An a priori investigation of astrophysical false positives in ground-based transiting planet surveys

Astrophysical false positives due to stellar eclipsing binaries pose one of the greatest challenges to ground-based surveys for transiting Hot Jupiters. We have used known properties of multiple star systems and Hot Jupiter systems to predict, a priori, the number of such false detections and the number of genuine planet detections recovered in two hypothetical but realistic ground-based transit surveys targeting fields close to the galactic plane (b~10 degrees): a shallow survey covering a magnitude range 10<V<13, and a deep survey covering a magnitude range 15<V<19. Our results are consistent with the commonly-reported experience of false detections outnumbering planet detections by a factor of ~10 in shallow surveys, while in our synthetic deep survey we find ~1-2 false detections for every planet detection. We characterize the eclipsing binary configurations that are most likely to cause false detections and find that they can be divided into three main types: (i) two dwarfs undergoing grazing transits, (ii) two dwarfs undergoing low-latitude transits in which one component has a substantially smaller radius than the other, and (iii) two eclipsing dwarfs blended with one or more physically unassociated foreground stars. We also predict that a significant fraction of Hot Jupiter detections are blended with the light from other stars, showing that care must be taken to identify the presence of any unresolved neighbors in order to obtain accurate estimates of planetary radii. This issue is likely to extend to terrestrial planet candidates in the CoRoT and Kepler transit surveys, for which neighbors of much fainter relative brightness will be important.Comment: 33 pages, 7 figures, 4 tables; To be published in The Astrophysical Journa

The “Grass-Fed” Milk Story: Understanding the Impact of Pasture Feeding on the Composition and Quality of Bovine Milk

peer-reviewedMilk is a highly nutritious food that contains an array of macro and micro components, scientifically proven to be beneficial to human health. While the composition of milk is influenced by a variety of factors, such as genetics, health, lactation stage etc., the animal’s diet remains a key mechanism by which its nutrition and processing characteristics can be altered. Pasture feeding has been demonstrated to have a positive impact on the nutrient profile of milk, increasing the content of some beneficial nutrients such as Omega-3 polyunsaturated fatty acids, vaccenic acid, and conjugated linoleic acid (CLA), while reducing the levels of Omega-6 fatty acids and palmitic acid. These resultant alterations to the nutritional profile of “Grass-Fed” milk resonate with consumers that desire healthy, “natural”, and sustainable dairy products. This review provides a comprehensive comparison of the impact that pasture and non-pasture feeding systems have on bovine milk composition from a nutritional and functional (processability) perspective, highlighting factors that will be of interest to dairy farmers, processors, and consumers

Association of copy number variation across the genome with neuropsychiatric traits in the general population

Copy number variants (CNVs) are associated with psychiatric conditions in clinical populations. The relationship between rare CNV burden and neuropsychiatric traits in young, general populations is underexplored. 6807 children from the Avon Longitudinal Study of Parents and Children (ALSPAC) were studied. CNVs were inferred from SNP-array data using PennCNV. After excluding children with known candidate CNVs for schizophrenia, rare (<1%) CNV burden (total number of genes affected by CNVs, total length of CNVs, and largest CNV carried) was analysed in relation to: psychotic experiences (PEs) and anxiety/depression in adolescence; autism spectrum disorder (ASD) and attention-deficit hyperactivity disorder (ADHD), ASD and ADHD traits, and cognitive measures during childhood. Outcomes were also assessed in relation to known schizophrenia CNVs. The number of genes affected by rare CNVs was associated with a continuous measure of ASD: the standardised mean difference [SMD] per gene affected was increased by 0.018 [95%CI 0.011,0.025], p=3e-07 for duplications and by 0.021 [95%CI 0.010, 0.032], p=1e-04 for deletions. In line with published results on educational attainment in ALSPAC, IQ was associated with CNV burden: the SMD per gene affected was -0.017 [95%CI -0.025,-0.008] p=1e-04 for duplications and -0.023 [95%CI -0.037, -0.009], p=0.002 for deletions. Associations were also observed for measures of coherence, attention, memory, and social cognition. Schizophrenia-associated deletions were associated with IQ (SMD: -0.617 [95%CI -0.936,-0.298], p=2e-04), but not with PEs or other traits. We found that rare CNV burden and known schizophrenia candidate CNVs are associated with neuropsychiatric phenotypes in a non-clinically ascertained sample of young people

Learning from Consortia: Programme story and reflections

The Learning from Consortia programme was set-up to improve international development practice by learning with and supporting 13 UK Aid Connect (UKAC) consortia. The programme aimed to learn from their experiences and insights to draw out good practice in consortium working, as well as helping organisations and donors understand how they can best support consortia. Led by Bond, The Partnering Initiative (TPI) and an academic advisory board, the programme was fully funded by the UK’s Foreign, Commonwealth and Development Office (FCDO). Research was conducted through a participatory process with UKAC consortia, drawing on their experiences from working in diverse partnerships and implementing programmes in the UK, Africa and Asia. There was a focus on five themes – community engagement, consortium working, gender, innovation and value for money – each addressing a set of “learning questions”. The themes had both academic and thematic advisers who worked with the consortia, helping to guide their research and conduct in-depth analysis. The learning and evidence from the programme have been collated into a number of resources and knowledge products, along with a public event held in March 2021. These resources can be accessed through the Learning from Consortia programme’s webpage. (https://www.bond.org.uk/resources-support/learning-from-consortia) In late April 2021, FCDO took the decision to close the Learning from Consortia programme early, as part of the wide-ranging UK Aid cuts. Read Bond’s statement about this decision here. (https://www.bond.org.uk/press-releases/2021/05/government-cuts-50-of-its-funding-to-bond-the-uk-network-for-organisations

Molecular genetic contribution to the developmental course of attention-deficit hyperactivity disorder

Objective: The developmental trajectory of attention-deficit hyperactivity disorder (ADHD) is variable. Utilizing a longitudinally assessed sample, we investigated the contribution of susceptibility gene variants, previously implicated through pooled or meta-analyses, to the developmental course of Attention-Deficit Hyperactivity Disorder over time. Methods: 151 children (aged 6–12) who met diagnostic criteria for ADHD were assessed using research diagnostic interviews during childhood and 5 years later in adolescence. Severity was defined as total number of ADHD symptoms at baseline and reassessment. Association with variants at DRD4, DRD5, and the dopamine transporter gene, DAT was analyzed using linear regression. Results: As expected, affected individuals showed a decline in ADHD severity over time. The DRD4 48 bp VNTR 7-repeat and DRD5 CA(n) microsatellite marker 148 bp risk alleles were associated with persistent ADHD. Those possessing the DRD4 7 repeat risk allele showed less of a decline in severity at reassessment than those without the risk allele. Conclusions: Those carrying the DRD4 7 risk allele showed greater symptom severity at follow-up and less ADHD reduction over time. These findings support the hypothesis that some susceptibility genes for ADHD also influence its developmental course

Thermal Emission and Tidal Heating of the Heavy and Eccentric Planet XO-3b

We determined the flux ratios of the heavy and eccentric planet XO-3b to its parent star in the four IRAC bands of the Spitzer Space Telescope: 0.101% +- 0.004% at 3.6 micron; 0.143% +- 0.006% at 4.5 micron; 0.134% +- 0.049% at 5.8 micron and 0.150% +- 0.036% at 8.0 micron. The flux ratios are within [-2.2,0.3, -0.8, -1.7]-sigma of the model of XO-3b with a thermally inverted stratosphere in the 3.6 micron, 4.5 micron, 5.8 micron and 8.0 micron channels, respectively. XO-3b has a high illumination from its parent star (Fp ~(1.9 - 4.2) x 10^9 ergs cm^-2 s^-1) and is thus expected to have a thermal inversion, which we indeed observe. When combined with existing data for other planets, the correlation between the presence of an atmospheric temperature inversion and the substellar flux is insufficient to explain why some high insolation planets like TrES-3 do not have stratospheric inversions and some low insolation planets like XO-1b do have inversions. Secondary factors such as sulfur chemistry, atmospheric metallicity, amounts of macroscopic mixing in the stratosphere or even dynamical weather effects likely play a role. Using the secondary eclipse timing centroids we determined the orbital eccentricity of XO-3b as e = 0.277 +- 0.009. The model radius-age trajectories for XO-3b imply that at least some amount of tidal-heating is required to inflate the radius of XO-3b, and the tidal heating parameter of the planet is constrained to Qp < 10^6 .Comment: Accepted for publications in The Astrophysical Journa

Effect of pasture versus indoor feeding systems on raw milk composition and quality over an entire lactation

peer-reviewedThe aim of this study was to investigate the effects of different feeding systems on milk quality and composition. Fifty-four multiparous and primiparous Friesian lactating cows were divided into 3 groups (n=18) to study the effects of 3 feeding systems over a full lactation. Group 1 was housed indoors and offered a total mixed ration diet (TMR), group 2 was maintained outdoors on a perennial ryegrass pasture (referred to as grass), and group 3 was also grazed outdoors on a perennial ryegrass/white clover pasture (referred to as clover). Bulk milk samples were collected from each group at morning and afternoon milkings once weekly from March 11 to October 28 in 2015. Milk from pasture-fed cows (grass and clover) had significantly higher concentrations of fat, protein, true protein, and casein. The pasture feeding systems induced significantly higher concentrations of saturated fatty acids C11:0, C13:0, C15:0, C17:0, C23:0, and unsaturated fatty acids C18:2n-6 trans, C18:3n-3, C20:1, and C20:4n-6 and a greater than 2-fold increase in the conjugated linoleic acid C18:2 cis-9,trans-11 content of milk compared with that of the TMR feeding system. The TMR feeding system resulted in milks with increased concentrations of C16:0, C18:2n-6 cis, C18:3n-6 cis, C22:0 C22:1n-9, and C18:2 cis-10,trans-12. Principal component analysis of average fatty acid profiles showed clear separation of milks from the grazed pasture-based diets to that of a TMR system throughout lactation, offering further insight into the ability to verify pasture-derived milk by fatty acid profiling

Changes to the Oligosaccharide Profile of Bovine Milk at the Onset of Lactation

peer-reviewedNumerous bioactive components exist in human milk including free oligosaccharides, which represent some of the most important, and provide numerous health benefits to the neonate. Considering the demonstrated value of these compounds, much interest lies in characterising structurally similar oligosaccharides in the dairy industry. In this study, the impacts of days post-parturition and parity of the cows on the oligosaccharide and lactose profiles of their milk were evaluated. Colostrum and milk samples were obtained from 18 cows 1–5 days after parturition. Three distinct phases were identified using multivariate analysis: colostrum (day 0), transitional milk (days 1–2) and mature milk (days 3–5). LS-tetrasaccharide c, lacto-N-neotetraose, disialyllacto-N-tetraose, 3’-sial-N-acetyllactosamine, 3’-sialyllactose, lacto-N-neohexaose and disialyllactose were found to be highly affiliated with colostrum. Notably, levels of lactose were at their lowest concentration in the colostrum and substantially increased 1-day post-parturition. The cow’s parity was also shown to have a significant effect on the oligosaccharide profile, with first lactation cows containing more disialyllacto-N-tetraose, 6’-sialyllactose and LS-tetrasaccharide compared to cows in their second or third parity. Overall, this study identifies key changes in oligosaccharide and lactose content that clearly distinguish colostrum from transitional and mature milk and may facilitate the collection of specific streams with divergent biological functions

Evolution of the bovine milk fatty acid profile – From colostrum to milk five days post parturition

peer-reviewedMilk was collected from each of 18 cows (presenting an even spread of 1st, 2nd and 3rd lactation): colostrum on the day of calving and subsequent morning milk 1–5 days post parturition. Days post parturition significantly affected the fatty acid profile of colostrum and transition milk samples. The colostrum fatty acid profile was distinctly different from that of mature milk, with significantly higher levels of polyunsaturated and saturated fatty acids. Parity of the cow had a significant effect on the fatty acid profile of colostrum and transition milk samples; conjugated linoleic acid was significantly higher in cows entering their 1st lactation than in those in their 3rd lactation, while multiparous cows produced significantly higher concentrations of C16:0. The changing composition of the fatty acid profile can be classed into three distinct phases: colostrum (D0), transition milk (D1 and D2 post parturition) and mature milk (D3–D5).Teagasc, the Irish Agriculture and Food Development Authority

Leprosy at the edge of Europe-Biomolecular, isotopic and osteoarchaeological findings from medieval Ireland

Relatively little is known of leprosy in Medieval Ireland; as an island located at the far west of Europe it has the potential to provide interesting insights in relation to the historical epidemiology of the disease. To this end the study focuses on five cases of probable leprosy identified in human skeletal remains excavated from inhumation burials. Three of the individuals derived from the cemetery of St Michael Le Pole, Golden Lane, Dublin, while single examples were also identified from Ardreigh, Co. Kildare, and St Patrick's Church, Armoy, Co. Antrim. The individuals were radiocarbon dated and examined biomolecularly for evidence of either of the causative pathogens, M. leprae or M. lepromatosis. Oxygen and strontium isotopes were measured in tooth enamel and rib samples to determine where the individuals had spent their formative years and to ascertain if they had undertaken any recent migrations. We detected M. leprae DNA in the three Golden Lane cases but not in the probable cases from either Ardreigh Co. Kildare or Armoy, Co. Antrim. M. lepromatosis was not detected in any of the burals. DNA preservation was sufficiently robust to allow genotyping of M. leprae strains in two of the Golden Lane burials, SkCXCV (12-13th century) and SkCCXXX (11-13th century). These strains were found to belong on different lineages of the M. leprae phylogenetic tree, namely branches 3 and 2 respectively. Whole genome sequencing was also attempted on these two isolates with a view to gaining further information but poor genome coverage precluded phylogenetic analysis. Data from the biomolecular study was combined with osteological, isotopic and radiocarbon dating to provide a comprehensive and multidisciplinary study of the Irish cases. Strontium and oxygen isotopic analysis indicate that two of the individuals from Golden Lane (SkCXLVIII (10-11th century) and SkCXCV) were of Scandinavian origin, while SkCCXXX may have spent his childhood in the north of Ireland or central Britain. We propose that the Vikings were responsible for introducing leprosy to Ireland. This work adds to our knowledge of the likely origins of leprosy in Medieval Ireland and will hopefully stimulate further research into the history and spread of this ancient disease across the world.</p