Common and rare Swedish vertebrates — distribution and habitat preferences

Data have been compiled on the distribution, habitat preferences and population sizes of 348 vertebrates reproducing in Sweden (excluding fish) and their species richness in different habitats and regions was investigated. Furthermore, we compared the habitat preferences and distribution of rare and common vertebrates. The relative species number (corrected for area) increases from the north (the hemiarctic/boreal zone) to the south (the temperate/hemiboreal zone). The relative number of species in major habitats is highest in farmland, lakes and running waters, and possibly also in the sea. However, the absolute number of species is highest in woodland, the dominant habitat in Sweden (56% of the land area excluding sea). Within woodlands, a large proportion of species occur in southern deciduous forests, in other deciduous forests and in mixed forests, while coniferous forests are less species-rich when the habitat area is taken into account. In farmland, the most species-rich habitats are meadows and forest edges, while marshes are the most species-rich habitats amongst lakes and running waters. Nationally rare species (<1000 individuals) have a smaller European range than common species, and they also have their European distribution centres further to the south than the common species. Of the species occurring in large parts of Sweden (that is, both in the north and the south) a low proportion (4.7%) are classified as rare compared with species occurring mainly in the north (20.6% rare) or mainly in the south (31.6% rare) of Sweden. There is a positive correlation between the number of rare species and the total species number in 41 subcategory habitats, and the proportion of rare species is similar in most habitats. A more detailed analysis (including effects of both regions and habitats) suggests that the proportion of rare species in a region is a result of differences between latitudes, but also of different habitats (when corrected for latitude effects). There are differences in the proportion of rare species between the nine most species-rich orders (for example, there is a high proportion of rare species in the order Carnivora and a low proportion in the order Rodentia), but the proportion of rare species in these orders is not independent of the habitats in which they occur, making it difficult to separate the effects of habitat preferences and taxonomy on rarity. The focusing of conservation work on relatively species-rich habitats in southern and middle Sweden — such as some farmland habitats (that is, meadows and forest edges), marshes (in connection with lakes and running waters) and forests with a relatively high proportion of deciduous trees — is of high priority if the conservation of biodiversity is a main goal. These are also the habitats with a high number of rare and red-listed species.     

Common Infections May Lead to Alzheimer’s Disease

正Alzheimer’s disease (AD), also known as Alzheimer’s, is a chronic neurodegenerative disorder with hallmark amyloid plaques in brain tissue. The diseases commences slowly and worsens over time (Sjogren et al. 1952). Although it has been investigated for over six decades, the cause of AD     

Common and specific responses to iron and phosphorus deficiencies in roots of apple tree (Malus × domestica)

Plant Molecular Biology - Iron and phosphorus are abundant elements in soils but poorly available for plant nutrition. The availability of these two nutrients represents a major constraint for...     

Common variants of ACE contribute to variable age-at-onset of Alzheimer’s disease

Studies on the role that genetic variation may play in a complex human disease can be empowered by an assessment of both disease risk in case-control or family models and of quantitative traits that reflect elements of disease etiology. An excellent example of this can be found for the 4 allele of APOE in relation to Alzheimers disease (AD) for which association with both risk and age-at-onset (AAO) is evident. Following a recent demonstration that variants of the gene encoding angiotensin I converting enzyme (ACE) contribute to AD risk, we have explored the potential influence of ACE upon AAO in AD. A total of 2861 individuals from three European populations, including six independent AD samples, have been examined in this study. Three single nucleotide polymorphisms (SNPs) previously demonstrated to have maximum effects upon ACE plasma levels and that span the ACE locus were genotyped in these materials. A strong effect upon AAO was observed for marker rs4343 in exon 17 (P<0.0001), but evidence was also obtained indicating a possible independent effect of marker rs4291 (P=0.0095) located in the ACE promoter. Effects were consistent with data from previous studies suggesting association with AD in case-control models, whereby alleles demonstrated to confer risk to disease also appear to reduce AAO. Equivalent effects were evident regardless of APOE 4 carrier status and in both males and females. These results provide an important complement to existing AD risk data, confirming that ACE harbors sequence variants that contribute to aspects of AD pathology.     

Hyperglycemia and glucosamine-induced mesangial cell cycle arrest and hypertrophy: Common or independent mechanisms?

The Hexosamine Pathway (HP) is one hypothesis proposed to explain glucose toxicity and the alterations observed during the course of diabetic microvascular complication development. Glucosamine is a precursor of UDP-N-Acetylglucosamine (UDP-GlcNAc), the main product of the HP that has often been used to mimic its activation. The transfer of a UDP-GlcNAc residue onto proteins (O-GlcNAc modification) represents the final step of the HP and is considered as a major mechanism by which this pathway exerts its signalling effects. While it is well accepted that the HP promotes extracellular matrix accumulation in the context of diabetic nephropathy, its involvement in the perturbations of cell cycle progression and hypertrophy of renal cells has been poorly investigated. Nevertheless, in a growing number of studies, the HP and O-GlcNAc modification are emerging as important regulators of cell cycle progression. This review will focus on the role of glucosamine and O-GlcNAc modification in cell cycle regulation in the context of diabetic nephropathy. Special emphasis will be given into the role of the HP as a potential mediator of the effects of high glucose on the perturbations of renal cell growth.     

Tuning towards tomorrow? Common nightingales Luscinia megarhynchos change and increase their song repertoires from the first to the second breeding season

In many oscines, song repertoire size correlates with male quality and female mate choice, and can vary with age. In a cross-sectional field study in common nightingales Luscinia megarhynchos , one y old birds had substantially smaller repertoires than did older ones. In laboratory experiments males can acquire new song types during this period. This longitudinal field study therefore investigates whether individual nightingales increase their repertoires from the first to the second breeding season. We report a striking repertoire turnover, with an average overall increase of 24% of the first season's repertoire, resulting from added and dropped song types (54% and 30%, respectively). The number of added song types correlated positively with the size of the first season's repertoire. These results are consistent with the notion that repertoire size in nightingales correlates with male quality, although the overlap between repertoire sizes of first and second season birds makes it impossible to discriminate age based solely on repertoire size. Comparing the number of song types an individual sang in both seasons ('permanent song types') revealed a lower overlap than reported for subsequent seasons. The frequencies with which these were sung in the first season were less predictive of how often they were sung in the second season than was the case between later years. This drastic repertoire turnover from the first to the second season may be a selective process in response to the local song types, constrained by genetic makeup and shaped by early experience.     

A Common Left Occipito-Temporal Dysfunction in Developmental Dyslexia and Acquired Letter-By-Letter Reading?

Background

We used fMRI to examine functional brain abnormalities of German-speaking dyslexics who suffer from slow effortful reading but not from a reading accuracy problem. Similar to acquired cases of letter-by-letter reading, the developmental cases exhibited an abnormal strong effect of length (i.e., number of letters) on response time for words and pseudowords.

Results

Corresponding to lesions of left occipito-temporal (OT) regions in acquired cases, we found a dysfunction of this region in our developmental cases who failed to exhibit responsiveness of left OT regions to the length of words and pseudowords. This abnormality in the left OT cortex was accompanied by absent responsiveness to increased sublexical reading demands in phonological inferior frontal gyrus (IFG) regions. Interestingly, there was no abnormality in the left superior temporal cortex which—corresponding to the onological deficit explanation—is considered to be the prime locus of the reading difficulties of developmental dyslexia cases.

Conclusions

The present functional imaging results suggest that developmental dyslexia similar to acquired letter-by-letter reading is due to a primary dysfunction of left OT regions.     

Can Genetic Pleiotropy Replicate Common Clinical Constellations of Cardiovascular Disease and Risk?

The relationship between obesity, diabetes, hyperlipidemia, hypertension, kidney disease and cardiovascular disease (CVD) is established when looked at from a clinical, epidemiological or pathophysiological perspective. Yet, when viewed from a genetic perspective, there is comparatively little data synthesis that these conditions have an underlying relationship. We sought to investigate the overlap of genetic variants independently associated with each of these commonly co-existing conditions from the NHGRI genome-wide association study (GWAS) catalog, in an attempt to replicate the established notion of shared pathophysiology and risk. We used pathway-based analyses to detect subsets of pleiotropic genes involved in similar biological processes. We identified 107 eligible GWAS studies related to CVD and its established comorbidities and risk factors and assigned genes that correspond to the associated signals based on their position. We found 44 positional genes shared across at least two CVD-related phenotypes that independently recreated the established relationship between the six phenotypes, but only if studies representing non-European populations were included. Seven genes revealed pleiotropy across three or more phenotypes, mostly related to lipid transport and metabolism. Yet, many genes had no relationship to each other or to genes with established functional connection. Whilst we successfully reproduced established relationships between CVD risk factors using GWAS findings, interpretation of biological pathways involved in the observed pleiotropy was limited. Further studies linking genetic variation to gene expression, as well as describing novel biological pathways will be needed to take full advantage of GWAS results.     

A Common Parched Future? Research and Management of Australian Arid-zone Floodplain Wetlands

Wetlands in arid and semi-arid areas face intensifying pressure for their water resources yet harbour unique biota and ecological processes that rely on the “boom and bust” regime of alternating flood and drought. Recent research in Australia has revealed that models of ecosystem processes derived from northern temperate zone wetlands are often inapplicable to arid zone wetlands, confounding efforts to manage or protect these threatened habitats. We review four case studies from inland Australia that demonstrate different degrees of successful management, aiming to draw out lessons learned that will improve our sustainable use of these delicate systems. Inappropriate extrapolation across scales that ignores the inherent spatial and temporal variability of arid-zone wetlands, “reactive” rather than “collaborative” research and management, and a reluctance to adopt functional indicators to complement state variables are several common themes. We are optimistic that managers and researchers are collaborating to tackle these issues but warn that a parched future faces some wetlands where jurisdictional boundaries hamper their effective management or entrenched beliefs and community distrust of managers threaten ecologically sustainable resource use. In arid areas where water is so precious, environmental allocations are costly and their long-term effects are difficult to identify against a backdrop of high inherent variability. Preservation of this variability is the key to successful management of these “boom and bust” systems but diametrically opposes the desire for regulated, reliable water supplies for human use. Social and institutional acceptance and change now appear to be greater barriers than limited ecological understanding to effective management of many “parched wetlands” in Australia.     

Care-Seeking and Management of Common Childhood Illnesses in Tanzania – Results from the 2010 Demographic and Health Survey

Background

Malaria, pneumonia and diarrhoea continue to kill millions of children in Africa despite the available and effective treatments. Correct diagnosis and prompt treatment with effective drugs at the first option consulted for child care is crucial for preventing severe disease and death from these illnesses. Using the 2010 Demographic and Health Survey data, the present study aims to assess care-seeking and management of suspected malaria, pneumonia and diarrhoea at various health care facilities in Tanzania.

Methods

We analyzed data for 8176 children born within a 5 years period preceding the survey.The information was collected by interviewing 5519 women aged 15–49 years in 10,300 households selected from 475 sample points throughout Tanzania.

Results

The most common first option for child care was PHC facilities (54.8%), followed by private pharmacies (23.4%). These were more commonly utilized in rural compared to urban areas: 61.2% versus 34.5% for PHC facilities, and 26.5% versus 17.7% for pharmacies. Women in urban areas and those with higher level of education more commonly utilized higher level hospitals and private facilities as their first option for child care. Only one in four children with fever had received a blood test during the illness with lowest proportion being reported among children solely attended at PHC facilities. Use of abandoned antimalarial drugs for the treatment of suspected malaria was also observed in public health facilities and antibiotics use for diarrhoea treatment was high (49.0%).

Conclusions

PHC facilities and pharmacies most commonly provided sub-optimal care. These facilities were more commonly utilized as the first option for child care in rural areas and among the poor and non-educated families. These are groups with the highest child mortality, which calls for interventions’ targeting improvement of care at these facilities to further reduce child mortality from treatable illnesses in Tanzania.     

Brothers in arms? Common and contrasting themes in pathogen perception by plant NB-LRR and animal NACHT-LRR proteins

Both plant and animal genomes encode proteins with nucleotide binding domains fused to leucine-rich repeat domains that are involved in responses to pathogens. While these domain structures are probably an example of convergent evolution, there are a number of similarities in the core mechanisms by which these proteins are regulated.     

Common DISC1 polymorphisms disrupt Wnt/GSK3β signaling and brain development

Disrupted in Schizophrenia-1 (DISC1) is a candidate gene for psychiatric disorders and has many roles during brain development. Common DISC1 polymorphisms (variants) are associated with neuropsychiatric phenotypes including altered cognition, brain structure, and function; however, it is unknown how this occurs. Here, we demonstrate using mouse, zebrafish, and human model systems that DISC1 variants are loss of function in Wnt/GSK3β signaling and disrupt brain development. The DISC1 variants A83V, R264Q, and L607F, but not S704C, do not activate Wnt signaling compared with wild-type DISC1 resulting in decreased neural progenitor proliferation. In zebrafish, R264Q and L607F could not rescue DISC1 knockdown-mediated aberrant brain development. Furthermore, human lymphoblast cell lines endogenously expressing R264Q displayed impaired Wnt signaling. Interestingly, S704C inhibited the migration of neurons in the developing neocortex. Our data demonstrate DISC1 variants impair Wnt signaling and brain development and elucidate?a possible mechanism for their role in neuropsychiatric phenotypes.     

Papillomaviruses—to vaccination and beyond

High risk human papillomavirus (HPV) types 16 and 18 DNAs were initially identified in 1983-1984. Subsequently the DNA of several other high risk HPV types has been identified. HPV 16 is present in more than 50% of cervical cancer biopsies, and HPV 18 is close to 20%. Some geographic variations exist in the prevalence of HPV high risk types: e.g. HPV 45 is more frequently observed in equatorial Africa, whereas types 58 and 52 have been more often found in East Asia. Molecular as well as epidemiological studies demonstrate that high risk HPV are indeed the causative agents for cervical cancer, they are also involved in other anogenital cancers, and in 25-30% of oropharyngeal carcinomas. Some of the mechanistic aspects are discussed in this review.     

Common benzothiazole and benzoxazole fluorescent DNA intercalators for studying Alzheimer Aβ1-42 and prion amyloid peptides

DNA-based methods for human identification principally rely upon genotyping of short tandem repeat (STR) loci. Electrophoretic-based techniques for variable-length classification of STRs are universally utilized, but are limited in that they have relatively low throughput and do not yield nucleotide sequence information. High-throughput sequencing technology may provide a more powerful instrument for human identification, but is not currently validated for forensic casework. Here, we present a systematic method to perform high-throughput genotyping analysis of the Combined DNA Index System (CODIS) STR loci using short-read (150 bp) massively parallel sequencing technology. Open source reference alignment tools were optimized to evaluate PCR-amplified STR loci using a custom designed STR genome reference. Evaluation of this approach demonstrated that the 13 CODIS STR loci and amelogenin (AMEL) locus could be accurately called from individual and mixture samples. Sensitivity analysis showed that as few as 18,500 reads, aligned to an in silico referenced genome, were required to genotype an individual (>99% confidence) for the CODIS loci. The power of this technology was further demonstrated by identification of variant alleles containing single nucleotide polymorphisms (SNPs) and the development of quantitative measurements (reads) for resolving mixed samples.