Phylogenetic Analyses of Two Mitochondrial Metabolic Genes Sampled in Parallel from Angiosperms Find Fundamental Interlocus Incongruence

Plant molecular phylogeneticists have supported an analytical approach of combining loci from different genomes, but the combination of mitochondrial sequences with chloroplast and nuclear sequences is potentially problematic. Low substitution rates in mitochondrial genes should decrease saturation, which is especially useful for the study of deep divergences. However, individual mitochondrial loci are insuffi ciently informative, so that combining congruent loci is necessary. For this study atp1 and cox1 were selected, which are of similar lengths, encode components of the respiratory pathway, and generally lack introns. Thus, these genes might be expected to have similar functional constraints, selection pressures, and evolutionary histories. Strictly parallel sampling of 52 species was achieved as well as six additional composite terminals with representatives from the major angiosperm clades. However, analyses of the separate loci produced strongly incongruent topologies. The source of the incongruence was investigated by validating sequences with questionable affi nities, excluding RNA-edited nucleotides, deleting taxa with unexpected phylogenetic associations, and comparing different phylogenetic methods. However, even after potential artifacts were addressed and sites and taxa putatively associated with confl ict were excluded, the resulting gene trees for the two mitochondrial loci were still substantially incongruent by all measures examined. Therefore, combining these loci in phylogenetic analysis may be counterproductive to the goal of fully resolving the angiosperm phylogeny

Road exposure and the detectability of birds in field surveys

Road ecology, the study of the impacts of roads and their traffic on wildlife, including birds, is a rapidly growing field, with research showing effects on local avian population densities up to several kilometres from a road. However, in most studies, the effects of roads on the detectability of birds by surveyors are not accounted for. This could be a significant source of error in estimates of the impacts of roads on birds and could also affect other studies of bird populations. Using road density, traffic volume and bird count data from across Great Britain, we assess the relationships between roads and detectability of a range of bird species. Of 51 species analysed, the detectability of 36 was significantly associated with road exposure, in most cases inversely. Across the range of road exposure recorded for each species, the mean positive change in detectability was 52% and the mean negative change was 36%, with the strongest negative associations found in smaller-bodied species and those for which aural cues are more important in detection. These associations between road exposure and detectability could be caused by a reduction in surveyors’ abilities to hear birds or by changes in birds’ behaviour, making them harder or easier to detect. We suggest that future studies of the impacts of roads on populations of birds or other taxa, and other studies using survey data from road-exposed areas, should account for the potential impacts of roads on detectability.The BBS is jointly funded by the BTO, JNCC and RSPB. Stuart Newson is supported by the BTO’s Young Scientists’ Programme. Sophia C. Cooke is funded by the Natural Environment Research Council

Traditional ecological knowledge in restoration ecology: a call to listen deeply, to engage with, and respect Indigenous voices

The United Nations heralded 2021–2030 as the UN Decade on Ecosystem Restoration. A socioecological approach to restoration has been proposed that honors the diversity in ecological landscapes and their respective cultures and peoples with the goal of repairing degraded ecosystems. Indigenous peoples are intimately interconnected with landscapes, which are under mounting pressure from anthropogenic global environmental change. Article 31 of the UN Declaration on the Rights of Indigenous Peoples states the rights of Indigenous peoples to maintain, protect, and control their culture and traditional ecological knowledge (TEK); however, these rights have not always been acknowledged. We are concerned that large global restoration goals will continue to promote TEK extraction that further perpetuates inequities and discrimination of Indigenous peoples. If the restoration sector wishes to partner with Indigenous communities leading TEK efforts, it needs to understand established international agreements and proactively protect intellectual property and data sovereignty rights. To illustrate a theme of ethical engagement, we present risks to TEK integrity while highlighting engagement that has successfully promoted Indigenous leadership and self‐determination. We propose that a decade of responsible and respectful restoration will be achieved only with shared principles and an ethical code of conduct for TEK partnerships. We argue that deep listening with Indigenous peoples and engagement with humility and respect needs to be the starting point. Finally, we propose an Indigenous‐led workshop to re‐imagine and re‐develop equitable ways forward for TEK partnerships in restoration, with explicit considerations for the rights, livelihoods, and leadership of Indigenous peoples

Penrose Limits and Non-local theories

We investigate Penrose limits of two classes of non-local theories, little string theories and non-commutative gauge theories. Penrose limits of the near-horizon geometry of NS5-branes help to shed some light on the high energy spectrum of little string theories. We attempt to understand renormalization group flow in these theories by considering Penrose limits wherein the null geodesic also has a radial component. In particular, we demonstrate that it is possible to construct a pp-wave spacetime which interpolates between the linear dilaton and the AdS regions for the Type IIA NS5-brane. Similar analysis is considered for the holographic dual geometry to non-commutative field theories.Comment: 27 pages, LaTeX; v2: added reference

Novel gonadal characteristics in an aged bovine freemartin

The gonads from a five year old freemartin Holstein animal were subjected to morphological analysis and to immunohistochemistry using antibodies against developmental and functional markers. We demonstrate, for the first time, the retention of anti-mullerian hormone (AMH) producing intratubular cells (Sertoli cells) in the context of abundant steroidogenic interstitial cells, and structures consistent with clusters of luteal cells. This novel report describes the clinical, gross and histological findings accompanying this newly described gonadal immunophenotype, and its implication in the understanding of freemartin development

Towards a new philosophy of engineering: structuring the complex problems from the sustainability discourse

This dissertation considers three broad issues which emerge from the sustainability discourse. First is the nature of the discourse itself, particularly the underlying philosophical positions which are represented. Second, is the nature of the highly complex types of problem which the discourse exposes. And third is whether the engineering profession, as it is practised currently, is adequate to deal with such problems. The sustainability discourse exposes two distinct, fundamentally irreconcilable philosophical positions. The first, “sustainable development”, considers humanity to be privileged in relation to all other species and ecosystems. It is only incumbent upon us to look after the environment to the extent to which it is in our interests to do so. The second, “sustainability”, sees humanity as having no special moral privilege and recognises the moral status of other species, ecosystems, and even wilderness areas. Thus, sustainability imposes upon us a moral obligation to take their status into account and not to degrade or to destroy them. These two conflicting positions give rise to extremely complex problems. An innovative taxonomy of problem complexity has been developed which identifies three broad categories of problem. Of particular interest in this dissertation is the most complex of these, referred to here as the Type 3 problem. The Type 3 problem recognises the systemic complexity of the problem situation but also includes differences of the domain of interests as a fundamental, constituent part of the problem itself. Hence, established systems analysis techniques and reductionist approaches do not work. The domain of interests will typically have disparate ideas and positions, which may be entirely irreconcilable. The dissertation explores the development of philosophy of science, particularly in the last 70 years. It is noted that, unlike the philosophy of science, the philosophy of engineering has not been influenced by developments of critical theory, cultural theory, and postmodernism, which have had significant impact in late 20th-century Western society. This is seen as a constraint on the practice of engineering. Thus, a set of philosophical principles for sustainable engineering practice is developed. Such a change in the philosophy underlying the practice of engineering is seen as necessary if engineers are to engage with and contribute to the resolution of Type 3 problems. Two particular challenges must be overcome, if Type 3 problems are to be satisfactorily resolved. First, issues of belief, values, and morals are central to this problem type and must be included in problem consideration. And second, the problem situation is usually so complex that it challenges the capacity of human cognition to deal with it. Consequently, extensive consideration is given to cognitive and behavioural psychology, in particular to choice, judgement and decision-making in uncertainty. A novel problem-structuring approach is developed on three levels. A set philosophical foundation is established; a theoretical framework, based on general systems theory and established behavioural and cognitive psychological theory, is devised; and a set of tools is proposed to model Type 3 complex problems as a dynamic systems. The approach is different to other systems approaches, in that it enables qualitative exploration of the system to plausible, hypothetical disturbances. The problem-structuring approach is applied in a case study, which relates to the development of a water subsystem for a major metropolis (Sydney, Australia). The technique is also used to critique existing infrastructure planning processes and to propose an alternative approach

Quantum spin systems at positive temperature

We develop a novel approach to phase transitions in quantum spin models based on a relation to their classical counterparts. Explicitly, we show that whenever chessboard estimates can be used to prove a phase transition in the classical model, the corresponding quantum model will have a similar phase transition, provided the inverse temperature $\beta$ and the magnitude of the quantum spins \CalS satisfy \beta\ll\sqrt\CalS. From the quantum system we require that it is reflection positive and that it has a meaningful classical limit; the core technical estimate may be described as an extension of the Berezin-Lieb inequalities down to the level of matrix elements. The general theory is applied to prove phase transitions in various quantum spin systems with \CalS\gg1. The most notable examples are the quantum orbital-compass model on $\Z^2$ and the quantum 120-degree model on $\Z^3$ which are shown to exhibit symmetry breaking at low-temperatures despite the infinite degeneracy of their (classical) ground state.Comment: 47 pages, version to appear in CMP (style files included

The β3-integrin endothelial adhesome regulates microtubule-dependent cell migration

Integrin β3 is seen as a key anti-angiogenic target for cancer treatment due to its expression on neovasculature, but the role it plays in the process is complex; whether it is pro- or anti-angiogenic depends on the context in which it is expressed. To understand precisely β3's role in regulating integrin adhesion complexes in endothelial cells, we characterised, by mass spectrometry, the β3-dependent adhesome. We show that depletion of β3-integrin in this cell type leads to changes in microtubule behaviour that control cell migration. β3-integrin regulates microtubule stability in endothelial cells through Rcc2/Anxa2-driven control of active Rac1 localisation. Our findings reveal that angiogenic processes, both in vitro and in vivo, are more sensitive to microtubule targeting agents when β3-integrin levels are reduced

Grass burning under our feet: Indigenous enterprise development in a political economy of whiteness

In this article we discuss some of our findings from two research projects that explore opportunities for Indigenous enterprise development in remote locations in Northern and Central Australia. Based on a series of focus groups and in-depth interviews with Indigenous community leaders, Traditional Owners, government officials, Land Council officials and other stakeholders, we discuss barriers to economic development faced by Indigenous communities in remote regions. We argue that many of these barriers are the material effects of discursive practices of ‘whiteness’ in the political economy. We discuss the relationships between institutions and Indigenous communities that constitute the Indigenous political economy and argue that these relationships are informed by discursive practices of whiteness and colonial-capitalist relations of power. We conclude by discussing the implications of our findings for management learning and public policy