A Case Study of the De Novo Evolution of a Complex Odometric Behavior in Digital Organisms

Investigating the evolution of animal behavior is difficult. The fossil record leaves few clues that would allow us to recapitulate the path that evolution took to build a complex behavior, and the large population sizes and long time scales required prevent us from re-evolving such behaviors in a laboratory setting. We present results of a study in which digital organisms–self-replicating computer programs that are subject to mutations and selection–evolved in different environments that required information about past experience for fitness-enhancing behavioral decisions. One population evolved a mechanism for step-counting, a surprisingly complex odometric behavior that was only indirectly related to enhancing fitness. We examine in detail the operation of the evolved mechanism and the evolutionary transitions that produced this striking example of a complex behavior.     

Estimation of annual nitrous oxide emissions from a transitional grassland-forest region in Saskatchewan, Canada

The increasing atmospheric N₂O concentration and the imbalance in its global budget have triggered the interest in quantifying N₂O fluxes from various ecosystems. This study was conducted to estimate the annual N₂O emissions from a transitional grassland-forest region in Saskatchewan, Canada. The study region was stratified according to soil texture and land use types, and we selected seven landscapes (sites) to cover the range of soil texture and land use characteristics in the region. The study sites were, in turn, stratified into distinguishable spatial sampling units (i.e., footslope and shoulder complexes), which reflected the differences in soils and soil moisture regimes within a landscape. N₂O emission was measured using a sealed chamber method. Our results showed that water-filled pore space (WFPS) was the variable most correlated to N₂O fluxes. With this finding, we estimated the total N₂O emissions by using regression equations that relate WFPS to N₂O emission, and linking these regression equations with a soil moisture model for predicting WFPS. The average annual fluxes from fertilized cropland, pasture/hay land, and forest areas were 2.00, 0.04, and 0.02 kg N₂O-N ha^–1 yr^–1, respectively. The average annual fluxes for the medium- to fine-textured and sandy-textured areas were 1.40 and 0.04 kg N₂O-N ha^–1 yr^–1, respectively. The weighted-average annual flux for the study region is 0.95 kg N₂O-N ha^–1yr^–1. The fertilized cropped areas covered only 47% of the regional area but contributed about 98% of the regional flux. We found that in the clay loam, cropped site, 2% and 3% of the applied fertilizer were emitted as N₂O on the shoulders and footslopes, respectively.Contribution no. R824 of Saskatchewan Center for Soil Research, Saskatoon, Saskatchewan, Canada     

Dynein-2 Affects the Regulation of Ciliary Length but Is Not Required for Ciliogenesis in Tetrahymena thermophila

Eukaryotic cilia and flagella are assembled and maintained by the bidirectional intraflagellar transport (IFT). Studies in alga, nematode, and mouse have shown that the heavy chain (Dyh2) and the light intermediate chain (D2LIC) of the cytoplasmic dynein-2 complex are essential for retrograde intraflagellar transport. In these organisms, disruption of either dynein-2 component results in short cilia/flagella with bulbous tips in which excess IFT particles have accumulated. In Tetrahymena, the expression of the DYH2 and D2LIC genes increases during reciliation, consistent with their roles in IFT. However, the targeted elimination of either DYH2 or D2LIC gene resulted in only a mild phenotype. Both knockout cell lines assembled motile cilia, but the cilia were of more variable lengths and less numerous than wild-type controls. Electron microscopy revealed normally shaped cilia with no swelling and no obvious accumulations of material in the distal ciliary tip. These results demonstrate that dynein-2 contributes to the regulation of ciliary length but is not required for ciliogenesis in Tetrahymena.     

Greenhouse gas emissions and carbon sequestration potential in restored wetlands of the Canadian prairie pothole region

North American prairie pothole wetlands are known to be important carbon stores. As a result there is interest in using wetland restoration and conservation programs to mitigate the effects of increasing greenhouse gas concentration in the atmosphere. However, the same conditions which cause these systems to accumulate organic carbon also produce the conditions under which methanogenesis can occur. As a result prairie pothole wetlands are potential hotspots for methane emissions. We examined change in soil organic carbon density as well as emissions of methane and nitrous oxide in newly restored, long-term restored, and reference wetlands across the Canadian prairies to determine the net GHG mitigation potential associated with wetland restoration. Our results indicate that methane emissions from seasonal, semi-permanent, and permanent prairie pothole wetlands are quite high while nitrous oxide emissions from these sites are fairly low. Increases in soil organic carbon between newly restored and long-term restored wetlands supports the conclusion that restored wetlands sequester organic carbon. Assuming a sequestration duration of 33 years and a return to historical SOC densities we estimate a mean annual sequestration rate for restored wetlands of 2.7 Mg C ha⁻¹year⁻¹ or 9.9 Mg CO₂ eq. ha⁻¹ year⁻¹. Even after accounting for increased CH₄ emissions associated with restoration our research indicates that wetland restoration would sequester approximately 3.25 Mg CO₂ eq. ha⁻¹year⁻¹. This research indicates that widescale restoration of seasonal, semi-permanent, and permanent wetlands in the Canadian prairies could help mitigate GHG emissions in the near term until a more viable long-term solution to increasing atmospheric concentrations of GHGs can be found.     

Chromosome number in the lizard genus Uta (family Iguanidae)

A chromosome number of 34 (12 macro- and 22 microchromosomes) was found to be characteristic of the bone marrow in 47 animals including males from the species Uta antiquus, and both males and females from the following species and subspecies: Uta stansburiana stansburiana, Uta stansburiana stejnegeri, Uta stansburiana elegans, Uta stansburiana klauberi, Uta stansburiana mannophorus, Uta nolascensis, Uta palmeri, and Uta squamata. — Diploid chromosome numbers of 34 and haploid numbers of 17 were found in the nine testis smears examined. — The presence of a large number of hypodiploid figures in the bone marrow smears is attributed to cell fragmentation and the problem of distinguishing the small microchromosomes. — Series of polyploid figures whose chromosome numbers increased in arithmetic rather than geometric progressions were observed in the testis dry smears. Possible alternatives for the origin of these figures are presented. — Problems encountered in the use of chromosome number as a taxonomic character are discussed.Supported in part by Research Grants GB-366 and GB-5416 from the National Science Foundation, and GM-15361 from the United States Public Health Service.     

The characterization of ficaprenol-10, -11 and -12 from the leaves of Ficus elastica (decorative rubber plant)

Evidence from mass, nuclear-magnetic-resonance and infrared spectrometry and from gas-liquid and thin-layer chromatography is presented in favour of the presence of cis-trans-decaprenol, -undecaprenol and -dodecaprenol in the mixture of polyprenols (2.6mg./g.) isolated from leaf tissue of Ficus elastica. The trivial names ficaprenol-10, -11 and -12 are proposed. Nuclear-magnetic-resonance studies showed that each of these prenols contains three trans internal isoprene residues and a cis ;OH-terminal' isoprene residue. Ficaprenol-11 is the major component of the mixture. Chromatographic evidence suggests the presence also of small amounts of ficaprenol-9 and -13. The precise position of the three trans internal isoprene residues was not determined but it is suggested that these are adjacent to the omega-terminal isoprene residue and that the ficaprenols are formed from all-trans-geranylgeranyl pyrophosphate. It is also suggested that ficaprenol-10, -11, -12 and -13 are probably the same compounds as castaprenol-10, -11, -12 and -13.     

Protein phosphorylation and the regulation of basal body microtubule organizing centres in Tetrahymena.

Previous work suggests that changes in the phosphorylation state of some centrosomal proteins regulate centrosomal activity. The hypothesis that changes in the phosphorylation state of one or more basal body microtubule organizing centre (MTOC) components regulate its ability to nucleate cilia assembly in Tetrahymena thermophila was tested. The MPM-2 antibody, which recognizes phosphorylated epitopes in MTOCs in a variety of organisms, was used to probe immunoblots of cytoskeletal frameworks prepared from starved Tetrahymena, from starved deciliated Tetrahymena, and from a starved deciliated mutant Tetrahymena which failed to initiate ciliogenesis following deciliation. The MPM-2 antibody recognized an identical array of proteins in all blots. These results suggest that, unlike centrosomes, basal body MTOC activity is not regulated by changes in the phosphorylation state of component proteins.     

Metabolic and energetic aspects of the growth of Bacillus stearothermophilus in glucose-limited and glucose-sufficient chemostat culture

With a glucose-limited chemostat culture of Bacillus stearothermophilus, increasing the incubation temperature progressively from 45°C to 63°C led to a progressive marked increase in the maintenance rates of glucose and oxygen consumption. Hence, at a fixed low dilution rate the yield values with respect to glucose and oxygen decreased substantially with increased temperature. However, the apparent Y _glucose ^max and values did not decrease but actually increased with temperature, being highest at 63°C (i.e., close to the maximum growth temperature). With glucose-sufficient cultures growing at a fixed low dilution rate (0.2 h^–1) and at their optimum temperature (55°C), glucose and oxygen consumption rates invariably were higher than that of a corresponding glucose-limited culture. Cation (K⁺ or Mg²⁺)-limited cultures expressed the highest metabolic rates and with the K⁺ limited culture this rate was found to be very markedly temperature dependent. As the temperature was increased from 45°C to 63°C the rate of glucose consumption increased 1.8-fold, and that of oxygen consumption by 3.7-fold. The culture pH value also exerted a noticeable effect on the metabolic rate of a glucose-limited culture, particularly at the extremes of pH tolerance (5.5 and 8.5, respectively). A K⁺-limited culture was less affected with respect to metabolic rate by the culture pH value though the steady state bacterial concentration, and thus the cellular K⁺ content, changed substantially. These results are discussed in relation to previous findings of the behaviour of this organism in batch culture, and to the behaviour of other thermophilic Bacillus species in chemostat culture.