Role of nitrite reductase in the ammonia-oxidizing pathway of <Emphasis Type="Italic">Nitrosomonas europaea</Emphasis>

Metabolism of ammonia (NH₃) and hydroxylamine (NH₂OH) by wild-type and a nitrite reductase (nirK) deficient mutant of Nitrosomonas europaea was investigated to clarify the role of NirK in the NH₃ oxidation pathway. NirK-deficient N. europaea grew more slowly, consumed less NH₃, had a lower rate of nitrite (NO₂ ⁻) production, and a significantly higher rate of nitrous oxide (N₂O) production than the wild-type when incubated with NH₃ under high O₂ tension. In incubations with NH₃ under low O₂ tension, NirK-deficient N. europaea grew more slowly, but had only modest differences in NH₃ oxidation and product formation rates relative to the wild-type. In contrast, the nirK mutant oxidized NH₂OH to NO₂ ⁻ at consistently slower rates than the wild-type, especially under low O₂ tension, and lost a significant pool of NH₂OH–N to products other than NO₂ ⁻ and N₂O. The rate of N₂O production by the nirK mutant was ca. three times higher than the wild-type during hydrazine-dependent NO₂ ⁻ reduction under both high and low O₂ tension. Together, the results indicate that NirK activity supports growth of N. europaea by supporting the oxidation of NH₃ to NO₂ ⁻ via NH₂OH, and stimulation of hydrazine-dependent NO₂ ⁻ reduction by NirK-deficient N. europaea indicated the presence of an alternative, enzymatic pathway for N₂O production.     

Taxonomic composition and distribution of the echinoderms associations in the littoral ecosystems from the Colombian Pacific

This paper examines published information and gray literature about taxonomy and ecology of echinoderm species of the Colombian Pacific Coast. Unpublished collection data of specimens kept in the Marine Sciences Museum of the University of Valle are also considered. Sixty-six species are found in coastal ecosystems and shallow bottoms of ten geographical, coastal and insular localities of the Pacific coast of Colombia. Main habitats having echinoderms are: rocky cliffs and shores, coral reefs, sand beaches, mud substrates, mangroves, and shallow bottoms of mud, sand, gravel and rocks. Regular Echinoidea and Asteroidea are the most diverse and abundant groups, mainly in subtidal rocky shallow bottoms and coral reefs. Ophiuroidea are abundant below rocky boulders. Irregular Echinoidea are abundant on sand beaches. The relatively high number of species shows that this geographical area presents a high diversity of echinoderms compared with other tropical shallow and littoral zones of the world. Rocky substrates and coral reefs are the ecosystems with the highest numbers of echinoderm species and individuals. A conservation status assessment is difficult because the lack of periodical sampling and few data about deep zones. In general, the species reported in the last 25 years, have not experimented important changes in their populations, although in some specific places, populations may decrease because human activities in coastal areas increase sedimentation rates change some rocky substrates to mud or sand.     

A peripheral pacemaker drives the circadian rhythm of synaptic boutons in Drosophila independently of synaptic activity

Circadian rhythms in the morphology of neurons have been demonstrated in the fly Drosophila melanogaster. One such rhythm is characterized by changes in the size of synaptic boutons of an identified flight motor neuron, with larger boutons during the day compared with those at night. A more detailed temporal resolution of this rhythm shows here that boutons grow at a time of increased locomotor activity during the morning but become gradually smaller during the day and second period of increased locomotor activity in the evening. We have experimentally manipulated the synaptic activity of the fly during short periods of the day to investigate whether changes in bouton size might be a consequence of the different levels of synaptic activity associated with the locomotion rhythm of the fly. In the late night and early morning, when the flies normally have an intense period of locomotion, the boutons grow independently of whether the flies are active or completely paralyzed. Bouton size is not affected by sleep-deprivation during the early night. The cycle in bouton size persists for 2 days even in decapitated flies, which do not move, reinforcing the notion that it is largely independent of synaptic activity, and showing that a pacemaker other than the main biological clock can drive it.     

A new look at computation of the complexity index in mangroves: do disturbed forests have clues to analyze canopy height patchiness?

This paper proposes some guidelines to compute complexity index in those mangroves where either seasonal or strong disturbances have occurred. We surveyed 31 mangrove localities in Buenaventura Bay, Central Pacific Coast of Colombia, where structural parameters were measured within a 0.1 ha plot. Also, most likely disturbances were noted for each plot. Complexity index was calculated in its classical form using the arithmetic mean of the three tallest trees(maximal mean) and alternatively using: a) the total mean: the height average of all trees recorded in each plot; and b) the mode: the most frequent tree height class (10 cm intervals) within each plot. Afterwards, we compared the three computations and discussed there liability of each one according to the current state by plot. In addition, all structural parameters were sorted in two diameter at breast height (dbh) cohorts (2.5–10 cm and ≥ 10 cm) to figure out which contributes more to the forest structure. We conclude the following: (a) The mean of the three tallest trees is not a good estimator of forest development when seasonal or strong disturbances occur since complexity index based in it always overestimates forest structure. (b) Seasonal disturbances and recruitment produce mosaic forests. The best estimator of this condition is the mean height which encompasses both central tendency and variability. (c) The modal height is also helpful to establish the dominant cohort when forests show two or more storied-canopies, or intermediate cohorts are missing. It also applies when a new stock of recruits is entering in a mature forest (the modal or maximal heights can be used interchangeably in this case). (d) Maximal height is the best estimator for uniformly developed forests with closed canopies and/or a single dominant tall-cohort. (e) If one is not confident about which height type to include to compute the complexity index, we recommend to sort out structure data by dbh-cohorts and calculate indices for both of them. This will show which cohort is contributing most to forest complexity. Finally, we suggest to exclude non-mangrove species from the complexity index computation since they mostly do not contribute significantly to forest basal area. This revised version was published online in July 2006 with corrections to the Cover Date.     

Biocatalyst-adsorbant systems: a viable alternative to proteolytic processes in solution

Proteolytic biocatalysts were adsorbed and stabilized using alumina as a support medium. Two biocatalyst-adsorbant systems were prepared with different physical characteristics of the adsorbant: alumina powder and alumina pearls. Direct adsorption onto the support medium has the main advantage, over other fixation methods, that preliminary steps are not required for a good interaction between the support and the biocatalyst. Proteases were adsorbed and stabilized without modifying or sterically hindering their active sites. Parameters affecting adsorption (pH, temperature, ionic strength) were varied so as to optimize adsorption conditions. Operational viability of the immobilized biocatalysts was demonstrated, taking into account the rate of desorption, resistance to microbial attack, and stability during storage. Desorption in water was studied in batch and continuous-flow processes, at various flow rates. The systems also proved to be resistant to microorganisms. Tests for stability during storage found the systems' activity remained constant after 60 days, and they performed better than biocatalysts in solution. Proteolysis of a solution of g per litre of azocasein was carried out in continuous-flow and batch modes, using our biocatalyst-adsorbant systems we prepared. In all cases, free amino group concentrations were around 2.5 times greater after treatment with biocatalyst-adsorbants than they were in the starting solution.     

Autotrophic ammonia-oxidizing bacteria contribute minimally to nitrification in a nitrogen-impacted forested ecosystem

Deposition rates of atmospheric nitrogenous pollutants to forests in the San Bernardino Mountains range east of Los Angeles, California, are the highest reported in North America. Acidic soils from the west end of the range are N-saturated and have elevated rates of N-mineralization, nitrification, and nitrate leaching. We assessed the impact of this heavy nitrogen load on autotrophic ammonia-oxidizing communities by investigating their composition, abundance, and activity. Analysis of 177 cloned beta-Proteobacteria ammonia oxidizer 16S rRNA genes from highly to moderately N-impacted soils revealed similar levels of species composition; all of the soils supported the previously characterized Nitrosospira clusters 2, 3, and 4. Ammonia oxidizer abundance measured by quantitative PCR was also similar among the soils. However, rates of potential nitrification activity were greater for N-saturated soils than for soils collected from a less impacted site, but autotrophic (i.e., acetylene-sensitive) activity was low in all soils examined. N-saturated soils incubated for 30 days with ammonium accumulated additional soluble ammonium, whereas less-N-impacted soils had a net loss of ammonium. Lastly, nitrite production by cultivated Nitrosospira multiformis, an autotrophic ammonia-oxidizing bacterium adapted to relatively high ammonium concentrations, was significantly inhibited in pH-controlled slurries of sterilized soils amended with ammonium despite the maintenance of optimal ammonia-oxidizing conditions. Together, these results showed that factors other than autotrophic ammonia oxidizers contributed to high nitrification rates in these N-impacted forest soils and, unlike many other environments, differences in nitrogen content and soil pH did not favor particular autotrophic ammonia oxidizer groups.     

Spalt modifies EGFR-mediated induction of chordotonal precursors in the embryonic PNS of Drosophila promoting the development of oenocytes

Genes of the spalt family encode nuclear zinc finger proteins. In Drosophila melanogaster, they are necessary for the establishment of head/trunk identity, correct tracheal migration and patterning of the wing imaginal disc. Spalt proteins display a predominant pattern of expression in the nervous system, not only in Drosophila but also in species of fish, mouse, frog and human, suggesting an evolutionarily conserved role for these proteins in nervous system development. Here we show that Spalt works as a cell fate switch between two EGFR-induced cell types, the oenocytes and the precursors of the pentascolopodial organ in the embryonic peripheral nervous system. We show that removal of spalt increases the number of scolopodia, as a result of extra secondary recruitment of precursor cells at the expense of the oenocytes. In addition, the absence of spalt causes defects in the normal migration of the pentascolopodial organ. The dual function of spalt in the development of this organ, recruitment of precursors and migration, is reminiscent of its role in tracheal formation and of the role of a spalt homologue, sem-4, in the Caenorhabditis elegans nervous system.