Interactions between mountain birch seedlings from differentiated populations in contrasting environments of subarctic Russia

So far very few experiments have accounted for the combined effect of two phenomena co-occurring in stress gradients: local adaptation to stress and the increase in facilitation with increasing stress (predicted by the stress-gradient hypothesis, SGH). Mountain birch (Betula pubescens subsp. czerepanovii) facilitates conspecific seedlings in subarctic high stress sites and is capable of rapid evolutionary adaptation, being therefore a good model species for a study combining local ecotypes and SGH. A within-species experiment was conducted to test SGH in three stress gradients, detect potential local adaptations between low and high stress populations, and assess their effects on seedling-seedling interactions. Although no evidence for local adaptation was detected, high and low stress populations showed some differentiation, possibly explained by decreasing phenotypic plasticity in high stress conditions and/or neutral evolutionary mechanisms. Weak support for SGH was detected. While facilitation was unaffected by seedling origin, low stress populations showed better competitive ability.     

Effects of intermediate host genetic background on parasite transmission dynamics: a case study using Schistosoma mansoni

For parasites that require multiple hosts to complete their development, genetic interplay with one host may impact parasite transmission and establishment in subsequent hosts. In this study, we used microsatellite loci to address whether the genetic background of snail intermediate hosts influences life-history traits and transmission patterns of dioecious trematode parasites in their definitive hosts. We performed experimental Schistosoma mansoni infections utilizing two allopatric populations of Biomphalaria glabrata snails and assessed intensities and sex ratios of adult parasites in mouse definitive hosts. Our results suggest that the genetic background of hosts at one point in a parasite’s life cycle can influence the intensities and sex ratios of worms in subsequent hosts.     

Local hopping mobile DNA implicated in pseudogene formation and reductive evolution in an obligate cyanobacteria-plant symbiosis

Background

Insertion sequences (ISs) are approximately 1 kbp long “jumping” genes found in prokaryotes. ISs encode the protein Transposase, which facilitates the excision and reinsertion of ISs in genomes, making these sequences a type of class I (“cut-and-paste”) Mobile Genetic Elements. ISs are proposed to be involved in the reductive evolution of symbiotic prokaryotes. Our previous sequencing of the genome of the cyanobacterium ‘Nostoc azollae’ 0708, living in a tight perpetual symbiotic association with a plant (the water fern Azolla), revealed the presence of an eroding genome, with a high number of insertion sequences (ISs) together with an unprecedented large proportion of pseudogenes. To investigate the role of ISs in the reductive evolution of ‘Nostoc azollae’ 0708, and potentially in the formation of pseudogenes, a bioinformatic investigation of the IS identities and positions in 47 cyanobacterial genomes was conducted. To widen the scope, the IS contents were analysed qualitatively and quantitatively in 20 other genomes representing both free-living and symbiotic bacteria.

Results

Insertion Sequences were not randomly distributed in the bacterial genomes and were found to transpose short distances from their original location (“local hopping”) and pseudogenes were enriched in the vicinity of IS elements. In general, symbiotic organisms showed higher densities of IS elements and pseudogenes than non-symbiotic bacteria. A total of 1108 distinct repeated sequences over 500 bp were identified in the 67 genomes investigated. In the genome of ‘Nostoc azollae’ 0708, IS elements were apparent at 970 locations (14.3%), with 428 being full-length. Morphologically complex cyanobacteria with large genomes showed higher frequencies of IS elements, irrespective of life style.

Conclusions

The apparent co-location of IS elements and pseudogenes found in prokaryotic genomes implies earlier IS transpositions into genes. As transpositions tend to be local rather than genome wide this likely explains the proximity between IS elements and pseudogenes. These findings suggest that ISs facilitate the reductive evolution in for instance in the symbiotic cyanobacterium ‘Nostoc azollae’ 0708 and in other obligate prokaryotic symbionts.

Electronic supplementary material

The online version of this article (doi:10.1186/s12864-015-1386-7) contains supplementary material, which is available to authorized users.     

Fliposomes: pH-triggered conformational flip of new trans-2-aminocyclohexanol-based amphiphiles causes instant cargo release in liposomes

A new type of pH-sensitive liposomes (fliposomes) was designed based on the amphiphiles that are able to perform a pH-triggered conformational flip (flipids). This flip disrupts the liposome membrane and causes rapid release of the liposome cargo, specifically in response to lowered pH. The flipids (1) and (2) are equipped with a trans-2-aminocyclohexanol conformational switch. pH-sensitive fliposomes containing one or both of these flipids, as well as POPC and PEG ceramide, were constructed and characterized. These compositions were stable at 4^°C and pH 7.4 for several months. Fliposomes loaded with ANTS/DPX performed an unusually quick content release within a few seconds at pH below 8.5 (in case of 2) and 6.0 (in case of 1). This difference in pH sensitivity demonstrates a potential for the custom design of flipids by variation of the amino group to target areas with specific pH values. The pH titration curves for the fliposome leakage parallel the curves for the acid-induced conformational flip of 1 and 2 studied by ¹H NMR. A plausible mechanism of pH sensitivity starts with an acid-triggered conformational flip of 1 or 2, which changes the molecular size and shape, shortens the lipid tails, and perturbs the liposome membrane, resulting in the content leakage.     

Ecological indicators of fruit and vegetable consumption (EIFVCs): A case study

Food and drink consumption was found to be responsible for around 20–30% of environmental impacts. Environmental impacts occur during all stages of the food production chain. However, households influence these impacts with through their choice of diet and habits, thus directly affecting the environment through food-related energy consumption and waste generation. With the multiplication of local policies for sustainable consumption, it has become increasingly useful to gather information on the evolution of the ecological impacts associated with household food consumption. Dealing with the indicators of household consumption of fruits and vegetables will enable changes in the population's lifestyles and the effectiveness of local policies to be monitored.The aims of this article are twofold: to provide a conceptual framework on the purposes of ecological indicators of fruit and vegetable consumption (EIFVCs) and to provide a methodological approach for selecting and measuring the most relevant EIFVCs at a local scale. Considering the great diversity of ecological impacts, the large number of potential EIFVCs must be reduced to obtain fewer EIFVCs, but that are relevant at local scale. To be relevant, the EIFVCs must provide information on the three phases of consumption (acquisition, use, and disposal) and on the upstream and downstream phases of the consumption process; they should evaluate the more problematic ecological impacts at the local scale (level of concern); and they have to only point out the ecological impacts that households can significantly reduce through their consumption rates. To measure relevant EIFVCs, three approaches must be combined: monitoring the ecological impacts, measuring the material and energy fluxes associated with household consumption, and analysing the consumer behaviours that result in the observed ecological impacts.As an illustration, the methodology is applied to the Bordeaux Metropolitan Area (France). In this area, eleven EIFVCs seem relevant. The use of surveys characterises all eleven of the EIFVCs, despite the difficulty of establishing quantified relationships between household behaviours and measured ecological impacts. The measuring of fluxes is possible for eight of them, whereas the monitoring of ecological impacts is only feasible for two of them.     

The cost-effectiveness of using raptor nest sites to identify areas with high species richness of other taxa

Given the limited resources available for conservation, it is important that the areas to preserve are selected in a cost effective manner. However, the cost effectiveness of the surrogate species strategy (the use of information on one or more species to identify areas of value for other species for which there is no, or more limited, available information) has seldom been evaluated.In this study, we investigate the opportunity cost of setting aside breeding sites of two forest raptor species (the surrogate species) by evaluating their individual and combined contribution to preserve diversity of polypores (wood-decaying fungi) and birds against the contributions of previously established nature reserves. We use numeric optimization models to compare different reserve selection strategies.Site selection based on nest sites of the dominant raptor species was more cost-effective than strategies using sites of the subordinate species or those processes previously used to select nature reserves in Finland. The inclusion of both raptor species in the reserve selection model further improved its performance relative to other approaches. This indicates that the means by which Finnish reserves are selected could be enhanced by including the breeding sites of these, and maybe other species, among the criteria used to select reserves in the future.These results show that information on charismatic and well-surveyed species could be a cost-efficient add-on to help enhance conservation endeavours. Where there is inter-specific competition for biodiverse sites, and using multiple species is costly, basing reserve selection primarily on breeding sites of a dominant species may be the best strategy. However, further work is required to establish the extent to which dominant species are typically better indicators of conservation relevance.     

Development of an ON/OFF switchable fluorescent probe targeting His tag fused proteins in living cells

The fluorescent labeling of target proteins is useful for analyzing their functions and localization in cells, and several fluorescent probes have been developed. However, the fusion of tags such as green fluorescent protein (GFP) to target proteins occasionally affects their functions and/or localization in living cells. Therefore, an imaging method that uses short peptide tags such as hexa-histidine (the His tag) has been attracting increasing attention. Few studies have investigated ON/OFF switchable fluorescent probes for intracellular His-tagged proteins. We herein developed a novel ON/OFF switchable probe for imaging targeted intracellular proteins fused with a CH6 tag, which is composed of one cysteine residue and six histidine residues.