Changing environments and genetic variation: natural variation in inbreeding does not compromise short-term physiological responses

Selfing plant lineages are surprisingly widespread and successful in a broad range of environments, despite showing reduced genetic diversity, which is predicted to reduce their long-term evolutionary potential. However, appropriate short-term plastic responses to new environmental conditions might not require high levels of standing genetic variation. In this study, we tested whether mating system variation among populations, and associated changes in genetic variability, affected short-term responses to environmental challenges. We compared relative fitness and metabolome profiles of naturally outbreeding (genetically diverse) and inbreeding (genetically depauperate) populations of a perennial plant, Arabidopsis lyrata, under constant growth chamber conditions and an outdoor common garden environment outside its native range. We found no effect of inbreeding on survival, flowering phenology or short-term physiological responses. Specifically, naturally occurring inbreeding had no significant effects on the plasticity of metabolome profiles, using either multivariate approaches or analysis of variation in individual metabolites, with inbreeding populations showing similar physiological responses to outbreeding populations over time in both growing environments. We conclude that low genetic diversity in naturally inbred populations may not always compromise fitness or short-term physiological capacity to respond to environmental change, which could help to explain the global success of selfing mating strategies

Feral populations of Brassica oleracea along Atlantic coasts in western Europe

EAM was funded by a University of Glasgow Lord Kelvin Adam Smith PhD studentship; UZI was funded by a NERC Independent Research Fellowship (NE/L011956); CAC is supported by the BBSRC (BB/P004202/1); KAM utilized equipment funded by the Wellcome Trust Institutional Strategic Support Fund (WT097835MF), Wellcome Trust Multi‐User Equipment Award (WT101650MA), and BBSRC LOLA award (BB/K003240/1). Part of the work was supported by a British Society for Plant Pathology summer studentship, and grants from the Botanical Research Fund, and the Blodwen Lloyd Bins trust funded through the Glasgow Natural History Society.There has been growing emphasis on the role that crop wild relatives might play in supporting highly selected agriculturally valuable species in the face of climate change. In species that were domesticated many thousands of years ago, distinguishing wild populations from escaped feral forms can be challenging, but reintroducing variation from either source could supplement current cultivated forms. For economically important cabbages (Brassicaceae: Brassica oleracea), “wild” populations occur throughout Europe but little is known about their genetic variation or potential as resources for breeding more resilient crop varieties. The main aim of this study was to characterize the population structure of geographically isolated wild cabbage populations along the coasts of the UK and Spain, including the Atlantic range edges. Double-digest restriction-site-associated DNA sequencing was used to sample individual cabbage genomes, assess the similarity of plants from 20 populations, and explore environment–genotype associations across varying climatic conditions. Interestingly, there were no indications of isolation by distance; several geographically close populations were genetically more distinct from each other than to distant populations. Furthermore, several distant populations shared genetic ancestry, which could indicate that they were established by escapees of similar source cultivars. However, there were signals of local adaptation to different environments, including a possible relationship between genetic diversity and soil pH. Overall, these results highlight wild cabbages in the Atlantic region as an important genetic resource worthy of further research into their relationship with existing crop varieties.Publisher PDFPeer reviewe

Comparison of the perceived image quality between two digital imaging systems for neonatal bedside radiography – a case study

BACKGROUND : Chest X-rays are performed daily in the neonatal intensive care and high care units. The skill of the radiographer is critical for obtaining the best image quality and limiting the patient's radiation exposure. The literature states that indirect flat panel detectors produce images of superior quality in comparison to computed radiography systems. At Steve Biko Academic Hospital a decision was made to revert from the direct digital radiography (DR) system to the computed radiography (CR) system, due to poor image quality experienced. METHOD : The case study objective was to conduct a comparative analysis describing key technical factors contributing to image quality. The analysis entailed retrospectively comparing the images obtained during 2010 and 2011. An image analysis form was utilised in evaluating the technical aspects of the image. A total of 160 images were viewed by 16 participants sampled from the radiography, radiology and paediatric departments. The participants were asked to re-evaluate two of their allotted images after five days to determine their reliability. RESULTS : Findings were that the DR system provides significantly better image quality than the CR system (p < 0.05) for all the technical factors evaluated. However technical improvements are recommended. A wide variance in intra-observer reliability was also found. CONCLUSION : This case study demonstrated that DR images were considered to be superior to CR images. Recommendations include: a standardised technique for imaging the neonates; optimisation of the imaging software for the digital detectors, improved feedback systems in terms of exposure index values, and the training of radiographers and referring physicians in technical image analysis.http://www.elsevier.com/locate/radihj201

Changing environments and genetic variation: natural variation in inbreeding does not compromise short-term physiological responses

Selfing plant lineages are surprisingly widespread and successful in a broad range of environments, despite showing reduced genetic diversity, which is predicted to reduce their long-term evolutionary potential. However, appropriate short-term plastic responses to new environmental conditions might not require high levels of standing genetic variation. In this study, we tested whether mating system variation among populations, and associated changes in genetic variability, affected short-term responses to environmental challenges. We compared relative fitness and metabolome profiles of naturally outbreeding (genetically diverse) and inbreeding (genetically depauperate) populations of a perennial plant, Arabidopsis lyrata, under constant growth chamber conditions and an outdoor common garden environment outside its native range. We found no effect of inbreeding on survival, flowering phenology or short-term physiological responses. Specifically, naturally occurring inbreeding had no significant effects on the plasticity of metabolome profiles, using either multivariate approaches or analysis of variation in individual metabolites, with inbreeding populations showing similar physiological responses to outbreeding populations over time in both growing environments. We conclude that low genetic diversity in naturally inbred populations may not always compromise fitness or short-term physiological capacity to respond to environmental change, which could help to explain the global success of selfing mating strategies

Blowout limits of turbulent jet diffusion flames for arbitrary source conditions

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/76791/1/AIAA-25186-342.pd

Time-Resolved SAXS Studies of the Kinetics of Thermally Triggered Release of Encapsulated Silica Nanoparticles from Block Copolymer Vesicles

Silica-loaded poly(glycerol monomethacrylate)-poly(2-hydroxypropyl methacrylate) diblock copolymer vesicles are prepared in the form of concentrated aqueous dispersions via polymerization-induced self-assembly (PISA). As the concentration of silica nanoparticles present during the PISA synthesis is increased up to 35% w/w, higher degrees of encapsulation of this component within the vesicles can be achieved. After centrifugal purification to remove excess non-encapsulated silica nanoparticles, SAXS, DCP, and TGA analysis indicates encapsulation of up to hundreds of silica nanoparticles per vesicle. In the present study, the thermally triggered release of these encapsulated silica nanoparticles is examined by cooling to 0 °C for 30 min, which causes in situ vesicle dissociation. Transmission electron microscopy studies confirm the change in diblock copolymer morphology and also enable direct visualization of the released silica nanoparticles. Time-resolved small-angle X-ray scattering is used to quantify the extent of silica release over time. For an initial silica concentration of 5% w/w, cooling induces a vesicle-to-sphere transition with subsequent nanoparticle release. For higher silica concentrations (20 or 30% w/w) cooling only leads to perforation of the vesicle membranes, but silica nanoparticles are nevertheless released through the pores. For vesicles prepared in the presence of 30% w/w silica, the purified silica-loaded vesicles were cooled to 0 °C for 30 min, and SAXS patterns were collected every 15 s. A new SAXS model has been developed to determine both the mean volume fraction of encapsulated silica within the vesicles and the scattering length density. Satisfactory data fits to the experimental SAXS patterns were obtained using this model

In situ small-angle X-ray scattering studies of sterically-stabilized diblock copolymer nanoparticles formed during polymerization-induced self-assembly in non-polar media

Reversible addition–fragmentation chain transfer (RAFT) dispersion polymerization of benzyl methacrylate (BzMA) is utilized to prepare a series of poly(stearyl methacrylate)–poly(benzyl methacrylate) (PSMA–PBzMA) diblock copolymer nano-objects at 90 °C directly in mineral oil. Polymerization-induced self-assembly (PISA) occurs under these conditions, with the resulting nanoparticles exhibiting spherical, worm-like or vesicular morphologies when using a relatively short PSMA13 macromolecular chain transfer agent (macro-CTA), as confirmed by transmission electron microscopy (TEM) and small-angle X-ray scattering (SAXS) studies. Only kinetically-trapped spherical nanoparticles are obtained when using longer macro-CTAs (e.g. PSMA18 or PSMA31), with higher mean degrees of polymerization (DPs) for the PBzMA core-forming block simply producing progressively larger spheres. SAXS is used for the first time to monitor the various morphological transitions that occur in situ during the RAFT dispersion polymerization of BzMA when targeting either spheres or vesicles as the final copolymer morphology. This powerful characterization technique enables the evolution of particle diameter, mean aggregation number, number of copolymer chains per unit surface area (Sagg) and the distance between adjacent copolymer chains at the core–shell interface (dint) to be monitored as a function of monomer conversion for kinetically-trapped spheres. Moreover, the gradual evolution of copolymer morphology during PISA is confirmed unequivocally, with approximate ‘lifetimes’ assigned to the intermediate pure sphere and worm morphologies when targeting PSMA13–PBzMA150 vesicles. Within vesicle phase space, the membrane thickness (Tm) increases monotonically with PBzMA DP. Furthermore, a combination of dynamic light scattering (DLS), TEM and post mortem SAXS studies indicate that the lumen volume is reduced while the overall vesicle dimensions remain essentially constant. Thus the constrained vesicles grow inwards, as recently reported for an aqueous PISA formulation. This suggests a universal vesicle growth mechanism for all PISA formulations

Adding complexity to complexity: Gene family evolution in polyploids

Comparative genomics of non-model organisms has resurrected whole genome duplication (WGD) from being viewed as a somewhat obscure process that happens in plants to a primary driver of eukaryotic diversification. The shadow of past ploidy increases has left a strong signature of duplicated genes organized into gene families, even in small genomes that have undergone effectively complete rediploidization. Nevertheless, despite continually advancing technologies and bioinformatics pipelines, resolving the fate of duplicate genes remains a substantial challenge. For example, many important recognition processes are driven not only by allelic expansion through retention of duplicates but also by diversification and copy number variation. This creates technical difficulties with assembly to reference genomes and accurate interpretation of homology. Thus, relatively little is known about the impacts of recent polyploidization and hybridization on the evolution of gene families under selective forces that maintain diversity, such as balancing selection. Here we use a complex of species and ploidy levels in the genus Arabidopsis (A. lyrata and A. arenosa) as a model to investigate the evolutionary dynamics of a large and complicated gene family known to be under strong balancing selection: the receptor-like kinases, which include the female component of genetically controlled self-incompatibility. Specifically, we question: (1) How does diversity of S-receptor kinase (SRK) alleles in tetraploids compare to that in their close diploid relatives? (2) Is there increased trans-specific polymorphism (i.e., sharing of alleles that transcend speciation, characteristic of balancing selection) in tetraploids compared to diploids due to the higher number of copies they carry? (3) Do these highly variable loci show evidence of introgression among extant species/ploidy levels within or outside known zones of hybridization? (4) Is there evidence for copy number variation among paralogs? We use this example to highlight specific issues to consider when interpreting gene family evolution, particularly in relation to polyploids but also more generally in diploids. We conclude with recommendations for strategies to address the challenges of resolving such complex loci in the future, using advances in deep sequencing approaches