DNA barcoding for identification of cryptic species in the field and existing museum collections: a case study of Aethomys and Micaelamys (Rodentia: Muridae)

DNA barcoding has been proposed as a method for species identification. However, this method has been criticised for its over-reliance on a single mitochondrial gene. In this study, four mitochondrial gene regions and one nuclear gene region were used to investigate their different abilities to identify tissue associated with museum specimens of Aethomys chrysophilus, Aethomys ineptus and Micaelamys namaquensis. Aethomys chrysophilus and the more recently elevated A. ineptus are indistinguishable on morphological grounds; however, their ranges are largely parapatric with only one syntopic locality currently known. All of the mitochondrial gene regions were able to separate M. namaquensis from A. chrysophilus and A. ineptus, but they varied in their abilities to resolve differences between A. chrysophilus and A. ineptus. The sequence results identified a specimen from KwaZulu-Natal that was misclassified and should have been identified as A. ineptus. Seven specimens that had not been reclassified following the elevation of A. ineptus to species level were identified as A. ineptus. Individuals of A. chrysophilus from Malawi could not be classified as either A. chrysophilus or A. ineptus, and may be a hybrid or a new, distinct species. This study indicates that DNA barcoding may be used to separate M. namaquensis from A. chrysophilus and A. ineptus, and although it was not able to separate A. chrysophilus and A. ineptus, it did indicate specimens from Malawi may be a new cryptic species.     

Larval traits of the Caribbean amphidromous goby Sicydium punctatum (Gobioidei: Sicydiinae) in Guadeloupe

Amphidromous fish are the biggest contributor to the diversity of fish communities in river systems of Caribbean islands. Among them, Sicydium punctatum Perugia, 1896, which is endemic to the West Indies, represents the vast majority of fish in these rivers. The otolith microstructure and the biometry of S. punctatum postlarvae from Guadeloupe were investigated to explore the dispersal modalities of this species through an appreciation of the growth pattern, the pelagic larval duration (PLD) and the size‐at‐recruitment. The study was made on one cohort of 83 recruited postlarvae, fished at the Capesterre River's mouth on 2 November 2011. The mean (±SD) size‐at‐recruitment of the postlarvae was 24.6 ± 1.3 mm (range of 20.5–28.1 mm, n = 83). We found a mean (±SD) PLD of 72.2 ± 10.5 days (range of 54–101.5 days, n = 67). The growth rate estimated from the otolith increments showed a globally decreasing pattern during the marine larval phase. Growth rates at the beginning of the larval stage were significantly different between hatching periods, suggesting a relation between the hatching period and the growth rate in S. punctatum. This study adds on to the general understanding of the life cycle of S. punctatum in Guadeloupe that will help implement strategies to manage amphidromous fish populations in the Caribbean region.     

Factors affecting costs for on-farm control of salmonella in Swedish dairy herds

Background

The Swedish control program for salmonella includes restrictions and on-farm control measures when salmonella is detected in a herd. Required control measures are subsidised by the government. This provides an opportunity to study costs for on-farm salmonella control. The aim of this study was to describe the costs for on-farm salmonella control in Swedish cattle herds and to investigate the effects of herd factors on these costs in dairy herds.

Results

During the 15 years studied there had been a total of 124 restriction periods in 118 cattle herds; 89 dairy herds, 28 specialised fattening herds and three suckler herds. The average costs per herd for on-farm salmonella control was 4.60 million SEK with a median of 1.06 million SEK corresponding to approximately 490 000 and 110 000 EUR. The range was 0.01 to 41 million SEK corresponding to 1080 EUR to 4.44 million EUR per farm. The costs cover measures required in herd-specific control plans, generally measures improving herd hygiene. A mixed linear model was used to investigate associations between herd factors and costs for on-farm salmonella control in dairy herds. Herd size and length of the restriction period were both significantly associated with costs for on-farm control of salmonella with larger herds and longer periods of restrictions leading to higher costs. Serotype detected and administrative changes in the Swedish Board of Agriculture aiming at reducing costs were not associated with costs for on-farm salmonella control.

Conclusions

On-farm control of salmonella in Swedish cattle herds incurred high costs but the costs also varied largely between herds. Larger herds and longer restriction periods increased the costs for on-farm control of salmonella in Swedish dairy herds. This causes concern for future costs for the Swedish salmonella control program as herd sizes are increasing.     

The contribution of lateral aquatic habitats to insect diversity along river corridors in the Alps

River floodplains are among the most threatened ecosystems globally. Understanding the mechanisms that create and maintain biodiversity and ecosystem functioning of floodplains, is therefore a prerequisite for developing scientifically-sound management and conservation strategies. We quantified the spatial distribution of lateral aquatic habitats (i.e. tributaries, ponds, backwaters) and the associated insect assemblages (Ephemeroptera, Plecoptera, Trichoptera) along three Alpine river corridors (Tagliamento, Thur, and Rhône). Our objective was to assess the relative contribution of lateral habitats to river corridor diversity, and to identify the scale that contributed the most to regional (Alpine scale) species diversity. The number of lateral habitats decreased by 72 % from the near-natural Tagliamento (101) to the Thur river (42) and the regulated Rhône river (28). More than 50 % of the total species richness along each river was restricted to lateral habitats, which also exhibited higher taxon turnover rates (Whittaker’s beta diversity) than the associated main channel. Hierarchical diversity partitioning revealed that beta diversity among corridors was higher than expected, and accounted for 48 % of regional richness, partly reflecting biogeographical differences among catchments. However, diversity partitioning, excluding catchment-specific effects, showed that beta diversity among habitat types contributed significantly to regional richness (79 %). The present study is among the first to quantify the distribution and biodiversity of floodplain habitats along entire river continua. Our results demonstrated that biodiversity would be best preserved by protecting multiple catchments, and that lateral floodplain habitats contribute disproportionally to species richness at the river corridor and regional scale.     

Cellular and humoral local immune responses in sheep experimentally infected with Oestrus ovis (Diptera: Oestridae)

Cellular and humoral local responses were investigated following repetitive artificial Oestrus ovis infections in lambs. The presence of larvae induced a huge local recruitment of either leucocytes (T and B lymphocytes, macrophages) or granulocytes (eosinophils, mast cells and globule leucocytes). This cellular response was more pronounced in the ethmoid and sinus (development sites of second and third instar larvae) than in the septum or turbinates where first instar larvae migrate. Infected lambs produced Oestrus ovis specific IgG and IgA antibodies in their mucus. This local humoral response was mainly directed against larval salivary gland antigens and not against larval digestive tract antigens. Compared to the control animals, the sinusal mucosa of infected animals was extremely thickened and the epithelium exhibited hyperplasia, metaplasia and eosinophilic exocytosis. The possible roles of these local immune responses in the regulation of O. ovis larvae populations in sheep are discussed.     

Magnetic resonance spectroscopy identifies neural progenitor cells in the live human brain

The identification of neural stem and progenitor cells (NPCs) by in vivo brain imaging could have important implications for diagnostic, prognostic, and therapeutic purposes. We describe a metabolic biomarker for the detection and quantification of NPCs in the human brain in vivo. We used proton nuclear magnetic resonance spectroscopy to identify and characterize a biomarker in which NPCs are enriched and demonstrated its use as a reference for monitoring neurogenesis. To detect low concentrations of NPCs in vivo, we developed a signal processing method that enabled the use of magnetic resonance spectroscopy for the analysis of the NPC biomarker in both the rodent brain and the hippocampus of live humans. Our findings thus open the possibility of investigating the role of NPCs and neurogenesis in a wide variety of human brain disorders.     

Accumulation of trehalose in the thermophilic fungus Chaetomium thermophilum var. coprophilum in response to heat or salt stress

The disaccharide trehalose, known to be an effective protectant against various kinds of stress, was observed to accumulate in the cytosol of Chaetomium thermophilum var. coprophilum during heat stress. Trehalose was apparently neither involved in the defence of C. thermophilum var. coprophilum against high concentrations of sodium chloride nor directly linked to thermophily.In C. thermophilum var. coprophilum three different trehalose hydrolyzing activities were eluted from a mono Q anion exchange column by sodium chloride concentrations of 0.10, 0.15 and 0.24 M, respectively.     

Testing the Aluminium Toxicity Hypothesis: A Field Manipulation Experiment in Mature Spruce Forest in Norway

Aluminium (Al) has been considered to be a central element for risk evaluation of forest damage due to acidification. It has been hypothesized that Al reduces root growth, nutrient uptake and forest vitality. However, forest monitoring studies fail to show correlations between soil acidification and forest health. In general, no direct relation between Al concentration and forest health has been established. Here, Al concentrations in soil solution were manipulated by weekly additions of dilute AlCl₃ to levels that are believed to be unfavorable for plant growth. Four treatments (in triplicate), including a reference and three Al addition levels, were established. Effects of enhanced Al concentrations on fine root growth, nutrient uptake and crown condition in a mature Norway spruce forest in Norway were tested (1996–1999). After three years of manipulation, crown condition, tree growth and fine root growth were not affected by potentially toxic Al concentrations. However, the Mg content in current year's needles decreased at the highest Al addition treatment. The Mg/Al ratio of fine roots of the same treatment had declined too, which suggests that Al blocked Mg uptake at the root surface. The manipulation will be continued for two more years.