Yersinia pestis genomes reveal plague in Britain 4000 years ago.

Extinct lineages of Yersinia pestis, the causative agent of the plague, have been identified in several individuals from Eurasia between 5000 and 2500 years before present (BP). One of these, termed the 'LNBA lineage' (Late Neolithic and Bronze Age), has been suggested to have spread into Europe with human groups expanding from the Eurasian steppe. Here, we show that the LNBA plague was spread to Europe's northwestern periphery by sequencing three Yersinia pestis genomes from Britain, all dating to ~4000 cal BP. Two individuals were from an unusual mass burial context in Charterhouse Warren, Somerset, and one individual was from a single burial under a ring cairn monument in Levens, Cumbria. To our knowledge, this represents the earliest evidence of LNBA plague in Britain documented to date. All three British Yersinia pestis genomes belong to a sublineage previously observed in Bronze Age individuals from Central Europe that had lost the putative virulence factor yapC. This sublineage is later found in Eastern Asia ~3200 cal BP. While the severity of the disease is currently unclear, the wide geographic distribution within a few centuries suggests substantial transmissibility.

A toolkit enabling efficient, scalable and reproducible gene tagging in trypanosomatids.

One of the first steps in understanding a protein's function is to determine its localization; however, the methods for localizing proteins in some systems have not kept pace with the developments in other fields, creating a bottleneck in the analysis of the large datasets that are generated in the post-genomic era. To address this, we developed tools for tagging proteins in trypanosomatids. We made a plasmid that, when coupled with long primer PCR, can be used to produce transgenes at their endogenous loci encoding proteins tagged at either terminus or within the protein coding sequence. This system can also be used to generate deletion mutants to investigate the function of different protein domains. We show that the length of homology required for successful integration precluded long primer PCR tagging in Leishmania mexicana. Hence, we developed plasmids and a fusion PCR approach to create gene tagging amplicons with sufficiently long homologous regions for targeted integration, suitable for use in trypanosomatids with less efficient homologous recombination than Trypanosoma brucei. Importantly, we have automated the primer design, developed universal PCR conditions and optimized the workflow to make this system reliable, efficient and scalable such that whole genome tagging is now an achievable goal.

Aphid-willow interactions in a high Arctic ecosystem: responses to raised temperature and goose disturbance.

Recently, there have been several studies using open top chambers (OTCs) or cloches to examine the response of Arctic plant communities to artificially elevated temperatures. Few, however, have investigated multitrophic systems, or the effects of both temperature and vertebrate grazing treatments on invertebrates. This study investigated trophic interactions between an herbivorous insect (Sitobion calvulum, Aphididae), a woody perennial host plant (Salix polaris) and a selective vertebrate grazer (barnacle geese, Branta leucopsis). In a factorial experiment, the responses of the insect and its host to elevated temperatures using open top chambers (OTCs) and to three levels of goose grazing pressure were assessed over two summer growing seasons (2004 and 2005). OTCs significantly enhanced the leaf phenology of Salix in both years and there was a significant OTC by goose presence interaction in 2004. Salix leaf number was unaffected by treatments in both years, but OTCs increased leaf size and mass in 2005. Salix reproduction and the phenology of flowers were unaffected by both treatments. Aphid densities were increased by OTCs but unaffected by goose presence in both years. While goose presence had little effect on aphid density or host plant phenology in this system, the OTC effects provide interesting insights into the possibility of phenological synchrony disruption. The advanced phenology of Salix effectively lengthens the growing season for the plant, but despite a close association with leaf maturity, the population dynamics of the aphid appeared to lack a similar phenological response, except for the increased population observed.

Terrestrial insects along elevation gradients: species and community responses to altitude.

The literature on the response of insect species to the changing environments experienced along altitudinal gradients is diverse and widely dispersed. There is a growing awareness that such responses may serve as analogues for climate warming effects occurring at a particular fixed altitude or latitude over time. This review seeks, therefore, to synthesise information on the responses of insects and allied groups to increasing altitude and provide a platform for future research. It focuses on those functional aspects of insect biology that show positive or negative reaction to altitudinal changes but avoids emphasising adaptation to high altitude per se. Reactions can be direct, with insect characteristics or performance responding to changing environmental parameters, or they can be indirect and mediated through the insect's interaction with other organisms. These organisms include the host plant in the case of herbivorous insects, and also competitor species, specific parasitoids, predators and pathogens. The manner in which these various factors individually and collectively influence the morphology, behaviour, ecophysiology, growth and development, survival, reproduction, and spatial distribution of insect species is considered in detail. Resultant patterns in the abundance of individual species populations and of community species richness are examined. Attempts are made throughout to provide mechanistic explanations of trends and to place each topic, where appropriate, into the broader theoretical context by appropriate reference to key literature. The paper concludes by considering how montane insect species will respond to climate warming.

Terrestrial and aquatic invertebrates as bioindicators for environmental monitoring, with particular reference to mountain ecosystems.

The use of terrestrial and aquatic invertebrates as a management tool for monitoring change in ecosystems is reviewed and critically evaluated. Their suitability and value for assessing a range of environmental problems from pollution impacts, through habitat evaluation for conservation to the long-term degradation and recovery of ecosystems, is critically discussed. Guidelines are provided for the choice of appropriate bioindicators. Examples of the use of a broad spectrum of invertebrates to assess a variety of environmental problems are summarized. The particular potential of invertebrates for monitoring montane ecosystems is highlighted.