The turing model comes of molecular age

Molecular analysis of hair follicle formation provide evidence to support the most well-known mathematical model for biological pattern formation

Residential sorting across Auckland neighbourhoods

This paper addresses the extent to which people in Auckland exhibit residential location patterns that differ between groups, i.e. the extent to which they are spatially sorted. To measure patterns of residential location, the paper uses the index of segregation, an isolation index, Gini coefficients, Ellison & Glaeser and Maurel & Sédillot concentration measures, Moran’s I and Getis and Ord’s G*. Results are presented based on a classification of the population in different ways: ethnicity, income, education, age and country of birth. Both city-wide and local measures are considered. We find that ethnic-based sorting is the strongest indicator of residential sorting patterns, but soring by income, education and age is also present. Sorting by income and qualifications is strongest at the top and, to lesser extent, at the bottom of the income and qualifications range. Age segregation is most pronounced for older residents. Clustering is strongest within a range of up to one kilometre and declines significantly over greater distances. Local analysis by means of Getis and Ord’s G* calculations suggest significant ethnic clustering. Apart from Maori and Pacific Islanders, ethnic groups tend to locate way from each other, as confirmed with cross-Moran’s I calculations. When considering interactions between ethnicity and income we find that the location of ethnicity income subgroups is more strongly related to neighbourhood income

Longer thaw seasons increase nitrogen availability for leaching during fall in tundra soils

Climate change has resulted in warmer soil temperatures, earlier spring thaw and later fall freeze-up, resulting in warmer soil temperatures and thawing of permafrost in tundra regions. While these changes in temperature metrics tend to lengthen the growing season for plants, light levels, especially in the fall, will continue to limit plant growth and nutrient uptake. We conducted a laboratory experiment using intact soil cores with and without vegetation from a tundra peatland to measure the effects of late freeze and early spring thaw on carbon dioxide (CO2) exchange, methane (CH4) emissions, dissolved organic carbon (DOC) and nitrogen (N) leaching from soils. We compared soil C exchange and N production with a 30 day longer seasonal thaw during a simulated annual cycle from spring thaw through freeze-up and thaw. Across all cores, fall N leaching accounted for ~33% of total annual N loss despite significant increases in microbial biomass during this period. Nitrate $({{{\rm{NO}}}_{3}}^{-})$ leaching was highest during the fall (5.33 ± 1.45 mg N m−2 d−1) following plant senescence and lowest during the summer (0.43 ± 0.22 mg N m−2 d−1). In the late freeze and early thaw treatment, we found 25% higher total annual ecosystem respiration but no significant change in CH4 emissions or DOC loss due to high variability among samples. The late freeze period magnified N leaching and likely was derived from root turnover and microbial mineralization of soil organic matter coupled with little demand from plants or microbes. Large N leaching during the fall will affect N cycling in low-lying areas and streams and may alter terrestrial and aquatic ecosystem nitrogen budgets in the arctic

Ks1, an epithelial cell-specific gene, responds to early signals of head formation in Hydra

As a molecular marker for head specification in Hydra, we have cloned an epithelial cell-specific gene which responds to early signals of head formation. The gene, designated ks1, encodes a 217-amino acid protein lacking significant sequence similarity to any known protein. KS1 contains a N-terminal signal sequence and is rich in charged residues which are clustered in several domains. ks1 is expressed in tentacle-specific epithelial cells (battery cells) as well as in a small fraction of ectodermal epithelial cells in the gastric region subjacent to the tentacles. Treatment with the protein kinase C activator 12-O-tetradecanoylphorbol-13- acetate (TPA) causes a rapid increase in the level of ks1 mRNA in head-specific epithelial cells and also induces ectopic ks1 expression in cells of the gastric region. Sequence elements in the 5 ¢-flanking region of ks1 that are related to TPA-responsive elements may mediate the TPA inducibility of ks1 expression. The pattern of expression of ks1 suggests that a ligand-activated diacylglycerol second messenger system is involved in head-specific differentiation

Timescale dependence of environmental and plant‐mediated controls on CH4 flux in a temperate fen

This study examined daily, seasonal, and interannual variations in CH4 emissions at a temperate peatland over a 5‐year period. We measured net ecosystem CO2 exchange (NEE), CH4 flux, water table depth, peat temperature, and meteorological parameters weekly from the summers (1 May to 31 August) of 2000 through 2004 at Sallie\u27s Fen in southeastern New Hampshire, United States. Significant interannual differences, driven by high variability of large individual CH4 fluxes (ranging from 8.7 to 3833.1 mg CH4 m−2 d−1) occurring in the late summer, corresponded with a decline in water table level and an increase in air and peat temperature. Monthly timescale yielded the strongest correlations between CH4 fluxes and peat and air temperature (r2 = 0.78 and 0.74, respectively) and water table depth (WTD) (r2 = 0.53). Compared to daily and seasonal timescales, the monthly timescale was the best timescale to predict CH4 fluxes using a stepwise multiple regression (r2 = 0.81). Species composition affected relationships between CH4 fluxes and measures of plant productivity, with sedge collars showing the strongest relationships between CH4 flux, water table, and temperature. Air temperature was the only variable that was strongly correlated with CH4 flux at all timescales, while WTD had either a positive or negative correlation depending on timescale and vegetation type. The timescale dependence of controls on CH4 fluxes has important implications for modeling

Reptile scale paradigm: Evo-Devo, pattern formation and regeneration

The purpose of this perspective is to highlight the merit of the reptile integument as an experimental model. Reptiles represent the first amniotes. From stem reptiles, extant reptiles, birds and mammals have evolved. Mammal hairs and feathers evolved from Therapsid and Sauropsid reptiles, respectively. The early reptilian integument had to adapt to the challenges of terrestrial life, developing a multi-layered stratum corneum capable of barrier function and ultraviolet protection. For better mechanical protection, diverse reptilian scale types have evolved. The evolution of endothermy has driven the convergent evolution of hair and feather follicles: both form multiple localized growth units with stem cells and transient amplifying cells protected in the proximal follicle. This topological arrangement allows them to elongate, molt and regenerate without structural constraints. Another unique feature of reptile skin is the exquisite arrangement of scales and pigment patterns, making them testable models for mechanisms of pattern formation. Since they face the constant threat of damage on land, different strategies were developed to accommodate skin homeostasis and regeneration. Temporally, they can be under continuous renewal or sloughing cycles. Spatially, they can be diffuse or form discrete localized growth units (follicles). To understand how gene regulatory networks evolved to produce increasingly complex ectodermal organs, we have to study how prototypic scale-forming pathways in reptiles are modulated to produce appendage novelties. Despite the fact that there are numerous studies of reptile scales, molecular analyses have lagged behind. Here, we underscore how further development of this novel experimental model will be valuable in filling the gaps of our understanding of the Evo-Devo of amniote integuments

Distinct mechanisms underlie pattern formation in the skin and skin appendages

Patterns form with the break of homogeneity and lead to the emergence of new structure or arrangement. There are different physiological and pathological mechanisms that lead to the formation of patterns. Here, we first introduce the basics of pattern formation and their possible biological basis. We then discuss different categories of skin patterns and their potential underlying molecular mechanisms. Some patterns, such as the lines of Blaschko and Naevus, are based on cell lineage and genetic mosaicism. Other patterns, such as regionally specific skin appendages, can be set by distinct combinatorial molecular codes, which in turn may be set by morphogenetic gradients. There are also some patterns, such as the arrangement of hair follicles (hair whorls) and fingerprints, which involve genetics as well as stochastic epigenetic events based on physiochemical principles. Many appendage primordia are laid out in developmental waves. In the adult, some patterns, such as those involving cycling hair follicles, may appear as traveling waves in mice. Since skin appendages can renew themselves in regeneration, their size and shape can still change in the adult via regulation by hormones and the environment. Some lesion patterns are based on pathological changes involving the above processes and can be used as diagnostic criteria in medicine. Understanding the different mechanisms that lead to patterns in the skin will help us appreciate their full significance in morphogenesis and medical research. Much remains to be learned about complex pattern formation, if we are to bridge the gap between molecular biology and organism phenotypes. Birth Defects Research (Part C) 78:280-291, 2006. © 2006 Wiley-Liss, Inc

Simplicial minisuperspace models in the presence of a massive scalar field with arbitrary scalar coupling

We extend previous simplicial minisuperspace models to account for arbitrary scalar coupling \eta R\phi^2.Comment: 24 pages and 9 figures. Accepted for publication by Classical and Quantum Gravit

A Survey for EHB Stars in the Galactic Bulge

We present a progress report on an extensive survey to find and characterize all types of blue horizontal-branch stars in the nuclear bulge of the Galaxy. We have obtained wide, shallow imaging in UBV of ~12 square degrees in the bulge, with follow-up spectroscopy for radial velocities and metal abundance determinations. We have discovered a number of metal-rich blue HB stars, whose presence in the bulge is expected by the interpretation of the extragalactic ultraviolet excess. Very deep images have been obtained in UBV and SDSS u along the bulge minor axis, which reveal a significant number of EHB candidates fainter than B = 19, i.e., with the same absolute magnitudes as EHB stars in several globular clusters.Comment: To appear in "Extreme Horizontal Branch Stars and Related Objects", Astrophysics and Space Science, Kluwer Academic Publishers, proceedings of the meeting held in Keele, UK, June 16-20, 200

Anisotropic simplicial minisuperspace model

The computation of the simplicial minisuperspace wavefunction in the case of anisotropic universes with a scalar matter field predicts the existence of a large classical Lorentzian universe like our own at late timesComment: 19 pages, Latex, 6 figure