Lakeside reed border characteristics at Lake Constance (Untersee): A comparison between 1981–1983 and 1994

Eutrophication and the associated proliferation offilamentous algae were often considered importantcauses of reed die-back that occurred in the sixtiesand seventies at Lake Constance. According to thishypothesis the reduction in lake water nutrientconcentrations during the eighties and nineties shouldhave reduced the abundance of filamentous algae andwhich should have reduced the supposed mechanicalimpact of filamentous algae on the lakeside reedstands. To examine whether this had actually occurred,the condition of the lakeside reed border at LakeConstance (Untersee) was surveyed in 1994 and resultswere compared to those of similar surveys carried outin the years 1981–83. The extent of mechanical damageto reed stalks, the amount of macrophyte wash and thedegree of shoreline erosion were assessed forshoreline segments of 25 m along a total shorelinelength of 65 km. The results showed that mechanicaldamage to reed stalks was generally higher in 1994than in 1981–83, while macrophyte wash and shorelineerosion were generally less severe. The decreasedamount of macrophyte wash was associated with a changein macrophyte species composition from a dominance offloating filamentous algae to a dominance of rootedPotamogetonaceaeand fragile Characeae,and therefore probably was due to the lower nutrientconcentrations of the lake. The opposite trends foundfor mechanical damage to reed stands and the amount ofmacrophyte wash between 1981–83 and 1994, as well asthe absence of relation between the two variables in1994, suggested that macrophyte wash had only a minoreffect on the condition of lakeside reed stands atLake Constance. Highly damaged reed stands and erodedcliffs were often located at wind exposed sites orclose to highly frequented shipping routes in 1994,suggesting that mechanical stress from waves wasresponsible for the damage. Due to the lakewardprogression of reed stands during the early nineties,reed stalks were, on average, located in deeper waterin 1994 than in 1981–83. This might have strengthenedthe mechanical stress from wave action even more andhave caused the higher frequency of mechanical damageto reed stalks. Other causes of damage such asmacrophyte wash, roosts of birds or bird swarmsprobably played a minor and only local role.     

PredGPI: a GPI-anchor predictor

Background  

Several eukaryotic proteins associated to the extracellular leaflet of the plasma membrane carry a Glycosylphosphatidylinositol (GPI) anchor, which is linked to the C-terminal residue after a proteolytic cleavage occurring at the so called ω-site. Computational methods were developed to discriminate proteins that undergo this post-translational modification starting from their aminoacidic sequences. However more accurate methods are needed for a reliable annotation of whole proteomes.     

Scaling, growth and cyclicity in biology: a new computational approach

Background

The Phenomenological Universalities approach has been developed by P.P. Delsanto and collaborators during the past 2–3 years. It represents a new tool for the analysis of experimental datasets and cross-fertilization among different fields, from physics/engineering to medicine and social sciences. In fact, it allows similarities to be detected among datasets in totally different fields and acts upon them as a magnifying glass, enabling all the available information to be extracted in a simple way. In nonlinear problems it allows the nonscaling invariance to be retrieved by means of suitable redefined fractal-dimensioned variables.

Results

The main goal of the present contribution is to extend the applicability of the new approach to the study of problems of growth with cyclicity, which are of particular relevance in the fields of biology and medicine.

Conclusion

As an example of its implementation, the method is applied to the analysis of human growth curves. The excellent quality of the results (R ² = 0.988) demonstrates the usefulness and reliability of the approach.     

Reduction of dynamic protein concentration range of biological extracts for the discovery of low-abundance proteins by means of hexapeptide ligand library

Deciphering the protein composition of complex extracts or discovering biologically relevant polypeptides is frequently hindered by large dynamic concentration ranges. The presence of high-abundance proteins suppresses the signal of low-abundance ones, and the most rare proteins are frequently below the sensitivity of available analytical methods. This protocol addresses this problem by using highly diversified hexapeptide ligand libraries for capturing proteins. A protein extract is mixed with the library and because the library has equal amounts of each ligand, theoretically the maximum amount of each protein bound is the same. Under overloading conditions this has the effect of diluting those proteins present in excess of the ligand concentration and concentrating those of relatively lower abundance. Unbound components are washed out and captured species are finally desorbed. The entire sample treatment process takes about half a day and yields a protein solution that could be used as such for mass spectrometry investigations.     

Essential oil composition of two endemic Centaurea species from Turkey, Centaurea mucronifera and Centaurea chrysantha, collected in the same habitat

The essential oils of two endemic Centaurea species from Turkey, C. mucronifera and C. chrysantha, collected in the same habitat, have been studied. The main compounds of the former were germacrene D (29.3%), β-eudesmol (17.4%) and β-caryophyllene (7.3%), while in the latter germacrene D (27.4%), caryophyllene oxide (9.5%) and bicyclogermacrene (5.4%) were detected among its major constituents. The two species produced many similar compounds in their essential oils that could be justified by the similar ecological conditions of their habitat, but also many differences were found that could confirm their taxonomic separation.     

Effects on in vitro and in vivo angiogenesis induced by small peptides carrying adhesion sequences

It is well known that tumor growth is strictly dependent on neo‐vessel formation inside the tumor mass and that cell adhesion is required to allow EC proliferation and migration inside the tumor. In this work, we have evaluated the in vitro and in vivo effects on angiogenesis of some peptides, originally designed to promote cell adhesion on biomaterials, containing RGD motif mediating cell adhesion via integrin receptors [RGD, GRGDSPK, and (GRGDSP)₄K] or the heparin‐binding sequence of human vitronectin that interacts with HSPGs [HVP(351–359)]. Cell adhesion, proliferation, migration, and capillary‐like tube formation in Matrigel were determined on HUVECs, whereas the effects on in vivo angiogenesis were evaluated using the CAM assay. (GRGDSP)₄K linear sequence inhibited cell adhesion, decreased cell proliferation, migration and morphogenesis in Matrigel, and induced anti‐angiogenic responses on CAM at higher degree than that determined after incubation with RGD or GRGDSPK. Moreover, it counteracted both in vitro and in vivo the pro‐angiogenic effects induced by the Fibroblast growth factor (FGF‐2). On the other hand, HVP was not able to affect cell adhesion and appeared less effective than (GRGDSP)₄K. Our data indicate that the activity of RGD‐containing peptides is related to their adhesive properties, and their effects are modulated by the number of cell adhesion motifs and the aminoacidic residues next to these sequences. The anti‐angiogenic properties of (GRGDSP)₄K seem to depend on its interaction with integrins, whereas the effects of HVP may be partially due to an impairment of HSPGs/FGF‐2. Copyright © 2010 European Peptide Society and John Wiley & Sons, Ltd.