Use of the smith degradation in the study of the branching pattern in the complex-type carbohydrate units of glycoproteins

The site of substitution of the peripheral branches on the core mannose-residues in the complex-type carbohydrate units of glycoproteins has been studied by Smith degradation. By using glycopeptides of known structure, it is shown that the site of attachment of the (1→4)-linked, third branch to the mannose core in tri- and tetra-antennary structures may be conveniently demonstrated by this technique. A critical factor was found to be the concentration of acid used for cleavage of the periodate-oxidized product. This finding could explain discrepancies concerning the previously published structures of fetuin glycopeptides. The technique was applied for study of the branching pattern in human transferrin, porcine thyroglobulin, and rat plasma and brain glycoproteins. The results support the concept that, in glycoproteins from most sources, the third (1→4)-linked branch is attached to the (1→3)-linked mannose residue of the core portion in the complex-type structures. An indication for a novel type of branching pattern in human transferrin was, however, also obtained.     

Seasonal weight regulation of the raccoon dog (Nyctereutes procyonoides): interactions between melatonin,leptin, ghrelin,and growth hormone

The raccoon dog (Nyctereutes procyonoides, Canidae, Carnivora) is a middle-sized omnivore with excessive autumnal fattening and winter sleep. We studied seasonal weight regulation of the species by following the plasma leptin, ghrelin, and growth hormone (GH) levels of farm-bred raccoon dogs (n = 32) for 6 months. In August, half of the raccoon dogs received continuous-release melatonin implants, and in November, half of the animals of both the sham-operated and melatonin-treated groups were fasted for 2 months. In the autumn, the plasma leptin and GH levels were low, but the ghrelin levels were relatively high and correlated positively with energy intake. This represents the period of energy storage. Leptin and GH levels peaked simultaneously in late October, and melatonin advanced the peaks by 1 week. Thereafter, the levels rapidly declined, representing the transition period from autumnal anabolism to wintertime catabolism. In the winter, the leptin and GH levels rose to high levels, but the ghrelin-leptin ratio was very low. This is the period of winter sleep, with fat accumulated in the autumn as the principal metabolic fuel. In the winter, leptin, ghrelin, and GH may work in synergy to increase lipolysis. GH may also induce winter sleep to the raccoon dog. Fasting had no effect on the hormone levels, unlike in humans and rodents. Instead of the amount of fat in the body, the main regulators of the levels of these hormones in the raccoon dog are presumably seasonal rhythms entrained by melatonin.     

Macroarthropod species richness and conservation priorities in Stratiotes aloides (L.) lakes

Species with narrow ranges and specialised traits are most at risk, and the extinction wave is further enhanced by coextinctions. We studied the conservation value and indicator potential of Stratiotes aloides, an aquatic macrophyte that has declined considerably in Europe. Our purpose was to determine whether S. aloides could be used as an indicator of a valuable habitat in terms of macroarthropod diversity and species richness. The potential occurrence of an internationally endangered Stratiotes-habitat specialist, the dragonfly Aeshna viridis, can increase the conservation value of plant colonies. S. aloides beds harboured diverse macroarthropod fauna often containing species of conservation concern, including A. viridis. Stratiotes is a potential indicator of a valuable habitat, and its indicator value is enhanced by the easy identification of the species. However, its use as an indicator of a defined macroarthropod community is limited because no particular community type is connected to it. We suggest that protecting Stratiotes simultaneously conserves valuable arthropod fauna, including A. viridis.     

Severe acute respiratory syndrome coronavirus fails to activate cytokine-mediated innate immune responses in cultured human monocyte-derived dendritic cells

Activation of host innate immune responses was studied in severe acute respiratory syndrome coronavirus (SCV)-infected human A549 lung epithelial cells, macrophages, and dendritic cells (DCs). In all cell types, SCV-specific subgenomic mRNAs were seen, whereas no expression of SCV proteins was found. No induction of cytokine genes (alpha interferon [IFN-alpha], IFN-beta, interleukin-28A/B [IL-28A/B], IL-29, tumor necrosis factor alpha, CCL5, or CXCL10) or IFN-alpha/beta-induced MxA gene was seen in SCV-infected A549 cells, macrophages, or DCs. SCV also failed to induce DC maturation (CD86 expression) or enhance major histocompatibility complex class II expression. Our data strongly suggest that SCV fails to activate host cell cytokine gene expression in human macrophages and DCs.     

Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages

Measuring molecular evolution in bacteria typically requires estimation of the rate at which nucleotide changes accumulate in strains sampled at different times that share a common ancestor. This approach has been useful for dating ecological and evolutionary events that coincide with the emergence of important lineages, such as outbreak strains and obligate human pathogens. However, in multi-host (niche) transmission scenarios, where the pathogen is essentially an opportunistic environmental organism, sampling is often sporadic and rarely reflects the overall population, particularly when concentrated on clinical isolates. This means that approaches that assume recent common ancestry are not applicable. Here we present a new approach to estimate the molecular clock rate in Campylobacter that draws on the popular probability conundrum known as the ‘birthday problem’. Using large genomic datasets and comparative genomic approaches, we use isolate pairs that share recent common ancestry to estimate the rate of nucleotide change for the population. Identifying synonymous and non-synonymous nucleotide changes, both within and outside of recombined regions of the genome, we quantify clock-like diversification to estimate synonymous rates of nucleotide change for the common pathogenic bacteria Campylobacter coli (2.4 x 10⁻⁶ s/s/y) and Campylobacter jejuni (3.4 x 10⁻⁶ s/s/y). Finally, using estimated total rates of nucleotide change, we infer the number of effective lineages within the sample time frame–analogous to a shared birthday–and assess the rate of turnover of lineages in our sample set over short evolutionary timescales. This provides a generalizable approach to calibrating rates in populations of environmental bacteria and shows that multiple lineages are maintained, implying that large-scale clonal sweeps may take hundreds of years or more in these species.     

Aquatic bryophytes play a key role in sediment-stressed boreal headwater streams

Hydrobiologia - Forestry-related land use can cause increasing instream sedimentation, burying and eradicating stream bryophytes, with severe ecological consequences. However, there is limited...     

Afforestation does not necessarily reduce nitrous oxide emissions from managed boreal peat soils

Pristine peatlands have generally low nitrous oxide (N₂O) emissions but drainage and management practices enhance the microbial processes and associated N₂O emissions. It is assumed that leaving peat soils from intensive management, such as agriculture, will decrease their N₂O emissions. In this paper we report how the annual N₂O emission rates will change when agricultural peat soil is either left abandoned or afforested and also N₂O emissions from afforested peat extraction sites. In addition, we evaluated a biogeochemical model (DNDC) with a view to explaining GHG emissions from peat soils under different land uses. The abandoned agricultural peat soils had lower mean annual N₂O emissions (5.5?±?5.4?kg?N?ha^?1) than the peat soils in active agricultural use in Finland. Surprisingly, N₂O emissions from afforested organic agricultural soils (12.8?±?9.4?kg?N?ha^?1) were similar to those from organic agricultural soils in active use. These emissions were much higher than those from the forests on nutrient rich peat soils. Abandoned and afforested peat extraction sites emitted more N₂O, (2.4?±?2.1?kg?N?ha^?1), than the areas under active peat extraction (0.7?±?0.5?kg?N?ha^?1). Emissions outside the growing season contributed significantly, 40% on an average, to the annual emissions. The DNDC model overestimated N₂O emission rates during the growing season and indicated no emissions during winter. The differences in the N₂O emission rates were not associated with the age of the land use change, vegetation characteristics, peat depth or peat bulk density. The highest N₂O emissions occurred when the soil C:N ratio was below 20 with a significant variability within the measured C:N range (13–27). Low soil pH, high nitrate availability and water table depth (50–70?cm) were also associated with high N₂O emissions. Mineral soil has been added to most of the soils studied here to improve the fertility and this may have an impact on the N₂O emissions. We infer from the multi-site dataset presented in this paper that afforestation is not necessarily an efficient way to reduce N₂O emissions from drained boreal organic fields.