The human L-pipecolic acid oxidase is similar to bacterial monomeric sarcosine oxidases rather than D-amino acid oxidases

L-Pipecolic acid oxidase activity is deficient in patients with peroxisome biogenesis disorders (PBDs). Because its role, if any, in these disorders is unknown, the authors cloned the human gene to order to further study its functions. BLAST search of the translated sequence showed greatest homology to Bacillus sp. NS-129 monomeric sarcosine oxidase. The purified enzyme could use either L-pipecolic acid or sarcosine as a substrate. No homology was found to the peroxisomal D-amino acid oxidases. A further comparison of L-pipecolic acid oxidase to the two D-amino acid oxidases in peroxisomes showed that the proteins differed in many ways. First, both D-amino acid oxidase and L-pipecolic acid oxidase showed no enzyme activity in liver from Zell-weger syndrome patients; D-aspartate oxidase activity was unchanged from control levels. Although all were targeted to peroxisomes, their targeting signals differed. No L-pipecolic acid oxidase was found in brain or other tissues outside of liver and kidney. The D-amino acid oxidases were similarly and more widely distributed. Finally, although D-amino acid degradation is limited to peroxisomes in mammals, L-pipecolic acid can be oxidized in either mitochondria or peroxisomes, or both.     

The Presence of a Ribonuclease of High Molecular Weight in Sugar Beet Storage Tissue

Soluble ribonuckasie activity in sliced root tissue or sugar beet (Beta vulgaris) decreased to 30% of initial levels during the first 15 hours of aeration in sterile phosphate buffer. Activity increased with continued aeration reaching a maximum at 30 hours (85% of initial levels). Ribonuclease activity was isolated from unaerated tissue and partially purified by precipitation with acid and ammonium sulfate and by Sephadex chromatography. Enzyme activity was linear with respect to enzyme and substrate concentrations. The enzyme exhibited a substrate preference for RNA with no activity in the presence of native or denatured DNA. Elution of the enzyme from a Sephadex G-150 column indicated a molecular weight of 155,000. This uniquely large ribonuclease had no phosphodiesterase activity, was unaffected by ethylenediamine tetraacetate, and was inhibited by increasing Nig²⁺ concentrations.     

Effects of disturbance frequency,intensity, and area on assemblages of stream macroinvertebrates

Disturbance frequency, intensity, and areal extent may influence the effects of disturbance on biological communities. Furthermore, these three factors may have interacting effects on biological diversity. We manipulated the frequency, intensity, and area of disturbance in a full-factorial design on artificial substrates and measured responses of benthic macroinvertebrates in a northern Vermont stream. Macroinvertebrate abundance was lower in all disturbance treatments than in the undisturbed control. As in most other studies in streams, species density (number of species/sample) was lower in disturbed treatments than in undisturbed controls. However, species density is very sensitive to total abundance of a sample, which is usually reduced by disturbance. We used a rarefaction method to compare species richness based on an equivalent number of individuals. In rarefied samples, species richness was higher in all eight disturbed treatments than in the undisturbed control, with significant increases in species richness for larger areas and greater intensities of disturbance. Increases in species richness in response to disturbance were consistent within patches, among patches with similar disturbance histories, and among patches with differing disturbance histories. These results provide some support for Huston’s dynamic-equilibrium model but do not support the intermediate-disturbance hypothesis. Our analyses demonstrate that species richness and species density can generate opposite patterns of community response to disturbance. The interplay of abundance, species richness, and species density has been neglected in previous tests of disturbance models. Received: 20 July 1999 / Accepted: 26 January 2000     

Whole Genome Amplification for Sequencing and Applications in Conservation Genetics

Abstract: We describe a method for rapidly amplifying whole genomes via a Phi29 DNA polymerase-mediated strand displacement reaction (SDR). Genomic amplification products derived from the SDR reaction resulted in high quantities of DNA suitable for polymerase chain reaction (PCR) amplification and sequencing of mitochondrial genomes. Control region sequences of DNA derived directly from PCR amplicons of extracted DNA were identical to those derived from PCR amplification of SDR genomic DNA. Effective SDR amplification and subsequent sequencing was successful across tissues sources ranging in age from 1 year to 19 years. Strand replacement reaction genomic amplification offers a means of obtaining large quantities of DNA from small amounts of tissue.     

Marine Ecology of Seabirds in Polar Oceans

Patterns of seabird species' distributions differ between theAntarctic and the Arctic. In the Antarctic, distributions areannular or latitudinal, with strong similarities in speciescomposition of seabird communities in all ocean basins at agiven latitude. In the Arctic, communities are arranged meridionally,and show strong differences between ocean basins and, at a givenlatitude, between sides of ocean basins. These differences betweenthe seabird communi ies in the Northern Hemisphere and the SouthernHemisphere reflect differences in the patterns of flow of majorocean current systems. At smaller spatial scales, in both hemispheresthe species composition of seabird communities is sensitiveto changes in watermass characteristics. The distribution of avian biomass is affected by both physicaland biological features of the ocean. In the Antarctic, muchseabird foraging is over deep water, and withinseason, small-scalepatchiness in prey abundance and availability in ice-free watersis likely to be controlledprimarily by the behavior of the prey,rather than by physical features. Thus, prey availability maybe unpredictable in time and space. In contrast, in the NorthernHemisphere, most seabirdforaging is concentrated over shallowcontinental shelves, where currents interact with bathymetryto produce predictable physical features capable of concentratingprey or making prey more easily harvested by seabirds. Ice cover appears to be the most important physical featurein the Antarctic. An entire community of birds is specializedto use prey taken near the ice edge. These prey consist of avariety of species, some of which are normally found much deeperin the water than the birds takingthem can dive. The open-waterportion of the marginal ice zone is also an important foraginghabitat for Antarctic marine birds. In the Arctic, a food webbased on underice algae is used by marine birds, but few ifany data exist on avian use of the open water segment of themarginal ice zone. Recent simultaneous surveys of birds and their prey indicatethat only rarely does the small-scale abundance of birds matchthat of their prey; correlations between predators and preyaregenerally stronger at larger scales. Evidence is accumulatingin the Antarctic that the largestaggregations of krill may bedisproportionately important to foraging seabirds.     

Deposition of low dose benzo(a)pyrene into fetal tissue: influence of protein binding

The influence of maternal binding of benzo(a)pyrene (BaP) on its disposition into fetal tissue was investigated in pregnant Swiss-Webster mice. Low doses (10 ng/mouse) of radiolabeled BaP were administered by intravenous injection on day 15 of gestation. BaP was administered along with normal rabbit serum (NRS) (low binding paradigm) or anti-BaP antiserum (high binding paradigm) and animals killed at various time points. Total radioactivity in the fetus increased with time to peak concentrations in whole fetal homogenates at 12 hours. In contrast, maternal serum, liver, and lung showed a decrease in total radioactivity over the same time period. Total radioactivity/gram of fetal tissue was significantly higher in NRS-treated animals compared to anti-BaP-antiserum-treated animals. Since the levels of the parent compound, BaP, in fetal tissue fell over time similar to maternal liver and lung, the increase in total radioactivity in the fetus was due to an increased concentration of a BaP metabolite fraction in both the low binding and high binding groups. Significantly, a lower level of this metabolite fraction was found in fetal tissue from the anti-BaP-antiserum-treated animals. The present study shows that maternal exposure to this environmental pollutant, even at low doses, results in an accumulation of a metabolite-rich fraction in the fetal compartment, which may contribute to the teratogenic potential of BaP. The data also demonstrate that the amount of this accumulation can be diminished by increasing maternal binding proteins, such as by treatment with anti-BaP antiserum.