treegraph: automated drawing of complex tree figures using an extensible tree description format

treegraph assists in producing complex ready‐to‐publish figures of phylogenetic trees. The TGF format used by the program automates formatting of several different statistical support value types (confidence estimates) per tree node. Moreover, internal text and graphical labels are automatically arranged at the nodes as are annotations for clades or groups of terminals. treegraph imports nexus trees and related file formats. Beyond common tree edit operations, simultaneous pruning of subtrees (simplification of the tree to higher order clades) and saving of subtrees is possible. treegraph exports to the standard vector graphics formats Scalable Vector Graphics and PostScript.     

Comparative studies in the morphology of Crenias weddelliana and Maferria indica with reference to Sphaerothylax abyssinica (Podostemaceae: Podostemoideae)

The scope of morphological plasticity of vegetative structures among Podostemoideae (Podostemaceae) is documented for Crenias weddelliana, a neotropical species, Maferria indica, a palaeotropical species, and Sphaerothylax abyssinica, from Kenya, and compared with related taxa. The study highlights intrinsic characters of the widely enigmatic plant body of many species of the subfamily Podostemoideae. These include dorsiventrality of shoots occurring irrespective of gravity, incurvate distichy and one‐sided spirodistichy correlated with shoot dorsiventrality, asymmetric leaves, and several types of positioning of the two prophylls and inflorescence structures. The homogeneity of hairs of the ‘Zeylanidium olivaceum type’ established on the subulate leaves of some Indian species is of taxonomic value. The latter also applies to the stipella (not stipule) on the asymmetric compound leaf in New World species. The morphological data represent a framework of features consistent for the subfamily. © 2002 The Linnean Society of London, Botanical Journal of the Linnean Society, 138 , 63–84.     

Aquatic invertebrates in riverine landscapes

1. Riverine systems consist of a mosaic of patches and habitats linked by diverse processes and supporting highly complex communities. Invertebrates show a high taxonomic and functional diversity in riverine systems and are in several ways important components of these systems. Their distribution patterns, movements and effects on ecological flows, testify to their importance in various landscape ecological processes. This paper reviews the invertebrate literature with respect to patterns and processes in the riverine landscape. 2. The distribution of invertebrates in riverine habitats is governed by a number of factors that typically act at different scales. Hence, the local community structure can be seen as the result of a continuous sorting process through environmental filters ranging from regional or catchment‐wide processes, involving speciation, geological history and climate, to the small‐scale characteristics of individual patches, such as local predation risk, substratum porosity and current velocity. 3. Dispersal is an important process driving invertebrate distribution, linking different ecological systems across boundaries. Dispersal occurs within the aquatic habitat as well as into the terrestrial surrounding, and also over land to other waterbodies. New genetic techniques have contributed significantly to the understanding of aquatic invertebrate dispersal and revealed the importance of factors such as physical barriers, synchrony of emergence and taxonomic affiliation. 4. Invertebrates affect the cycling of nutrients and carbon by being a crucial intermediate link between primary producers, detritus pools or primary consumers, and predators higher up in the trophic hierarchy. Suspension feeders increase the retention of carbon. The subsidies of aquatic invertebrates to the terrestrial ecosystem have been shown to be important, as are reciprocal processes such as the supply of terrestrial invertebrates that fall into the water. 5. Future studies are needed both to advance theoretical aspects of landscape ecology pertaining to the invertebrates in riverine systems and to intensify the experimental testing of hypotheses, for example with respect to the scaling of processes and to linkages between the terrestrial and aquatic systems. Another promising avenue is to take advantage of naturally steep environmental gradients, and of systems disturbed by humans, such as regulated rivers. By comparison with unimpaired reference sites, the mechanisms involved might be identified. The use of `natural' experiments, especially where environmental gradients are steep, is another technique with great potential.     

Monoclonal antibodies to chick intestinal receptors for 1,25-dihydroxyvitamin D3. Interaction and effects of binding on receptor function

Monoclonal antibodies, developed against the chick intestinal receptor for 1,25-dihydroxyvitamin D3 (1,25(OH)2D3), were characterized with respect to their interaction with this protein and for their effects on the polypeptide's hormone-binding and nuclear-binding functions. Antibodies, internally labeled with [35S]methionine, react directly with hormone-labeled receptor, as identified by comigration of both isotopes during sedimentation on hypertonic 10-30% sucrose gradients. Antibodies bound both the unoccupied and occupied forms of the receptor, the latter with equilibrium dissociation constants of 10(-10)-10(-11) M at 4 degrees C. Excess antibody, added to unoccupied receptors prior to incubation with 1,25(OH)2D3, did not affect the receptor's apparent affinity for the hormone (Kd approximately equal to 6 X 10(-11) M). In contrast, all three antibodies, complexed with occupied receptors, significantly reduced the extent of the receptor's association with isolated nuclei (48-64% inhibition). This inhibition most likely represents a general reduction in the affinity of the protein for nuclei under the conditions tested, since the affinity of the occupied 1,25(OH)2D3 receptor for DNA, as well as the ionic strength necessary to elute receptor from both cation and anion exchange resins was significantly reduced by prior incubation with excess antibody. These findings suggest that the epitopes for each of the three monoclonal antibodies may be located in or near the DNA or nuclear binding domain of the 1,25(OH)2D3 receptor. Taken cumulatively, these results indicate that the monoclonal immunoreagents utilized here should prove useful in delineating important biochemical features of this unique sterol hormone receptor.