Is there a close association between "soils" and "vegetation"? : A case study from central western New South Wales

The assumption that ‘soils’ and ‘vegetation’ are closely associated was tested by describing soils and vegetation along a Travelling Stock Reserve west of Grenfell, New South Wales (lat 33° 55’S, long 147° 45’E). The transect was selected on the basis of (a) minimising the effects of non-soil factors (human interference, climate and relief) on vegetation and (b) the presence of various soil and vegetation types as indicated by previous mapping. ‘Soils’ were considered at three levels: soil landscapes (a broad mapping unit widely used in central western NSW), soil types (according to a range of classifications) and soil properties (depth, pH, etc.). ‘Vegetation’ was considered in three ways: vegetation type (in various classifications), density/floristic indices (density of woody species, abundance of native species, etc.) and presence/absence of individual species. Sites along the transect were grouped according to soil landscapes or soil types and compared to vegetation types or indices recorded at the sites. Various measures indicated low associations between vegetation types and soil landscapes or soil types. Except for infrequent occurrences of a soil type or landscape, any one soil type or landscape was commonly associated with a number of vegetation types and any one vegetation type was associated with a number of soil landscapes or soil types. However, significant associations between some vegetation indices, mainly density or numbers of woody species, and some soil landscapes and soil types were evident. Although many species were relatively ubiquitous, some groups of species that were restricted to one or two soil types were identified. Canonical Correspondence Analysis provided some suggestions as to which properties (e.g. texture) of these soils were associated with the presence of particular species

Four rural cemeteries in central western NSW: Islands of Australiana in a European sea?

Vascular plants present in groundstoreys of variously–managed areas in four cemeteries in central western NSW – two on the Central Western Slopes (Garra and Toogong) and two on the Central Tablelands (Lyndhurst and Carcoar) – were recorded over periods of 6–10 years. It was hypothesised that (a) areas of the cemeteries with a history of nil or low disturbance would represent high quality remnant vegetation (i.e. contain a diversity of native species but few naturalised species), and (b) that clearing of woody vegetation, together with similar management (e.g. regular mowing) would result in homogenisation of the groundstoreys such that many species, native and naturalised, would be common to all sites. 344 species (176 native, 154 naturalised and 14 non–naturalised exotics) were recorded across the four cemeteries. Many native species that were rare in the surrounding agricultural lands were present in the cemeteries (enhancing their value as conservation areas) but no cemetery contained areas of groundstorey that would qualify as ‘pristine’. Across all management areas, the proportions of naturalised species in the native + naturalised floras of the cemeteries ranged from 46 to 55 %. Though never dominant, naturalised species also comprised high proportions (42 to 51 %) of the floras of the least disturbed (nil or infrequently mown) areas within each cemetery. Many (40 %) of the species recorded occurred at only one cemetery. This partly explained why the floras of similarly– managed parts of cemeteries on the Central Western Slopes were, contrary to expectations, markedly different to those on the Central Tablelands. However, within the same botanic subdivision, floras – particularly of naturalised species in regularly mown grasslands – were more similar (‘homogenised’) than those of nil or infrequently mown grasslands

On the half-plane property and the Tutte group of a matroid

A multivariate polynomial is stable if it is non-vanishing whenever all variables have positive imaginary parts. A matroid has the weak half-plane property (WHPP) if there exists a stable polynomial with support equal to the set of bases of the matroid. If the polynomial can be chosen with all of its nonzero coefficients equal to one then the matroid has the half-plane property (HPP). We describe a systematic method that allows us to reduce the WHPP to the HPP for large families of matroids. This method makes use of the Tutte group of a matroid. We prove that no projective geometry has the WHPP and that a binary matroid has the WHPP if and only if it is regular. We also prove that T_8 and R_9 fail to have the WHPP.Comment: 8 pages. To appear in J. Combin. Theory Ser.

Analyzing and reconstructing reticulation networks under timing constraints

Reticulation networks are now frequently used to model the history of life for various groups of organisms whose evolutionary past is likely to include reticulation events like horizontal gene transfer or hybridization. However, the reconstructed networks are rarely guaranteed to be temporal. If a reticulation network is temporal, then it satisfies the two biologically motivated timing constraints of instantaneously occurring reticulation events and successively occurring speciation events. On the other hand, if a reticulation network is not temporal, it is always possible to resolve this issue by adding a number of additional unsampled or extinct taxa. In the first half of the paper, we show that deciding whether a given number of additional taxa is sufficient to transform a non-temporal reticulation network into a temporal one is an NP-complete problem. As one is often given a set of gene trees instead of a network in the context of hybridization, this motivates the second half of the paper which provides an algorithm for reconstructing a temporal hybridization network that simultaneously explains the ancestral history of two trees or indicates that no such network exists. We highlight two practical applications of this algorithm and illustrate the second application on a grass data set

Theatres of Closure: Process and Performance in Inhumation Burial Rites in Early Medieval Britain

Inhumation burials are recorded in Britain and Europe during excavations in a standardized way, especially graves of early medieval date. Just a limited number of attributes are usually foregrounded and these mainly concern skeletal identification, the grave plan and, when a burial is furnished, a list of objects, particularly metalwork, as well as occasional reference to burial structures, if present. In this paper, we argue that concealed within these recorded details are attributes that often receive little attention, but which can provide evidence for community investment in the individual funerary rite. These include grave orientation, grave morphology, the body position and the empty spaces in the grave, as well as categories of material culture. We argue here that these factors enable us to define communal burial profiles and can facilitate the identification of group perceptions and actions in dealing with death. By capitalizing on these additional aspects of funerary ritual, archaeologists can move away from a general dependency on well-furnished burials as the main stepping-off point for discussion of social and cultural issues. This has particular relevance for regions where unfurnished burial rites are the norm and where furnished rites do not rely on a wealth of metalwork

Characterization of the chicken GCAP gene array and analyses of GCAP1, GCAP2, and GC1 gene expression in normal and rd chicken pineal

Journal ArticlePURPOSE: This study had three objectives: (1) to characterize the structures of the chicken GCAP1 and GCAP2 genes; (2) to determine if GCAP1, GCAP2, and GC1 genes are expressed in chicken pineal gland; (3) if GC1 is expressed in chicken pineal, to determine if the GC1 null mutation carried by the retinal degeneration (rd) chicken is associated with degenerative changes within the pineal glands of these animals. METHODS: GCAP1 and GCAP2 gene structures were determined by analyses of chicken cosmid and cDNA clones. The putative transcription start points for these genes were determined using 5'-RACE. GCAP1, GCAP2 and GC1 transcripts were analyzed using Northern blot and RT-PCR. Routine light microscopy was used to examine pineal morphology. RESULTS: Chicken GCAP1 and GCAP2 genes are arranged in a tail-to-tail array. Each protein is encoded by 4 exons that are interrupted by 3 introns of variable length, the positions of which are identical within each gene. The putative transcription start points for GCAP1 and GCAP2 are 314 and 243 bases upstream of the translation start codons of these genes, respectively. As in retina, GCAP1, GCAP2 and GC1 genes are expressed in the chicken pineal. Although the GC1 null mutation is present in both the retina and pineal of the rd chicken, only the retina appears to undergo degeneration. CONCLUSIONS: The identical arrangement of chicken, human, and mouse GCAP1/2 genes suggests that these genes originated from an ancient gene duplication/inversion event that occurred during evolution prior to vertebrate diversification. The expression of GC1, GCAP1, and GCAP2 in chicken pineal is consistent with the hypothesis that chicken pineal contains a functional phototransduction cascade. The absence of cellular degeneration in the rd pineal gland suggests that GC1 is not critical for pineal cell survival

Sushi gets serious:the draft genome sequence of the pufferfish Fugu rubripes

The publication of the Fugu rubripes draft genome sequence will take this fish from culinary delicacy to potent tool in deciphering the mysteries of human genome function

Quartet compatibility and the quartet graph

A collection P of leaf-labelled trees is compatible if there exists a single leaf-labelled tree that displays each of the trees in P. Despite its difficulty, determining the compatibility of P is a fundamental task in evolutionary biology. Attractive characterizations in terms of chordal graphs have been previously given for this problem as well as for the problems of (i) determining if there is a unique tree that displays each of the trees in P, that is 'P is definitive and (ii) determining if there is a tree that displays P and has the property that every other tree that displays P is a refinement of it, that is 'P identifies a leaf-labelled tree. In this paper, we describe new characterizations of each of these problems in terms of edge colourings. Furthermore, for an arbitrary leaf-labelled tree 'T, we also determine the minimum number of 'quartets' required to identify 'T, thus correcting a previously published result

The meso-genomic era

A report from HGM2001, the sixth annual International Human Genome Meeting organized by The Human Genome Organisation (HUGO), Edinburgh, UK, 19-22 April 2001