The accuracy of several multiple sequence alignment programs for proteins

Background  

There have been many algorithms and software programs implemented for the inference of multiple sequence alignments of protein and DNA sequences. The "true" alignment is usually unknown due to the incomplete knowledge of the evolutionary history of the sequences, making it difficult to gauge the relative accuracy of the programs.     

Die Pulvillen vonCalliphora erythrocephala (Diptera,Brachycera) als Adhäsionsorgane

Zusammenfassung Die Pulvillen vonCalliphora erythrocephala wurden licht und fluoreszenzmikroskopisch, raster- und transmissions-elektronenmikroskopisch untersucht. Das Adhäsionssekret wurde dünnschichtchromatographisch mit dem Körperoberflächen-Lipid verglichen.Die Pulvillen tragen auf der Ventralseite mehrere Tausend langer dünner Hafthaare mit sohlenartigen Endverbreiterungen. Die Kutikula des Pulvillus besteht hauptsächlich aus elastischen Kutikulatypen (Endo- und Mesokutikula) in verschiedenen, spezifischen Ausbildungsformen.Die Pulvillen enthalten ein sekretorisches Epithel ohne Ausführgänge, das Protein- und Lipideinschlüsse zeigt.Das Pulvillensekret ist eine schwerflüchtige, ölige Flüssigkeit, die nicht identisch ist mit dem Körperoberflächen-Lipid. Das Sekret wird in der homogenen Kutikala des Pulvillus gespeichert und über das Porenkanalsystem der Ventralseite nach außen geleitet.Der Zusammenhang zwischen der Struktur der Pulvillen und ihrer Rolle beim Adhäsionsvorgang wird diskutiert.

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The pulvilli ofCalliphora erythrocephala (Diptera, Brachycera) as adhesive organs

Summary The pulvilli ofCalliphora erythrocephala were examined by light microscopy, fluorescent light microscopy, SEM and TEM. The adhesive secretion was compared with the general surface lipid layer by means of thinlayerchromatography.On the ventral surface the pulvilli bare several thousand long, slender tenent hairs with solelike spatulate tips. The pulvillar cuticle is composed on the whole of elastic cuticle types (endocuticle, mesocuticle) with specific modifications of structure. The pulvilli contain a secretory epithelium without transport ducts which has lipid and proteinaceous inclusions.The pulvillar secretion is a slowly volatile oily liquid which is not identical to the general surface lipid. The secretion is stored in the homogeneous cuticle within the pulvillus and transported to the ventral surface via the pore canal system.The correlation between the structure of pulvilli and their function in the adhesion process is discussed here.

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Abkürzungen bl Basales Labyrinth - cv coated vesicle - db dense body - dlk Dichter Lamellenkörper - dw Dorsalwand - e Epithel - ef Endokutikulafasern in der Übergangszone (meso 2b) - endo 1 lamelläre Endokutikula - endo 2 homogene Endokutikula - endo 3 gelatinöse Endokutikula - ep Empodium - epi Epikutikula - exo Exokutikula - fr Fersenregion - fs Faltensaum - hh Hafthaare - hs Haarschaft - k Kutikula - kr Kralle - ku Kutikulinschicht - l Lumen - li Lipid - lr Dorsale Längsrippen - m Mitochondrium - mb Mesokutikulabalken in der Übergangszone (meso 2b) - meso 1 helle homogene Mesokutikula - meso 2a dunkle homogene Mesokutikula, kompakt - meso 2b Übergangszone, in der dunkle homogene Mesokutikulabalken mit faseriger Endokutikula verzahnt sind - mt Mikrotubulus - mvbd Dunkler multivesikulärer Körper - n Kern - pc Porenkanal - ps Proximalsklerit - pt Prätarsus - rer Rauhes endoplasmatisches Retikulum - s Schulter - sd Sehnendrüse - se Sehne - so Sohle - sr Saumregion - t Tubulus - t₅ Tarsalglied 5 - ta Tasche - td Tarsaldrüse - te Tarsalepithel - tg Taschengrund - tk Terminalkanäle - utr Unguitractor - v Heller Vesikel - va Proteinvakuole - w Wachsschicht - z Zementschicht     

Diversity,dynamics and reproduction in a community of small mammals in Upper Guinea,with emphasis on pygmy mice ecology

As part of a large survey on reservoirs of Lassa fever in Guinea, three villages were investigated in high endemic zone, close to Sierra Leone border. Biodiversity of the small mammal community is presented in this study through a standardized trapping in houses, cultivations and forest. Identification of the small mammals was based on morphology and by molecular technique for sibling species. Of the 1123 specimens collected in 2003–2005, we identified seventeen species (thirteen Muridae, four Soricidae), leading to high diversity (Shannon index = 1.6–1.8) and high equitability (evenness index = 0.7–0.8) in cultivations and forest. In houses conversely, the rodent community was dominated by Mastomys natalensis (95–98%), leading to low diversity and equitability. Dynamics and reproduction were investigated in two species of pygmy mice, Mus mattheyi and Mus minutoides, two species of Praomys, P. daltoni and P. rostratus, and in Mastomys erythroleucus. The pygmy mice were abundant in cultivations in early rainy season, and reproduced from rainy to dry season. Praomys daltoni was also found more abundant in cultivations and seemed to reproduce between rainy and dry season, whereas P. rostratus preferred forest and cultivations in late rainy season, and reproduced throughout the year. Finally, M. erythroleucus was more abundant in forest in dry season, and seemed to reproduce from late rainy to dry season. This species had a low occurrence (6.5%) in the Faranah’s zone, and probably lived at its southern limit in Guinea. The presence of other Murinae, such as M. natalensis, Praomys spp as possible competitors in the same habitats, is discussed. For the first time, this study relates population biology of pygmy mice with molecular identification.     

Sodium fluoride induces podosome formation in endothelial cells

Background information. Fluoride is a well‐known G‐protein activator. Exposure of cultured cells to its derivatives results in actin cytoskeleton remodelling. Podosomes are actin‐based structures endowed with adhesion and matrix‐degradation functions. This study investigates actin cytoskeleton reorganization induced by fluoride in endothelial cells. Results. Treatment of cultured endothelial cells with sodium fluoride (NaF) results in a rapid and potent stimulation of podosome formation. Furthermore, we show that Cdc42 (cell‐division cycle 42), Rac1 and RhoA activities are stimulated in NaF‐treated cells. However, podosome assembly is dependent on Cdc42 and Rac1, but not RhoA. Although the sole activation of Cdc42 is sufficient to induce individual podosomes, a balance between RhoGTPase activities regulates podosome formation in response to NaF, which in this case are often found in groups or rosettes. As in other models, podosome formation in endothelial cells exposed to NaF also involves Src. Finally, we demonstrate that NaF‐induced podosomes are fully competent for matrix protein degradation. Conclusions. Taken together, our findings establish NaF as a novel inducer of podosomes in endothelial cells in vitro.     

Corticosterone suppresses immune activity in territorial Galápagos marine iguanas during reproduction

Individuals that display elaborate sexually selected characters often show reduced immune function. According to the immunocompetence handicap hypothesis, testosterone (T) is responsible for this result as it drives the development and maintenance of sexual characters and causes immunosuppression. But glucocorticoids also have strong influences on immune function and may also be elevated in reproductively active males. Here, we compared immune activity using the phytohemagglutinin (PHA) skin test in three discrete groups of male marine iguanas (Amblyrhynchus cristatus): territorials, satellites, and bachelors. Males of these three reproductive phenotypes had indistinguishable T concentrations during the height of the breeding season, but their corticosterone (cort) concentrations, body condition and hematocrit were significantly different. Territorial males, the animals with the most elaborate sexual ornaments and behaviors, had lower immune responses and body condition but higher cort concentrations and hematocrit than satellites or bachelors. To test directly cort's immunosuppressive role, we elevated cort by either restraining animals or additionally injecting cort and compared their PHA swelling response with the response of free-roaming animals. Such experimental elevation of cort significantly decreased immune activity in both restrained and cort-injected animals. Our data show that cort can induce immunosuppression, but they do not support the immunocompetence handicap hypothesis in its narrow sense because T concentrations were not related to immunosuppression.