems for sensing host-associated signals such as hormones associated with those stressors, enabling them to recognize essential changes in its environment thus changing its expression gene profile to fit the needs of the new environment. The most widely accepted theory explaining the ability of hormones to affect the outcome of an infection involves the suppression of the immune system. Commensal microbiota is involved in stressor-induced immunomodulation, but other biological effects are not yet known. Here we present the impact that cortisol had on the community-wide transcriptome of the oral community. We used a metatranscriptomic approach to obtain first insights into the metabolic changes induced by this stress hormone as well as which members of the oral microbiome respond to the presence of cortisol in the environment. Our findings show that the stress hormone cortisol directly induces shifts in the gene expression profiles of the oral microbiome that reproduce results found in the profiles of expression of periodontal disease and its progression.
Recovered and dead outcome patients caused by influenza A (H7N9) virus infection show different pro-inflammatory cytokine dynamics during disease progress and its application in real-time prognosis
Authors: Liu Yingxia , Wang Xinfa , Zhu Houshun , Ma Jinmin , Lu Zhe , Yuan Jing , Li Jianming , Li Jiandong , Ren Yan , Wen Bo , Ouyang Wenjie , Zheng Haixia , Zou Rongrong , Bi Yuhai , Yin Changcheng , Guo Zhenyu , Sun Wanying , Pei Na , Li Junhua , Zhu Shida , Yang Huanming , Liu Lei , Xu Xun , Liu Siqi , Wang Hui , Li Liqiang 
Published: June 2018

AbstractThe persistent circulation of influenza A(H7N9) virus within poultry markets and human society leads to sporadic epidemics of influenza infections. Severe pneumonia and acute respiratory distress syndrome (ARDS) caused by the virus lead to high morbidity and mortality rates in patients. Hyper induction of pro-inflammatory cytokines, which is known as “cytokine storm”, is closely related to the process of viral infection. However, systemic analyses of H7N9 induced cytokine storm and its relationship with disease progress need further illuminated. In our study we collected 75 samples from 24 clinically confirmed H7N9-infected patients at different time points after hospitalization. Those samples were divided into three groups, which were mild, severe and fatal groups, according to disease severity and final outcome. Human cytokine antibody array was performed to demonstrate the dynamic profile of 80 cytokines and chemokines. By comparison among different prognosis groups and time series, we provide a more comprehensive insight into the hypercytokinemia caused by H7N9 influenza virus infection. Different dynamic changes of cytokines/chemokines were observed in H7N9 infected patients with different severity. Further, 33 cytokines or chemokines were found to be correlated with disease development and 11 of them were identified as potential therapeutic targets. Immuno-modulate the cytokine levels of IL-8, IL-10, BLC, MIP-3a, MCP-1, HGF, OPG, OPN, ENA-78, MDC and TGF-β 3 are supposed to be beneficial in curing H7N9 infected patients. Apart from the identification of 35 independent predictors for H7N9 prognosis, we further established a real-time prediction model with multi-cytokine factors for the first time based on maximal relevance minimal redundancy method, and this model was proved to be powerful in predicting whether the H7N9 infection was severe or fatal. It exhibited promising application in prognosing the outcome of a H7N9 infected patients and thus help doctors take effective treatment strategies accordingly.
Zombi: A phylogenetic simulator of trees, genomes and sequences that accounts for dead lineages
Authors: Davín Adrián A. , Tricou Théo , Tannier Eric , de Vienne Damien M. , Szöllősi Gergely J. 
Published: June 2018

AbstractSummaryHere we present Zombi, a tool to simulate the evolution of species, genomes and sequences in silico, that considers for the first time the evolution of genomes in extinct lineages. It also incorporates various features that have not to date been combined in a single simulator, such as the possibility of generating species trees with a pre-defined variation of speciation and extinction rates through time, simulating explicitly intergenic sequences of variable length and outputting gene tree - species tree reconciliations.Availability and implementationSource code and manual are freely available in https://github.com/AADavin/ZOMBI/Contactaaredav@gmail.com
A two-locus hybrid incompatibility is widespread, polymorphic, and active in natural populations of Mimulus
Authors: Zuellig Matthew P. , Sweigart Andrea L. 
Published: June 2018

ABSTRACTReproductive isolation, which is essential for the maintenance of species in sympatry, is often incomplete between closely related species. In these taxa, reproductive barriers must continue to evolve within species, without being degraded by ongoing gene flow. To better understand this dynamic, we investigated the frequency and distribution of incompatibility alleles at a two-locus, recessive-recessive hybrid lethality system between species of yellow monkeyflower (Mimulus guttatus and M. nasutus) that hybridize in nature. We found that M. guttatus typically carries hybrid lethality alleles at one locus (hl13) and M. nasutus typically carries hybrid lethality alleles at the other locus (hl14). As a result, most naturally formed hybrids will carry incompatible alleles at both loci, with the potential to express hybrid lethality in later generations. Despite this general pattern, we also discovered considerable polymorphism at both hl13 and hl14 within both Mimulus species. For M. guttatus, polymorphism at both loci even occurs within populations, meaning that incompatible allele pairings might also often arise through regular, intraspecific gene flow. By examining genetic variation linked to hl13 and hl14, we discovered that introgression from M. nasutus is a primary driver of this polymorphism within M. guttatus. Additionally, patterns of introgression at the two hybrid lethality loci suggest that natural selection acts to eliminate incompatible allele pairings, providing evidence that even weak reproductive barriers might promote genomic divergence between species.
Re-programming ofPseudomonas syringaepv.actinidiaegene expression during early stages of infection of kiwifruit
Authors: McAtee Peter A. , Brian Lara , Curran Ben , van der Linden Otto , Nieuwenhuizen Niels J. , Chen Xiuyin , Henry-Kirk Rebecca , Stroud Erin A. , Nardozza Simona , Jayaraman Jay , Rikkerink Erik H. A. , Print Cris G. , Allan Andrew C. , Templeton Matthew D. 
Published: June 2018

AbstractBackgroundPseudomonas syringaeis a widespread bacterial species complex that includes a number of significant plant pathogens. Amongst these,P. syringaepv.actinidiae(Psa) initiated a worldwide pandemic in 2008 on cultivars ofActinidia chinensisvar.chinensis. To gain information about the expression of genes involved in pathogenicity we have carried out transcriptome analysis ofPsaduring the early stages of kiwifruit infection.ResultsGene expression inPsawas investigated during the first five days after infection of kiwifruit plantlets, using RNA-seq. Principal component and heatmap analyses showed distinct phases of gene expression during the time course of infection. The first phase was an immediate transient peak of induction around three hours post inoculation (HPI) that included genes that code for a Type VI Secretion System and nutrient acquisition (particularly phosphate). This was followed by a significant commitment, between 3 and 24 HPI, to the induction of genes encoding the Type III Secretion System (T3SS) and Type III Secreted Effectors (T3SE). Expression of these genes collectively accounted for 6.3% of the bacterial transcriptome at this stage. There was considerable variation in the expression levels of individual T3SEs but all followed the same temporal expression pattern, with the exception of HopAS1, which peaked later in expression at 48 HPI. As infection progressed over the time course of five days, there was an increase in the expression of genes with roles in sugar, amino acid and sulfur transport and the production of alginate and colanic acid. These are both polymers that are major constituents of extracellular polysaccharide substances (EPS) and are involved in biofilm production. Reverse transcription-quantitative PCR (RT-qPCR) on an independent infection time course experiment showed that the expression profile of selected bacterial genes at each infection phase correlated well with the RNA-seq data.ConclusionsThe results from this study indicate that there is a complex remodeling of the transcriptome during the early stages of infection, with at least three distinct phases of coordinated gene expression. These include genes induced during the immediate contact with the host, those involved in the initiation of infection, and finally those responsible for nutrient acquisition.
RBV: Read balance validator, a tool for prioritising copy number variations in germline conditions
Authors: Whitford Whitney , Lehnert Klaus , Snell Russell G. , Jacobsen Jessie C. 
Published: June 2018

AbstractBackgroundThe popularisation and decreased cost of genome resequencing has resulted in an increased use in molecular diagnostics. While there are a number of established and high quality bioinfomatic tools for identifying small genetic variants including single nucleotide variants and indels, currently there is no established standard for the detection of copy number variants (CNVs) from sequence data. The requirement for CNV detection from high throughput sequencing has resulted in the development of a large number of software packages. These tools typically utilise the sequence data characteristics: read depth, split reads, read pairs, and assembly-based techniques. However the additional source of information from read balance, defined as relative proportion of reads of each allele at each position, has been underutilised in the existing applications.ResultsWe present Read Balance Validator (RBV), a bioinformatic tool which uses read balance for prioritisation and validation of putative CNVs. The software simultaneously interrogates nominated regions for the presence of deletions or multiplications, and can differentiate larger CNVs from diploid regions. Additionally, the utility of RBV to test for inheritance of CNVs is demonstrated in this report.ConclusionsRBV is a CNV validation and prioritisation bioinformatic tool for both genome and exome sequencing available as a python package from https://github.com/whitneywhitford/RBV
Antiviral viral compound fromStreptomyces ghanaensislike strain against white spot syndrome virus (WSSV) of shrimp
Authors: Rajkumar T. , Manimaran M. , Taju G. , Vimal S. , Majeed S. Abdul , Kannabiran K. , Sivakumar S. , Kumar K.M. , Madhan S. , Sahul Hameed A.S. 
Published: June 2018

AbstractActinomycetes isolates collected from different environments were screened for antiviral activity against WSSV. One isolate designated as CAHSH-2 showed antiviral activity against WSSV at the concentration of 0.2 mg per shrimp. The laboratory trial of determining antiviral activity of ethyl acetate extract (EtOAcE) of CAHSH-2 against WSSV was carried out 21 times since 2014. CAHSH-2 isolate which showed antiviral activity was characterized and identified asStreptomyces ghanaensislike strain. Among the five fractions obtained from EtOAcE of potential actinomycetes isolate, F1 was found to have strong antiviral activity. The F1A and F1B sub-fractions from F1 fraction were subjected to GC-MS, FTIR,1H and13C NMR analyses and, the compounds identified were di-n-octyl phthalate and bis (2-methylheptyl) phthalate, respectively. Among these compounds, di-n-octyl phthalate showed strong antiviral activity against WSSV. Molecular docking studies revealed that di-n-octyl phthalate was found to have high binding affinity with VP26 and VP28 proteins of WSSV, whereas the bis (2-methylheptyl) phthalate showed low binding affinity with VP26 and VP28. The antiviral activity of EtOAcE of actinomycetes against WSSV was confirmed by PCR, RT-PCR, Western blot and ELISA. The EA extract of active isolate was found to be non-toxic toArtemia, post-larvae and adultLitopenaeus vannamei.ImportanceWhite spot syndrome virus (WSSV) is an important shrimp viral pathogen and responsible for huge economic loss to shrimp culture industry worldwide including India. The global loss due to WSSV has been estimated about USD 10 billion and the loss continues at the same extent even now. Various strategies have been followed to prevent or control diseases of aquatic animals. In spite of various preventive and control strategies, WSSV has been still persisting for more than two decades. No control strategies have so far been evolved to put a break to WSSV. In this situation, an attempt was made in the present work to screen some actinomycetes isolates for antiviral activity against WSSV. Among these isolates, one isolate identified asStreptomyces ghanaensislike isolate CAHSH-2 showed activity against WSSV. This article gives the information about the antiviral compound against WSSV and the mechanism of viral inhibition.
Tissue spatial correlation as cancer marker
Authors: Takabayashi Masanori , Majeed Hassaan , Kajdacsy-Balla Andre , Popescu Gabriel 
Published: June 2018

AbstractWe propose a new intrinsic cancer marker in fixed tissue biopsy slides, which is based on the local spatial autocorrelation length obtained from quantitative phase images. The spatial autocorrelation length in a small region of the tissue phase image is sensitive to the nanoscale cellular morphological alterations and can hence inform on carcinogenesis. Therefore, this metric can potentially be used as an intrinsic cancer marker in histopathology. Typically, these correlation length maps are calculated by computing 2D Fourier transforms over image sub-regions – requiring long computational times. In this paper, we propose a more time efficient method of computing the correlation map and demonstrate its value for diagnosis of benign and malignant breast tissues. Our methodology is based on highly sensitive quantitative phase imaging data obtained by spatial light interference microscopy (SLIM).