Rice straw decomposition in rice-field soil

Rice straw, buried in a rice-field during the dry season decomposed at a rate of 0.0075 day-1. Seventy five percent of the biomass, 70 percent carbon, 50 percent nitrogen and 30 percent phosphorus remained after 139 days of decomposition. Rice straw decomposition furnished 33% N and 8% P of the total nitrogen and phosphorus provided by man.     

Biomass-size spectra in aquatic communities in shallow fluctuating Mediterranean salt marshes (Emporda wetlands, NE Spain)

The distribution of biomass among phytoplankton and free-livinginvertebrates was analysed in a shallow Mediterranean salt marshsubmitted to fluctuating water level. Among phytoplankton, biomassaccumulated in sizes dominated by mixotrophic species, indicatinga competitive advantage for these species, which also prey onother smaller primary producers. Among invertebrates, biomassaccumulated in the larger sizes, corresponding to species whichpartially exploit other nearby systems, such as the aerial environment(insects), or to those able to exploit particulated organicmatter in marsh-bed sediment (amphipods). Biomass distributionmodels developed for pelagic systems are discussed in relationto fluctuating temporary waters. The integrated spectrum approximated(r² = 0.96) a Pareto distribution with a slope of c = 1.38.Intense disturbances caused a decrease in r² and an increasein c. Under stable conditions, two different tendencies wereobserved, depending on the degree of eutrophy of the basins:higher values of c were measured in the more eutrophic basins,and lower values in the less eutrophic ones. We hypothesizethat highly irregular nutrient input could explain these differences.     

Spanish salt lakes: Their chemistry and biota

A large number of small saline lakes are distributed throughout Spain. Four main lake districts occur from sea level to 1000 m.a.s.l. Most lakes are temporary because of the arid conditions in the Spanish endorheic areas. Many lakes are situated in Tertiary depressions in NE. and S. Spain. Lake basins were formed in karstic areas by hydrologic and aeolian erosion. Saline lakes in NE. Spain occupy areas isolated between river basins. The major ions encountered in these lakes are usually sodium-chloride and magnesium-sulphate; sodium carbonate or sodium-sulphate rich waters also occur.The biota of Spanish salt lakes is related to that of a larger biogeographical region which includes the Mediterranean countries. The main types of salt lakes in Spain include: (1) temporarily mineralized but not highly saline lakes, salinity is less than 7 g l^-1. Chara canescens, C. aspera, Zanichellia palustris, Daphnia atkinsoni, Mixodiaptomus incrassatus and Arctodiaptomus wierzejskii are the most characteristic organisms. (2) Temporary salt lakes, salinity fluctuates between 7 and 300 g l^-1. Chara galioides, Lamprothamnion papulosum, Daphnia mediterranea, Arctodiaptomus salinus and Cletocamptus retrogressus are the most common species. (3) Permanent salt lakes, Ruppia maritima, Najas marina and Artemia salina are the characteristic organisms.     

The effect of an acute energy deficit on the hormone profile of dominant follicles in dairy cows

The effect of an acute energy deficit on the hormone balance of dominant follicles was studied in six normally-cycling, high-yielding Italian Friesian cows at 60 and 90 days after calving. At 60 days after calving, the cows, which had been fed according to their maintenance and production requirements, were synchronized and follicular fluid was collected from the dominant follicles under ultrasound guidance. At 90 days after calving, the same protocol was used on the same cows, which had been subjected to an acute dietary restriction since the day of the second prostaglandin treatment for synchronization. At the follicular level, the dietary restriction caused a significant reduction (P < 0.05) in the concentration of estradiol-17beta and a significant increase (P < 0.05) in NEFA. There were no significant differences in follicular diameter, follicular concentrations of progesterone, and Insulin-like Growth Factor-I (IGF-I). The amount of IGFBP2 and IGFBP3 in follicular fluid increased. The results suggest that an acute dietary restriction induces substantial changes at the dominant follicle level, despite the fact that the recruitment and selection phase occurred before the cows' diet was restricted.     

Aquatic metabolism short-term response to the flood pulse in a Mediterranean floodplain

The pulsing of river discharge affects biodiversity and productivity of whole river–floodplain ecosystems, triggering the transport, storage and processing of carbon. In this study we investigate the short-term changes in water chemistry and net pelagic metabolism (NEP) in two floodplain lakes in response to a flood pulse. The two oxbow lakes investigated in the floodplain of the Mediterranean Ebro River (NE Spain) showed a clear temporal shift in their metabolic balance, controlled by the river discharge and associated changes in water physical and chemical characteristics. Water chemistry (turbidity, water organic matter, chlorophyll a and nutrients concentration) returned to pre-flood values after 4 days, highlighting the resilience of the ecosystem to flood pulses. Lake NEP was depressed before and during floods to a minimum of −34 mg O₂ m⁻³ h⁻¹, and increased after the flood pulse to a maximum of +463 mg O₂ m⁻³ h⁻¹. The phytoplankton assemblage showed before and after floods a replacement of autotrophic species (e.g. Chlorophyceans) by mixotrophic organisms (e.g. Cryptophyceans, Euglenoids). A linear mixed effects model identified abiotic factors, particularly temperature and river discharge, as significant predictors of the net aquatic metabolism and community respiration during flood conditions. Our results suggest that the role of the Ebro floodplain lakes as sources or sinks of C is complex and relative to the time scale investigated, depending strongly on the river discharge dynamics and the transport of limiting nutrients (phosphorus).     

Spectroscopic Investigation of Local Mechanical Impedance of Living Cells

We studied nanoscale mechanical properties of PC12 living cells with a Force Feedback Microscope using two experimental approaches. The first one consists in measuring the local mechanical impedance of the cell membrane while simultaneously mapping the cell morphology at constant force. As the interaction force is increased, we observe the appearance of the sub-membrane cytoskeleton. We compare our findings with the outcome of other techniques. The second experimental approach consists in a spectroscopic investigation of the cell while varying the tip indentation into the membrane and consequently the applied force. At variance with conventional dynamic Atomic Force Microscopy techniques, here it is not mandatory to work at the first oscillation eigenmode of the cantilever: the excitation frequency of the tip can be chosen arbitrary leading then to new spectroscopic AFM techniques. We found in this way that the mechanical response of the PC12 cell membrane is found to be frequency dependent in the 1 kHz - 10 kHz range. In particular, we observe that the damping coefficient consistently decreases when the excitation frequency is increased.     

The effect of anthropogenic disturbance on the hydrochemical characteristics of riparian wetlands at the Middle Ebro River (NE Spain)

In natural systems, the chemistry of floodplain waters is a function of the source of the water, which is influenced by geomorphic features of riparian wetlands. However, anthropogenic disturbances may alter both geomorphic features and the natural balance of water mixing in the floodplain. The aim of this study was to classify riparian wetlands and characterize their water characteristics in one reach of the Middle Ebro River to assess the hydrochemical functioning of the system. In order to accomplish that goal, water samples were collected at 40 sampling sites during low-water conditions and two floods of different magnitude. Moreover, geomorphic characteristics of riparian wetlands were also analyzed to interpret the results at broader spatio-temporal scales. Three group of wetlands were identified using multivariate ordination: (1) major and secondary channels highly connected to the river by surface water, containing weakly ionized water with high nitrate levels during floods; (2) secondary channels and artificial ponds located in riparian forests near the river, most of which were affected by river seepage during the examined events. This type of sites had high major ions concentrations and elevated spatial variability with respect to nutrient concentrations during floods; (3) Siltated oxbow lakes, whose hydrogeochemical features seemed to be unaffected by factors related to river fluctuations. Total dissolved solids, major ion (sulfate, chloride, sodium, calcium, magnesium, and potassium) and nutrient (nitrate, ammonium and organic nitrogen, and phosphate) depended upon the relationships between surface and subsurface water flows. Seasonal changes and geomorphic characterization indicated that a strong functional dependence of floodplain wetlands close to the main river channel is established, whereas most of the floodplain area remains disconnected from river dynamics. Moreover, the effect of nitrate-enriched agricultural runoff seems to affect water quality and hydrochemical gradients of the system. Based on our results, we propose different types of actions for the management of the Ebro River flow to ensure a more natural ecological functioning of its floodplains. Handling editor: P. Viaroli     

VARUN: discovering extensible motifs under saturation constraints

The discovery of motifs in biosequences is frequently torn between the rigidity of the model on one hand and the abundance of candidates on the other hand. In particular, motifs that include wild cards or "don't cares" escalate exponentially with their number, and this gets only worse if a don't care is allowed to stretch up to some prescribed maximum length. In this paper, a notion of extensible motif in a sequence is introduced and studied, which tightly combines the structure of the motif pattern, as described by its syntactic specification, with the statistical measure of its occurrence count. It is shown that a combination of appropriate saturation conditions and the monotonicity of probabilistic scores over regions of constant frequency afford us significant parsimony in the generation and testing of candidate overrepresented motifs. A suite of software programs called Varun is described, implementing the discovery of extensible motifs of the type considered. The merits of the method are then documented by results obtained in a variety of experiments primarily targeting protein sequence families. Of equal importance seems the fact that the sets of all surprising motifs returned in each experiment are extracted faster and come in much more manageable sizes than would be obtained in the absence of saturation constraints.     

Reproductive performance of dairy cows with luteal or follicular ovarian cysts after treatment with buserelin

In dairy farm management economic losses resulting from cystic ovarian degeneration are well known. In spite of this, neither the definition nor the aetiopathology of ovarian cysts are clear and agreed upon. Also the usual classification in luteal and follicular cysts, requiring ultrasound examination together with assessment of P4 to be accurate, is not very helpful in field conditions. Consequently a single treatment is often provided for both types of cysts, and since the 1970s treatments with GnRH and its analogues have been considered very useful. Nevertheless differences in recovery rates after GnRH treatment in animals with either luteal or follicular cysts are reported. Thus, the aim of this study was to evaluate recovery rate, recovery time and conception rate after treatment with buserelin (GnRH-analogue) in cows with ovarian luteal or follicular cysts. In a 5 years period, 150 cows with cysts out of a total of 990 animals, were detected and treated intravenously between 45 and 60 days PP with 20μg buserelin. No statistically significant differences were found in recovery rates and in conception rates between the two types of cysts. Comparison of recovery times showed significantly shorter recovery for cows with luteal cysts. The results emphasise the usefulness of GnRH to treat ovarian cysts regardless of their type, in relation to both recovery and conception rates. Intervals from treatment to resumption of ovarian activity were affected by the characteristics of ovarian cysts, with a faster recovery for the luteal type.     

Intracellular trafficking and maturation of herpes simplex virus type 1 gB and virus egress require functional biogenesis of multivesicular bodies

The biogenesis of multivesicular bodies (MVBs) is topologically equivalent to virion budding. Hence, a number of viruses exploit the MVB pathway to build their envelope and exit from the cell. By expression of dominant negative forms of Vps4 and Vps24, two components of the MVB pathway, we observed an impairment in infectious herpes simplex virus (HSV) assembly/egress, in agreement with a recent report showing the involvement in HSV envelopment of Vps4, the MVB-specific ATPase (C. M. Crump, C. Yates, and T. Minson, J. Virol. 81:7380-7387). Furthermore, HSV infection resulted in morphological changes to MVBs. Glycoprotein B (gB), one of the most highly conserved glycoproteins across the Herpesviridae family, was sorted to MVB membranes. In cells expressing the dominant negative form of Vps4, the site of intracellular gB accumulation was altered; part of gB accumulated as an endoglycosidase H-sensitive immature form at a calreticulin-positive compartment, indicating that gB traffic was dependent on a functional MVB pathway. gB was ubiquitinated in both infected and transfected cells. Ubiquitination was in part dependent on ubiquitin lysine 63, a signal for cargo sorting to MVBs. Partial deletion of the gB cytoplasmic tail resulted in a dramatic reduction of ubiquitination, as well as of progeny virus assembly and release to the extracellular compartment. Thus, HSV envelopment/egress and gB intracellular trafficking are dependent on functional MVB biogenesis. Our data support the view that the sorting of gB to MVB membranes may represent a critical step in HSV envelopment and egress and that modified MVB membranes constitute a platform for HSV cytoplasmic envelopment or that MVB components are recruited to the site(s) of envelopment.