Changes in bird populations on sample lowland English farms in relation to loss of hedgerows and other non-crop habitats

Farmland bird population trends were examined on a sample of lowland English farms to assess the relative importance of habitat loss and habitat degradation. Data were extracted from 11 farms surveyed by territory mapping between 1966 and 1986 as part of the British Trust for Ornithology's Common Birds Census. The population size of 38 bird species was quantified for each farm in each year. The extents of five non-crop habitats were measured at 4-yearly intervals on each farm. The farms were selected because some had undergone extensive removal of non-crop habitats while others had undergone little or none. Although declines were commonest on farms where the severest habitat loss had taken place, we found no evidence that habitat loss was the main factor causing population declines: all 11 farms had significant numbers of declining species, even where habitat loss was minimal. Furthermore, general linear modelling found no significant effects of habitat loss on population trends and principal-components analysis found limited effects of habitat extent on community composition. These results suggest that habitat loss is of secondary importance in causing farmland bird population declines. We suggest that other processes, such as habitat degradation, may have caused a baseline population decline in at least 10 farmland bird species and that declines may have been exacerbated by localised habitat loss. Received: 4 February 1998 / Accepted: 1 April 1998     

Can climate matching predict the current and future climatic suitability of the UK for the establishment of non-native birds?

Capsule: Current UK distributions of non-native birds poorly match areas identified as being climatically suitable.

Aims: Non-native species are spreading at unprecedented rates and though invasions are expected to increase under climate change, evidence for this is mixed. We assess climatic suitability throughout the UK based on the apparent match to the climate in species’ native ranges and investigate potential climatic limitation within the non-native range.

Methods: Climate was characterized within polygons representing the native ranges of 167 potentially invasive species. Parts of the UK with current and future climate similar to that in the native range were deemed climatically suitable. The incidence of recent observations inside and outside suitable areas was used to test hypotheses about climatic limitation of non-native ranges.

Results: Climate matching suggests that 69 of 167 non-native bird species could currently find climatically suitable areas for establishment in the UK. Future climate change would see this number increase by 14% by 2080. However, observed occurrences of non-native species in the UK were not significantly correlated to climatic suitability. Only 44 of the 69 species with suitable climate in the UK were present. Moreover, 85% of species observed in the UK had some UK occurrences in climatically unsuitable areas and for 57 species their entire UK range was in climatically unsuitable areas. Similar results were apparent for the subset of 12 species with established UK populations.

Conclusions: Climate matching provides a relatively poor indication of the extent of current and future suitable areas because species can adapt to new climates or other factors constrain the native range and many climatically suitable areas are currently unoccupied. Improvements to climate matching techniques and ongoing surveillance are required to refine predictions to support effective management policies.     

Long‐term changes in the migration phenology of UK breeding birds detected by large‐scale citizen science recording schemes

The timing of migration is one of the key life‐history parameters of migratory birds. It is expected to be under strong selection, to be sensitive to changing environmental conditions and to have implications for population dynamics. However, most phenological studies do not describe arrival and departure phenologies for a species in a way that is robust to potential biases, or that can be clearly related to breeding populations. This hampers our ability to understand more fully how climate change may affect species’ migratory strategies, their life histories and ultimately their population dynamics. Using generalized additive models (GAMs) and extensive large‐scale data collected in the UK over a 40‐year period, we present standardized measures of migration phenology for common migratory birds, and examine how the phenology of bird migration has changed in the UK since the 1960s. Arrival dates for 11 of 14 common migrants became significantly earlier, with six species advancing their arrival by more than 10 days. These comprised two species, Blackcap Sylvia atricapilla and Chiffchaff Phylloscopus collybita, which winter closest to Britain in southern Europe and the arid northern zone of Africa, Common Redstart Phoenicurus phoenicurus, which winters in the arid zone, and three hirundines (Sand Martin Riparia riparia, House Martin Delichon urbicum and Barn Swallow Hirundo rustica), which winter in different parts of Africa. Concurrently, departure dates became significantly later for four of the 14 species and included species that winter in southern Europe (Blackcap and Chiffchaff) and in humid zones of Africa (Garden Warbler Sylvia borin and Whinchat Saxicola rubetra). Common Swift Apus apus was the exception in departing significantly earlier. The net result of earlier arrival and later departure for most species was that length of stay has become significantly longer for nine of the 14 species. Species that have advanced their timing of arrival showed the most positive trends in abundance, in accordance with previous studies. Related in part to earlier arrival and the relationship above, we also show that species extending their stay in Great Britain have shown the most positive trends. Further applications of our modelling approach will provide opportunities for more robust tests of relationships between phenological change and population dynamics than have been possible previously.     

Proposal of Xanthomonas translucens pv. pistaciae pv. nov., pathogenic to pistachio (Pistacia vera)

Strains of Xanthomonas translucens have caused dieback in the Australian pistachio industry for the last 15 years. Such pathogenicity to a dicotyledonous woody host contrasts with that of other pathovars of X. translucens, which are characterized by their pathogenicity to monocotyledonous plant families. Further investigations, using DNA-DNA hybridization, gyrB gene sequencing and integron screening, were conducted to confirm the taxonomic status of the X. translucens pathogenic to pistachio. DNA-DNA hybridization provided a clear classification, at the species level, of the pistachio pathogen as a X. translucens. In the gyrB-based phylogeny, strains of the pistachio pathogen clustered among the X. translucens pathovars as two distinct lineages. Integron screening revealed that the cassette arrays of strains of the pistachio pathogen were different from those of other Xanthomonas species, and again distinguished two groups. Together with previously reported pathogenicity data, these results confirm that the pistachio pathogen is a new pathovar of X. translucens and allow hypotheses about its origin. The proposed name is Xanthomonas translucens pv. pistaciae pv. nov.     

Terminal Restriction Fragment Length Polymorphism for Identification of Cryptosporidium Species in Human Feces

Effective management of human cryptosporidiosis requires efficient methods for detection and identification of the species of Cryptosporidium isolates. Identification of isolates to the species level is not routine for diagnostic assessment of cryptosporidiosis, which leads to uncertainty about the epidemiology of the Cryptosporidium species that cause human disease. We developed a rapid and reliable method for species identification of Cryptosporidium oocysts from human fecal samples using terminal restriction fragment polymorphism (T-RFLP) analysis of the 18S rRNA gene. This method generated diagnostic fragments unique to the species of interest. A panel of previously identified isolates of species was blind tested to validate the method, which determined the correct species identity in every case. The T-RFLP profiles obtained for samples spiked with known amounts of Cryptosporidium hominis and Cryptosporidium parvum oocysts generated the two expected diagnostic peaks. The detection limit for an individual species was 1% of the total DNA. This is the first application of T-RFLP to protozoa, and the method which we developed is a rapid, repeatable, and cost-effective method for species identification.     

Integrons: Past,Present, and Future

SUMMARY

Integrons are versatile gene acquisition systems commonly found in bacterial genomes. They are ancient elements that are a hot spot for genomic complexity, generating phenotypic diversity and shaping adaptive responses. In recent times, they have had a major role in the acquisition, expression, and dissemination of antibiotic resistance genes. Assessing the ongoing threats posed by integrons requires an understanding of their origins and evolutionary history. This review examines the functions and activities of integrons before the antibiotic era. It shows how antibiotic use selected particular integrons from among the environmental pool of these elements, such that integrons carrying resistance genes are now present in the majority of Gram-negative pathogens. Finally, it examines the potential consequences of widespread pollution with the novel integrons that have been assembled via the agency of human antibiotic use and speculates on the potential uses of integrons as platforms for biotechnology.