Seasonal variation in cell volume of epilimnetic bacteria

The relationship between bacterial cell volume and temperature was examined for field data collected over a 4-year period and through controlled chemostat incubations of aPseudomonas sp. Volumes of planktonic bacteria were found to decrease as water temperature increased. Changes in temperature accounted for 38% of the variation in average cell volume (P<0.001). Average planktobacterial cell volume fell 42% from 0.217m³ in mid-winter to 0.127m³ in mid-summer. Similar results were found for the size distribution of epibacterial cells. Controlled chemostat incubations of aPseudomonas sp. indicated that cell volume was significantly affected by temperature, growth rate, and the interaction of temperature and growth rate. The data suggest that a change in cell volume as a result of a change in temperature is an intrinsic property of planktonic bacteria.     

Seasonality,abundance, and biomass of bacteria in a southwestern reservoir

The seasonality, abundance, and biomass of planktonic bacteria was investigated in a south temperate zone reservoir. Epilimnetic samples were collected periodically throughout 1983 from 5 locations within Lake Arlington, TX. Total bacteria were determined from epifluorescence microscopy and averaged 1.1 × 10¹³ cells m^–3 of water. Planktobacteria accounted for 85% of total cell counts and 73% of total bacterial biomass. Cell volumes were substantially larger in winter than in summer and were negatively correlated with temperature. Cell volumes ranged from 0.076 to 0.330 µm³ and averaged 0.160 µm³. The average biovolume corresponded to a sphere 0.670 µm in diameter. Bacterial biomass was high, averaging 172 mg C m^–3 of water and reached seasonal maximum during winter months. Correlation analysis (simple linear and multiple linear) revealed that approximately 50% of the variation in bacterial biomass could be accounted for by variation in temperature and dissolved organic carbon.     

Seasonal Variability and Transport of Suspended Microfungi in a Southeastern Salt Marsh

Tidally induced fluctuations and transports of microfungi were investigated. Samples were collected at three depths from three stations positioned at a transect in a large salt marsh creek. Samples were taken every 1.5 h for 50 consecutive h during neap tides and 50 consecutive h during the corresponding spring tides. In each season, microfungi concentrations fluctuated out of phase with the tides during both neap and spring tides. Mean concentrations of suspended microfungi did not vary appreciably throughout the year. Fungi were exported from the marsh during the majority of the tidal cycles studied. The results suggest that microfungi may serve as indicators of water mass movements.     

Direct and indirect evidence of size-selective grazing on pelagic bacteria by freshwater nanoflagellates

Size-selective grazing of three heterotrophic nanoflagellates (with cell sizes of 21, 44, and 66 mum) isolated from Lake Arlington, Texas was examined by using a natural mixture of fluorescence labelled lake bacteria. Sizes of ingested bacteria in food vacuoles were directly measured. Larger bacterial cells were ingested at a frequency much higher than that at which they occurred in the assemblage, indicating preferential flagellate grazing on the larger size classes within the lake bacterioplankton. Water samples were collected biweekly from June through September, 1989, fractionated by filtration, and incubated for 40 h at in situ temperatures. The average bacterial size was always larger in water which was passed through 1-mum-pore-size filters (1-mum-filtered water) (which was predator free) than in 5-mum-filtered water (which contained flagellates only) or in unfiltered water (in which all bacterivores were present). The increase of bacterial-cell size in 1-mum-filtered water was caused by a shift in the size structure of the bacterioplankton population. Larger cells became more abundant in the absence of flagellate grazing.     

Comparison of the folding of 2-Keto-3-deoxy-6-phosphogluconate aldolase,triosephosphate isomerase and pyruvate kinase: Implications in molecular evolution

The 8-fold α/β barrel conformation of 2-keto-3-deoxy-6-phosphogluconate aldolase has been compared to that of triosephosphate isomerase and the A-domain of pyruvate kinase. There are eight supersecondary structure units (α/β) in each of these proteins, and the comparisons were carried out in orientations corresponding to each of the possible congruences, i.e. first to first, first to second,… of the supersecondary structure units. The comparison of the C_α structure of the main chain folding of the three enzymes indicated about 150 equivalences with rootmean-square differences of about 3.1 Å, with no orientational preference, including the aldolase with itself. In addition, there is no sequence homology between the aldolase and the isomerase, and no indication of gene duplication in the former. The lack of orientational preference among the three enzymes suggests convergence to a fold of exceptional stability. However, all three enzymes activate a CH bond adjacent to a carbonyl, and their active sites correspond to the f strand, F helix region of the α/β barrel, thus contradicting the foregoing and suggesting divergent evolution from a common precursor. Other and similar arguments are also presented for and against convergent evolution of these three strikingly similar enzymes.     

Adenosine 5'-triphosphate flux through the north inlet marsh system

The distribution, fluctuation, and short-term transport of total microbial biomass (measured as adenosine 5'-triphosphate [ATP]) was investigated in a large salt marsh creek. Hourly samples were collected synoptically for 25 h from 10 boats positioned across the 320-m width of the creek. Samples were collected from three depths ranging from 0.2 to 8.0 m. Hourly data obtained from each station were graphed, plotting depth against ATP. Subsequently, interpolated ATP values were generated for every one-tenth depth from the surface to the bottom with the use of an 11-point proportional divider. A total of 2,750 values were generated, and a mean value of 0.865 mg of ATP per m was determined. Maximum levels of ATP were found at high tide and minimal values were found at low tide. The distribution of ATP concentrations was found to be complex, with no suggestion of vertical stratification; however, horizontal divisions were apparent. ATP values corrected for direction of flow or velocity indicated two ebb-directed channels; however, when considered in total, there was a net import of ATP through the interface. The total import of ATP for this 25-h sampling period was calculated to be 3.58 kg, corresponding to a net transport of 39.8 mg of ATP per s through the cross section. Results suggest that detailed characterization of a creek transect in terms of ATP or any similar parameter requires the simultaneous measurements of both the concentration of the parameter in question and the velocity at the time and point from which the sample was taken.     

PARma: identification of microRNA target sites in AGO-PAR-CLIP data

PARma is a complete data analysis software for AGO-PAR-CLIP experiments to identify target sites of microRNAs as well as the microRNA binding to these sites. It integrates specific characteristics of the experiments into a generative model. The model and a novel pattern discovery tool are iteratively applied to data to estimate seed activity probabilities, cluster confidence scores and to assign the most probable microRNA. Based on differential PAR-CLIP analysis and comparison to RIP-Chip data, we show that PARma is more accurate than existing approaches. PARma is available from http://www.bio.ifi.lmu.de/PARma     

Urinary Metal Levels with Relation to Age,Occupation, and Smoking Habits of Male Inhabitants of Eastern Iran

Biological Trace Element Research - In low-income and middle-income countries such as Iran, smoking is becoming increasingly popular, especially among young people. This has led to additional...