The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism

Diatoms are unicellular algae with plastids acquired by secondary endosymbiosis. They are responsible for approximately 20% of global carbon fixation. We report the 34 million-base pair draft nuclear genome of the marine diatom Thalassiosira pseudonana and its 129 thousand-base pair plastid and 44 thousand-base pair mitochondrial genomes. Sequence and optical restriction mapping revealed 24 diploid nuclear chromosomes. We identified novel genes for silicic acid transport and formation of silica-based cell walls, high-affinity iron uptake, biosynthetic enzymes for several types of polyunsaturated fatty acids, use of a range of nitrogenous compounds, and a complete urea cycle, all attributes that allow diatoms to prosper in aquatic environments.     

Different B cell populations mediate early and late memory during an endogenous immune response

Memory B cells formed in response to microbial antigens provide immunity to later infections; however, the inability to detect rare endogenous antigen-specific cells limits current understanding of this process. Using an antigen-based technique to enrich these cells, we found that immunization with a model protein generated B memory cells that expressed isotype-switched immunoglobulins (swIg) or retained IgM. The more numerous IgM(+) cells were longer lived than the swIg(+) cells. However, swIg(+) memory cells dominated the secondary response because of the capacity to become activated in the presence of neutralizing serum immunoglobulin. Thus, we propose that memory relies on swIg(+) cells until they disappear and serum immunoglobulin falls to a low level, in which case memory resides with durable IgM(+) reserves.     

Survival of Penicillium bilaiae inoculated on canola seed treated with Vitavax RS and Extender

The fungicide Vitavax RS and the seed polymer Extender were sequentially applied to canola seed to determine their effect on the fungal inoculum, Penicillium bilaiae. In the laboratory, the fungicide was applied at the recommended rate of 23.4 ml kg^–1, and the polymer was applied by the manufacturer. Significant death of P. bilaiae occurred after 2.5 days on the Vitavax RS-treated seed and after 1.5 days with the seed treated with both Vitavax RS and Extender. In field treatments, the seed was sown at six sites in the fall just prior to freeze-up. Results from the laboratory experiment indicate that there should be no harmful effects of the Vitavax RS and Extender on the P. bilaiae at the time of seeding because the seeds were sown within 2 h of inoculation. The environmental extremes in 2001 and 2002 resulted in large variations in the data. P. bilaiae did not increase yield under these conditions.     

Ecology of otters in Northern Scotland IV. A model scheme for otter Lutra lutra L. conservation in a freshwater system in aberdeenshire

Habitats for inclusion within otter havens are illustrated from a case-history study on the middle part of the Aberdeenshire River Dee. The environment is divided into breeding and rearing areas and places for non-breeding otters. One good location for a haven incorporating all three habitats includes 12–13 km of river and two nearly lochs. In this area, part of the river bank is inaccessible, and there are secluded islands and deep woods. Havens should include tiny tributaries leading to shelter where otters are likely to have their young. An otter haven in mid-Deeside planned to incorporate all these habitats may be regarded as a model for conservation that could be followed in other similar environments elsewhere.     

Preface and acknowledgment

Preface and acknowledgment     

Assessment of Water Quality in Association with Land use in the Tillamook Bay Watershed, Oregon, USA

The water quality in tributaries to Tillamook Bay, Oregon, frequently exceeds standards for fecal coliform bacteria (FCB) and temperature. FCB inputs to the bay have forced periodic closure of the oyster shellfish industry. In addition, impaired water quality may be contributing to reduced salmonid populations in the bay and its tributaries through reduction in the quality of the habitat. Because of these concerns, the Tillamook Bay National Estuary Project (TBNEP) conducted several characterization studies and a long-term water quality monitoring program for the tributary rivers. This paper summarizes data collected to date within these efforts, including storm-based data on FCB and total suspended solids (TSS), and bimonthly data on nutrient concentrations in selected rivers. Monitoring data from 1996 to 2002 are summarized. Results for FCB and TSS are reported by storm, which are classified according to season and precipitation patterns in order to minimize intra-annual variability. There are not indications of large changes in water quality throughout the period of record, but it is too early in the program for trends analysis. Storms that exhibited the highest FCB concentrations tended to be those that occurred during fall and/or those that were preceded by relatively dry conditions and included high rainfall intensity. Implementation of storm-based monitoring and classification of storms according to season effectively reduces the large variability inherent in the FCB monitoring data, thereby facilitating future trends analysis. Continued storm-based monitoring of FCB and TSS, and also continued collection of rainfall and river discharge data, will provide the database that will be needed to determine to what extent on-the-ground remediation actions and best management practices (BMPs) within the Tillamook Basin are having their desired effects.     

Mucopolysaccharidosis type VI in a Miniature Poodle-type dog caused by a deletion in the arylsulphatase B gene

Abstract

AIM: To investigate and characterise an inborn error of metabolism in a dog with skeletal and ocular abnormalities.

METHODS: A 2.5-year-old small male Miniature Poodle-like dog was presented with gross joint laxity and bilateral corneal opacities. Clinical examination was augmented by routine haematology, serum chemistry, radiographs, pathology, enzymology and molecular genetic studies. Euthanasia was requested when the dog was 3 years of age because of progressively decreasing quality of life.

RESULTS: Radiology revealed generalised epiphyseal dysplasia, malformed vertebral bodies, luxation/subluxation of appendicular and lumbosacral joints with hypoplasia of the odontoid process and hyoid apparatus. These clinical and radiographic findings, together with a positive urinary Berry spot test for mucopolysaccharides, and metachromatic granules in leucocytes, were indicative of a mucopolysaccharidosis (MPS), a lysosomal storage disease. Histological lesions included vacuolation of stromal cells of the cornea, fibroblasts, chondrocytes, macrophages and renal cells. The brain was essentially normal except for moderate secondary Wallerian-type degeneration in motor and sensory tracts of the hind brain. Dermatan sulphate-uria was present and enzymology revealed negligible activity of N-acetylgalactosamine-4-sulphatase, also known as arylsulphatase B, in cultured fibroblasts and liver tissue. A novel homozygous 22 base pair (bp) deletion in exon 1 of this enzyme's gene was identified (c.103_124del), which caused aframe-shift and subsequent premature stop codon. The “Wisdom pure breed-mixed breed” test reported the dog as a cross between a Miniature and Toy Poodle.

CONCLUSIONS: The clinicopathological features are similar to those of MPS type VI as previously described in dogs, cats and other species, and this clinical diagnosis was confirmed by enzymology and molecular genetic studies. This is an autosomal recessively inherited lysosomal storage disease.

CLINICAL RELEVANCE: The prevalence of MPS VI in Miniature or Toy Poodles in New Zealand and elsewhere is currently unknown. Due to the congenital nature of the disorder, malformed pups may be subject to euthanasia without investigation and the potential genetic problem in the breed may not be fully recognised. The establishment of a molecular genetic test now permits screening for this mutation as a basis to an informed breeding policy.     

Methicillin‐resistant Staphylococcus aureus in urban Norway rat (Rattus norvegicus) populations: Epidemiology and the impacts of kill‐trapping

Urban Norway rat (Rattus norvegicus) populations can carry the bacteria methicillin‐resistant Staphylococcus aureus (MRSA). There are numerous knowledge gaps in the epidemiology of MRSA in these populations that limit understanding of its ecology in urban environments. For example, fecal shedding of MRSA, which may increase environmental contamination, has been reported in other species; however, it is unknown whether Norway rats carry the bacteria rectally. Furthermore, while intermittent MRSA shedding has been shown in other species and may dictate when the risk of transmission is highest, duration of carriage has not been examined for Norway rats. Previous work has shown that lethal animal‐control methods may increase the level of pathogens within reservoir populations, possibly by disrupting ecological patterns. However, the impact of rodent‐control on potentially environmentally acquired pathogens like MRSA has not been tested. Using capture‐mark‐recapture methods in an inner‐city neighborhood in Vancouver, Canada, we show that rats intermittently carry MRSA both in the rectum and oropharynx. By assessing the prevalence of MRSA before and after enacting a pest‐control intervention, we report that kill‐trapping had no impact on the prevalence of carriage of this environmentally‐acquired agent.     

What are the prospects for black bream Acanthopagrus butcheri (Munro) aquaculture in salt‐affected inland Australia?

Black bream are a highly regarded sport and table fish, and there has been considerable interest in their aquaculture potential for the salt‐affected agricultural regions of inland southern Australia. In many ways they are an ideal candidate species for inland saline aquaculture because they appear to be very hardy, hatchery techniques are well established for them, and high survival rates have been maintained under a variety of culture conditions and feeding regimes. However, their slow growth rate needs to be increased by at least 33% for black bream to become an economically viable aquaculture species. Growth is amenable to genetic improvement, and sub‐adult growth rate shows moderate heritability and no adverse genetic correlations with other production traits. Nevertheless fillet yield is comparatively low, and in conjunction with unpredictable and early sexual development in culture, industry‐scale meat production remains problematic. These obstacles, however, do not preclude the use of black bream as a recreational fish species for inland saline waters, where their stocking may provide an additional source of rural income and relieve fishing pressure on depleted estuarine populations.     

Behavioral and physiological effects of freeze or hot-iron branding on crossbred cattle.

Twenty-seven crossbred calves (1/2 Simmental, 1/4 Hereford, 1/4 Brahman) averaging 257 +/- 11 d of age were either hot-iron-branded (H), freeze-branded (F), or sham-branded (S). Calves were blocked for temperament, weight, and sex and were randomly assigned to day and order in which treatments were applied. To reduce stress from handling at treatment time, each calf was herded through the squeeze chute daily for 5 d before the experiment. Jugular cannulas were inserted in each calf 1 d before application of treatment. Blood samples and heart rate measures were obtained at -5, -3, 0, .5, 1, 3, 5, 10, 15, and 20 min after application of the treatments. Mean concentrations of plasma epinephrine (EPI) were higher for H calves at time .5 min than for either S or F calves (P = .10). To account for individual differences, prebranding heart rates and hormone concentrations were subtracted from subsequent samples and were also used to calculate a proportion for each subsequent sample. Analyses of subtracted values found that EPI concentrations were greater for H calves than for either S or F calves (P = .007) at .5 min postbranding. No other differences were found for the subtracted analyses. Analyses of proportion data also revealed that H calves had greater EPI than did either S or F calves (P = .027) at .5 min postbranding. Only three animals vocalized during branding, one H calf and two F calves. Despite the 5-d acclimation period, handling and restraint elevated plasma cortisol concentrations and heart rate.(ABSTRACT TRUNCATED AT 250 WORDS)