DNA microenvironments and the molecular clock

Summary A few years ago we presented a stationary Markov model of gene evolution according to which only homologous genes from not too divergent species obeying the condition of being stationary may behave as reliable molecular clocks. A compartmentalized model of the nuclear genome in which the genes are distributed in compartments, the isochores, defined by their G+C content has been proposed recently. We have found that only homologous gene pairs that are stationary, and belong to the same isochore, can be used consistently for the determination of phylogeny and base substitution rate. In particular, for the rodent-human couple, only about half of the homologous gene pairs are stationary. Stationary genes evolve at the third silent codon position with the same velocity independent of the genes and base composition. By contrast, nonstationary genes display apparent rate values (pseudovelocities) that are significantly higher. Our results cast doubt upon recent claims of a large acceleration in the rate of molecular evolution in rodents.     

Predicting variability in catch-per-effort in Atlantic cod, Gadus morhua, trap and gillnet fisheries

The relationships between catch rates and fish abundance, hydrographic conditions and fishing effort, for Atlantic cod caught by trapnets (fixed gear) and gillnets (non-fixed gear) in the northern Gulf of St Lawrence have been quantified. Daily changes in trap catch rates were accounted for by changes in salinity, currents and mean local cod densities in 1985 ( R ²= 0.78), and predicted 1986 trap catch rate changes (by 1985 model) were correlated significantly with those observed ( r = 0.60, P < 0.05). In contrast, the daily changes in 1985 gillnet catch rates were determined by currents, maximum (not mean) local cod densities, and fishing effort (negative) ( R ²= 0.68), while predicted 1986 gillnet catch rates (by 1985 model) were significantly correlated with those observed ( r = 0.35, P < 0.05). Seasonal catchability coefficients of the traps were similar in 1985 and 1986, but for gillnets this index was an order of magnitude higher in 1986 than in 1985.     

Ontogeny–a way forward for systematics, a way backward for phylogeny

In the history of biology, the term 'evolution' has carried a dual meaning, viz. ontogeny (the unfolding of the germ) versus phylogeny (descent with modification). A problem in modern biology is the question of whether it is ontogeny which creates phylogeny, or whether it is phylogeny which moulds ontogeny. The paper explores the relationship of ontogeny to phylogeny in the context of 'pattern cladism'. The conclusion is that the analysis of ontogeny provides a direct method for classification ('a way forward for systematics'), which is a logical prerequisite for a phylogenetic interpretation of ontogenetic sequences ('a way backward for phylogeny'). The ontogenetic process of growth, subdivision and differentiation is related to the 'morphogenetic tree theory' on the basis of Von Baer's "laws of individual development". This conceptual relation shows that ontogeny creates phylogeny in an upward direction within the morphogenetic tree, whereas phylogeny (by means of natural selection) moulds ontogeny in a downward direction. A conflict originates with the conventions of Linnaean classification if ontogenetic divergence is proposed as a causal agent in the origin of higher taxa. It is proposed to solve this conflict by viewing individual organisms (or reproductive communities) not as constituents, but as representatives of higher taxa.     

Why fly? The possible benefits for lower mortality

In adult endotherms—birds and mammals—mortality rates are lower in flying than non-flying species. Rates vary with size, but allowing for this they are higher in penguins than flying birds, and in rodents than bats. These observations are most simply explained in terms of predation since flight, allowing movement in three dimensions, increases the chances of escape.
There are various problems in obtaining and comparing data on rates of mortality and this partly explains a wide scattering of points. Nevertheless the main results are statistically significant, mostly at P<0.001. Amongst birds, there are several other significant differences. Mortality rates are lower at lower latitudes, and in aquatic compared to terrestrial species, with cliff-nesters having lower rates than other aquatic birds and co-operative breeders than other terrestrial ones. No latitudinal effect was detected in mammals. The exceptionally low rates of mortality in bats and swifts are attributed to their being particularly hard to catch.     

Sexual differences in survival rates of adult pipistrelle bats (Pipistrellus pipistrellus) in South Sweden

Summary A pipistrelle bat (Pipistrellus pipistrellus) population in southernmost Sweden was studied for eight consecutive breeding seasons by means of bat boxes. Survival rates were calculated using Cormack's stochastic technique. The mean survival rate of adult females exceeded that of territorial males. Annual variations in survival rates were most evident in males, low rates being observed in years following wet autumns. Energy constraints imposed on territorial males by the mating system, a resource defence polygyny, were assumed to account for the differences obtained in survival rates between the sexes.     

3-Hydroxypropyl amide formation from 1-aminocyclopropane-1-carboxylic acid by a cell-free ethylene-forming system from olive leaves

The low ethylene yield in a cell-free ethylene-forming system from olive tree leaves ( Olea europaea L. cv. Picual) was investigated. During the incubation, 1-aminocyclopropane-1-carboxylic acid (ACC) was extensively transformed into 3-hydroxypropyl amide (HPA). Enzyme extract, Mn²⁺ and oxygen are responsible for this reaction. Horseradish peroxidase (EC 1.11.1.7) can substitute for the enzyme extract in this reaction. HPA formation could be one reason for the poor in vitro conversion efficiency of ACC to ethylene.     

Nutrients and mass in litter and top soil of ten tropical tree plantations

The importance of litter to nutrient and organic matter storage and the possible influence of species selection on soil fertility in ten stands each consisting of a separate tree species were examined in this study. The plantations had been grown under similar conditions in an arboretum in the Luquillo Experimental Forest, Puerto Rico. The species involved were: Anthocephalus chinensis, Eucalyptus × patentinervis, E. saligna, Hernandia sonora, Hibiscus elatus, Khaya nyasica, Pinus caribaea var. hondurensis, P. elliottii var. densa, Swietenia macrophylla, and Terminalia ivorensis. After 26 yr, litter mass ranged from 5 mg ha^-1 in the H. sonora stand to 27.2 Mg ha^-1 in the P. caribaea stand. Nutrients in the litter (N, P, K, Ca, and Mg) also varied widely, but stands were ranked in different order when ranked by nutrients in the litter than then ranked according to accumulation of mass. Only E. saligna and A. chinensis stands were ranked similarly in accumulation of both nutrients and mass, and the stand of H. elatus was ranked higher with respect to nutrient accumulation than to accumulation of mass. The nutrient concentration in standing leaf litter generally increased in the order of recently fallen <old intact< fragmented. Nutrient concentration of standing leaf litter appears to increase with age and depth in the litter layer. The amount of nutrients stored in the litter compartment of these plantations was in the same order of magnitude as the quantity of available nutrients in the top 10-cm of mineral soil. Total litter mass was negatively correlated with the mass-weighted concentration of N, K, and Mg. The same relationship was found for Ca in the leaf litter and N in the fine wood litter compartments. In some stands (notably P. caribaea, P. elliottii, and E. saligna), leaf litter derived from species other than the species planted in that particular stand had higher nutrient concentration than leaf litter from the planted species. Soils of the 10 stands were classified in the same soil series and had similar texture (clay soils). However, significantly different chemical characteristics were found. Results obtained by analysis of covariance and by limiting comparisons to adjacent stands with similar soil texture, indicate that different species have had different influences on the concentration of available nutrients in soil.     

Wall extensibility and gravitropic curvature of sunflower hypocotyls: correlation between timing of curvature and changes in extensibility

Abstract. Gravitropic curvature results from unequal growth rates on the upper and lower sides of horizontal stems. These unequal growth rates cold be due to differences in wall extensibility between the two sides. To test this, the time course of curvature of horizontal sunflower ( Helianthus anmus L.) hypocotyls was determined and compared with the time courses of changes in Instron-measured wall extensibility (PEx) of the upper and lower epidermal layers. As gravicurvature developed, so did the difference in PEx between the upper and lower epidermis. The enhanced growth rate on the lower side during the period of maximum increase in curvature was matched by PEx values greater than those of the vertical control, while the inhibited growth rate on the upper side was accompanied by PEx values below that of the control. The close correlation between changes in growth rates and alterations in PEx demonstrates that changes in wall extensibility play a major role in controlling gravicurvature.     

Effects of Oxygen Depletion on Norepinephrine- and Carbachol-Stimulated Phosphoinositide Turnover in Rat Brain Slices

We examined the effects of in vitro anoxia and in vivo hypoxia (8% O2/92% N2) on norepinephrine (NE)- and carbachol-stimulated phosphoinositide (PI) turnover in rat brain slices. The formation of 3H-labeled polyPI in cortical slices was impaired by in vitro anoxia and fully restored by reoxygenation. Accumulation of 3H-labeled myo-inositol phosphates (3H-IPs) stimulated by 10(-5) M NE was significantly reduced by anoxia (control at 60 min, 1,217 +/- 86 cpm/mg of protein; anoxia for 60 min, 651 +/- 82 cpm/mg; mean +/- SEM; n = 5; p less than 0.01), and reoxygenation following anoxia resulted in overshooting of the accumulation (control at 120 min, 1,302 +/- 70 cpm/mg; anoxia for 50 min plus oxygenation for 70 min, 1,790 +/- 126 cpm/mg; n = 5; p less than 0.01). The underlying mechanisms for the two phenomena--the decrease caused by anoxia and the overshooting caused by reoxygenation following anoxia--seemed to be completely different because of the following observations. (a) Although the suppression of NE-stimulated accumulation at low O2 tensions was also observed in Ca2+-free medium, the overshooting in response to reoxygenation was not. (b) Carbachol-stimulated accumulation was significantly reduced by anoxia and was restored by reoxygenation only to control levels. Thus, the postanoxic overshooting in accumulation of 3H-IPs seems to be a specific response to NE. (c) The decrease observed at low O2 tensions was due to a decrease in Emax value, whereas the postanoxic overshooting was due to a decrease in EC50 value.(ABSTRACT TRUNCATED AT 250 WORDS)