Are endosymbioses mutualistic?

Many animals, plants and protists contain non-parasitic microorganisms and these endosymbioses are widely assumed to be mutualistic. Most of the microorganisms possess metabolic capabilities, such as the ability to fix nitrogen, photosynthesize or degrade cellulose, that their partners utilize. However, as discussed in this article, there is scant evidence that the microorganisms benefit from such associations, and it is unclear how the benefit or harm incurred by microorganisms that require the association can be demonstrated.     

Are alpha-gliadins glycosylated?

Alpha-gliadins isolated by carboxymethylcellulose chromatography contain noncovalently bound glucose probably due to contaminating proteoglycans and to material shed from the column. Traces of carbohydrate remain strongly bound to alpha-gliadins even after harsh denaturation, but our results indicate alpha-gliadins are not glycoproteins. Suggestions that gliadins are glycoproteins are probably due to contamination with this glucose and the presence of these proteoglycans.     

Are metacaspases caspases?

The identification of caspases as major regulators of apoptotic cell death in animals initiated a quest for homologous peptidases in other kingdoms. With the discovery of metacaspases in plants, fungi, and protozoa, this search had apparently reached its goal. However, there is compelling evidence that metacaspases lack caspase activity and that they are not responsible for the caspaselike activities detected during plant and fungal cell death. In this paper, we attempt to broaden the discussion of these peptidases to biological functions beyond apoptosis and cell death. We further suggest that metacaspases and paracaspases, although sharing structural and mechanistic features with the metazoan caspases, form a distinct family of clan CD cysteine peptidases.     

Are protochordates chordates?

This paper challenges the widely accepted view that protochordates (lancelets and tunicates) should be included together with vertebrates within the monophyletic assemblage of the chordates since they share a few distinguishing characters, such as a dorsally located notochord and central nervous system (CNS). The homology of these axial structures is not supported convincingly by morphology and molecular biology. Besides, for notochord and CNS to be dorsal, the embryos of protochordates, unlike those of vertebrates, should be orientated with the blastopore coincident with the dorsal side. This embryonic orientation is never reported in other bilaterians and is inconsistent with the genetic control of the body axes. Alternatively, protochordates could be orientated just as the vertebrates according to the regulation of axial patterning. In this case, the notochord and CNS appear to be located on the ventral side. As suggested by molecular and structural data, they may correspond to the stomodaeal/ventral midline cells and CNS of gastroneuralians. This conclusion may have far-reaching implications concerning the origin of the vertebrates and the evolution of nervous systems and neural crest/placodes.  © 2006 The Linnean Society of London, Biological Journal of the Linnean Society , 2006, 87 , 261–284.     

Are Megabats Big?

Traditionally, bats (Order Chiroptera) are divided into two suborders, Megachiroptera (“megabats”) and Microchiroptera, and this nomenclature suggests a consistent difference in body size. To test whether megabats are, in fact, significantly larger than other bats, we compared them with respect to average body mass (log transformed), using both conventional and phylogenetic statistics. Because bat phylogeny is controversial, including the position of megabats, we employed several analyses. First, we derived two generic-level topologies for 101 genera, one with megabats as the sister of all other bats (“morphological” tree), the other with megabats as the sister of one specific group of microbats, the Rhinolophoidea (“molecular” tree). Second, we used a recently published “supertree” that allowed us to analyze body mass data for 656 species. In addition, because the way body mass has evolved is generally unknown, we employed several sets of arbitrary branch lengths on both topologies, as well as transformations of the branches intended to mimic particular models of character evolution. Irrespective of the topology or branch lengths used, log body mass showed highly significant phylogenetic signal for both generic and species-level analyses (all P≤ 0.001). Conventional statistics indicated that megabats were indeed larger than other bats (P ? 0.001). Phylogenetic analyses supported this difference only when performed with certain branch lengths, thus demonstrating that careful consideration of the branch lengths used in a comparative analysis can enhance statistical power. A conventional Levene's test indicated that log body mass was more variable in megabats as compared with other bats (P=0.075 for generic-level data set, P ? 0.001 for species-level). A phylogenetic equivalent, which gauges the amount of morphospace occupied (or average minimum rate of evolution) relative to topology and branch lengths specified, indicated no significant difference for the generic analyses, but did indicate a difference for some of the species-level analyses. The ancestral bat is estimated to have been approximately 20–23 g in body mass (95% confidence interval approximately 9–51 g).     

Are comparisons of species distribution models biased? Are they biologically meaningful?

A major problem in ecology is to understand how environmental requirements change over space and time. To this end, numerous authors have attempted to use comparisons of species’ distributions as a surrogate for comparisons of environmental requirements. Unfortunately, it is currently unclear when comparisons of species’ distributions produce reliable inferences about changes in environmental requirements. To address this problem, I develop an analytic model that identifies the conditions under which a comparison of species’ distribution models can serve as surrogate for a comparison of environmental requirements. This work demonstrates that 1) comparisons of species’ distributions typically produce biased comparisons of environmental requirements, 2) assuming distribution models are fit appropriately, it is possible to compare environmental requirements of distinct taxa, 3) there are multiple biologically relevant questions we can address using comparisons of distribution models, with each question corresponding to a distinct measure of the difference between distribution models. By developing an analytic model for comparisons of species’ distributions this work helps to clarify and remedy poorly understood sources of error associated with existing methods.     

Are Flexible Designs Sound?

Flexible designs allow large modifications of a design during an experiment. In particular, the sample size can be modified in response to interim data or external information. A standard flexible methodology combines such design modifications with a weighted test, which guarantees the type I error level. However, this inference violates basic inference principles. In an example with independent N(mu, 1) observations, the test rejects the null hypothesis of mu < or = 0 while the average of the observations is negative. We conclude that flexible design in its most general form with the corresponding weighted test is not valid. Several possible modifications of the flexible design methodology are discussed with a focus on alternative hypothesis tests.     

Are polyglutamine diseases expanding?

It remains a matter of speculation as to whether the sense CUG-containing RNA and/or the antisense CAG-encoding polyglutamine peptide serves as the pathogenic moiety in Huntington's disease like-2 (HDL2). In this issue of Neuron, Wilburn et al. show that in a HDL2 mouse model, the polyglutamine peptide drives disease progression.     

Are stag beetles fungivorous?

Stag beetle larvae generally feed on decaying wood; however, it was unknown whether they can use wood-rotting fungi alone as food. Here, to clarify this, newly hatched larvae of Dorcus rectus (Motschulsky) (Coleoptera: Lucanidae) were reared for 14 days on artificial diets containing a fixed amount of freeze-dried mycelia of the following fungi: Bjerkandera adusta, Trametes versicolor, Pleurotus ostreatus, and Fomitopsis pinicola. The mean incremental gain in larval body mass was greatest on diets containing B. adusta, followed by T. versicolor, P. ostreatus, and F. pinicola. The growth rate of body mass correlated positively with mycelial nitrogen content of the different fungi. It also correlated positively with the mycelial content of B. adusta in the diet. Addition of antibiotics to diets with mycelia nearly halved larval growth, indicating that larvae were able to use fungal mycelia as food without the assistance of associated microbes although the microbes positively affected larval growth. Four newly hatched larvae reared on artificial diets containing B. adusta mycelia developed to the second instar in 21-34 days; and one developed to the third (=final) instar. This study provides evidence that fungi may constitute the bulk of the diet of D. rectus larvae.     

Are antibiotics naturally antibiotics?

Antibiotics have been used for more than 50 years and are the cornerstone of infectious disease treatment; in addition, these low-molecular-weight bioactive compounds have been applied to many other therapeutic purposes. However, there is almost no information on the evolutionary biology or ecology of naturally occurring low-molecular-weight compounds. The large number of different structural types and the extremely broad range of biological activities of organic molecules produced by microbes raise many questions concerning their roles in nature. Recent evidence for the enormous complexity of microbial populations in the environment favors the notion that the principal roles of small molecules in microbial ecology are cell–cell communication and not antibiosis.     

Are metals dietary carcinogens?

Humans have been in contact with metals almost since the beginning of our existence. In fact, one cannot even think on human evolution without considering the great role played by metals in mankind's development. Metals are common moieties of molecules involved in a wide variety of biological processes, and hence are found in virtually all living organisms. Some metals are essential for human nutrition; others are found as contaminants in foodstuffs. One feature of the normal human diet which is frequently found is the simultaneous presence of both essential and toxic metals. Other factors important in the risk-evaluation analysis of metals are their pharmacokinetics, interactions among them and with other major components of the diet, and, especially, the great differences in the dietary habits of different populations and in the regional distribution of metals. In attempting to understand the role which dietary metals could play in human carcinogenesis, we found that the many factors involved and the lack of specific information made it difficult to reach firm conclusions on the hazards of dietary metals. We hope that this paper will raise the interest of genetic toxicologists in the subject and will consequently facilitate a risk analysis of the carcinogenic potential of dietary metals.     

Are Noradrenaline Excitations Artefacts?

DR STONE writes: In my article¹ I suggested that the excitatory effects of noradrenaline may be explicable in terms of indirect action on blood vessels and, by implication therefore, that the true function of noradrenaline in the brain may be as an inhibitory transmitter. The recent demonstrations mentioned by Boakes et al. of a specific antagonism of noradrenaline depression by substances with potent behavioural actions^2,3,11 tends to support this hypothesis, not weaken it.