Aim Our aim was to understand how similarity changes with distance in biological communities, to use the distance decay perspective as quantitative technique to describe biogeographic pattern, and to explore whether growth form, dispersal type, rarity, or support affected the rate of distance decay in similarity.Location North American spruce-fir forests, Appalachian montane spruce-fir forests. MethodsWe estimated rates of distance decay through regression of log-transformed compositional similarity against distance for pairwise comparisons of thirty-four white spruce plots and twenty-six black spruce plots distributed from eastern Canada to Alaska, six regional floras along the crest of the Appalachians, and six regional floras along the east-west extent of the boreal forest.Results Similarity decreased significantly with distance, with the most linear models relating the log of similarity to untransformed distance. The rate of similarity decay was 1.5-1.9 times higher for vascular plants than for bryophytes. The rate of distance decay was highest for berry-fruited and nut-bearing species (1.7 times higher than plumose-seeded species and 1.9 times higher than microseeded/spore species) and 2.1 times higher for herbs than woody plants. There was no distance decay for rare species, while species of intermediate frequency had 2.0 times higher distance decay rates than common species. The rate of distance decay was 2.7 times higher for floras from the fragmented Appalachians than for floras from the contiguous boreal forest. Main conclusionsThe distance decay of similarity can be caused by either a decrease in environmental similarity with distance (e.g. climatic gradients) or by limits to dispersal and niche width differences among taxa. Regardless of cause, the distance decay of similarity provides a simple descriptor of how biological diversity is distributed and therefore has consequences for conservation strategy.

We report the crystal structure of the thiolate gold nanoparticle [TOA+][Au25(SCH2CH2Ph)18-], where TOA+ = N(C8H17)4+. The crystal structure reveals three types of gold atoms: (a) one central gold atom whose coordination number is 12 (12 bonds to gold atoms); (b) 12 gold atoms that form the vertices of an icosahedron around the central atom, whose coordination number is 6 (five bonds to gold atoms and one to a sulfur atom), and (c) 12 gold atoms that are stellated on 12 of the 20 faces of the Au13 icosahedron. The arrangement of the latter gold atoms may be influenced by aurophilic bonding. Together they form six orthogonal semirings, or staples, of -Au2(SCH2CH2Ph)3- in an octahedral arrangement around the Au13 core.

NRCVAX is a complete system ~af programs, covering all aspects of crystal structure analysis from data reduction to the presentation of results. The system, which is written in a 'neutral' Fortran 77, presently exists in two forms. The first runs on a VAX computer under VMS, on an 80386 PC under UNIX and under IBM VM/CMS and MVS/TSO. The second is an adaptation which runs on PC-XT, AT, PS/2 and comparable microcomputers under MS-DOS. The two versions differ somewhat in structure, but very little in code, operation or functionality except for the graphics. The many options of the programs can be selected in a highly interactive manner and because of this the System is very flexible. Most options are assigned default values, however, and it is usually safe to run the routines with a minimum of user input using the defaults. The system will accept data from a wide variety of sources and has interface routines for several other systems. Graphics in the VAX/UNIX version are based on the widely available Tektronix 4000 series protocol, while the microcomputer version supports most common display adapters. It is also possible to prepare files for a variety of plotters, dot-matrix printers and laser printers.• Source code is distributed and it should not be difficult to adapt the system to any computer with virtual memory and a Fortran 77 compiler.

Congenital heart disease (CHD) is the most frequent birth defect, affecting 0.8% of live births1. Many cases occur sporadically and impair reproductive fitness, suggesting a role for de novo mutations. By analysis of exome sequencing of parent-offspring trios, we compared the incidence of de novo mutations in 362 severe CHD cases and 264 controls. CHD cases showed a significant excess of protein-altering de novo mutations in genes expressed in the developing heart, with an odds ratio of 7.5 for damaging mutations. Similar odds ratios were seen across major classes of severe CHD. We found a marked excess of de novo mutations in genes involved in production, removal or reading of H3K4 methylation (H3K4me), or ubiquitination of H2BK120, which is required for H3K4 methylation2–4. There were also two de novo mutations in SMAD2; SMAD2 signaling in the embryonic left-right organizer induces demethylation of H3K27me5. H3K4me and H3K27me mark `poised' promoters and enhancers that regulate expression of key developmental genes6. These findings implicate de novo point mutations in several hundred genes that collectively contribute to ~10% of severe CHD.

Light regimes beneath closed canopies and tree-fall gaps are compared for five temperate and tropical forests using fish-eye photography of intact forest canopies and a model for calculating light penetration through idealized gaps. Beneath intact canopies, analyses of canopy photographs indicate that sunflecks potentially contribute 37–68% of seasonal total photosynthetically active radiation. In all of the forests, potential sunfleck duration is brief (4–6 min), but the frequency distributions of potential sunfleck duration vary because of differences in canopy geometry and recent disturbance history. Analysis of the photographs reveals that incidence angles for photosynthetically active radiation beneath closed canopies are not generally vertical for any of the forests, but there was considerable variation both among and within sites in the contribution of overhead versus low-angle lighting. Calculations of light penetration through idealized single-tree gaps in old growth Douglas-fir – hemlock forests indicate that such gaps have little effect on understory light regimes because of the high ratio of canopy height to gap diameter. However, single-tree gaps in the other four forest types produce significant overall increases in understory light levels. There is also significant spatial variation in seasonal total radiation in and around single-tree gaps. Our results demonstrate that there can be significant penetration of light into the understory adjacent to a gap, particularly at high latitudes. As gap size increases, both the mean and the range of light levels within the gap increases, but even in large gaps (ca. 1000 m2) the potential duration of direct sunlight is generally brief (<4 h). The major differences in gap light regimes of the five forests are largely a function of canopy height and latitude. The effects of latitude should also result in differences in gap light regimes across the geographic range of individual forest types.