Application of genomic and quantitative genetic tools to identify candidate resistance genes for brown rot resistance in peach.

The availability of a complete peach genome assembly and three different peach genome sequences created by our group provide new opportunities for application of genomic data and can improve the power of the classical Quantitative Trait Loci (QTL) approaches to identify candidate genes for peach disease resistance. Brown rot caused by Monilinia spp., is the most important fungal disease of stone fruits worldwide. Improved levels of peach fruit rot resistance have been identified in some cultivars and advanced selections developed in the UC Davis and USDA breeding programs. Whole genome sequencing of the Pop-DF parents lead to discovery of high-quality SNP markers for QTL genome scanning in this experimental population. Pop-DF created by crossing a brown rot moderately resistant cultivar 'Dr. Davis' and a brown rot resistant introgression line, 'F8,1-42', derived from an initial almond × peach interspecific hybrid, was evaluated for brown rot resistance in fruit of harvest maturity over three seasons. Using the SNP linkage map of Pop-DF and phenotypic data collected with inoculated fruit, a genome scan for QTL identified several SNP markers associated with brown rot resistance. Two of these QTLs were placed on linkage group 1, covering a large (physical) region on chromosome 1. The genome scan for QTL and SNP effects predicted several candidate genes associated with disease resistance responses in other host-pathogen systems. Two potential candidate genes, ppa011763m and ppa026453m, may be the genes primarily responsible for M. fructicola recognition in peach, activating both PAMP-triggered immunity (PTI) and effector-triggered immunity (ETI) responses. Our results provide a foundation for further genetic dissection, marker assisted breeding for brown rot resistance, and development of peach cultivars resistant to brown rot

Diagnoses after newly-recorded abdominal pain in primary care: observational cohort study

This is the final version. Available on open access from the Royal College of General Practitioners via the DOI in this recordBackground: Non-acute abdominal pain in primary care is diagnostically challenging. Aim: To quantify the 1-year cumulative incidence of 35 non-malignant diagnoses and 9 cancers in adults after newly-recorded abdominal pain in primary care. Design and setting: Observational cohort study of Clinical Practice Research Datalink records. Methods: Participants (n, %male) aged 40-59 (n=59,864, 50.0%), 60-69 (n=29,461, 49.2%) and ≥70 (n=36,468, 36.9%) had newly-recorded abdominal pain during 01/01/2009-31/12/2013. Age- and sex-stratified 1-year cumulative incidence (95% confidence interval) by diagnosis is reported. Results: Most (>70%) participants had no pre-specified diagnoses after newly-recorded abdominal pain. Non-malignant diagnoses were most common: upper gastrointestinal problems (gastro-oesophageal reflux disease, hiatus hernia, gastritis, oesophagitis, and gastric/duodenal ulcer) in men and urinary tract infection in women. The incidence of upper-gastrointestinal problems plateaued at ≥60 years [40-59: men 4.9% (4.6%–5.1%), women 4.0% (3.8%–4.2%); 60-69: men 5.8% (5.4%–6.2%), women 5.4% (5.1%–5.8%)]. Urinary tract infection incidence increased with age [40-59: women 5.1% (4.8%–5.3%), men 1.1% (1.0%–1.2%); ≥70: women 8.0% (7.6%–8.4%), men 3.3% (3.0%–3.6%)]. Diverticular disease incidence rose with age, plateauing at 4.2% (3.9%–4.6%) in men ≥60, increasing to 6.1% (5.8%–6.4%) in women ≥70. Irritable bowel syndrome incidence was higher in women (40-59: 3.0%, 2.8%–3.2%) than men (40-59: 2.1%, 2.0%–2.3%), decreasing with age to 1.3% (1.2%–1.5%) and 0.6% (0.5%–0.8%) at ≥70. Conclusion: We rank the incidence of diagnoses after newly-recorded abdominal pain by sex and age. While abdominal pain commonly remains unexplained, non-malignant diagnosis are more likely than cancer.UK Department of Health and Social CareNational Institute for Health Research (NIHR)Dennis and Mirelle Gillings FoundationCancer Research UKMacmilla

Cosmology of intersecting brane world models in Gauss-Bonnet gravity

We study the cosmological properties of a codimension two brane world that sits at the intersection between two four branes, in the framework of six dimensional Einstein-Gauss-Bonnet gravity. Due to contributions of the Gauss-Bonnet terms, the junction conditions require the presence of localized energy density on the codimension two defect. The induced metric on this surface assumes a FRW form, with a scale factor associated to the position of the brane in the background; we can embed on the codimension two defect the preferred form of energy density. We present the cosmological evolution equations for the three brane, showing that, for the case of pure AdS$_6$ backgrounds, they acquire the same form of the ones for the Randall-Sundrum II model. When the background is different from pure AdS$_6$, the cosmological behavior is potentially modified in respect to the typical one of codimension one brane worlds. We discuss, in a particular model embedded in an AdS$_6$ black hole, the conditions one should satisfy in order to obtain standard cosmology at late epochs.Comment: 19 pages, no figures, JHEP style. v2: Typos corrected and references adde

Array-conditioned deconvolution of multiple component teleseismic recordings

We investigate the applicability of an array-conditioned deconvolution technique, developed for analyzing borehole seismic exploration data, to teleseismic receiver functions and data preprocessing steps for scattered wavefield imaging. This multichannel deconvolution technique constructs an approximate inverse filter to the estimated source signature by solving an overdetermined set of deconvolution equations, using an array of receivers detecting a common source. We find that this technique improves the efficiency and automation of receiverfunction calculation and data preprocessing workflow. We apply this technique to synthetic experiments and to teleseismic data recorded in a dense array in northern Canada. Our results show that this optimal deconvolution automatically determines and subsequently attenuates the noise from data, enhancing P-to-S converted phases in seismograms with various noise levels. In this context, the array-conditioned deconvolution presents a new, effective and automatic means for processing large amounts of array data, as it does not require any ad-hoc regularization; the regularization is achieved naturally by using the noise present in the array itself

What Is the Best Way to Identify Malignant Transformation Within Pancreatic IPMN: A Systematic Review and Meta-Analyses

OBJECTIVES: Pancreatic intraductal papillary mucinous neoplasias (IPMNs) represent 25% of all cystic neoplasms and are precursor lesions for pancreatic ductal adenocarcinoma. This study aims to identify the best imaging modality for detecting malignant transformation in IPMN, the sensitivity and specificity of risk features on imaging, and the usefulness of tumor markers in serum and cyst fluid to predict malignancy in IPMN. METHODS: Databases were searched from November 2006 to March 2014. Pooled sensitivity and specificity of diagnostic techniques/imaging features of suspected malignancy in IPMN using a hierarchical summary receiver operator characteristic (HSROC) approach were performed. RESULTS: A total of 467 eligible studies were identified, of which 51 studies met the inclusion criteria and 37 of these were incorporated into meta-analyses. The pooled sensitivity and specificity for risk features predictive of malignancy on computed tomography/magnetic resonance imaging were 0.809 and 0.762 respectively, and on positron emission tomography were 0.968 and 0.911. Mural nodule, cyst size, and main pancreatic duct dilation found on imaging had pooled sensitivity for prediction of malignancy of 0.690, 0.682, and 0.614, respectively, and specificity of 0.798, 0.574, and 0.687. Raised serum carbohydrate antigen 19-9 (CA19-9) levels yielded sensitivity of 0.380 and specificity of 0903. Combining parameters yielded a sensitivity of 0.743 and specificity of 0.906. CONCLUSIONS: PET holds the most promise in identifying malignant transformation within an IPMN. Combining parameters increases sensitivity and specificity; the presence of mural nodule on imaging was the most sensitive whereas raised serum CA19-9 (>37 KU/l) was the most specific feature predictive of malignancy in IPMNs

Improving Empathy in Healthcare Consultations-a Secondary Analysis of Interventions.

A recent systematic review of randomised trials suggested that empathic communication improves patient health outcomes. However, the methods for training healthcare practitioners (medical professionals; HCPs) in empathy and the empathic behaviours demonstrated within the trials were heterogeneous, making the evidence difficult to implement in routine clinical practice. In this secondary analysis of seven trials in the review, we aimed to identify (1) the methods used to train HCPs, (2) the empathy behaviours they were trained to perform and (3) behaviour change techniques (BCTs) used to encourage the adoption of those behaviours. This detailed understanding of interventions is necessary to inform implementation in clinical practice. We conducted a content analysis of intervention descriptions, using an inductive approach to identify training methods and empathy behaviours and a deductive approach to describe the BCTs used. The most commonly used methods to train HCPs to enhance empathy were face-to-face training (n = 5), role-playing (n = 3) and videos (self or model; n = 3). Duration of training was varied, with both long and short training having high effect sizes. The most frequently targeted empathy behaviours were providing explanations of treatment (n = 5), providing non-specific empathic responses (e.g. expressing understanding) and displaying a friendly manner and using non-verbal behaviours (e.g. nodding, leaning forward, n = 4). The BCT most used to encourage HCPs to adopt empathy behaviours was "Instruction on how to perform behaviour" (e.g. a video demonstration, n = 5), followed by "Credible source" (e.g. delivered by a psychologist, n = 4) and "Behavioural practice" (n = 3 e.g. role-playing). We compared the effect sizes of studies but could not extrapolate meaningful conclusions due to high levels of variation in training methods, empathy skills and BCTs. Moreover, the methods used to train HCPs were often poorly described which limits study replication and clinical implementation. This analysis of empathy training can inform future research, intervention reporting standards and clinical practice