Fertile island development around perennial shrubs across a Mojave Desert chronosequence

Spatial heterogeneity has been examined only recently as a factor in studies of ecosystem processes. The effect of this factor on desert organisms is exemplified in the ""fertile island"" a concentration of essential soil nutrients under perennial shrubs. In this study we examined fertile island patterns in undisturbed desert areas and on abandoned roadways to see at what rate and magnitude these fertile patches reappeared after disturbance. Small-scale examination of patterns of soil P, organic matter, moisture, and bulk density showed that soils beneath Larrea tridentata (DC.) Cov. shrubs on the roads lacked the tight circular gradient in these variables that was characteristic of soils beneath control shrubs, even 88 years after road abandonment. The nature of the initial soil disturbance altered both spatial patterns of soil N and temporal patterns of fertile island development. Fertile island patterns for total soil N, available P, and organic matter were more circular than patterns for bulk density, texture, or pH. We suggest that patterns of soil heterogeneity may develop first for elements that may be limiting to desert shrub growth (N, P, organic matter), followed by spatial development in other less limiting soil factors (bulk density, texture, pH).     

Summer food habits of coyotes in Idaho's River of No Return Wilderness Area

Summer food habits of coyotes ( Canis latrans )in the River of No Return Wilderness Area, Idaho, were determined. Analysis of 51 scats (fecal samples) revealed that Columbian ground squirrels ( Spermophilus columbianus ), mule deer ( Odocoileus hemionus ), and deer mice ( Peromyscus manniculatus ) exhibited the greatest frequency of occurrence for identified food items, being detected in 57%, 27%, and 16%, respectively, of scats examined.     

Chironomidae (Diptera) of the Colorado River, Grand Canyon, Arizona, USA, I: systematics and ecology

We describe the chironomid midge fauna of the Colorado River between Glen Canyon Dam and Lake Mead, Arizona. This depauperate fauna, consisting of 38 species, is dominated by euryecious Nearctic or Holarctic orthocladine taxa. In addition, a small Neotropical faunal component is represented by Polypedilum obelos Sublette & Sasa and Rheotanytarsus hamatus Sublette & Sasa. The following new synonyms are given: Protenthes riparius Malloch 1915 with Tanypus bellus Loew 1866 [= Procladius (Psilotanypus) bellus (Loew)]; Cricotopus olivetus Boesel 1983 with Cricotopus (Circotopus) annulator (Goetghebuer) 1927; Cricotopus edurus Sublette & Sublette 1971 with Orthocladius infuscatus Malloch 1915 [= Cricotopus (Cricotopus) infuscatus (Malloch)]. The following new species are described: Cricotopus (Cricotopus) blinni Sublette, Cricotopus (Cricotopus) hermanni Sublette, Metriocnemus stevensi Sublette, and Cladotanytarsus marki Sublette. We discuss the distribution and ecology of each chironomid species in this large, regulated, aridlands river.     

Distinct physiological and behavioural functions for parental alleles of imprinted Grb10

Imprinted genes, defined by their preferential expression of a single parental allele, represent a subset of the mammalian genome and often have key roles in embryonic development, but also postnatal functions including energy homeostasis and behaviour. When the two parental alleles are unequally represented within a social group (when there is sex bias in dispersal and/or variance in reproductive success), imprinted genes may evolve to modulate social behaviour, although so far no such instance is known. Predominantly expressed from the maternal allele during embryogenesis, Grb10 encodes an intracellular adaptor protein that can interact with several receptor tyrosine kinases and downstream signalling molecules. Here we demonstrate that within the brain Grb10 is expressed from the paternal allele from fetal life into adulthood and that ablation of this expression engenders increased social dominance specifically among other aspects of social behaviour, a finding supported by the observed increase in allogrooming by paternal Grb10-deficient animals. Grb10 is, therefore, the first example of an imprinted gene that regulates social behaviour. It is also currently alone in exhibiting imprinted expression from each of the parental alleles in a tissue-specific manner, as loss of the peripherally expressed maternal allele leads to significant fetal and placental overgrowth. Thus Grb10 is, so far, a unique imprinted gene, able to influence distinct physiological processes, fetal growth and adult behaviour, owing to actions of the two parental alleles in different tissues.     

Transforming binding affinities from three dimensions to two with application to cadherin clustering

Membrane-bound receptors often form large assemblies resulting from binding to soluble ligands, cell-surface molecules on other cells and extracellular matrix proteins. For example, the association of membrane proteins with proteins on different cells (trans-interactions) can drive the oligomerization of proteins on the same cell (cis-interactions). A central problem in understanding the molecular basis of such phenomena is that equilibrium constants are generally measured in three-dimensional solution and are thus difficult to relate to the two-dimensional environment of a membrane surface. Here we present a theoretical treatment that converts three-dimensional affinities to two dimensions, accounting directly for the structure and dynamics of the membrane-bound molecules. Using a multiscale simulation approach, we apply the theory to explain the formation of ordered, junction-like clusters by classical cadherin adhesion proteins. The approach features atomic-scale molecular dynamics simulations to determine interdomain flexibility, Monte Carlo simulations of multidomain motion and lattice simulations of junction formation. A finding of general relevance is that changes in interdomain motion on trans-binding have a crucial role in driving the lateral, cis-, clustering of adhesion receptors.     

Ecology drives a global network of gene exchange connecting the human microbiome

Horizontal gene transfer (HGT), the acquisition of genetic material from non-parental lineages, is known to be important in bacterial evolution. In particular, HGT provides rapid access to genetic innovations, allowing traits such as virulence, antibiotic resistance and xenobiotic metabolism to spread through the human microbiome. Recent anecdotal studies providing snapshots of active gene flow on the human body have highlighted the need to determine the frequency of such recent transfers and the forces that govern these events. Here we report the discovery and characterization of a vast, human-associated network of gene exchange, large enough to directly compare the principal forces shaping HGT. We show that this network of 10,770 unique, recently transferred (more than 99% nucleotide identity) genes found in 2,235 full bacterial genomes, is shaped principally by ecology rather than geography or phylogeny, with most gene exchange occurring between isolates from ecologically similar, but geographically separated, environments. For example, we observe 25-fold more HGT between human-associated bacteria than among ecologically diverse non-human isolates (P = 3.0 × 10(-270)). We show that within the human microbiome this ecological architecture continues across multiple spatial scales, functional classes and ecological niches with transfer further enriched among bacteria that inhabit the same body site, have the same oxygen tolerance or have the same ability to cause disease. This structure offers a window into the molecular traits that define ecological niches, insight that we use to uncover sources of antibiotic resistance and identify genes associated with the pathology of meningitis and other diseases.     

Probing sporadic and familial Alzheimer's disease using induced pluripotent stem cells

Our understanding of Alzheimer's disease pathogenesis is currently limited by difficulties in obtaining live neurons from patients and the inability to model the sporadic form of the disease. It may be possible to overcome these challenges by reprogramming primary cells from patients into induced pluripotent stem cells (iPSCs). Here we reprogrammed primary fibroblasts from two patients with familial Alzheimer's disease, both caused by a duplication of the amyloid-β precursor protein gene (APP; termed APP(Dp)), two with sporadic Alzheimer's disease (termed sAD1, sAD2) and two non-demented control individuals into iPSC lines. Neurons from differentiated cultures were purified with fluorescence-activated cell sorting and characterized. Purified cultures contained more than 90% neurons, clustered with fetal brain messenger RNA samples by microarray criteria, and could form functional synaptic contacts. Virtually all cells exhibited normal electrophysiological activity. Relative to controls, iPSC-derived, purified neurons from the two APP(Dp) patients and patient sAD2 exhibited significantly higher levels of the pathological markers amyloid-β(1-40), phospho-tau(Thr?231) and active glycogen synthase kinase-3β (aGSK-3β). Neurons from APP(Dp) and sAD2 patients also accumulated large RAB5-positive early endosomes compared to controls. Treatment of purified neurons with β-secretase inhibitors, but not γ-secretase inhibitors, caused significant reductions in phospho-Tau(Thr?231) and aGSK-3β levels. These results suggest a direct relationship between APP proteolytic processing, but not amyloid-β, in GSK-3β activation and tau phosphorylation in human neurons. Additionally, we observed that neurons with the genome of one sAD patient exhibited the phenotypes seen in familial Alzheimer's disease samples. More generally, we demonstrate that iPSC technology can be used to observe phenotypes relevant to Alzheimer's disease, even though it can take decades for overt disease to manifest in patients.     

Emerging fungal threats to animal, plant and ecosystem health

The past two decades have seen an increasing number of virulent infectious diseases in natural populations and managed landscapes. In both animals and plants, an unprecedented number of fungal and fungal-like diseases have recently caused some of the most severe die-offs and extinctions ever witnessed in wild species, and are jeopardizing food security. Human activity is intensifying fungal disease dispersal by modifying natural environments and thus creating new opportunities for evolution. We argue that nascent fungal infections will cause increasing attrition of biodiversity, with wider implications for human and ecosystem health, unless steps are taken to tighten biosecurity worldwide.