Animal Consciousness: Some Philosophical, Methodological, and Evolutionary Problems

No consensus exists concerning the mechanisms, distribution,or adaptive significance of consciousness. Agreement on anyone of these issues would aid in resolving others. Given a reliablebehavioral or neuroanatomical test for consciousness, we couldmap its distribution and describe its evolution. Conversely,if we knew its distribution, we could assess its adaptive valueand look for similarly distributed neuroanatomies to help usget at its mechanisms. Morgan's Canon—the rule that we should avoid attributinghumanlike mental states to other animals whenever possible—impedesthe use of the comparative method in unraveling this knot. Ifinterpreted in this context as a parsimony criterion, Morgan'sCanon is logically equivalent to epiphenomenalism. It is parsimoniousif and only if conscious mental events play no causal role inhuman behavior and human consciousness has no adaptive significance.Rejecting this conclusion entails rejecting the parsimony interpretationof Morgan's Canon.     

Stem deformity inPinus radiata plantations in south-eastern Australia

Plantations of radiata pine (P. radiata D.Don) on soils previously under legume based pastures have a high incidence of stem deformity compared with forest soils. A comparison of soil properties and tree nutrition of 5 to 7 year-old radiata pine on former pastures in the first part of the study showed that stem deformity was strongly correlated with mineralisation of soil N and in particular with nitrification. Other soil properties that have changed as a result of pasture improvement, e.g. pH, available P and Mn, were only partially correlated with stem deformity. In the second part of the study, the role of N availability and other soil properties in the expression of deformity was further investigated in a separate field experiment on soils formerly under native eucalypt forest, tobacco cropping, and improved pasture. Young radiata pine plantings were treated with lime, phosphorus, and nitrogen applied as urea and sodium nitrate. Liming increased soil pH by around 1.5 units, raised exchangeable Ca²⁺ and decreased available Mn. Soil mineral N content was only marginally affected by liming. Superphosphate increased soil available P and raised levels of P in foliage. Changes in soil pH, availability of P, Mn, and B did not affect growth or stem deformity at any of the sites. In contrast, application of N fertilisers at 200 and 600 kg N ha^-1 increased mineral N content and stimulated nitrification, particularly at the forest site. The high rate of N fertiliser increased basal area at the forest site by 45%, but also raised the level of stem deformity from 12% to 56%. At the tobacco and pasture sites, this treatment did not increase growth and did not significantly raise stem deformity above the already high basic level of deformity (63%). Implications of stem deformity in young plantations of radiata pine on potential utilisation later in the rotation are discussed.     

Phenotypic and genotypic characterization of Klebsiella pneumoniae isolates recovered from nonhuman primates

Klebsiella pneumoniae is a zoonotic, Gram-negative member of the family Enterobacteriaceae and is the causative agent of nosocomial septicemic, pneumonic, and urinary tract infections. Recently, pathogenic strains of K. pneumoniae sharing a hypermucoviscosity (HMV) phenotype have been attributed to multisystemic abscessation in both human and nonhuman primates. Although K. pneumoniae is a well-recognized zoonotic agent, there is a lack of general information including adequate diagnostic methods or treatments for nonhuman primates. In an effort to increase the body of knowledge of this enigmatic pathogen, K. pneumoniae isolates from African green monkeys (Chlorocebus aethiops sabaeus) on the island of St. Kitts, West Indies were genotypically and phenotypically characterized. Genetic fingerprints generated by PCR-mediated genomic fingerprinting, phenotypic characterization, and antimicrobial susceptibility all identified a high degree of similarity between the HMV and non-HMV K. pneumoniae isolates. The results obtained from this work will help establish a baseline for the development of efficacious diagnostic methods and treatment strategies for both human and nonhuman primates.     

Viewing and annotating sequence data with Artemis

Artemis is a widely used software tool for annotating and viewing sequence data. No database is required to use Artemis. Instead, individual sequence data files can be analysed with little or no formatting, making it particularly suited to the study of small genomes and chromosomes, and straightforward for a novice user to get started. Since its release in 1999, Artemis has been used to annotate a diverse collection of prokaryotic and eukaryotic genomes, ranging from Streptomyces coelicolor to, more recently, a large proportion of the Plasmodium falciparum genome. Artemis allows annotated genomes to be easily browsed and makes it simple to add useful biological information to raw sequence data. This paper gives an overview of some of the features of Artemis and includes how it facilitates manual gene prediction and can provide an overview of entire chromosomes or small compact genomes--useful for uncovering unusual features such as pathogenicity islands.     

Differential Phosphorylation of Smad1 Integrates BMP and Neurotrophin Pathways through Erk/Dusp in Axon Development

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Tracking changing environments using stable carbon isotopes in fossil tooth enamel: an example from the South African hominin sites

The environmental contexts of the karstic hominin sites in South Africa have been established largely by means of faunal associations; taken together these data suggest a trend from relatively closed and more mesic to open, drier environments from about 3 to 1.5 Ma. Vrba argued for a major shift within this trend ca. 2.4-2.6 Ma, an influential proposal that posited links between bovid (and hominin) radiation in Africa and the intensification of Northern Hemisphere Glaciation. Yet faunal approaches often rely on habitat and feeding preferences of modern taxa that may differ from those of their extinct predecessors. Here we explore ways of extending ¹³C/¹²C data from fossil mammals beyond denoting “presence” or “absence” of C₄ grasses using the evolution of open environments in South Africa as a case study. To do so we calculated the relative proportions of C₃-, mixed-, and C₄-feeding herbivores for all the hominin sites for which we have sufficient data based on ¹³C/¹²C analyses of fossil tooth enamel. The results confirm a general trend towards more open environments since 3 Ma, but they also emphasize a marked change to open grassy habitats in the latest Pliocene/early Pleistocene. Mean ¹³C/¹²C for large felids also mirrored this trend.     

Morphologically cryptic biological species within the liverwort Frullania asagrayana

? Premise of the study: The Frullania tamarisci complex includes eight Holarctic liverwort species. One of these, F. asagrayana, is distributed broadly throughout eastern North America from Canada to the Gulf Coast. Preliminary genetic data suggested that the species includes two groups of populations. This study was designed to test whether the two groups are reproductively isolated biological species. ? Methods: Eighty-eight samples from across the range of F. asagrayana, plus 73 samples from one population, were genotyped for 13 microsatellite loci. Sequences for two plastid loci and nrITS were obtained from 13 accessions. Genetic data were analyzed using coalescent models and Bayesian inference. ? Key results: Frullania asagrayana is sequence-invariant at the two plastid loci and ITS2, but two clear groups were resolved by microsatellites. The two groups are largely reproductively isolated, but there is a low level of gene flow from the southern to the northern group. No gene flow was detected in the other direction. A local population was heterogeneous but displayed strong genetic structure. ? Conclusions: The genetic structure of F. asagrayana in eastern North America reflects morphologically cryptic differentiation between reproductively isolated groups of populations, near-panmixis within groups, and clonal propagation at local scales. Reproductive isolation between groups that are invariant at the level of nucleotide sequences shows that caution must be exercised in making taxonomic and evolutionary inferences from reciprocal monophyly (or lack thereof) between putative species.