Talking Glossary of Genomics Terminology: A Genomics Education Module for American Indian Communities

This paper describes the development of an audio visual genomics glossary that was designed as an education tool for American Indian communities. This “Talking Glossary of Genomics Terminology” is a multimedia DVD that was modeled on the “Talking Glossary of Genetics,” which was developed by the National Human Genome Research Institute (NHGRI). The NHGRI Glossary was modified and expanded with content designed to increase awareness among American Indians about cancer, genomics, and personalized medicine. Partners on the project include the Inter Tribal Council of Arizona, Inc., Phoenix Indian Medical Center, Arizona Cancer Center at the University of Arizona, the Translational Genomics Research Institute, as well as Arizona State University and University of Arizona graduate students

Mutations in shaking-B prevent electrical synapse formation in the Drosophila giant fiber system

The giant fiber system (GFS) is a simple network of neurons that mediates visually elicited escape behavior in Drosophila. The giant fiber (GF), the major component of the system, is a large, descending interneuron that relays visual stimuli to the motoneurons that innervate the tergotrochanteral jump muscle (TTM) and dorsal longitudinal flight muscles (DLMs). Mutations in the neural transcript from the shaking-B locus abolish the behavioral response by disrupting transmission at some electrical synapses in the GFS. This study focuses on the role of the gene in the development of the synaptic connections. Using an enhancer-trap line that expresses lacZ in the GFs, we show that the neurons develop during the first 30 hr of metamorphosis. Within the next 15 hr, they begin to form electrical synapses, as indicated by the transfer of intracellularly injected Lucifer yellow. The GFs dye-couple to the TTM motoneuron between 30 and 45 hr of metamorphosis, to the peripherally synapsing interneuron that drives the DLM motoneurons at approximately 48 hr, and to giant commissural interneurons in the brain at approximately 55 hr. Immunocytochemistry with shaking-B peptide antisera demonstrates that the expression of shaking-B protein in the region of GFS synapses coincides temporally with the onset of synaptogenesis; expression persists thereafter. The mutation shak-B2, which eliminates protein expression, prevents the establishment of dye coupling shaking-B, therefore, is essential for the assembly and/or maintenance of functional gap junctions at electrical synapses in the GFS

Developing and evaluating a model of public involvement and engagement embedded in a national longitudinal study : HealthWise Wales

Acknowledgements: We acknowledge and thank the contribution of all the HWW Champion and Supporters who provided input to the protocol, collaborated with the research team and attended the events. We also thank Ameeta Richardson who helped facilitate the HWW Champion model. Funding HWW is funded by Health and Care Research Wales.Peer reviewedPublisher PD

Comparative Metabolite Fingerprinting of the Rumen System during Colonisation of Three Forage Grass (Lolium perenne L.) Varieties

The rumen microbiota enable ruminants to degrade complex ligno-cellulosic compounds to produce high quality protein for human consumption. However, enteric fermentation by domestic ruminants generates negative by-products: greenhouse gases (methane) and environmental nitrogen pollution. The current lack of cultured isolates representative of the totality of rumen microbial species creates an information gap about the in vivo function of the rumen microbiota and limits our ability to apply predictive biology for improvement of feed for ruminants. In this work we took a whole ecosystem approach to understanding how the metabolism of the microbial population responds to introduction of its substrate. Fourier Transform Infra Red (FTIR) spectroscopy-based metabolite fingerprinting was used to discriminate differences in the plant-microbial interactome of the rumen when using three forage grass varieties (Lolium perenne L. cv AberDart, AberMagic and Premium) as substrates for microbial colonisation and fermentation. Specific examination of spectral regions associated with fatty acids, amides, sugars and alkanes indicated that although the three forages were apparently similar by traditional nutritional analysis, patterns of metabolite flux within the plant-microbial interactome were distinct and plant genotype dependent. Thus, the utilisation pattern of forage nutrients by the rumen microbiota can be influenced by subtleties determined by forage genotypes. These data suggest that our interactomic approach represents an important means to improve forages and ultimately the livestock environment

A route to decreasing N pollution from livestock:Use of Festulolium hybrids improves efficiency of N flows in rumen simulation fermenters

Ruminant agriculture suffers from inefficient capture of forage protein and consequential release of N pollutants to land. This is due to proteolysis in the rumen catalyzed by both microbial but initially endogenous plant proteases. Plant breeding-based solutions are sought to minimize these negative environmental impacts. The aim of this study was to perform an integrated study of rumen N metabolism using semi-continuous rumen simulation fermenters (Rusitec) to explore the extent to which swards containing Festulolium populations (interspecific hybrids between Lolium and Festuca grass species) with decreased rates of endogenous protein degradation conferred advantageous protein utilization in comparison with a National Listed perennial ryegrass. An in vitro experiment was conducted using three Festulolium hybrids (Lolium perenne × Festuca arundinacea var. glaucescens, LpFg; Lolium perenne × Festuca mairei, LpFm; and Lolium multiflorum × Festuca arundinacea var. glaucescens, LmFg) and a Lolium perenne, Lp control. LpFm and LmFg demonstrated significantly lower plant-mediated proteolysis than the control. Fresh forage was incubated in Rusitec with rumen fluid from four donor cows. Feed disappearance and production of gas, methane, and volatile fatty acids were similar across cultivars. Whereas no differences in microbial protein synthesis were noted across treatments during early fermentation (0–6 hr after feeding), an increased microbial N flow in LpFm (+30%) and LmFg hybrids (+41%) was observed during late fermentation (6–24 hr after feeding), with higher overall microbial N flows (+13.5% and + 20.2%, respectively) compared with the control (Lp). We propose an underpinning mechanism involving the partitioning of amino acid catabolism toward branched-chain amino acids and microbial protein synthesis in grasses with slow plant-mediated proteolysis instead of accumulation of rumen ammonia in grasses with fast plant-mediated proteolysis. These observations indicate the potential of Festulolium hybrids with a slow plant-mediated proteolysis trait to improve the efficiency of capture of forage protein and decrease the release of N pollutants onto the land.The authors thank the field work staff for growth and maintenance of field plots of the grass material, the staff at Trawsgoed “D‐unit” for provision of rumen fluid, Delma Jones and the staff of Analytical Chemistry for forage quality analysis, Susan Girdwood for VFA analysis, and Debbie Allen for 15N analyses. This work was funded by BBSRC (BBS/E/W/10964; BBS/E/W/0012843D) and Aberystwyth University (SK). Biotechnology and Biological Sciences Research Council. Grant Numbers: BBS/E/W/0012843D, BBS/E/W/1096

Detection of Galba truncatula, Fasciola hepatica and Calicophoron daubneyi environmental DNA within water sources on pasture land, a future tool for fluke control?

Abstract Background: Increasing trematode prevalence and disease occurrence in livestock is a major concern. With the global spread of anthelmintic resistant trematodes, future control strategies must incorporate approaches focusing on avoidance of infection. The reliance of trematodes on intermediate snail hosts to successfully complete their life-cycle means livestock infections are linked to the availability of respective snail populations. By identifying intermediate snail host habitats, infection risk models may be strengthened whilst farmers may confidently apply pasture management strategies to disrupt the trematode life-cycle. However, accurately identifying and mapping these risk areas is challenging. Methods: In this study, environmental DNA (eDNA) assays were designed to reveal Galba truncatula, Fasciola hepatica and Calicophoron daubneyi presence within water sources on pasture land. eDNA was captured using a filter-based protocol, with DNA extracted using the DNeasy? PowerSoil? kit and amplified via PCR. In total, 19 potential G. truncatula habitats were analysed on four farms grazed by livestock infected with both F. hepatica and C. daubneyi. Results: Galba truncatula eDNA was identified in 10/10 habitats where the snail was detected by eye. Galba truncatula eDNA was also identified in four further habitats where the snail was not physically detected. Fasciola hepatica and C. daubneyi eDNA was also identified in 5/19 and 8/19 habitats, respectively. Conclusions: This study demonstrated that eDNA assays have the capabilities of detecting G. truncatula, F. hepatica and C. daubneyi DNA in the environment. Further assay development will be required for a field test capable of identifying and quantifying F. hepatica and C. daubneyi infection risk areas, to support future control strategies. An eDNA test would also be a powerful new tool for epidemiological investigations of parasite infections on farms.publishersversionPeer reviewe

Glitches in the technonatural present

Ecological collapse and the proliferation of digitally mediated relations are two conjoined elements of the ‘technonatural present’, which pose varied challenges and openings for the future of geographical thought and praxis beyond the delineated sub-disciplinary concerns of more-than-human and digital geographies. In this commentary, we draw attention to the inseparability, now and into the future, of geographical thought and praxis from digital mediation. This mediation is also central to forms of encounter, exploitation, and governance shaping human-nonhuman relations. Within this complex nexus of humans, nonhumans, environments, and technologies, it is crucial to critically examine how nature is made (mediated) and remade (remediated), by whom, for whom, and with whom. We call for research that affirmatively centres the potentials for progressive digitally-mediated environmentalisms, drawing from Agnieszka Leszczynski and Sarah Elwood’s work on ‘glitch epistemologies’. To conclude, we point to a series of themes and questions that geographers might usefully engage with as they navigate digitally (re)mediated catastrophic times

Digital ecologies: materialities, encounters, governance

Digital technologies increasingly mediate relations between humans and nonhumans in a range of contexts including environmental governance, surveillance, and entertainment. Combining approaches from more-than-human and digital geographies, we proffer ‘digital ecologies’ as an analytical framework for examining digitally-mediated human–nonhuman entanglement. We identify entanglement as a compelling basis from which to articulate and critique digitally-mediated relations in diverse situated contexts. Three questions guide this approach: What digital technologies and infrastructures give rise to digital entanglement, and with what material consequences? What is at stake socially, politically, and economically when encounters with nonhumans are digitised? And how are digital technologies enrolled in programmes of environmental governance? We develop our digital ecologies framework across three core conceptual themes of wider interest to environmental geographers: (i) materialities, considering the infrastructures which enable digitally-mediated more-than-human connections and their socioenvironmental impacts; (ii) encounters, examining the political economic consequences and convivial potentials of digitising contact zones; (iii) governance, questioning how digital technologies produce novel forms of more-than-human governance. We affirm that digital mediations of more-than-human worlds can potentially cultivate environmentally progressive communities, convivial human–nonhuman encounters, and just forms of environmental governance, and as such note the urgency of these conversations