J. W. Watkins

Catchment microbial dynamics: the emergence of a research agenda:

Parallel policy developments driven in the USA by the Clean Water Act and in Europe by the Water Framework Directive have focused attention on the need for quantitative information on the fluxes of faecal indicator bacteria in catchment systems. Data are required on point and diffuse source loadings, fate and transport of these non-conservative parameters, on the land surface, within soil systems, in groundwater, streams, impoundments and nearshore waters. This new information is needed by regulators to inform Total Maximum Daily Load estimates in the USA and Programmes of Measures in Europe both designed to prevent impairment of water quality at locations where compliance is assessed against health-based standards for drinking, bathing or shellfish harvesting. In the UK, the majority of catchment-scale activity in this field has been undertaken by physical geographers although microbial flux analysis and modelling has received much less attention from the research and policy communities than, for example, the nutrient parameters. This paper charts the policy drivers now operative and assesses the evidence base to support current policy questions. Finally, gaps and priority research questions are identified.

Changing landscapes, habitats and vegetation diversity across Great Britain.

This paper describes how Countryside Survey 2000 (CS2000) and earlier Countryside Surveys in 1990 and 1984, can be used to develop an integrated view of the changes in land cover, landscape and biodiversity that have taken place at the regional scale in Great Britain. A particular concern is to develop an understanding of how the national patterns of stock and change are distributed across Great Britain, and whether such changes are leading to more or less regional differentiation in our landscapes and biodiversity. A further concern is how the structure of landscape is changing.A description of the major Environmental Zones that make up Great Britain is given. Analysis of the regional patterns of change observed suggests that there has been considerable geographical variation in the gains and losses of the stock of the Biodiversity Action Plan Broad Habitats. Between 1984 and 1990, in the lowlands of the south and west of England and Wales, there were significant increase in the area of the Arable and Horticultural and Broadleaved Woodland Broad Habitats, and a marked loss of Improved Grassland. Over the same period, in the uplands of England and Wales, significant losses of Acid Grassland were observed, with associated gains in Improved Grassland. The Environmental Zones in Scotland were more stable in terms of the changes in stock of Broad Habitats. In addition to the analysis of net changes in stock of the Broad Habitats, the paper provides an analysis of the exchanges of land between major cover categories or each of the Environmental Zones. In contrast to the regionally concentrated changes in habitat stock, more ubiquitous and uniform changes in habitat quality were detected between 1990 and 1998, which continue trends observed for the 1980s. The quality of freshwater habitats increased. However, there were declines in the quality for some terrestrial biotopes, as indicated by the loss of species diversity from agricultural habitats, and the gains in diversity in semi-natural habitats, such as Acid Grasslands, more usually associated with vegetation types that are poor in species. An important driver of qualitative change appears to be widespread nutrient enrichment from nitrogen. However, such processes are probably superimposed upon more local factors, such as changes in the way land is managed for agriculture. The importance of understanding the various drives of change for future countryside policy is emphasized.

Faecal indicator organism concentrations and catchment export coefficients in the UK.

Characterisation of faecal indicator organism (FIO) concentrations and export coefficients for catchments with particular combinations of land use and under specific climatic regimes is critical in developing models to predict daily loads and apportion sources of the microbial parameters used to regulate water quality. Accordingly, this paper presents a synthesis of FIO concentration and export coefficient data for the summer bathing season, with some comparative winter data, for 205 river/stream sampling points widely distributed across mainland UK. In terms of both geometric mean (GM) FIO concentrations and export coefficients (expressed as cfu km(-2) h(-1)), the results reveal (1) statistically significant elevations at high flow compared with base flow, with concentrations typically increasing by more than an order of magnitude and export coefficients by about two orders; (2) significantly higher values in summer than in winter under high-flow conditions; and (3) extremely wide variability between the catchments (e.g. four orders of magnitude range for GM faecal coliform concentrations), which closely reflects land use-with urban areas and improved pastures identified as key FIO sources. Generally, these two most polluting land uses are concentrated in lowland areas where runoff (m3 km(-2) h(-1)) is low compared with upland areas, which in the UK are dominated by rough grazing and forestry. Consequently, contrasts in export coefficients between land use types are less than for FIO concentrations. The GMs reported for most land use categories are based on 13 sites and exhibit quite narrow confidence intervals. They may therefore be applied with some confidence to other catchments in the UK and similar geographical regions elsewhere. Examples are presented to illustrate how the results can be used to estimate daily summer base- and high-flow FIO loads for catchments with different land use types, and to assess the likely effectiveness of certain strategies for reducing FIO pollutant loadings in areas with extensive areas of lowland improved pasture.

Detection of Cryptosporidium species and sources of contamination with Cryptosporidium hominis during a waterborne outbreak in north west Wales.

As part of investigations into the cause of a waterborne outbreak of Cryptosporidium hominis infection linked to a mains water supply, surface waters and wastewater treatment plants were tested for Cryptosporidium spp. Oocyst counts in base flow surface water samples ranged from nil to 29 per 10 l. Oocyst counts in effluent from a community wastewater treatment plant were up to 63 fold higher and breakout from one septic tank five logs higher. There were no peak (storm) flow events during the investigation. C. hominis, four named genotypes (cervine, muskrat II, rat, W19) and six new small subunit ribosomal RNA gene sequences were identified. Four of the new sequences were closely related to Cryptosporidium muskrat genotype I, one was closely related to the fox genotype and one to Cryptosporidium canis. C. hominis was found extensively in the catchment, but only at sites contaminated by wastewater, and in the treated water supply to the affected area. All were gp60 subtype IbA10G2, the outbreak subtype. Multiple routes of contamination of the reservoir were identified, resulting in persistent detection of low numbers of oocysts in the final water. This work demonstrates the utility of genotyping Cryptosporidium isolates in environmental samples during outbreak investigations.

Assessing soil biodiversity across Great Britain: national trends in the occurrence of heterotrophic bacteria and invertebrates in soil

An assessment of the biodiversity of soils was a component of the Countryside Survey 2000 (CS2000). This was the first integrated survey of soil biota and chemical properties at a national scale. A total of 1052 soil samples were collected across Great Britain during CS2000 and analysed for a range of soil microbial and invertebrate characteristics resulting in the production of a series of robust datasets. A principal objective was to use these datasets to investigate relationships between soil biota and environmental factors such as geographical location, vegetation, land use, land cover, soil type and pollutant levels as first stages in characterising the inherent biodiversity of British soils and investigating the potential of soil biodiversity as indicators of soil health at a regional or national scale. Preliminary results for culturable heterotrophic, invertebrate taxa, Acari, Collembola and Oribatid mites are presented here to illustrate the nature of the data collected and the patterns of soil biodiversity in relation to large-scale regional, vegetation and soil characteristics across the British countryside.

Estimating the extent and change in Broad Habitats in Great Britain.

A stratified random sample of kilometre squares in Great Britain was visited and completely mapped using four areal themes (agriculture and semi-natural vegetation, forestry, physiography and buildings and communications). The maps were digitised and the attribute information recorded to produce an electronic database. Information was summarised by square and then bootstrap re-sampling techniques were used to produce national estimates with statistical confidence intervals. The results for 1998 showed the terrestrial Broad Habitats had a range in extent covering two orders of magnitude from Montane (49000ha) to Improved Grassland (5482000ha). Just under half of Britain is covered by agricultural Broad Habitats, about 12% by woodland and just under 10% by Urban Habitats. The remaining quarter of the land area is covered by semi-natural Broad Habitats. By revisiting the same sample of squares previously visited in 1990, changes in the quantity and quality of the Broad Habitats have been determined. Significant increases in area have occurred in the Broadleaved, Mixed and Yew Woodland and Built Up and Gardens. The largest areal reduction was in Acid Grassland although that was in part balanced by a gain in Fen, Marsh and Swamp. The most significant ecological loss was in the area of Calcareous Grassland. The consequences of having different sample sizes for the different years are discussed.

Results of field investigations into the impact of intermittent sewage discharges on the microbiological quality of wild mussels (Mytilus edulis) in a tidal estuary.

Field surveys were designed to examine the effects of sewage contamination from storm overflow effluent on faecal coliform and Escherichia coli concentrations in the flesh of wild mussels (Mytilus edulis). Bags containing 30 mussels each were fixed at known inter-tidal locations and retrieved at intervals following discharge from a nearby combined sewer overflow (CSO). Concentrations of faecal coliform bacteria and E. coli were measured in the shellfish flesh and in samples of overlying water prior to collection of the mussel samples. Faecal coliform and E. coli concentrations in shellfish increased rapidly after CSO discharge. E. coli concentrations exceeded the European shellfish hygiene class C limit of 46,000 100g(-1), and decayed during subsequent CSO discharge-free periods. The concentration and depuration response was independent of the magnitude of CSO spill volume. First-order exponential decay functions were fitted to the data. Decay rates were lower than those found in corresponding microcosm experiments. This relates to the repeated pattern of inundation and exposure associated with the tidal cycles in the estuary. Relationships between E. coli and faecal coliform concentrations in the shellfish and overlying water samples were relatively weak (r<0.60), a pattern often seen with data from uncontrolled environmental experiments.

A simple modified membrane filtration medium for the enumeration of aerobic spore-bearing bacilli in water

Aerobic spore-bearing bacilli have been proposed as a surrogate indicator for the removal of Cryptosporidium by drinking water treatment processes. Pasteurisation of samples followed by culture on non-selective media is the method of choice. Using white membranes for filtration of water samples makes colony counting difficult. Vital dyes such as neutral red or trypan blue can help when added to the growth medium but these dyes tend to colour the membrane and reduce the contrast between the colonies and the background. The incorporation of bromothymol blue at a concentration of 0.005% (w/v) into nutrient agar facilitated colony counting without inhibiting colony formation compared with unsupplemented nutrient agar. Statistical analysis of the data (ANOVA) confirms this observation. The modified technique was found to be satisfactory with spore suspensions of Bacillus globigii and B. cereus as well as with samples of surface water, settled water and drinking water.

Automated tagging of environmental data using a novel SKOS formatted environmental thesaurus

There is increasing need to use the widest range of data to address issues of environmental management and change, which is reflected in increasing emphasis from government funding agencies for better management and access to environmental data. Bringing together different environmental datasets to confidently enable integrated analysis requires reference to common standards and definitions, which are frequently lacking in environmental data, due to the broad subject area and lack of metadata. Automatic inclusion within datasets of controlled vocabulary concepts from publicly available standard vocabularies facilitates accurate annotation and promotes efficiency of metadata creation. To this end, we have developed a thesaurus capable of describing environmental chemistry datasets. We demonstrate a novel method for tagging datasets, via insertion of this thesaurus into a Laboratory Information Management System, enabling automated tagging of data, thus promoting semantic interoperability between tagged data resources. Being web available, and formatted using the Simple Knowledge Organisation System (SKOS) semantic standard, this thesaurus is capable of providing links both to and from other relevant thesauri, thus facilitating a linked data approach. Future developments will see extension of the thesaurus by the user community, in terms of both concepts included and links to externally hosted vocabularies. By employing a Linked Open Data approach, we anticipate that Web-based tools will be able to use concepts from the thesaurus to discover and link data to other information sources, including use in national assessment of the extent and condition of environmental resources.

An evaluation of public health issues associated with, or arising from, drainage-based infection spread

Some microorganisms can grow in water while others merely survive. The use of the water may result in the creation of aerosols which can disseminate the products of microbial growth or the microorganisms themselves. In the home, toilets, sinks and showers can provide a reservoir for microorganisms to survive and grow. Intermittent use of disinfectants alone may not be adequate to control these microorganisms unless regular cleaning and brushing is practiced. Similar problems occur in hospitals, offices and public buildings. Here control is much more important. In these environments infections can potentially spread readily to large numbers of people from the creation of aerosols both in sanitary equipment and the sewerage system associated with it. Control is helped by regular cleaning but much more attention needs to be placed on proper construction, servicing and maintenance of the infrastructure. This article reviews the types of microorganisms associated with growth in water and with faecal material and how these organisms are spread. The nature and impact of the spread is illustrated with a number of published examples.